Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 73
Found at i:7770104 original size:2 final size:2
Alignment explanation
Indices: 7770055--7770088 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7770045 AAAGTATAAG
7770055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7770089 AAGTATAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7770110 original size:14 final size:14
Alignment explanation
Indices: 7770034--7770177 Score: 79
Period size: 14 Copynumber: 10.1 Consensus size: 14
7770024 TTATATACAT
7770034 ATATAAAGTATA-A
1 ATATAAAGTATATA
7770047 AGTAT-AAGTATATA
1 A-TATAAAGTATATA
*
7770061 TATATATA-TATATA
1 -ATATAAAGTATATA
*
7770075 TATATATA-TATATAA
1 -ATATAAAGTATAT-A
7770090 AGTATAAAGTATATA
1 A-TATAAAGTATATA
7770105 ATATAAAGTA-ATA
1 ATATAAAGTATATA
*** *
7770118 A-AGTGTTTGGATATA
1 ATA-T-AAAGTATATA
7770133 AGTATTAAAGTATATA
1 A-TA-TAAAGTATATA
7770149 A-ATATAAGTAT-TAA
1 ATATA-AAGTATAT-A
7770163 ATATAAAGTATATA
1 ATATAAAGTATATA
7770177 A
1 A
7770178 GTACATAAGT
Statistics
Matches: 104, Mismatches: 11, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
12 1 0.01
13 16 0.15
14 55 0.53
15 18 0.17
16 12 0.12
17 2 0.02
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (14 bp):
ATATAAAGTATATA
Found at i:7770172 original size:36 final size:36
Alignment explanation
Indices: 7770128--7770281 Score: 165
Period size: 36 Copynumber: 4.3 Consensus size: 36
7770118 AAGTGTTTGG
7770128 ATAT-AAGTATTAAAGTATATAAATATAAGTATTAA
1 ATATAAAGTATTAAAGTATATAAATATAAGTATTAA
* * *
7770163 ATATAAAGTA-TATAAGTACATAAGTATTAAACTA-TATA
1 ATATAAAGTATTA-AAGTATATAAATA-T-AAGTATTA-A
*
7770201 ATATAAAGTATTAAACTATAT-AAT-TAAGTATTAA
1 ATATAAAGTATTAAAGTATATAAATATAAGTATTAA
**
7770235 ATATAAAACATTAAAGTATATAAATATAAGTATTAA
1 ATATAAAGTATTAAAGTATATAAATATAAGTATTAA
* *
7770271 GTATAATGTAT
1 ATATAAAGTAT
7770282 ATTAATAATC
Statistics
Matches: 96, Mismatches: 14, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
34 23 0.24
35 12 0.12
36 33 0.34
37 5 0.05
38 21 0.22
39 2 0.02
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (36 bp):
ATATAAAGTATTAAAGTATATAAATATAAGTATTAA
Found at i:7770188 original size:30 final size:31
Alignment explanation
Indices: 7770138--7770210 Score: 93
Period size: 30 Copynumber: 2.5 Consensus size: 31
7770128 ATATAAGTAT
*
7770138 TAAAGTATATAA--ATATAAGTATTAAA-TA
1 TAAAGTATATAAGTACATAAGTATTAAACTA
7770166 TAAAGTATATAAGTACATAAGTATTAAACTA
1 TAAAGTATATAAGTACATAAGTATTAAACTA
7770197 TATAA-TATA-AAGTA
1 TA-AAGTATATAAGTA
7770211 TTAAACTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
28 12 0.30
30 18 0.45
31 8 0.20
32 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (31 bp):
TAAAGTATATAAGTACATAAGTATTAAACTA
Found at i:7770223 original size:17 final size:16
Alignment explanation
Indices: 7770128--7770258 Score: 52
Period size: 14 Copynumber: 8.4 Consensus size: 16
7770118 AAGTGTTTGG
7770128 ATAT-AAGTATTAAAGT
1 ATATAAAGTATTAAA-T
*
7770144 ATATAAA-TA-TAAGT
1 ATATAAAGTATTAAAT
7770158 AT-TAAA-TA-TAAAGT
1 ATATAAAGTATTAAA-T
* *
7770172 ATAT-AAGTACATAAGT
1 ATATAAAGTA-TTAAAT
* *
7770188 AT-TAAACTA-TATA-
1 ATATAAAGTATTAAAT
7770201 ATATAAAGTATTAAACT
1 ATATAAAGTATTAAA-T
7770218 ATATAATTAAGTATTAAAT
1 ATAT-A--AAGTATTAAAT
*
7770237 ATA-AAA-CATTAAAGT
1 ATATAAAGTATTAAA-T
7770252 ATATAAA
1 ATATAAA
7770259 TATAAGTATT
Statistics
Matches: 90, Mismatches: 9, Indels: 32
0.69 0.07 0.24
Matches are distributed among these distances:
13 11 0.12
14 22 0.24
15 16 0.18
16 16 0.18
17 10 0.11
18 1 0.01
19 4 0.04
20 10 0.11
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.35
Consensus pattern (16 bp):
ATATAAAGTATTAAAT
Found at i:7770250 original size:42 final size:42
Alignment explanation
Indices: 7770183--7770262 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
7770173 TATAAGTACA
* *
7770183 TAAGTATTAAACTATATAATATAAAGTAT-TAAACTATATAAT
1 TAAGTATTAAACTATAAAACATAAAGTATATAAA-TATATAAT
7770225 TAAGTATTAAA-TATAAAACATTAAAGTATATAAATATA
1 TAAGTATTAAACTATAAAACA-TAAAGTATATAAATATA
7770263 AGTATTAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
41 7 0.21
42 23 0.68
43 4 0.12
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (42 bp):
TAAGTATTAAACTATAAAACATAAAGTATATAAATATATAAT
Found at i:7775498 original size:44 final size:44
Alignment explanation
Indices: 7775435--7775564 Score: 224
Period size: 44 Copynumber: 3.0 Consensus size: 44
7775425 TGTCTACGCG
*
7775435 TTAAGGATTGCTGGGAAATCCCCCATCCACGTTCATGCAGCATT
1 TTAAGGATTGCTGGGAAATCCCCCGTCCACGTTCATGCAGCATT
*
7775479 TTAAGGATTGCTGAGAAATCCCCCGTCCACGTTCATGCAGCATT
1 TTAAGGATTGCTGGGAAATCCCCCGTCCACGTTCATGCAGCATT
* *
7775523 TTAAGGATTGCTGGGAAATCCGCCGTCCACGTTCACGCAGCA
1 TTAAGGATTGCTGGGAAATCCCCCGTCCACGTTCATGCAGCA
7775565 GTAATAATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 81 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (44 bp):
TTAAGGATTGCTGGGAAATCCCCCGTCCACGTTCATGCAGCATT
Found at i:7775730 original size:32 final size:32
Alignment explanation
Indices: 7775694--7775762 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
7775684 CAGTTAAAAG
*
7775694 TAAATTAACCCATCACA-CTAAATTAGTTCGAT
1 TAAATTAACCCACCACATC-AAATTAGTTCGAT
* *
7775726 TAAATTAACCGACCACATCAAATTAGTTCGGT
1 TAAATTAACCCACCACATCAAATTAGTTCGAT
7775758 TAAAT
1 TAAAT
7775763 GGTCGGGAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 32 0.97
33 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (32 bp):
TAAATTAACCCACCACATCAAATTAGTTCGAT
Found at i:7782353 original size:15 final size:15
Alignment explanation
Indices: 7782333--7782362 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7782323 AAAGTTATAA
7782333 TTATATAAAAAATAT
1 TTATATAAAAAATAT
*
7782348 TTATATATAAAATAT
1 TTATATAAAAAATAT
7782363 AAATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTATATAAAAAATAT
Found at i:7782479 original size:21 final size:21
Alignment explanation
Indices: 7782437--7782500 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
7782427 TTTCTTCGAT
* *
7782437 ATAAA-AAAATATAATT-AAA
1 ATAAATAATATATATTTAAAA
* *
7782456 ATAATTAATATATGTTTAAAA
1 ATAAATAATATATATTTAAAA
* *
7782477 ATAAATATTATTTATTTAAAA
1 ATAAATAATATATATTTAAAA
7782498 ATA
1 ATA
7782501 TCAGAAAATG
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 4 0.11
20 8 0.23
21 23 0.66
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAATAATATATATTTAAAA
Found at i:7782660 original size:3 final size:3
Alignment explanation
Indices: 7782652--7782691 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
7782642 TTTATGACTA
*
7782652 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AGT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7782692 AGAGTAAACA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7782678 original size:17 final size:17
Alignment explanation
Indices: 7782656--7782690 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7782646 TGACTAAATA
7782656 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
*
7782673 ATAATAATAGTAATAAT
1 ATAATAATAATAATAAT
7782690 A
1 A
7782691 AAGAGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:7782678 original size:20 final size:20
Alignment explanation
Indices: 7782653--7782691 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7782643 TTATGACTAA
7782653 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
*
7782673 ATAATAATAGTAATAATAA
1 ATAATAATAATAATAATAA
7782692 AGAGTAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:7784060 original size:3 final size:3
Alignment explanation
Indices: 7784041--7784108 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
7784031 TTGTAATATT
* *
7784041 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA CAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
7784088 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
7784109 ATTTAAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:7784700 original size:73 final size:76
Alignment explanation
Indices: 7784262--7784755 Score: 856
Period size: 76 Copynumber: 6.6 Consensus size: 76
7784252 CTGAAGGTTT
7784262 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
*
7784327 GACCCTAAGGTTT
66 GACCCTAAGG--C
*
7784340 TTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
7784405 GACCCTAAGGC
66 GACCCTAAGGC
** *
7784416 TTTGAAAACATCAAAAAGCTCATGAAGGCTTTTTGGAAACATCATGCACTGCAGGATTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
7784481 GACCCTAAGGC
66 GACCCTAAGGC
*
7784492 TTTGAAAACATCAAAAAGCTCACGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
*
7784557 GACCCTAAGGA
66 GACCCTAAGGC
7784568 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
*
7784633 GACCCGAAGG-
66 GACCCTAAGGC
7784643 TTTG-AAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
7784706 GA-CCTAAGGC
66 GACCCTAAGGC
7784716 TTTG-AAACATCAAAAAGCTCCCGAAGGC-TTTTGGAAACAT
1 TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACAT
7784756 AATGTTGAAA
Statistics
Matches: 404, Mismatches: 10, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
72 6 0.01
73 77 0.19
74 23 0.06
75 4 0.01
76 220 0.54
78 74 0.18
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (76 bp):
TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGAT
GACCCTAAGGC
Found at i:7784779 original size:44 final size:45
Alignment explanation
Indices: 7784720--7784804 Score: 163
Period size: 44 Copynumber: 1.9 Consensus size: 45
7784710 TAAGGCTTTG
7784720 AAACATCAAAAAGCTCCCGAAGGC-TTTTGGAAACATAATGTTGA
1 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGTTGA
