Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 109 of 250
Found at i:35018168 original size:36 final size:36
Alignment explanation
Indices: 35018127--35018208 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
35018117 TTTCTTCTTG
*
35018127 ATGTTCAAATGAGATTGAATTTAATTGTGTTAATGC
1 ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
*
35018163 CTGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
1 ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
35018199 ATGTTCAAAT
1 ATGTTCAAAT
35018209 ATAGTTATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.40
Consensus pattern (36 bp):
ATGTTCAAATGAGATTGAATTTAATTGAGTTAATGC
Found at i:35019777 original size:37 final size:37
Alignment explanation
Indices: 35019734--35019828 Score: 109
Period size: 37 Copynumber: 2.6 Consensus size: 37
35019724 TTTTAGGAGT
* ** **
35019734 TGCGATCTTAAATTAGCTAACTCAATGAAATTTAGGC
1 TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
* * *
35019771 TGCGATCTTAAATCAACTAACTTAAAAAAAAATAGGT
1 TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
*
35019808 TGCAATCTTAAATCAGCTAAC
1 TGCGATCTTAAATCAGCTAAC
35019829 CTTTATAATA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (37 bp):
TGCGATCTTAAATCAGCTAACTCAAAAAAAAATAGGC
Found at i:35021342 original size:26 final size:26
Alignment explanation
Indices: 35021306--35021359 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
35021296 TAATAAAGCC
35021306 TATGCAACACCTTCAAACTCACAAGT
1 TATGCAACACCTTCAAACTCACAAGT
* *
35021332 TATGCAACACCTTTAAACTCGCAAGT
1 TATGCAACACCTTCAAACTCACAAGT
35021358 TA
1 TA
35021360 GCATACTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.37, C:0.28, G:0.09, T:0.26
Consensus pattern (26 bp):
TATGCAACACCTTCAAACTCACAAGT
Found at i:35026651 original size:41 final size:41
Alignment explanation
Indices: 35026606--35026688 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
35026596 AGGGCTAATA
35026606 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCAATGGTC
1 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCAATGGTC
*
35026647 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCGATGGTC
1 ATTCAATTCTAGAGTCTAAATAACATTAAGAATCAATGGTC
35026688 A
1 A
35026689 CATGAATGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (41 bp):
ATTCAATTCTAGAGTCTAAATAACATTAAGAATCAATGGTC
Found at i:35037123 original size:21 final size:21
Alignment explanation
Indices: 35037084--35037123 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
35037074 AATGCTTGAT
* *
35037084 ATTTTGAATGATTGTTGATGA
1 ATTTTGAAAGATTGATGATGA
*
35037105 ATTTTGAAAGCTTGATGAT
1 ATTTTGAAAGATTGATGAT
35037124 AGATATTGAA
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:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
ATTTTGAAAGATTGATGATGA
Found at i:35037795 original size:43 final size:42
Alignment explanation
Indices: 35037709--35037858 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 42
35037699 GATTACATGA
* * * *
35037709 AAGACCATGTCTGGGACATTAGCATTG-CATTGAGATTAT-GTGT
1 AAGACCATATCTGGGACATTGGCATCGTTATT--GATT-TCGTGT
*
35037752 AAGACCATGTCTGGGACATTGGCATCGTTAATTGATTTCGTGT
1 AAGACCATATCTGGGACATTGGCATCGTT-ATTGATTTCGTGT
* * * ** *
35037795 AAGACCCTATCTGGGACAGTGGCATCGATATATGATAACATGT
1 AAGACCATATCTGGGACATTGGCATCGTTAT-TGATTTCGTGT
*
35037838 AAGACCATATCTGGGGCATTG
1 AAGACCATATCTGGGACATTG
35037859 TATGCGCTTA
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 3 0.03
43 84 0.93
45 3 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (42 bp):
AAGACCATATCTGGGACATTGGCATCGTTATTGATTTCGTGT
Found at i:35040772 original size:27 final size:27
Alignment explanation
Indices: 35040741--35040918 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35040731 TAAATTGTAC