7784764 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATG
1 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATG
7784805 CAATGCAGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 24 0.60
45 16 0.40
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (45 bp):
AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGTTGA
Found at i:7784812 original size:118 final size:119
Alignment explanation
Indices: 7784647--7784875 Score: 392
Period size: 118 Copynumber: 1.9 Consensus size: 119
7784637 CGAAGGTTTG
* * *
7784647 AAACATCAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGA-CCT
1 AAACATCAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCAATGCAGGACTTACAGATGACCCG
7784711 AAGGCTTTG-AAACATCAAAAAGCTCCCGAAGGC-TTTTGGAAACATAATGTTGA
66 AAGG-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGTTGA
7784764 AAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCAATGCAGGACTTACAGATGACCC
1 AAACATC-AAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCAATGCAGGACTTACAGATGACCC
7784829 GAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACAT
65 GAAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACAT
7784876 CATGCACTGC
Statistics
Matches: 105, Mismatches: 3, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
117 7 0.07
118 56 0.53
119 30 0.29
120 12 0.11
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (119 bp):
AAACATCAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCAATGCAGGACTTACAGATGACCCG
AAGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGTTGA
Found at i:7784845 original size:75 final size:75
Alignment explanation
Indices: 7784760--7784899 Score: 253
Period size: 75 Copynumber: 1.9 Consensus size: 75
7784750 AAACATAATG
7784760 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCAATGCAGGACTTACAGATG
1 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCAATGCAGGACTTACAGATG
7784825 ACCCGAAGGT
66 ACCCGAAGGT
* * *
7784835 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGGCTTACAGATG
1 TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCAATGCAGGACTTACAGATG
7784900 TAGGAAATAG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (75 bp):
TTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATAATGCAATGCAGGACTTACAGATG
ACCCGAAGGT
Found at i:7785771 original size:22 final size:22
Alignment explanation
Indices: 7785746--7785844 Score: 180
Period size: 22 Copynumber: 4.5 Consensus size: 22
7785736 CATAAAGCTT
*
7785746 TCATATTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
7785768 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
7785790 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
7785812 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
7785834 TCATCTTTGAA
1 TCATCTTTGAA
7785845 GAGTGTAGAT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 74 1.00
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:7789765 original size:30 final size:30
Alignment explanation
Indices: 7789729--7789789 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
7789719 ACCTTCTTTA
7789729 TTGAGACTGTCGTGTTTAAAAAAGTTTTTT
1 TTGAGACTGTCGTGTTTAAAAAAGTTTTTT
7789759 TTGAGACTGTCGTGTTTAAAAAAGTTTTTT
1 TTGAGACTGTCGTGTTTAAAAAAGTTTTTT
7789789 T
1 T
7789790 CCTCCTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.48
Consensus pattern (30 bp):
TTGAGACTGTCGTGTTTAAAAAAGTTTTTT
Found at i:7790709 original size:9 final size:9
Alignment explanation
Indices: 7790695--7790770 Score: 82
Period size: 9 Copynumber: 8.3 Consensus size: 9
7790685 TTCTTCTTCT
7790695 TTTTTTTTC
1 TTTTTTTTC
7790704 TTTTTTTTC
1 TTTTTTTTC
7790713 TTCTTTCTTTC
1 TT-TTT-TTTC
*
7790724 TTTTCTTTC
1 TTTTTTTTC
*
7790733 TTTTTCTTC
1 TTTTTTTTC
*
7790742 -TTTCTTTC
1 TTTTTTTTC
*
7790750 TTTTCTTTC
1 TTTTTTTTC
*
7790759 TTTTTCTTC
1 TTTTTTTTC
7790768 TTT
1 TTT
7790771 CTTTGCTGGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
8 6 0.11
9 40 0.70
10 5 0.09
11 6 0.11
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:7790720 original size:4 final size:4
Alignment explanation
Indices: 7790691--7790774 Score: 75
Period size: 4 Copynumber: 20.5 Consensus size: 4
7790681 CTTTTTCTTC
* *
7790691 TTCT TT-T TT-T TTCT TT-T TTTT CTTCT TTCT TTCTT TTCT TTCT TTTT
1 TTCT TTCT TTCT TTCT TTCT TTCT -TTCT TTCT TTC-T TTCT TTCT TTCT
*
7790738 CTTCT TTCT TTCTT TTCT TTCT TTTT CTTCT TTCT TT
1 -TTCT TTCT TTC-T TTCT TTCT TTCT -TTCT TTCT TT
7790775 GCTGGATGAG
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
3 9 0.13
4 42 0.62
5 17 0.25
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (4 bp):
TTCT
Found at i:7790720 original size:26 final size:26
Alignment explanation
Indices: 7790681--7790774 Score: 156
Period size: 26 Copynumber: 3.7 Consensus size: 26
7790671 TTCAATTTTC
*
7790681 CTTTTTCTTC-TTCTTTTTTTTTCTTT
1 CTTTTTCTTCTTTC-TTTCTTTTCTTT
7790707 -TTTTTCTTCTTTCTTTCTTTTCTTT
1 CTTTTTCTTCTTTCTTTCTTTTCTTT
7790732 CTTTTTCTTCTTTCTTTCTTTTCTTT
1 CTTTTTCTTCTTTCTTTCTTTTCTTT
7790758 CTTTTTCTTCTTTCTTT
1 CTTTTTCTTCTTTCTTT
7790775 GCTGGATGAG
Statistics
Matches: 65, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
25 20 0.31
26 45 0.69
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (26 bp):
CTTTTTCTTCTTTCTTTCTTTTCTTT
Found at i:7790771 original size:13 final size:13
Alignment explanation
Indices: 7790681--7790774 Score: 124
Period size: 13 Copynumber: 7.3 Consensus size: 13
7790671 TTCAATTTTC
7790681 CTTTTTCTTC-TT
1 CTTTTTCTTCTTT
*
7790693 CTTTTTTTTTCTTT
1 C-TTTTTCTTCTTT
7790707 -TTTTTCTTCTTT
1 CTTTTTCTTCTTT
7790719 CTTTCTT-TTCTTT
1 CTTT-TTCTTCTTT
7790732 CTTTTTCTTCTTT
1 CTTTTTCTTCTTT
7790745 CTTTCTT-TTCTTT
1 CTTT-TTCTTCTTT
7790758 CTTTTTCTTCTTT
1 CTTTTTCTTCTTT
7790771 CTTT
1 CTTT
7790775 GCTGGATGAG
Statistics
Matches: 73, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
12 16 0.22
13 51 0.70
14 6 0.08
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
CTTTTTCTTCTTT
Found at i:7795969 original size:15 final size:16
Alignment explanation
Indices: 7795949--7795980 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
7795939 CAAAGTTATA
7795949 ATTATATA-AAAATAT
1 ATTATATATAAAATAT
7795964 ATTATATATAAAATAT
1 ATTATATATAAAATAT
7795980 A
1 A
7795981 AAAAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTATATATAAAATAT
Found at i:7796285 original size:3 final size:3
Alignment explanation
Indices: 7796277--7796301 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7796267 ATTATGACTA
7796277 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
7796302 GTAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7797686 original size:3 final size:3
Alignment explanation
Indices: 7797667--7797734 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
7797657 TTGTAATATT
* *
7797667 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA CAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
7797714 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
7797735 ATTTAAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:7800946 original size:35 final size:35
Alignment explanation
Indices: 7800900--7800973 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
7800890 AGAGGAAGAA
*
7800900 TACTTGGAGGCTCCTCAGCTTTGTGCTCAGGGCCT
1 TACTTGCAGGCTCCTCAGCTTTGTGCTCAGGGCCT
*
7800935 TACTTGCAGGCTCCTCGGCTTTGTGCTCAGGGCCT
1 TACTTGCAGGCTCCTCAGCTTTGTGCTCAGGGCCT
7800970 TACT
1 TACT
7800974 GTACGTGACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.11, C:0.30, G:0.27, T:0.32
Consensus pattern (35 bp):
TACTTGCAGGCTCCTCAGCTTTGTGCTCAGGGCCT
Found at i:7801748 original size:17 final size:17
Alignment explanation
Indices: 7801726--7801770 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 17
7801716 GTTTAAAGGT
7801726 ATGAAAGGGATTAAGAA
1 ATGAAAGGGATTAAGAA
7801743 ATGAAAGGTGGGATTAAGAA
1 ATGAAA---GGGATTAAGAA
7801763 ATGAAAGG
1 ATGAAAGG
7801771 TTTAGGTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.32
20 17 0.68
ACGTcount: A:0.49, C:0.00, G:0.33, T:0.18
Consensus pattern (17 bp):
ATGAAAGGGATTAAGAA
Found at i:7801757 original size:20 final size:20
Alignment explanation
Indices: 7801732--7801771 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7801722 AGGTATGAAA
7801732 GGGATTAAGAAATGAAAGGT
1 GGGATTAAGAAATGAAAGGT
7801752 GGGATTAAGAAATGAAAGGT
1 GGGATTAAGAAATGAAAGGT
7801772 TTAGGTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (20 bp):
GGGATTAAGAAATGAAAGGT
Found at i:7802778 original size:21 final size:21
Alignment explanation
Indices: 7802745--7802784 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
7802735 ATGCGTTTCA
*
7802745 TTGGAACACATATTTGGTCAT
1 TTGGAACACATATGTGGTCAT
* *
7802766 TTGGAATATATATGTGGTC
1 TTGGAACACATATGTGGTC
7802785 CTTAAGGAGA
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:0.28, C:0.10, G:0.23, T:0.40
Consensus pattern (21 bp):
TTGGAACACATATGTGGTCAT
Found at i:7802815 original size:23 final size:24
Alignment explanation
Indices: 7802754--7802815 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 24
7802744 ATTGGAACAC
*
7802754 ATATTTGGTCATTT--G-GAATAT
1 ATATGTGGTCATTTAGGAGAATAT
* *
7802775 ATATGTGGTCCTTAAGGAGAAT-T
1 ATATGTGGTCATTTAGGAGAATAT
7802798 ATATGTGGTCATTTAGGA
1 ATATGTGGTCATTTAGGA
7802816 CAAATTCTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 11 0.33
23 18 0.55
24 4 0.12
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.40
Consensus pattern (24 bp):
ATATGTGGTCATTTAGGAGAATAT
Found at i:7802826 original size:24 final size:23