35040741 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35040768 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35040794 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35040822 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35040850 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35040877 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35040904 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35040919 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35040855 original size:82 final size:81
Alignment explanation
Indices: 35040742--35040897 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35040732 AAATTGTACA
* *
35040742 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35040806 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35040823 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35040888 TGCGAGTTGA
65 TGCGAATTGA
35040898 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35040909 original size:82 final size:81
Alignment explanation
Indices: 35040738--35040918 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35040728 GATTAAATTG
* *
35040738 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35040803 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35040819 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35040883 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35040901 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35040919 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35048749 original size:27 final size:27
Alignment explanation
Indices: 35048718--35048896 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
35048708 TAAATTGTAC
35048718 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** * *
35048745 TGCACTAAGTGTGCGAAATGAATATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35048772 GATGCACTAAGTGTGCGAATTGACCATGG
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
35048801 CGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35048829 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35048856 AGCACTAAGTGTGCGAGTTGATTAT-A
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35048882 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35048897 GACTCAATAT
Statistics
Matches: 127, Mismatches: 22, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
26 14 0.11
27 69 0.54
28 23 0.18
29 21 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35048861 original size:55 final size:53
Alignment explanation
Indices: 35048718--35048896 Score: 196
Period size: 56 Copynumber: 3.3 Consensus size: 53
35048708 TAAATTGTAC
* **
35048718 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATAT-T
* * ** *
35048772 GATGCACTAAGTGTGCGAATTGACCATGGCGCACTAAGTGTGCGAGTTTGACTATGT
1 -A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAG-TTGAATAT-T
* * * *
35048829 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTATA
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATT
*
35048882 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35048897 GACTCAATAT
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 14 0.13
54 7 0.07
55 38 0.36
56 39 0.37
57 7 0.07
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (53 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTGAATATT
Found at i:35052781 original size:13 final size:13
Alignment explanation
Indices: 35052759--35052790 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
35052749 GTAAGAGAGT
*
35052759 GAGCTTGACTTGC
1 GAGCTCGACTTGC
35052772 GAGCTCGACTTGC
1 GAGCTCGACTTGC
35052785 GAGCTC
1 GAGCTC
35052791 ATCCTACGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.31, T:0.25
Consensus pattern (13 bp):
GAGCTCGACTTGC
Found at i:35059733 original size:56 final size:56
Alignment explanation
Indices: 35059643--35059753 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 56
35059633 ATATTTGATA
* *
35059643 TGGTCAATTAACTCATTATAAGATAAACTGTATTCAAAATCACTTAACAATTAATG
1 TGGTCAATTAACTCATTATAAGATAAACTATATTCAAAATCACTCAACAATTAATG
*
35059699 TGGTCAATTAACTCATTATAGGATAAACTATATTCAAAATCACTCAACAATTAAT
1 TGGTCAATTAACTCATTATAAGATAAACTATATTCAAAATCACTCAACAATTAAT
35059754 AAGTTCACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (56 bp):
TGGTCAATTAACTCATTATAAGATAAACTATATTCAAAATCACTCAACAATTAATG
Found at i:35061064 original size:15 final size:15
Alignment explanation
Indices: 35061046--35061077 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
35061036 TCAAAAGGGA
35061046 AATGGTGAGTGAGTT
1 AATGGTGAGTGAGTT
35061061 AATGGTGAGTGAGTT
1 AATGGTGAGTGAGTT
35061076 AA
1 AA
35061078 GAATGAAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (15 bp):
AATGGTGAGTGAGTT
Found at i:35064487 original size:29 final size:30
Alignment explanation
Indices: 35064433--35064497 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
35064423 TTTAATATAT
*
35064433 AATTTTATATATGAACTTTGATTTTG-TGC
1 AATTTTATACATGAACTTTGATTTTGATGC
* *
35064462 AATTTTATACATGAAATTTTGA-TTTGATTC
1 AATTTTATACATG-AACTTTGATTTTGATGC
35064492 AATTTT
1 AATTTT
35064498 CATAAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (30 bp):
AATTTTATACATGAACTTTGATTTTGATGC
Found at i:35064651 original size:31 final size:29
Alignment explanation
Indices: 35064616--35064684 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
35064606 GTTTTATATA
*
35064616 TATATATTTGAGCCGCAAATAAAATTTCATG
1 TATATATTTGAG-C-CAAATAAAAGTTCATG
* * *
35064647 TATATAATTGTGCCAAATTAAAGTTCATG
1 TATATATTTGAGCCAAATAAAAGTTCATG
*
35064676 TATAAATTT
1 TATATATTT
35064685 AAAAATTTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 21 0.66
30 1 0.03
31 10 0.31
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
TATATATTTGAGCCAAATAAAAGTTCATG
Found at i:35065466 original size:21 final size:21
Alignment explanation
Indices: 35065440--35065482 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35065430 ATTATACATT
*
35065440 ATTAATAACTATAAAATCCTA
1 ATTAATAACAATAAAATCCTA
* *
35065461 ATTAATCACAATAAAATTCTA
1 ATTAATAACAATAAAATCCTA
35065482 A
1 A
35065483 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTAATAACAATAAAATCCTA
Found at i:35066453 original size:21 final size:21
Alignment explanation
Indices: 35066427--35066469 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
35066417 CATTTAAAAA
* *
35066427 TGTTCATCTTGTCTCTAGACT
1 TGTTCAACTTGTCTCGAGACT
35066448 TGTTCAACTTGTCTCGAGACT
1 TGTTCAACTTGTCTCGAGACT
35066469 T
1 T
35066470 AAACCCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.44
Consensus pattern (21 bp):
TGTTCAACTTGTCTCGAGACT
Found at i:35067776 original size:40 final size:40
Alignment explanation
Indices: 35067710--35067930 Score: 221
Period size: 40 Copynumber: 5.5 Consensus size: 40
35067700 AATTATTGAA
** *
35067710 GAATGCACATTTGTACCCC-GATTTGTACTTCGGTACCCCT
1 GAATGCACATTCATGCCCCTGA-TTGTACTTCGGTACCCCT
* * ** *
35067750 GAATGCACATTCATGCCACAGATTGTACTTCAATACCCTT
1 GAATGCACATTCATGCCCCTGATTGTACTTCGGTACCCCT
* * * * *
35067790 GAATGCACATTCGTGCCCCTGTTTGTTCTTTGGTACCCTT
1 GAATGCACATTCATGCCCCTGATTGTACTTCGGTACCCCT
* * *
35067830 GAATGCACATAT-GTGCCCCTGAGTGTACTTTGGTACCCCT
1 GAATGCACAT-TCATGCCCCTGATTGTACTTCGGTACCCCT
* * *
35067870 GAATGCATATACATGCCCCGGATTGTACTTCGGTACCCCT
1 GAATGCACATTCATGCCCCTGATTGTACTTCGGTACCCCT
* *
35067910 GAATGCACATACGTGCCCCTG
1 GAATGCACATTCATGCCCCTG
35067931 TTTATACTCC
Statistics
Matches: 150, Mismatches: 28, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
40 147 0.98
41 3 0.02
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (40 bp):
GAATGCACATTCATGCCCCTGATTGTACTTCGGTACCCCT
Found at i:35067907 original size:120 final size:120
Alignment explanation
Indices: 35067710--35067933 Score: 324
Period size: 120 Copynumber: 1.9 Consensus size: 120
35067700 AATTATTGAA
* * *
35067710 GAATGCACATTTGTACCCCGATTTGTACTTCGGTACCCCTGAATGCACATTCATGCCACAGATTG
1 GAATGCACATATGTACCCCGATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAGATTG
* *
35067775 TACTTCAATACCCTTGAATGCACATTCGTGCCCCTGTTTGTTCTTTGGTACCCTT
66 TACTTCAATACCCCTGAATGCACATACGTGCCCCTGTTTGTTCTTTGGTACCCTT
* * * * *
35067830 GAATGCACATATGTGCCCCTGA-GTGTACTTTGGTACCCCTGAATGCATATACATGCCCCGGATT
1 GAATGCACATATGTACCCC-GATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAGATT
**
35067894 GTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTT
65 GTACTTCAATACCCCTGAATGCACATACGTGCCCCTGTTT
35067934 ATACTCCAGT
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
120 89 0.98
121 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (120 bp):
GAATGCACATATGTACCCCGATGTGTACTTCGGTACCCCTGAATGCACATACATGCCACAGATTG
TACTTCAATACCCCTGAATGCACATACGTGCCCCTGTTTGTTCTTTGGTACCCTT
Found at i:35067930 original size:20 final size:20
Alignment explanation
Indices: 35067829--35067930 Score: 62
Period size: 20 Copynumber: 5.1 Consensus size: 20
35067819 TTGGTACCCT
*
35067829 TGAATGCACATATGTGCCCC
1 TGAATGCACATACGTGCCCC
* * * ** *
35067849 TGAGTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCC
* *
35067869 TGAATGCATATACATGCCCC
1 TGAATGCACATACGTGCCCC
* * * * *
35067889 GGATTGTAC-TTCGGTACCCC
1 TGAATGCACATAC-GTGCCCC
35067909 TGAATGCACATACGTGCCCC
1 TGAATGCACATACGTGCCCC
35067929 TG
1 TG
35067931 TTTATACTCC
Statistics
Matches: 54, Mismatches: 26, Indels: 4
0.64 0.31 0.05
Matches are distributed among these distances:
19 2 0.04
20 50 0.93
21 2 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (20 bp):
TGAATGCACATACGTGCCCC
Found at i:35073343 original size:30 final size:30
Alignment explanation
Indices: 35073307--35073363 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
35073297 ATTCATCATG
35073307 AGAGTAAATCAAAATGTCATCAATAAACAC
1 AGAGTAAATCAAAATGTCATCAATAAACAC
35073337 AGAGTAAATCAAAATGTCATCAATAAA
1 AGAGTAAATCAAAATGTCATCAATAAA
35073364 TAAAACTACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (30 bp):
AGAGTAAATCAAAATGTCATCAATAAACAC
Found at i:35079202 original size:40 final size:39
Alignment explanation
Indices: 35079020--35079203 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 39
35079010 CGAATGATGT
* * *
35079020 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGA-TGATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACT-A-AA
* * *
35079060 CCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
35079100 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35079138 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35079179 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35079204 AACGAATAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 16
0.83 0.07 0.11
Matches are distributed among these distances:
39 36 0.29
40 80 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35079217 original size:40 final size:40
Alignment explanation
Indices: 35079100--35079222 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 40
35079090 GTTACTAATT
* ** *
35079100 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGATACTATAA
* ** *
35079138 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGATACTATAA
* *
35079179 CCGGGCTATGTCCCGAAGGCATTTGAACGA-ATAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGATA-CTATAA
35079219 CCGG
1 CCGG
35079223 TTAAATTCCG
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 11 0.15
40 60 0.82
41 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGATACTATAA
Found at i:35079225 original size:79 final size:79
Alignment explanation
Indices: 35079072--35079236 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
35079062 GGACTAAGAT
* ** *
35079072 CCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGATACTAA
*
35079137 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
35079151 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGA-ATAGC
1 CCGAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGATA-C
* *
35079214 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35079230 CCGAAGG
1 CCGAAGG
35079237 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:35096295 original size:25 final size:24
Alignment explanation
Indices: 35096244--35096311 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
35096234 TTATCCCAAC
* * *
35096244 TTTATCCCTGGTAAAAATATGATAT
1 TTTA-CCCTAGTAAAATTATGAAAT
35096269 TTTACCCTAGTAAAATTATGACAAT
1 TTTACCCTAGTAAAATTATGA-AAT