Alignment explanation
Indices: 7802774--7802827 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
7802764 ATTTGGAATA
* *
7802774 TATATGTGGTCCTTAAGGAGAAT
1 TATATGTGGTCATTAAGGAAAAT
*
7802797 TATATGTGGTCATTTAGGACAAAT
1 TATATGTGGTCATTAAGGA-AAAT
*
7802821 TCTATGT
1 TATATGT
7802828 ACCCCTAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (23 bp):
TATATGTGGTCATTAAGGAAAAT
Found at i:7810683 original size:21 final size:22
Alignment explanation
Indices: 7810641--7810685 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
7810631 AGGTTGATTT
*
7810641 CCCTTAATTGTTGATGATATCA
1 CCCTTAATTATTGATGATATCA
7810663 CCCTTAATTATTGAT-ATATCA
1 CCCTTAATTATTGATGATATCA
7810684 CC
1 CC
7810686 ATCTGAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (22 bp):
CCCTTAATTATTGATGATATCA
Found at i:7811452 original size:21 final size:22
Alignment explanation
Indices: 7811423--7811463 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
7811413 GCTTTTTGTA
7811423 AAGGTAGTATCGATACTCATTC
1 AAGGTAGTATCGATACTCATTC
7811445 AAGG-AGTATCGATACTCAT
1 AAGGTAGTATCGATACTCAT
7811464 GGTCTAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (22 bp):
AAGGTAGTATCGATACTCATTC
Found at i:7826088 original size:15 final size:15
Alignment explanation
Indices: 7826068--7826136 Score: 52
Period size: 17 Copynumber: 4.3 Consensus size: 15
7826058 ATAATATTAT
7826068 TAAAAATTAAATATA
1 TAAAAATTAAATATA
7826083 TAAAAA-TAGAATATTA
1 TAAAAATTA-AATA-TA
*
7826099 TTAATAATT-AATAATA
1 -TAAAAATTAAAT-ATA
*
7826115 TAATAATATTATATATA
1 TAA-AA-ATTAAATATA
7826132 TAAAA
1 TAAAA
7826137 TATATAATAC
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
14 2 0.05
15 13 0.30
16 10 0.23
17 15 0.35
18 3 0.07
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (15 bp):
TAAAAATTAAATATA
Found at i:7826101 original size:32 final size:32
Alignment explanation
Indices: 7826060--7826122 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
7826050 ATGTATATAT
7826060 AATATTATTAAAAATTAA-ATATATAAAAATAG
1 AATATTATTAAAAATTAATA-ATATAAAAATAG
* *
7826092 AATATTATTAATAATTAATAATATAATAATA
1 AATATTATTAAAAATTAATAATATAAAAATA
7826123 TTATATATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (32 bp):
AATATTATTAAAAATTAATAATATAAAAATAG
Found at i:7826104 original size:24 final size:24
Alignment explanation
Indices: 7826077--7826183 Score: 83
Period size: 24 Copynumber: 4.2 Consensus size: 24
7826067 TTAAAAATTA
* *
7826077 AATATATAAAAATAGAATATTATT
1 AATATATAAAAATATAATAATATT
*
7826101 AATA-ATTAATAATATAATAATATT
1 AATATA-TAAAAATATAATAATATT
7826125 ATATATATAAAATATATAATACTATATT
1 A-ATATATAAAA-ATATAATA--ATATT
* *
7826153 ATTAATAATTAAATATATAATAATA-T
1 AAT-AT-A-TAAAAATATAATAATATT
7826179 AATAT
1 AATAT
7826184 TATTTTATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
23 1 0.01
24 20 0.30
25 9 0.13
26 12 0.18
27 4 0.06
28 8 0.12
29 9 0.13
30 4 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (24 bp):
AATATATAAAAATATAATAATATT
Found at i:7826119 original size:29 final size:31
Alignment explanation
Indices: 7826107--7826187 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 31
7826097 TATTAATAAT
* *
7826107 TAATAATATAATAATATTATATATATAAAATATA
1 TAATAATA-AATATTATTA-ATA-ATTAAATATA
*
7826141 TAATACT--ATATTATTAATAATTAAATATA
1 TAATAATAAATATTATTAATAATTAAATATA
7826170 TAATAATATAATATTATT
1 TAATAATA-AATATTATT
7826188 TTATATATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 15 0.38
30 3 0.08
31 8 0.20
32 8 0.20
34 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (31 bp):
TAATAATAAATATTATTAATAATTAAATATA
Found at i:7826130 original size:7 final size:7
Alignment explanation
Indices: 7826109--7826183 Score: 55
Period size: 8 Copynumber: 10.0 Consensus size: 7
7826099 TTAATAATTA
7826109 ATAATAT
1 ATAATAT
7826116 AATAATATT
1 -ATAATA-T
7826125 ATATATAT
1 ATA-ATAT
*
7826133 AAAATAT
1 ATAATAT
7826140 ATAATACT
1 ATAATA-T
*
7826148 ATATTAT
1 ATAATAT
7826155 -TAATA-
1 ATAATAT
7826160 ATTAAATAT
1 A-T-AATAT
7826169 ATAATAAT
1 ATAAT-AT
7826177 ATAATAT
1 ATAATAT
7826184 TATTTTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
6 4 0.07
7 16 0.29
8 30 0.55
9 5 0.09
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (7 bp):
ATAATAT
Found at i:7832503 original size:17 final size:17
Alignment explanation
Indices: 7832472--7832504 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7832462 TTAACCTGCT
7832472 AAGTTATTCACAGTTAC
1 AAGTTATTCACAGTTAC
7832489 AAGTT-TTCACAAGTTA
1 AAGTTATTCAC-AGTTA
7832505 ATAAGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (17 bp):
AAGTTATTCACAGTTAC
Found at i:7841257 original size:27 final size:27
Alignment explanation
Indices: 7841227--7841281 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
7841217 CTTCATTTAT
*
7841227 AGGGTTGATTCCCAATTGTTTGATCAA
1 AGGGTTGATTCCCAAATGTTTGATCAA
7841254 AGGGTTGATTCCCAAATGTTTGATCAA
1 AGGGTTGATTCCCAAATGTTTGATCAA
7841281 A
1 A
7841282 ATGGATTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.35
Consensus pattern (27 bp):
AGGGTTGATTCCCAAATGTTTGATCAA
Found at i:7844711 original size:18 final size:18
Alignment explanation
Indices: 7844569--7844703 Score: 225
Period size: 18 Copynumber: 7.5 Consensus size: 18
7844559 AGGGATTATC
7844569 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
7844587 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
7844605 AATGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* *
7844623 AGTGGTCCTTCGAGACAC
1 AGTGGTCCTTCGGGACAT
*
7844641 AGTGGTCCTTCGGGACAG
1 AGTGGTCCTTCGGGACAT
*
7844659 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAT
7844677 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
7844695 AGTGGTCCT
1 AGTGGTCCT
7844704 ACGAGACAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 109 1.00
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:7856628 original size:2 final size:2
Alignment explanation
Indices: 7856621--7856704 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
7856611 TGAGTAAGAG
7856621 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7856663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7856705 GAGTATCGAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7858105 original size:20 final size:20
Alignment explanation
Indices: 7858082--7858126 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
7858072 GGAAACCAAG
*
7858082 CAACAACAAATAGAAATAAC
1 CAACAACAAATAAAAATAAC
7858102 CAACAACAAATAAAAATAAC
1 CAACAACAAATAAAAATAAC
7858122 CAACA
1 CAACA
7858127 GTAGCCATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.67, C:0.22, G:0.02, T:0.09
Consensus pattern (20 bp):
CAACAACAAATAAAAATAAC
Found at i:7860865 original size:39 final size:39
Alignment explanation
Indices: 7860822--7860915 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 39
7860812 TTGCAACAGG
* * *
7860822 AAATCTGGCTTTCATAT-TGAAAAATCAGGTTGTAACCTA
1 AAATCTGG-TTTCATATATGAAAAATCAAGATGCAACCTA
* *
7860861 AAATCTAGTTTC-TATATGAAAAATCAAGATGCAGCCTA
1 AAATCTGGTTTCATATATGAAAAATCAAGATGCAACCTA
*
7860899 AAATATGGATTTCATAT
1 AAATCTGG-TTTCATAT
7860916 CAAGTTTTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 3 0.07
38 28 0.62
39 11 0.24
40 3 0.07
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (39 bp):
AAATCTGGTTTCATATATGAAAAATCAAGATGCAACCTA
Found at i:7866062 original size:40 final size:40
Alignment explanation
Indices: 7866018--7866214 Score: 145
Period size: 40 Copynumber: 4.9 Consensus size: 40
7866008 GTGTATCTCG
* *
7866018 TACAATGCATCACCACTTTCATATTTAGGTGTGTACCCCT
1 TACAATACATCACCACTTTCATATTTAGGTGTGTACCCCA
* * * *
7866058 TACAATACATCACCTTGCTTGT-A-A-TTAGGTGCGTATCTCA
1 TACAATACATCACC--ACTT-TCATATTTAGGTGTGTACCCCA
* *
7866098 TACAATACATCACCATTTTCATATTCAGGTGTGTACCCCA
1 TACAATACATCACCACTTTCATATTTAGGTGTGTACCCCA
* * * * * *
7866138 TACAATAAATCACCTTGCTTGT-A-A-TTGGGTGTGTATCTCG
1 TACAATACATCACC--ACTT-TCATATTTAGGTGTGTACCCCA
* * *
7866178 CACAATACATCACCACTTTCATTTTTAAGTGTGTACC
1 TACAATACATCACCACTTTCATATTTAGGTGTGTACC
7866215 ATGTATGATA
Statistics
Matches: 118, Mismatches: 27, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
37 2 0.02
38 7 0.06
39 1 0.01
40 97 0.82
41 2 0.02
42 7 0.06
43 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.35
Consensus pattern (40 bp):
TACAATACATCACCACTTTCATATTTAGGTGTGTACCCCA
Found at i:7866122 original size:80 final size:80
Alignment explanation
Indices: 7865989--7866214 Score: 344
Period size: 80 Copynumber: 2.8 Consensus size: 80
7865979 TTGATAGGTA
* *
7865989 ACCTTGCTTATAATTGGGTGTGTATCTCGTACAATGCATCACCACTTTCATATTTAGGTGTGTAC
1 ACCTTGCTTGTAATTGGGTGTGTATCTCGTACAATACATCACCACTTTCATATTTAGGTGTGTAC
* *
7866054 CCCTTACAATACATC
66 CCCATACAATAAATC
* * * * *
7866069 ACCTTGCTTGTAATTAGGTGCGTATCTCATACAATACATCACCATTTTCATATTCAGGTGTGTAC
1 ACCTTGCTTGTAATTGGGTGTGTATCTCGTACAATACATCACCACTTTCATATTTAGGTGTGTAC
7866134 CCCATACAATAAATC
66 CCCATACAATAAATC
* * *
7866149 ACCTTGCTTGTAATTGGGTGTGTATCTCGCACAATACATCACCACTTTCATTTTTAAGTGTGTAC
1 ACCTTGCTTGTAATTGGGTGTGTATCTCGTACAATACATCACCACTTTCATATTTAGGTGTGTAC
7866214 C
66 C
7866215 ATGTATGATA
Statistics
Matches: 129, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 129 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (80 bp):
ACCTTGCTTGTAATTGGGTGTGTATCTCGTACAATACATCACCACTTTCATATTTAGGTGTGTAC
CCCATACAATAAATC
Found at i:7866298 original size:34 final size:36
Alignment explanation
Indices: 7866254--7866355 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
7866244 TTTCGTCCTA
7866254 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
7866289 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
7866324 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
7866356 GTTCTACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:7866931 original size:24 final size:23
Alignment explanation
Indices: 7866867--7866935 Score: 68
Period size: 24 Copynumber: 3.0 Consensus size: 23
7866857 ATATTACTTT
*
7866867 TGATTTT-CTTTTTTTTATTATTA
1 TGATTTTACTTTTTTATA-TATTA
* * *
7866890 TTATTTTACTTATATATATATATA
1 TGATTTTACTTTTTTATATAT-TA
*
7866914 TGCTTTTACTTTTTTATATATT
1 TGATTTTACTTTTTTATATATT
7866936 TTACTCATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 10 0.28
24 26 0.72
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.67
Consensus pattern (23 bp):
TGATTTTACTTTTTTATATATTA
Found at i:7866966 original size:16 final size:18
Alignment explanation
Indices: 7866945--7866979 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
7866935 TTTACTCATT
7866945 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
7866961 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
7866979 T
1 T
7866980 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:7869105 original size:18 final size:18
Alignment explanation
Indices: 7869082--7869121 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
7869072 TTCCATAAAG
7869082 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
7869100 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
7869118 TCTG
1 TCTG
7869122 AAAGACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (18 bp):
TCTGGATTCACATCCACT
Found at i:7869655 original size:8 final size:8
Alignment explanation
Indices: 7869642--7869680 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
7869632 GAACATTTCG
*
7869642 TGCATTCT
1 TGCATTTT
7869650 TGCA-TTT
1 TGCATTTT
7869657 TGCATTTT
1 TGCATTTT
*
7869665 TGCCTTTT
1 TGCATTTT
7869673 TGCATTTT
1 TGCATTTT
7869681 CATCTACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:7870862 original size:16 final size:16
Alignment explanation
Indices: 7870836--7870881 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
7870826 AGATCCAATC
7870836 AAGAACAAAAAAG-AA
1 AAGAACAAAAAAGCAA
7870851 AAGAAGCAAAAAAGCAA
1 AAGAA-CAAAAAAGCAA
7870868 AA-AA-AAAAAA-CAA
1 AAGAACAAAAAAGCAA
7870881 A
1 A
7870882 GAAAAAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.14
14 6 0.21
15 5 0.17
16 10 0.34
17 4 0.14
ACGTcount: A:0.80, C:0.09, G:0.11, T:0.00
Consensus pattern (16 bp):
AAGAACAAAAAAGCAA
Found at i:7871593 original size:22 final size:22
Alignment explanation
Indices: 7871565--7871608 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
7871555 AGCTACCCCA
7871565 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
7871587 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
7871609 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:7872066 original size:18 final size:18
Alignment explanation
Indices: 7872043--7872078 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7872033 TCAACATCAA
*
7872043 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
7872061 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
7872079 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:7872603 original size:36 final size:36
Alignment explanation
Indices: 7872560--7872629 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
7872550 ACTAGAAGAG
* *
7872560 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACAAA
*
7872596 TTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACA
7872630 TAAACATTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTGAAACAAA
Found at i:7872743 original size:36 final size:36
Alignment explanation
Indices: 7872645--7872802 Score: 253
Period size: 36 Copynumber: 4.3 Consensus size: 36
7872635 ATTGAAAACA
* *
7872645 TTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATAA
1 TTTCCCTTGAAATAAATTTT-GTCTCTCTTGAGACAG
* *
7872682 TTTCCCTTGAAACAAAATTTTGTCTCTCCTGAGACAG
1 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGACAG
*
7872719 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAT
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
7872755 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
7872791 TTTCCCTTGAAA
1 TTTCCCTTGAAA
7872803 CAAAAAATTT
Statistics
Matches: 112, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
36 68 0.61
37 37 0.33
38 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:7872889 original size:37 final size:36
Alignment explanation
Indices: 7872821--7872930 Score: 141
Period size: 37 Copynumber: 3.1 Consensus size: 36
7872811 TTAAATATGT
* *
7872821 TTTCT-TTGAAACAAATTTCGTCCCCCTTGAGACAA
1 TTTCTGTTGAAACAAATTTTGTCTCCCTTGAGACAA
* * * * *
7872856 TTTCTTTTGTAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTGTTGAAAC-AAATTTTGTCTCCCTTGAGACAA
7872893 TTTCTGTTGAAACAAATTTTGTCTCCCTTGAGACAA
1 TTTCTGTTGAAACAAATTTTGTCTCCCTTGAGACAA
7872929 TT
1 TT
7872931 ATTCTTGAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 5 0.08
36 28 0.45
37 29 0.47
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCTGTTGAAACAAATTTTGTCTCCCTTGAGACAA
Found at i:7872896 original size:102 final size:101
Alignment explanation
Indices: 7872725--7872908 Score: 260
Period size: 102 Copynumber: 1.8 Consensus size: 101
7872715 ACAGTTTCCC
* * * * *
7872725 TTGAAATAAATTTTGTCTCTCTTGAGACATTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACA
1 TTGAAACAAATTTCGTCCCCCTTGAGACAATTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACA
7872790 GTTTCCCTTGAAACAAAAAATTTAAATATGTTTTCT
66 GTTTCCCTTGAAACAAAAAATTTAAATATGTTTTCT
** * *
7872826 TTGAAACAAATTTCGTCCCCCTTGAGACAATTTCTTTTGTAACTAAGTTTTGTCTCTCTTGAGAC
1 TTGAAACAAATTTCGTCCCCCTTGAGACAATTTCCCTTG-AAATAAATTTTGTCTCTCTTGAGAC
**
7872891 AGTTTCTGTTGAAACAAA
65 AGTTTCCCTTGAAACAAA
7872909 TTTTGTCTCC
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
101 32 0.45
102 39 0.55
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (101 bp):
TTGAAACAAATTTCGTCCCCCTTGAGACAATTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACA
GTTTCCCTTGAAACAAAAAATTTAAATATGTTTTCT
Found at i:7872940 original size:174 final size:174
Alignment explanation
Indices: 7872560--7872942 Score: 466
Period size: 174 Copynumber: 2.2 Consensus size: 174
7872550 ACTAGAAGAG
* * *
7872560 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCTCTTG
1 TTTTGTCTCTCTTGAGACAATTT-TCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTG
* * * * *
7872625 AAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTCGTCTCTCTTGAGATAATTTCCCTT
65 AAACATAAAAATTGAAAACATTTCCCTTGAAACAAATTTTCGTCCCCCTTGAGACAATTTCCCTT
*
7872690 GAAACAAAATTTTGTCTCTCCTGAGACAGTTTCCCTTGAAATAAA
130 GAAACAAAATTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
* * *
7872735 TTTTGTCTCTCTTGAGAC-ATTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 TTTTGTCTCTCTTGAGACAATTTT--CTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTT
* ** * * **
7872799 GAAACA-AAAAATTTAAATATGTTTTCTTTGAAACAAA-TTTCGTCCCCCTTGAGACAATTTCTT
64 GAAACATAAAAATTGAAA-ACATTTCCCTTGAAACAAATTTTCGTCCCCCTTGAGACAATTTCCC
* * * * **
7872862 TTGTAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTGTTGAAACAAA
128 TTGAAACAAAATTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
*
7872909 TTTTGTCTCCCTTGAGACAATTATTCTTGAAACA
1 TTTTGTCTCTCTTGAGACAATT-TTCTTGAAACA
7872943 CAAAATCTTC
Statistics
Matches: 176, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
174 98 0.56
175 76 0.43
176 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (174 bp):
TTTTGTCTCTCTTGAGACAATTTTCTTGAAACAAATTTTGTCTCCCTTAAGACAGTTTCCCTTGA
AACATAAAAATTGAAAACATTTCCCTTGAAACAAATTTTCGTCCCCCTTGAGACAATTTCCCTTG
AAACAAAATTTTGTCTCTCCTGAGACAGTTTCCCTTGAAACAAA
Found at i:7873850 original size:105 final size:105
Alignment explanation
Indices: 7873615--7874171 Score: 723
Period size: 105 Copynumber: 5.3 Consensus size: 105
7873605 GCCATCCGCG
* * * * **
7873615 ATTTCAACTCCACGACGGAGGATATCGTGGCAC-TCGAGACAACACAAGTTCAACTTCAAAACGA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTTC-AGACAACGCAAGTTCAACTTCACGACGA
* * * *
7873679 AGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGATCCA
62 AGGGACCGCTGCTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
7873724 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
7873789 ACCGCTGCTTGTCAACAACAACATCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
7873829 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
7873894 ACCGCTGCTTGTCAACAACAACTTCCCAATCTAAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
*
7873934 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
7873999 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* * *
7874034 ATTTCAACTTCACAACGAAGGATATTGGAC-TCGAGACAGCACAAGTTCAACTTCACAACGAAGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAGTTCAACTTCACGACGAAGG
* * * ** * *
7874098 GACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAACCA
65 GACCGCTGCTTGTCAAC-AACAACTTCCCAATTTCAGAGCCA
* *
7874140 ATTTCAACTTCACGACGGAGGATATTGGACTT
1 ATTTCAACTTCACAACGAAGGATATTGGACTT
7874172 GGAACAATGC
Statistics
Matches: 404, Mismatches: 35, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
99 1 0.00
100 79 0.20
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 203 0.50
106 80 0.20
107 6 0.01
109 22 0.05
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
Found at i:7874762 original size:34 final size:36
Alignment explanation