*
35096294 TTTACCTCTATTAAAATT
1 TTTACC-CTAGTAAAATT
35096312 TCCAAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 15 0.41
25 12 0.32
26 10 0.27
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (24 bp):
TTTACCCTAGTAAAATTATGAAAT
Found at i:35098333 original size:23 final size:23
Alignment explanation
Indices: 35098290--35098358 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
35098280 GAAATACATA
*
35098290 GAAATGATGGTACATGATATATT
1 GAAATGATGATACATGATATATT
* *
35098313 GAAATGGATGATATATGTATATAAT
1 GAAAT-GATGATACATG-ATATATT
*
35098338 GAAACGATAAGATA-ATGATAT
1 GAAATGAT--GATACATGATAT
35098359 GTATCATGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.13
24 16 0.42
25 13 0.34
26 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (23 bp):
GAAATGATGATACATGATATATT
Found at i:35098340 original size:25 final size:23
Alignment explanation
Indices: 35098274--35098358 Score: 64
Period size: 25 Copynumber: 3.5 Consensus size: 23
35098264 ATACAGGTAT
*
35098274 ATACATGAAATACATAGAAATGATG
1 ATACATGATATA-AT-GAAATGATG
* *
35098299 GTACATGATATATTGAAATGGATG
1 ATACATGATATAATGAAAT-GATG
* *
35098323 ATATATGTATATAATGAAACGATAAG
1 ATACATG-ATATAATGAAATGAT--G
35098349 ATA-ATGATAT
1 ATACATGATAT
35098359 GTATCATGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 5 0.10
24 17 0.35
25 23 0.47
26 4 0.08
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.31
Consensus pattern (23 bp):
ATACATGATATAATGAAATGATG
Found at i:35110447 original size:37 final size:37
Alignment explanation
Indices: 35110388--35110523 Score: 204
Period size: 37 Copynumber: 3.7 Consensus size: 37
35110378 AGCTCAGACG
* *
35110388 AAATCTCCACACGAAGTTATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
*
35110425 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
* *
35110462 TACTCTCCACA--TAGTCATCGGGTCTTACCTGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
*
35110497 TAATCTCCACACGTAGTCATCGGGTCT
1 AAATCTCCACACGTAGTCATCGGGTCT
35110524 CACCCGGAAT
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
35 33 0.37
37 57 0.63
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCTGGACA
Found at i:35110747 original size:47 final size:47
Alignment explanation
Indices: 35110693--35110878 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
35110683 TTTCACACTA
* * * * *
35110693 GCCATTCGGCTTTACCGCATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
* * *
35110740 GCCATTCGGCCTTATCACACATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
35110787 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
*
35110834 GCCATTCGGCCTTATCACATATGTGCATGTTCACATTCATCACAT
1 GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACAT
35110879 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTG
Found at i:35115753 original size:27 final size:27
Alignment explanation
Indices: 35115711--35115884 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
35115701 ACTATAGTTC
*
35115711 ACCAAATTACCCTTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* *
35115738 ACTAAAATACCCTTGGTTTATAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
*
35115765 ACCAAAATACCATTGGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * *
35115792 ACAAAAATACCCCTAGTTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* *
35115819 ACCAAAATACCCCTGATTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
* * **
35115846 ACTAAAATACCCTCGACTTGTAAAATT
1 ACCAAAATACCCTTGGTTTGTAAAATT
*
35115873 ACCAAAGTACCC
1 ACCAAAATACCC
35115885 CCCGATTTAC
Statistics
Matches: 128, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
ACCAAAATACCCTTGGTTTGTAAAATT
Found at i:35115955 original size:26 final size:27
Alignment explanation
Indices: 35115923--35115985 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
35115913 CTCGATTTAC
*
35115923 AAAATTACTAAAATACCCT-GTAGGGT
1 AAAATTACCAAAATACCCTCGTAGGGT
* * * *
35115949 AGAATTACCGAGATACCCTCGTGGGGT
1 AAAATTACCAAAATACCCTCGTAGGGT
35115976 AAAATTACCA
1 AAAATTACCA