Indices: 7874718--7874819 Score: 172
Period size: 34 Copynumber: 2.9 Consensus size: 36
7874708 TTTCGTCCTA
7874718 CTAGGATTCAAACTCCTAAAAATAGGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
7874753 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
7874788 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
7874820 GTTCTACTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
34 30 0.48
35 3 0.05
37 29 0.47
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:7875273 original size:2 final size:2
Alignment explanation
Indices: 7875268--7875298 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7875258 TTAGTGTTAT
*
7875268 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7875299 TTCCTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:7877224 original size:28 final size:28
Alignment explanation
Indices: 7877184--7877512 Score: 514
Period size: 28 Copynumber: 11.6 Consensus size: 28
7877174 ACAGAATTAA
* *
7877184 TTACGAAACTAACACATTTTAAAAATAT
1 TTACGAAAATAACACCTTTTAAAAATAT
7877212 TTACGAAAATAACACCTTTTAAAAATAT
1 TTACGAAAATAACACCTTTTAAAAATAT
7877240 TTACGAAAATAACACCATTTTAAAAATAT
1 TTACGAAAATAACACC-TTTTAAAAATAT
7877269 TTACGAAAATAACACCTTTTAAAAATAT
1 TTACGAAAATAACACCTTTTAAAAATAT
7877297 TTACGAAAATAACACCGTTTTAAAAATAT
1 TTACGAAAATAACACC-TTTTAAAAATAT
*
7877326 TTACGAAAATAACACCCTTTAAAAATAT
1 TTACGAAAATAACACCTTTTAAAAATAT
* * *
7877354 TTACAAAAATAGCACCCTTTTGAAAATAT
1 TTACGAAAATAACA-CCTTTTAAAAATAT
7877383 TTACGAAAATAACACCTTTTAAAAATAT
1 TTACGAAAATAACACCTTTTAAAAATAT
*
7877411 TTACGAAAATAACACCCTTTAAAAATAT
1 TTACGAAAATAACACCTTTTAAAAATAT
* * *
7877439 TTACAAAAATAGCACCCTTTTGAAAATAT
1 TTACGAAAATAACA-CCTTTTAAAAATAT
*
7877468 TTACGAAAATAACACATTTTAAAAATAT
1 TTACGAAAATAACACCTTTTAAAAATAT
*
7877496 TTACGAAACTAACACCT
1 TTACGAAAATAACACCT
7877513 GGGTCGGGTC
Statistics
Matches: 276, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
28 172 0.62
29 104 0.38
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.31
Consensus pattern (28 bp):
TTACGAAAATAACACCTTTTAAAAATAT
Found at i:7877259 original size:57 final size:57
Alignment explanation
Indices: 7877184--7877512 Score: 520
Period size: 57 Copynumber: 5.8 Consensus size: 57
7877174 ACAGAATTAA
*
7877184 TTACGAAACTAACA-CATTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATAT
1 TTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATAT
7877240 TTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATAT
1 TTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATAT
* *
7877297 TTACGAAAATAACACCGTTTTAAAAATATTTACGAAAATAACACCCTTTAAAAATAT
1 TTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATAT
* * * *
7877354 TTACAAAAATAGCACCCTTTTGAAAATATTTACGAAAATAACACCTTTTAAAAATAT
1 TTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATAT
* * * *
7877411 TTACGAAAATAACACC-CTTTAAAAATATTTACAAAAATAGCACCCTTTTGAAAATAT
1 TTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACA-CCTTTTAAAAATAT
*
7877468 TTACGAAAATAACA-CATTTTAAAAATATTTACGAAACTAACACCT
1 TTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACACCT
7877513 GGGTCGGGTC
Statistics
Matches: 251, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
56 39 0.16
57 212 0.84
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.31
Consensus pattern (57 bp):
TTACGAAAATAACACCATTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATAT
Found at i:7877297 original size:85 final size:85
Alignment explanation
Indices: 7877200--7877511 Score: 527
Period size: 85 Copynumber: 3.7 Consensus size: 85
7877190 AACTAACACA
*
7877200 TTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATATTTACGAAAATAACACCATTTTAAAA
1 TTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATATTTACGAAAATAACACC-CTTTAAAA
*
7877265 ATATTTACGAAAATAACA-CC
65 ATATTTACAAAAATAACACCC
7877285 TTTTAAAAATATTTACGAAAATAACACCGTTTTAAAAATATTTACGAAAATAACACCCTTTAAAA
1 TTTTAAAAATATTTACGAAAATAACACC-TTTTAAAAATATTTACGAAAATAACACCCTTTAAAA
*
7877350 ATATTTACAAAAATAGCACCC
65 ATATTTACAAAAATAACACCC
*
7877371 TTTTGAAAATATTTACGAAAATAACACCTTTTAAAAATATTTACGAAAATAACACCCTTTAAAAA
1 TTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATATTTACGAAAATAACACCCTTTAAAAA
*
7877436 TATTTACAAAAATAGCACCC
66 TATTTACAAAAATAACACCC
* * *
7877456 TTTTGAAAATATTTACGAAAATAACACATTTTAAAAATATTTACGAAACTAACACC
1 TTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATATTTACGAAAATAACACC
7877512 TGGGTCGGGT
Statistics
Matches: 219, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
85 162 0.74
86 57 0.26
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.31
Consensus pattern (85 bp):
TTTTAAAAATATTTACGAAAATAACACCTTTTAAAAATATTTACGAAAATAACACCCTTTAAAAA
TATTTACAAAAATAACACCC
Found at i:7880099 original size:38 final size:37
Alignment explanation
Indices: 7880056--7880170 Score: 133
Period size: 38 Copynumber: 3.0 Consensus size: 37
7880046 TTTGTCTTCC
*
7880056 ATATGAAAAATCACGTTGCAACCAAAAATCTAGTTTCT
1 ATATGAAAAATCAGGTTGCAACC-AAAATCTAGTTTCT
* * *
7880094 ATATGAAAAATCAGGTTGCAACCTAAAAT-TTGACTTCC
1 ATATGAAAAATCAGGTTGCAACC-AAAATCTAG-TTTCT
* *
7880132 ACATGAAAAATCAGGTTGCAACTCAAAATCTGGTTTCT
1 ATATGAAAAATCAGGTTGCAAC-CAAAATCTAGTTTCT
7880170 A
1 A
7880171 AATTGATTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
37 2 0.03
38 60 0.92
39 3 0.05
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (37 bp):
ATATGAAAAATCAGGTTGCAACCAAAATCTAGTTTCT
Found at i:7882117 original size:19 final size:18
Alignment explanation
Indices: 7882072--7882122 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
7882062 TTGGAAATTT
* *
7882072 TTTATATTTATTATAAAG
1 TTTATTTTTATTTTAAAG
7882090 TTTATTTTTATTTTAAAG
1 TTTATTTTTATTTTAAAG
7882108 TTTAATTTTTATTTT
1 TTT-ATTTTTATTTT
7882123 TTGAAATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 19 0.63
19 11 0.37
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTATTTTTATTTTAAAG
Found at i:7883412 original size:194 final size:192
Alignment explanation
Indices: 7883012--7883413 Score: 495
Period size: 194 Copynumber: 2.1 Consensus size: 192
7883002 GGTGACATTA
* * * *
7883012 TATATAGTGATGTTATGCATTATCATCATTCATAATATTATTAGTAACGATATATTATGTCACTA
1 TATATAGTGACGTTATGCATAAACATCATTCATAATATTATTAGCAACGATATATTATGTCACTA
* * **
7883077 AAAATGTGACAATATCTTTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATA
66 AAAATGTGACAATATATCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATA
** * *
7883142 AACTATCAATAACAAAATATTATTTAATTTAGTGGCGTAACCAACTGTCATAGAATATAAAT
131 AACTATCAATAACAAAATATTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAAT
* * *
7883204 TATAAAGCGACGTTATGCATAAACGTCATTCATAATATTATTAGGCAAC-ATTTATATTATGTCA
1 TATATAGTGACGTTATGCATAAACATCATTCATAATATTATTA-GCAACGA--TATATTATGTCA
* * * *
7883268 CTAAAATTTTGACAATATATCTTTCGTCACATATAGGTTGATTTTAATGTATTATCCGTGACAAT
63 CTAAAAATGTGACAATATATCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAAT
* * * ** ** *
7883333 AT-AATTCATCAATAACAAAATTTTACATATTTTAGTGACATAATTAGTTGTCATTGAATACT-A
128 ATAAACT-ATCAATAACAAAATATTACATAATTTAGTGACATAACCAACTGTCATAGAATA-TAA
7883396 AT
191 AT
7883398 TATATAGTGACGTTAT
1 TATATAGTGACGTTAT
7883414 ATATAAATGT
Statistics
Matches: 176, Mismatches: 29, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
192 38 0.22
193 7 0.04
194 130 0.74
195 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (192 bp):
TATATAGTGACGTTATGCATAAACATCATTCATAATATTATTAGCAACGATATATTATGTCACTA
AAAATGTGACAATATATCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATA
AACTATCAATAACAAAATATTACATAATTTAGTGACATAACCAACTGTCATAGAATATAAAT
Found at i:7883442 original size:194 final size:194
Alignment explanation
Indices: 7883062--7883495 Score: 480
Period size: 194 Copynumber: 2.2 Consensus size: 194
7883052 TTAGTAACGA
* *
7883062 TATATTATGTCACTAAAAATGTGACAATATCTTTTTCGTCACATATAAGTTGATTTTAATGCATT
1 TATATTATGTCACTAAAAATGTGACAATATATCTTTCGTCACATATAAGTTGATTTTAATGCATT
** ** * *
7883127 ATTTGTGACAATATAAACTATCAATAACAAAATATTATTTAATTTAGTGGCGTAACCAACTGTCA
66 ATCCGTGACAATATAAACTATCAATAACAAAATATTACATAATTTAGTGACATAACCAACTGTCA
* * *
7883192 TAGAATATAAATTATAAAGCGACGTTATGCATAAACGTCATTCATAATATTATTAGGCAACATT
131 TAGAATATAAATTATAAAGCGACGTTATACATAAACGTCATCCATAATAATATTAGGCAACATT
* * * *
7883256 TATATTATGTCACTAAAATTTTGACAATATATCTTTCGTCACATATAGGTTGATTTTAATGTATT
1 TATATTATGTCACTAAAAATGTGACAATATATCTTTCGTCACATATAAGTTGATTTTAATGCATT
* * * ** **
7883321 ATCCGTGACAATAT-AATTCATCAATAACAAAATTTTACATATTTTAGTGACATAATTAGTTGTC
66 ATCCGTGACAATATAAACT-ATCAATAACAAAATATTACATAATTTAGTGACATAACCAACTGTC
* * * * * ** **
7883385 ATTGAATACT-AATTATATAGTGACGTTATATATAAATGTCATCCATGCTAATATTAGGTGACA-
130 ATAGAATA-TAAATTATAAAGCGACGTTATACATAAACGTCATCCATAATAATATTAGGCAACAT
*
7883448 A
194 T
** * * *
7883449 TATGCTATGTTACTAAAAATGTGACAAT-TTTCTTTTCGTCACGTATA
1 TATATTATGTCACTAAAAATGTGACAATATATC-TTTCGTCACATATA
7883496 GAATGAAATT
Statistics
Matches: 198, Mismatches: 39, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
192 3 0.02
193 39 0.20
194 155 0.78
195 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.39
Consensus pattern (194 bp):
TATATTATGTCACTAAAAATGTGACAATATATCTTTCGTCACATATAAGTTGATTTTAATGCATT
ATCCGTGACAATATAAACTATCAATAACAAAATATTACATAATTTAGTGACATAACCAACTGTCA
TAGAATATAAATTATAAAGCGACGTTATACATAAACGTCATCCATAATAATATTAGGCAACATT
Found at i:7891741 original size:14 final size:14
Alignment explanation
Indices: 7891721--7891758 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7891711 TATAAAGATA
7891721 AAACATAAACGAAC
1 AAACATAAACGAAC
* *
7891735 GAACATAAATGAAC
1 AAACATAAACGAAC
7891749 AAACATAAAC
1 AAACATAAAC
7891759 AAATGAATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.18, G:0.08, T:0.11
Consensus pattern (14 bp):
AAACATAAACGAAC
Found at i:7915223 original size:17 final size:17
Alignment explanation
Indices: 7915201--7915236 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7915191 TGACATTTGT
7915201 CAAAGATATCCAAATGC
1 CAAAGATATCCAAATGC
7915218 CAAAGATATCCAAATGC
1 CAAAGATATCCAAATGC
7915235 CA
1 CA
7915237 CTGAAGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.25, G:0.11, T:0.17
Consensus pattern (17 bp):
CAAAGATATCCAAATGC
Found at i:7920948 original size:2 final size:2
Alignment explanation
Indices: 7920941--7920975 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
7920931 AATATCAATA
7920941 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7920976 TGAAGAGAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7921529 original size:27 final size:27
Alignment explanation
Indices: 7921499--7921551 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
7921489 TCAAAATTAG
7921499 ATGCCTCAACCCATATAATGTGAGAAC
1 ATGCCTCAACCCATATAATGTGAGAAC
7921526 ATGCCTCAACCCATATAATGTGAGAA
1 ATGCCTCAACCCATATAATGTGAGAA
7921552 ATTCATGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (27 bp):
ATGCCTCAACCCATATAATGTGAGAAC
Found at i:7923654 original size:17 final size:18
Alignment explanation
Indices: 7923582--7923654 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 18
7923572 AGTATCCTCT
7923582 TTCATTCAA-TAAAGCTAG
1 TTCATTCAATTAAA-CTAG
* *
7923600 TTGACT-AATTAAACTAG
1 TTCATTCAATTAAACTAG
* * *
7923617 TTCATTCATTTAAATTGG
1 TTCATTCAATTAAACTAG
7923635 TTCATT-AATTAAACTAG
1 TTCATTCAATTAAACTAG
7923652 TTC
1 TTC
7923655 TTTATATGTT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
17 21 0.49
18 22 0.51
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (18 bp):
TTCATTCAATTAAACTAG
Found at i:7924110 original size:24 final size:24
Alignment explanation
Indices: 7924059--7924111 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
7924049 TCAAAGCATT
**
7924059 CAAGGATGATTTAATCATCCAATT
1 CAAGGATGATTTAATCATCCAAAC
* *
7924083 CAAGGTTGATTTAATCATTCAAAC
1 CAAGGATGATTTAATCATCCAAAC
7924107 CAAGG
1 CAAGG
7924112 GTTGTTCATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (24 bp):
CAAGGATGATTTAATCATCCAAAC
Found at i:7926162 original size:21 final size:21
Alignment explanation
Indices: 7926100--7926158 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
7926090 TGTTTGCAAA
*
7926100 AAAGAAAAAGAAA-CGAGAGT
1 AAAGAAAAAGAAATTGAGAGT
* *
7926120 --TGAAAAAGACATTGAGAGT
1 AAAGAAAAAGAAATTGAGAGT
7926139 AAAGAAAAAGAAATTG-GAGT
1 AAAGAAAAAGAAATTGAGAGT
7926159 TAAAAAGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
18 9 0.29
19 6 0.19
20 4 0.13
21 12 0.39
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.14
Consensus pattern (21 bp):
AAAGAAAAAGAAATTGAGAGT
Found at i:7926814 original size:22 final size:21
Alignment explanation
Indices: 7926775--7926844 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
7926765 TATTATTTCA
* *
7926775 AATTAATTAAATC-TATATTT
1 AATTAATTAAAACAAATATTT
*
7926795 AATTAATTAAAATTAAATATTT
1 AATTAATTAAAA-CAAATATTT
*
7926817 AGGATT-ATTAAAACATATATTT
1 A--ATTAATTAAAACAAATATTT
7926839 AATTAA
1 AATTAA
7926845 CTCTAGATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 14 0.35
21 1 0.03
22 15 0.38
23 7 0.17
24 3 0.08
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (21 bp):
AATTAATTAAAACAAATATTT
Found at i:7928376 original size:28 final size:28
Alignment explanation
Indices: 7928336--7928392 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
7928326 CTCCACTCCA
7928336 TAGACAAGAAATTTATCATTAGTTCTTC
1 TAGACAAGAAATTTATCATTAGTTCTTC
7928364 TAGACAAGAAATTTATCATTAGTTCTTC
1 TAGACAAGAAATTTATCATTAGTTCTTC
7928392 T
1 T
7928393 TAAGTACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (28 bp):
TAGACAAGAAATTTATCATTAGTTCTTC
Found at i:7928413 original size:24 final size:25
Alignment explanation
Indices: 7928386--7928436 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
7928376 TTATCATTAG
7928386 TTCTTCTTAAGTACTTAAGGAT-TT
1 TTCTTCTTAAGTACTTAAGGATATT
7928410 TTCTTCTTAAGTACTTAAGGATATT
1 TTCTTCTTAAGTACTTAAGGATATT
7928435 TT
1 TT
7928437 TAACCGCAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (25 bp):
TTCTTCTTAAGTACTTAAGGATATT
Found at i:7932777 original size:2 final size:2
Alignment explanation
Indices: 7932765--7932796 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
7932755 CCAAACAAAC
7932765 AT AT CAT 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
7932797 CACACACACG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7933701 original size:90 final size:89
Alignment explanation
Indices: 7933548--7933711 Score: 265
Period size: 90 Copynumber: 1.8 Consensus size: 89
7933538 CTTTTATTGC
* * *
7933548 CAAGTTACCCTCATCATATTAGGGTTTTTATTATTTGAAATTAATTAAATCTATATTTAATTAAT
1 CAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
*
7933613 TAGAATTTAATAATCCTCTTATATA
66 T-GAAATTAATAATCCTCTTATATA
* *
7933638 CAAGTTATCCTAATCATATTAGGGATTTTATTATTTCAAATTATTTAAATCTATATTTAATTAAT
1 CAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
7933703 TGAAATTAA
66 TGAAATTAA
7933712 ATATTCAGGA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 7 0.10
90 61 0.90
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.46
Consensus pattern (89 bp):
CAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
TGAAATTAATAATCCTCTTATATA
Found at i:7935424 original size:3 final size:3
Alignment explanation
Indices: 7935411--7935444 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
7935401 CCCATAATTT
7935411 TTA TT- TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
7935445 CAACATTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7935428 original size:14 final size:14
Alignment explanation
Indices: 7935411--7935444 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
7935401 CCCATAATTT
*
7935411 TTATTTTATTATTA
1 TTATTATATTATTA
7935425 TTATTATATTATTA
1 TTATTATATTATTA
7935439 TTATTA
1 TTATTA
7935445 CAACATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTATATTATTA
Found at i:7935436 original size:17 final size:17
Alignment explanation
Indices: 7935411--7935444 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7935401 CCCATAATTT
*
7935411 TTATTTTATTATTATTA
1 TTATATTATTATTATTA
7935428 TTATATTATTATTATTA
1 TTATATTATTATTATTA
7935445 CAACATTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATATTATTATTATTA
Found at i:7937746 original size:165 final size:169
Alignment explanation
Indices: 7937474--7937808 Score: 633
Period size: 165 Copynumber: 2.0 Consensus size: 169
7937464 ATTTTTAAAA
7937474 GGTAGTTTTAGGTATTCGACTTATCTAACCCAAAGGTCGATGACGGTTCCAAATTTGGTTATTTA
1 GGTAGTTTTAGGTATTCGACTTATCTAACCCAAAGGTCGATGACGGTTCCAAATTTGGTTATTTA
7937539 TATATTTATTTTAAAACCCAATTGTCGACAGTCGTTTACGTCTAGGTCCCGATTCGTTAT-A-AT
66 TATATTTATTTTAAAACCCAATTGTCGACAGTCGTTTACGTCTAGGTCCCGATTCGTTATAATAT
7937602 ATTA-TATTATTAA-TATTACAATTTTACAGGCCCAAAT
131 ATTATTATTATTAATTATTACAATTTTACAGGCCCAAAT
*
7937639 GGTAGTTTTAGGTATTCGACTTATCTAACCCAAAGGTCGATGACGGTTCCAAATTTGTTTATTTA
1 GGTAGTTTTAGGTATTCGACTTATCTAACCCAAAGGTCGATGACGGTTCCAAATTTGGTTATTTA
7937704 TATATTTATTTTAAAACCCAATTGTCGACAGTCGTTTACGTCTAGGTCCCGATTCGTTATAATAT
66 TATATTTATTTTAAAACCCAATTGTCGACAGTCGTTTACGTCTAGGTCCCGATTCGTTATAATAT
7937769 ATTATTATTATTAATTATTACAATTTTACAGGCCCAAAT
131 ATTATTATTATTAATTATTACAATTTTACAGGCCCAAAT
7937808 G
1 G
7937809 TGAAGTCCAA
Statistics
Matches: 165, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
165 124 0.75
166 1 0.01
167 6 0.04
168 9 0.05
169 25 0.15
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (169 bp):
GGTAGTTTTAGGTATTCGACTTATCTAACCCAAAGGTCGATGACGGTTCCAAATTTGGTTATTTA
TATATTTATTTTAAAACCCAATTGTCGACAGTCGTTTACGTCTAGGTCCCGATTCGTTATAATAT
ATTATTATTATTAATTATTACAATTTTACAGGCCCAAAT
Found at i:7938228 original size:17 final size:17
Alignment explanation
Indices: 7938202--7938235 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7938192 TCACCATGGT
*
7938202 AGCTCCGGTGATTCACC
1 AGCTCCGGTGACTCACC
*
7938219 AGCTCTGGTGACTCACC
1 AGCTCCGGTGACTCACC
7938236 GGGGTTCGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (17 bp):
AGCTCCGGTGACTCACC
Found at i:7938730 original size:56 final size:56
Alignment explanation
Indices: 7938670--7938782 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
7938660 ATTCGGCCTA
7938670 TTTATATCCCTCCCCAAACGACGTCATTTTGGGGAAGGACCTGAGCATAATACGGG
1 TTTATATCCCTCCCCAAACGACGTCATTTTGGGGAAGGACCTGAGCATAATACGGG
7938726 TTTATATCCCTCCCCAAACGACGTCATTTTGGGGAAGGACCTGAGCATAATACGGG
1 TTTATATCCCTCCCCAAACGACGTCATTTTGGGGAAGGACCTGAGCATAATACGGG
7938782 T
1 T
7938783 ATAGATAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (56 bp):
TTTATATCCCTCCCCAAACGACGTCATTTTGGGGAAGGACCTGAGCATAATACGGG
Found at i:7952511 original size:27 final size:23
Alignment explanation
Indices: 7952453--7952519 Score: 82
Period size: 22 Copynumber: 2.8 Consensus size: 23
7952443 ATGAAATTAC
*
7952453 GAGGTAAACTTATCCGGAGAAGT
1 GAGGTAAACTTATCTGGAGAAGT
7952476 GA-GTAAACTTATCTGGAGAAGATGGT
1 GAGGTAAACTTATCTGGAG-A-A--GT
7952502 GAGGTAAACTTATCTGGA
1 GAGGTAAACTTATCTGGA
7952520 ATTTTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
22 15 0.39
23 3 0.08
24 1 0.03
26 4 0.11
27 15 0.39
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.25
Consensus pattern (23 bp):
GAGGTAAACTTATCTGGAGAAGT