35115986 TTTGCCCCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGTAGGGT
Found at i:35127313 original size:26 final size:26
Alignment explanation
Indices: 35127278--35127329 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
35127268 AATGTGAAAG
*
35127278 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
35127304 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
35127330 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:35127478 original size:104 final size:104
Alignment explanation
Indices: 35127200--35127569 Score: 645
Period size: 104 Copynumber: 3.6 Consensus size: 104
35127190 TTGTATATAA
** *
35127200 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
35127265 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
35127303 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
35127368 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
35127407 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
35127471 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
35127511 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
35127570 ATAACGGTTA
Statistics
Matches: 256, Mismatches: 8, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
103 96 0.38
104 159 0.62
105 1 0.00
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:35131696 original size:40 final size:40
Alignment explanation
Indices: 35131652--35131759 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 40
35131642 TGAAAAATTA
* * *
35131652 GCTATATGTGGCACTTAGTGTGCGATTCGACTTAGCTT-TG
1 GCTATATATGGCACTTAGTGTGCGATTCAACATAG-TTGTG
* * *
35131692 GCTATATATGGCACTTAGTGTACGAGATCAAGATAGTTGTG
1 GCTATATATGGCACTTAGTGTGCGA-TTCAACATAGTTGTG
35131733 GCTATATATGGCACTTAGTGTGCGATT
1 GCTATATATGGCACTTAGTGTGCGATT
35131760 TGAGATAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 26 0.45
41 32 0.55
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (40 bp):
GCTATATATGGCACTTAGTGTGCGATTCAACATAGTTGTG
Found at i:35131750 original size:81 final size:81
Alignment explanation
Indices: 35131652--35131800 Score: 208
Period size: 81 Copynumber: 1.8 Consensus size: 81
35131642 TGAAAAATTA
* * *** *
35131652 GCTATATGTGGCACTTAGTGTGCGATTCGACTTAGCTTTGGCTATATATGGCACTTAGTGTACGA
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
35131717 GATCAAGATAGTTGTG
66 GATCAAGATAGTTGTG
* * * *
35131733 GCTATATATGGCACTTAGTGTGCGATTTGAGATAGCTTCAACTATGTACGGCACTTAGTGTGCGA
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
35131798 GAT
66 GAT
35131801 ATCAAGTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 58 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (81 bp):
GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
GATCAAGATAGTTGTG
Found at i:35138562 original size:29 final size:26
Alignment explanation
Indices: 35138529--35138599 Score: 92
Period size: 25 Copynumber: 2.7 Consensus size: 26
35138519 AAATGCATAT
35138529 TTTTTCAAATCACGTATAATCAACCCAA
1 TTTTTC-AAT-ACGTATAATCAACCCAA
35138557 TATTTTCAA-A-GTATAATCAACCCAA
1 T-TTTTCAATACGTATAATCAACCCAA
35138582 TTTTTCAATTACGTATAA
1 TTTTTCAA-TACGTATAA
35138600 CATCTTCTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
24 7 0.18
25 16 0.41
26 2 0.05
27 6 0.15
28 3 0.08
29 5 0.13
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (26 bp):
TTTTTCAATACGTATAATCAACCCAA
Found at i:35139325 original size:93 final size:93
Alignment explanation
Indices: 35139228--35139409 Score: 260
Period size: 94 Copynumber: 2.0 Consensus size: 93
35139218 TAAAAGCACG
* * *
35139228 TTTTTTTTTT-CACTCATTTGGATACTTGAACTTTCAAAATGCATAAAAAAAATCCTCAAA-TCT
1 TTTTTTTTTTGCACTCAATTGAATACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAACT-T
35139291 TTAAAAAAAAGAAGCAATTAAGCCCTTACT
65 TTAAAAAAAA-AAGCAATTAAGCCCTTACT
* *
35139321 TTTTTTTTTTGCACTCAATTGAATACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAACTTT
1 TTTTTTTTTTGCACTCAATTGAATACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAACTTT
***
35139386 TTTCAAAAAAAGCAATTAAGCCCT