Found at i:7953738 original size:36 final size:36
Alignment explanation
Indices: 7953691--7953791 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
7953681 TTCTCAAGTC
* * *
7953691 AATCAAGCCTTCACAAAAGAGTAGTGGAGCAATGTA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCAACGCA
*
7953727 AATCAAGCCTTCACAAAAGGGTAGTGAAGCAACGCA
1 AATCAAGCCTTCACAAAAGAGTAGTGAAGCAACGCA
*
7953763 AATC-ATCCTTCACAAAAAGAGTAGTGAAG
1 AATCAAGCCTTCAC-AAAAGAGTAGTGAAG
7953792 TAAGATCATA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 8 0.14
36 50 0.86
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.18
Consensus pattern (36 bp):
AATCAAGCCTTCACAAAAGAGTAGTGAAGCAACGCA
Found at i:7953997 original size:11 final size:11
Alignment explanation
Indices: 7953981--7954022 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
7953971 TATAATGTTA
7953981 ATATTATTATT
1 ATATTATTATT
*
7953992 ATATTATTAAT
1 ATATTATTATT
*
7954003 ATTATTATAATT
1 A-TATTATTATT
7954015 A-ATTATTA
1 ATATTATTA
7954023 CAATTTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 6 0.23
11 11 0.42
12 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATTATTATT
Found at i:7956520 original size:25 final size:25
Alignment explanation
Indices: 7956486--7956541 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
7956476 TATCATCTTT
*
7956486 TGAAAGCTATTCACTTGTAAAGTAA
1 TGAAGGCTATTCACTTGTAAAGTAA
*
7956511 TGAAGGCTATTCACTTGTAACGTAA
1 TGAAGGCTATTCACTTGTAAAGTAA
7956536 TGAAGG
1 TGAAGG
7956542 ATAATTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (25 bp):
TGAAGGCTATTCACTTGTAAAGTAA
Found at i:7960431 original size:16 final size:17
Alignment explanation
Indices: 7960406--7960441 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
7960396 CTGAGGTGTC
7960406 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
7960422 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
7960439 ACA
1 ACA
7960442 ACTAAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.36
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:7962748 original size:18 final size:20
Alignment explanation
Indices: 7962696--7962741 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
7962686 GGTACTCTTA
*
7962696 CTATAGTATCGATACTACCC
1 CTATGGTATCGATACTACCC
7962716 CTATGGTATCGATACT-CCC
1 CTATGGTATCGATACTACCC
7962735 CTA-GGTA
1 CTATGGTA
7962742 CTGATACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 4 0.16
19 6 0.24
20 15 0.60
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (20 bp):
CTATGGTATCGATACTACCC
Found at i:7963250 original size:26 final size:26
Alignment explanation
Indices: 7963221--7963270 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
7963211 AATGTTCAAA
7963221 GAACCAAAATACCTTGAACTCTAAAG
1 GAACCAAAATACCTTGAACTCTAAAG
* * *
7963247 GAACCAGACTACCTTGAAGTCTAA
1 GAACCAAAATACCTTGAACTCTAA
7963271 GATGGTCGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.42, C:0.24, G:0.14, T:0.20
Consensus pattern (26 bp):
GAACCAAAATACCTTGAACTCTAAAG
Found at i:7976488 original size:16 final size:17
Alignment explanation
Indices: 7976467--7976502 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
7976457 ATTGTTGTAG
7976467 TAATCAAA-ATTGACAA
1 TAATCAAACATTGACAA
7976483 TAATCAAACATTGACAA
1 TAATCAAACATTGACAA
7976500 TAA
1 TAA
7976503 GCTAAGTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.25
Consensus pattern (17 bp):
TAATCAAACATTGACAA
Found at i:7978280 original size:18 final size:18
Alignment explanation
Indices: 7978214--7978282 Score: 68
Period size: 18 Copynumber: 3.9 Consensus size: 18
7978204 ACCGGTTCCA
* *
7978214 ACCCGACCCGTTTACTCG
1 ACCCGACCCGTTGACCCG
* *
7978232 ACCCAACCAGTTGA-CCG
1 ACCCGACCCGTTGACCCG
*
7978249 ACCCGACCCTTTGACCCG
1 ACCCGACCCGTTGACCCG
* *
7978267 ACTCGACTCGTTGACC
1 ACCCGACCCGTTGACC
7978283 GTTGACCGAC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
17 13 0.32
18 27 0.68
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.19
Consensus pattern (18 bp):
ACCCGACCCGTTGACCCG
Found at i:7980431 original size:27 final size:27
Alignment explanation
Indices: 7980393--7980446 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
7980383 ATATGGACAA
7980393 GAATTTGTGGTATTAAAGAGTAAATAC
1 GAATTTGTGGTATTAAAGAGTAAATAC
7980420 GAATTTGTGGTATTAAAGAGTAAATAC
1 GAATTTGTGGTATTAAAGAGTAAATAC
7980447 CCTGAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (27 bp):
GAATTTGTGGTATTAAAGAGTAAATAC
Found at i:7980864 original size:24 final size:24
Alignment explanation
Indices: 7980834--7980906 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
7980824 ATACATTACC
*
7980834 TGAATTCTGTTCTGATTTCTGATC
1 TGAATTCTGTTCTGATTTCTGATA
* *
7980858 TGGATTCTGTTCTGATATCTGATA
1 TGAATTCTGTTCTGATTTCTGATA
* *
7980882 TGAATTCTGTTTTGATTTCTAATA
1 TGAATTCTGTTCTGATTTCTGATA
7980906 T
1 T
7980907 CTCTGTTTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (24 bp):
TGAATTCTGTTCTGATTTCTGATA
Found at i:7980901 original size:12 final size:12
Alignment explanation
Indices: 7980833--7980901 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
7980823 GATACATTAC
*
7980833 CTGAATTCTGTT
1 CTGATTTCTGTT
*
7980845 CTGATTTCTGAT
1 CTGATTTCTGTT
7980857 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
7980869 CTGATATCTGAT
1 CTGATTTCTGTT
* *
7980881 ATGAATTCTGTT
1 CTGATTTCTGTT
*
7980893 TTGATTTCT
1 CTGATTTCT
7980902 AATATCTCTG
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
11 2 0.05
12 40 0.91
13 2 0.05
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:7982535 original size:18 final size:18
Alignment explanation
Indices: 7982512--7982558 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
7982502 CGTATAATTT
7982512 ATATACCCTAAAAAAATA
1 ATATACCCTAAAAAAATA
*
7982530 ATATA-CCT-AAAAAATG
1 ATATACCCTAAAAAAATA
*
7982546 ATATACCTTAAAA
1 ATATACCCTAAAA
7982559 TATTGAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 12 0.48
17 5 0.20
18 8 0.32
ACGTcount: A:0.57, C:0.15, G:0.02, T:0.26
Consensus pattern (18 bp):
ATATACCCTAAAAAAATA
Found at i:7983767 original size:16 final size:17
Alignment explanation
Indices: 7983746--7983779 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7983736 ACTGTTCACA
7983746 TGAATAGT-AAATTTTG
1 TGAATAGTGAAATTTTG
7983762 TGAATAGTGAAATTTTG
1 TGAATAGTGAAATTTTG
7983779 T
1 T
7983780 CGGCGATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (17 bp):
TGAATAGTGAAATTTTG
Found at i:7993802 original size:2 final size:2
Alignment explanation
Indices: 7993795--7993826 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7993785 TCAATCTACC
7993795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7993827 TAATTTACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7993995 original size:13 final size:13
Alignment explanation
Indices: 7993977--7994021 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
7993967 CTCAATACAC
7993977 GTCATAAATGCAG-
1 GTCATAAATGC-GT
*
7993990 GTCATAAACGCGT
1 GTCATAAATGCGT
*
7994003 GTCATAAATGCGC
1 GTCATAAATGCGT
7994016 GTCATA
1 GTCATA
7994022 GATTAATGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (13 bp):
GTCATAAATGCGT
Found at i:8008330 original size:12 final size:12
Alignment explanation
Indices: 8008313--8008343 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
8008303 TGAAATGAAG
8008313 CTTCCATCAATT
1 CTTCCATCAATT
8008325 CTTCCATCAATT
1 CTTCCATCAATT
8008337 CTTCCAT
1 CTTCCAT
8008344 GTCTTCTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (12 bp):
CTTCCATCAATT
Found at i:8009238 original size:179 final size:182
Alignment explanation
Indices: 8008924--8009284 Score: 701
Period size: 179 Copynumber: 2.0 Consensus size: 182
8008914 TAAAATTTTT
8008924 GTTAAACATGTAAAATCATAAATCATTTAAAAATACAAAAGTAAAATTTACCAGTATTAAGAAAT
1 GTTAAACATGTAAAATCATAAATCATTTAAAAATACAAAAGTAAAATTTACCAGTATTAAGAAAT
8008989 AAAACAAAGTTCAAACTCATATGTAAAACAAATTACAACTTACATGCTCCCTAATCACGTGCACC
66 AAAACAAAGTTCAAACTCATATGTAAAACAAATTACAACTTACATGCTCCCTAATCACGTGCACC
8009054 GTACTCCACAAGCAACGCTGGTGGAACTCCCTTACTGAAGTCGATAGCTGCA
131 GTACTCCACAAGCAACGCTGGTGGAACTCCCTTACTGAAGTCGATAGCTGCA
8009106 GTTAAACATGT-AAATCATAAATCATTT-AAAATACAAAAGTAAAATTTACCAGTATTAAG-AAT
1 GTTAAACATGTAAAATCATAAATCATTTAAAAATACAAAAGTAAAATTTACCAGTATTAAGAAAT
8009168 AAAACAAAGTTCAAACTCATATGTAAAACAAATTACAACTTACATGCTCCCTAATCACGTGCACC
66 AAAACAAAGTTCAAACTCATATGTAAAACAAATTACAACTTACATGCTCCCTAATCACGTGCACC
8009233 GTACTCCACAAGCAACGCTGGTGGAACTCCCTTACTGAAGTCGATAGCTGCA
131 GTACTCCACAAGCAACGCTGGTGGAACTCCCTTACTGAAGTCGATAGCTGCA
8009285 CTGGTATTAT
Statistics
Matches: 179, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
179 120 0.67
180 32 0.18
181 16 0.09
182 11 0.06
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (182 bp):
GTTAAACATGTAAAATCATAAATCATTTAAAAATACAAAAGTAAAATTTACCAGTATTAAGAAAT
AAAACAAAGTTCAAACTCATATGTAAAACAAATTACAACTTACATGCTCCCTAATCACGTGCACC
GTACTCCACAAGCAACGCTGGTGGAACTCCCTTACTGAAGTCGATAGCTGCA
Found at i:8010870 original size:110 final size:110
Alignment explanation
Indices: 8010677--8010897 Score: 433
Period size: 110 Copynumber: 2.0 Consensus size: 110
8010667 TTTGAGTTGA
8010677 TAAGAGAGAGATGAAGATTCAGGACATTTACAATCTGTGTCGATCTATCAGATTATTGAAATAAC
1 TAAGAGAGAGATGAAGATTCAGGACATTTACAATCTGTGTCGATCTATCAGATTATTGAAATAAC
*
8010742 TCGAGTTGAACAACTCCTAGAACTAATGCATGTCGACCGATCTAT
66 TCAAGTTGAACAACTCCTAGAACTAATGCATGTCGACCGATCTAT
8010787 TAAGAGAGAGATGAAGATTCAGGACATTTACAATCTGTGTCGATCTATCAGATTATTGAAATAAC
1 TAAGAGAGAGATGAAGATTCAGGACATTTACAATCTGTGTCGATCTATCAGATTATTGAAATAAC
8010852 TCAAGTTGAACAACTCCTAGAACTAATGCATGTCGACCGATCTAT
66 TCAAGTTGAACAACTCCTAGAACTAATGCATGTCGACCGATCTAT
8010897 T
1 T
8010898 CGTTACCCTT
Statistics
Matches: 110, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (110 bp):
TAAGAGAGAGATGAAGATTCAGGACATTTACAATCTGTGTCGATCTATCAGATTATTGAAATAAC
TCAAGTTGAACAACTCCTAGAACTAATGCATGTCGACCGATCTAT
Found at i:8012410 original size:14 final size:14
Alignment explanation
Indices: 8012374--8012424 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
8012364 AACTTTTCGA
*
8012374 TCAAAGTCAA-TGG
1 TCAAAGTCAACAGG
*
8012387 TCAAACTCAACAGG
1 TCAAAGTCAACAGG
* *
8012401 CCAAAGTCAACGGG
1 TCAAAGTCAACAGG
8012415 TCAAAGTCAA
1 TCAAAGTCAA
8012425 TTGGTTGACT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
13 9 0.29
14 22 0.71
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.16
Consensus pattern (14 bp):
TCAAAGTCAACAGG
Found at i:8027659 original size:45 final size:46
Alignment explanation
Indices: 8027610--8027799 Score: 287
Period size: 45 Copynumber: 4.2 Consensus size: 46
8027600 AATGCACCCC
8027610 TATGCATTTCATTTATGGCATCCTTTCATG-CCTTTTATACGCTAT
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATACGCTAT
* *
8027655 TATGCACTTCATTTATGGCATCCTTTCATGCCCTTTTATACTCTAT
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATACGCTAT
* * * *
8027701 TATACATTTCATTTATTGCATCCTTTCATG-TCTTTTATATGCTAT
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATACGCTAT
*
8027746 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATACAAC-AT
1 TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATAC-GCTAT
8027792 TATGCATT
1 TATGCATT
8027800 GTTACACATC
Statistics
Matches: 129, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
45 69 0.53
46 59 0.46
47 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.09, T:0.47
Consensus pattern (46 bp):
TATGCATTTCATTTATGGCATCCTTTCATGCCCTTTTATACGCTAT
Found at i:8027725 original size:91 final size:91
Alignment explanation
Indices: 8027614--8027786 Score: 310
Period size: 91 Copynumber: 1.9 Consensus size: 91
8027604 CACCCCTATG
8027614 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACGCTATTATGCACTTCATTTATGGCATCCT
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACGCTATTATGCACTTCATTTATGGCATCCT
8027679 TTCATGCCCTTTTATACTCTATTATA
66 TTCATGCCCTTTTATACTCTATTATA
* * * *
8027705 CATTTCATTTATTGCATCCTTTCATGTCTTTTATATGCTATTATGCATTTCATTTATGGCATCCT
1 CATTTCATTTATGGCATCCTTTCATGCCTTTTATACGCTATTATGCACTTCATTTATGGCATCCT
8027770 TTCATGCCCTTTTATAC
66 TTCATGCCCTTTTATAC
8027787 AACATTATGC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.20, C:0.23, G:0.09, T:0.48
Consensus pattern (91 bp):
CATTTCATTTATGGCATCCTTTCATGCCTTTTATACGCTATTATGCACTTCATTTATGGCATCCT
TTCATGCCCTTTTATACTCTATTATA
Found at i:8028031 original size:67 final size:67
Alignment explanation
Indices: 8027820--8028358 Score: 832
Period size: 67 Copynumber: 8.0 Consensus size: 67
8027810 TAGTCTTTTA
* *
8027820 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTTAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTG-TCAATGCACAGTTA
8027885 GGC
65 GGC
* * *
8027888 CTCAAAGGCACTTAGCCTTTAATCTAACTGGC-TCAATTGACAAC-TT-TATCAATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT-AATTGACACCTTTCTGTCAATGCACAGTTA
8027950 GGC
65 GGC
*
8027953 CTCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
8028018 GC
66 GC
* *
8028020 CTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAC
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
8028085 GC
66 GC
* *
8028087 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AATGCACAGTTA
8028152 GGC
65 GGC
* * *
8028155 CTCAAAGGCACTTAGTCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAATGCATAGTTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
8028220 GC
66 GC
* * * * * **
8028222 CTTAAAGGCACTTAGCCTTTAATCTAACTGGCATAATTGACGCATTTCTCTCAAATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AATGCACAGTTA
8028287 GGC
65 GGC
*
8028290 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAATTAG
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
8028355 GC
66 GC
8028357 CT
1 CT
8028359 TTTAATCTTT
Statistics
Matches: 430, Mismatches: 35, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
65 54 0.13
66 4 0.01
67 209 0.49
68 163 0.38
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (67 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGTTAG
GC
Found at i:8028359 original size:135 final size:135
Alignment explanation
Indices: 8027820--8028358 Score: 870
Period size: 135 Copynumber: 4.0 Consensus size: 135
8027810 TAGTCTTTTA
*
8027820 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTTAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
* * *
8027885 GGCCTCAAAGGCACTTAGCCTTTAATCTAACTGGC-TCAATTGACAAC-TT-TATCAATGCACAG
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCAT-AATTGACACCTTTCTGTCAATGCACAG
8027947 TTAGGC
130 TTAGGC
* *
8027953 CTCAAAGGCACTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTC-AATGCACAGTTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
*
8028017 GGCCTCAAAGGCACTTAGCCTTTCATCTAATTGGCATAATTGACACCTTTCTGTCAATGCACAGT
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGT
*
8028082 TACGC
131 TAGGC
*
8028087 CTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
* * *
8028152 GGCCTCAAAGGCACTTAGTCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAATGCATAGT
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGT
8028217 TAGGC
131 TAGGC
* * * * * *
8028222 CTTAAAGGCACTTAGCCTTTAATCTAACTGGCATAATTGACGCATTTCTCTCAAATGCACAACTA
1 CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
*
8028287 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAAT
66 GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGT
8028352 TAGGC
131 TAGGC
8028357 CT
1 CT
8028359 TTTAATCTTT
Statistics
Matches: 375, Mismatches: 27, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
132 53 0.14
133 53 0.14
134 67 0.18
135 202 0.54
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (135 bp):
CTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTA
GGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAATGCACAGT
TAGGC
Found at i:8032322 original size:21 final size:22
Alignment explanation
Indices: 8032297--8032340 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
8032287 TTAAGGCCAA
* *
8032297 ATTCAGCTTCAAATTG-TCTAG
1 ATTCAGCCTCAAAATGATCTAG
*
8032318 ATTCATCCTCAAAATGATCTAG
1 ATTCAGCCTCAAAATGATCTAG
8032340 A
1 A
8032341 ATATTCAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (22 bp):
ATTCAGCCTCAAAATGATCTAG
Found at i:8048366 original size:62 final size:62
Alignment explanation
Indices: 8048295--8048420 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
8048285 AAAAACAAAC
8048295 TGAAATTTTCTAATACGATTTTCTAATCATATCGTTTTTTTCGAAGTAACTCATAATAAGGT
1 TGAAATTTTCTAATACGATTTTCTAATCATATCGTTTTTTTCGAAGTAACTCATAATAAGGT
8048357 TGAAATTTTCTAATACGATTTTCTAATCATATCGTTTTTTTCGAAGTAACTCATAATAAGGT
1 TGAAATTTTCTAATACGATTTTCTAATCATATCGTTTTTTTCGAAGTAACTCATAATAAGGT
8048419 TG
1 TG
8048421 TTTAAATGAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (62 bp):
TGAAATTTTCTAATACGATTTTCTAATCATATCGTTTTTTTCGAAGTAACTCATAATAAGGT
Found at i:8053126 original size:21 final size:20
Alignment explanation
Indices: 8053091--8053145 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 20
8053081 TATTTTAGAG
*
8053091 ATTTTATACATATTTGTAACTTA
1 ATTTT-TAC-TATTT-TAACATA
*
8053114 ATTTTTACTATTTTACCATA
1 ATTTTTACTATTTTAACATA
8053134 ATTTTTAGCTAT
1 ATTTTTA-CTAT
8053146 AAAATAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 12 0.41
21 9 0.31
22 3 0.10
23 5 0.17
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.55
Consensus pattern (20 bp):
ATTTTTACTATTTTAACATA
Found at i:8056019 original size:20 final size:20
Alignment explanation
Indices: 8055994--8056041 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
8055984 GATGTTATAA
8055994 TTAGCTCATGACCTTCAAAC
1 TTAGCTCATGACCTTCAAAC
8056014 TTAGCTCATGACCTTCAAAC
1 TTAGCTCATGACCTTCAAAC
*
8056034 ATAGCTCA
1 TTAGCTCA
8056042 CATCACCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.29
Consensus pattern (20 bp):
TTAGCTCATGACCTTCAAAC
Found at i:8057465 original size:22 final size:22
Alignment explanation
Indices: 8057416--8057466 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
8057406 AAAATCCAGC
*
8057416 AAAGAAAATCAAAGCACTCAAA
1 AAAGAAAATCAAAGCACCCAAA
* *
8057438 AGAAGAAATTGAAAGCACCCAAA
1 A-AAGAAAATCAAAGCACCCAAA
8057461 AAAGAA
1 AAAGAA
8057467 GAAAGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.63, C:0.16, G:0.14, T:0.08
Consensus pattern (22 bp):
AAAGAAAATCAAAGCACCCAAA
Found at i:8061758 original size:21 final size:20
Alignment explanation
Indices: 8061712--8061761 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
8061702 CAAGTTTATA
*
8061712 GTTTGGTTAATTTTATTTTG
1 GTTTGGTTAATTTTATATTG
8061732 GTTTTGGTTAATTTT-TGAATTG
1 G-TTTGGTTAATTTTAT--ATTG
8061754 GTTTGGTT
1 GTTTGGTT
8061762 TGTTGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 20 0.77
22 4 0.15
ACGTcount: A:0.14, C:0.00, G:0.24, T:0.62
Consensus pattern (20 bp):
GTTTGGTTAATTTTATATTG
Found at i:8063079 original size:2 final size:2
Alignment explanation
Indices: 8063072--8063096 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8063062 ACCAATGATT
8063072 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8063097 TGTACCATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.