66 TAAAAAAAAAAGCAATTAAGCCCT
35139410 GCTTTTATTA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
93 25 0.32
94 53 0.67
95 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (93 bp):
TTTTTTTTTTGCACTCAATTGAATACTTGAACTTTCAAAATGCATAAAAAAAACCCTCAAACTTT
TAAAAAAAAAAGCAATTAAGCCCTTACT
Found at i:35139539 original size:16 final size:16
Alignment explanation
Indices: 35139514--35139553 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
35139504 AAAAATTCAG
*
35139514 AAAAATATAAAATTGT
1 AAAAAAATAAAATTGT
*
35139530 AAAAAAATAAAATTTT
1 AAAAAAATAAAATTGT
*
35139546 ATAAAAAT
1 AAAAAAAT
35139554 TGTAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAAAAATAAAATTGT
Found at i:35139552 original size:27 final size:26
Alignment explanation
Indices: 35139519--35139634 Score: 92
Period size: 28 Copynumber: 4.3 Consensus size: 26
35139509 TTCAGAAAAA
*
35139519 TATAAAATTGTAAAAAAATAAAATTT
1 TATAAAAATGTAAAAAAATAAAATTT
* *
35139545 TATAAAAATTGTAAAAATTATAAAA-TA
1 TATAAAAA-TGTAAAAA-AATAAAATTT
* *
35139572 TATAGAAATATAAAAAATTTATAAAATTT
1 TATAAAAATGTAAAAAA---ATAAAATTT
* *
35139601 TAT-AAAATGTAAAGAAATATAACTTT
1 TATAAAAATGTAAAAAAATA-AAATTT
*
35139627 TGTAAAAA
1 TATAAAAA
35139635 AAAAATTATA
Statistics
Matches: 70, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
25 3 0.04
26 21 0.30
27 20 0.29
28 22 0.31
29 4 0.06
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (26 bp):
TATAAAAATGTAAAAAAATAAAATTT
Found at i:35139559 original size:19 final size:18
Alignment explanation
Indices: 35139501--35139607 Score: 66
Period size: 17 Copynumber: 6.0 Consensus size: 18
35139491 TTAAAAATTT
* *
35139501 ATTA-AAAATTCAGAAAA
1 ATTATAAAATTTATAAAA
35139518 A-TATAAAATTGTA-AAAA
1 ATTATAAAATT-TATAAAA
35139535 A--ATAAAATTTTATAAAA
1 ATTATAAAA-TTTATAAAA
* *
35139552 ATTGTAAAAATTAT-AAA
1 ATTATAAAATTTATAAAA
*
35139569 ATATATAGAAATATA-AAAA
1 AT-TATA-AAATTTATAAAA
35139588 ATTTATAAAATTTTATAAAA
1 A-TTATAAAA-TTTATAAAA
35139608 TGTAAAGAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
16 10 0.14
17 24 0.34
18 11 0.15
19 21 0.30
20 5 0.07
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.33
Consensus pattern (18 bp):
ATTATAAAATTTATAAAA
Found at i:35139560 original size:8 final size:9
Alignment explanation
Indices: 35139492--35139607 Score: 62
Period size: 10 Copynumber: 12.6 Consensus size: 9
35139482 ATTCAAATAT
35139492 TAAAAATTTA
1 TAAAAA-TTA
35139502 TTAAAAATTCA
1 -TAAAAATT-A
*
35139513 GAAAAA-TA
1 TAAAAATTA
*
35139521 T-AAAATTG
1 TAAAAATTA
*
35139529 TAAAAA-AA
1 TAAAAATTA
*
35139537 TAAAATTTTA
1 TAAAA-ATTA
*
35139547 TAAAAATTG
1 TAAAAATTA
35139556 TAAAAATTA
1 TAAAAATTA
35139565 T-AAAATATA
1 TAAAAAT-TA
*
35139574 TAGAAA-TA
1 TAAAAATTA
35139582 TAAAAAATTTA
1 T-AAAAA-TTA
*
35139593 TAAAATTTTA
1 TAAAA-ATTA
35139603 TAAAA
1 TAAAA
35139608 TGTAAAGAAA
Statistics
Matches: 81, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
7 4 0.05
8 16 0.20
9 23 0.28
10 28 0.35
11 10 0.12
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:35139704 original size:12 final size:12
Alignment explanation
Indices: 35139689--35139713 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35139679 TTTCTATAAC
35139689 TTTTATTATTTT
1 TTTTATTATTTT
35139701 TTTTATTATTTT
1 TTTTATTATTTT
35139713 T
1 T
35139714 CACCACATGT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTATTTT
Found at i:35139912 original size:15 final size:17
Alignment explanation
Indices: 35139886--35139917 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
35139876 AATTTAATAA
35139886 ATTTTCTATATT-TTTT
1 ATTTTCTATATTATTTT
35139902 ATTTT-TATATTATTTT
1 ATTTTCTATATTATTTT
35139918 TCTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (17 bp):
ATTTTCTATATTATTTT
Found at i:35143030 original size:13 final size:13
Alignment explanation
Indices: 35143012--35143036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35143002 ATTCTGTAAC
35143012 TCTGTATCTATTA
1 TCTGTATCTATTA
35143025 TCTGTATCTATT
1 TCTGTATCTATT
35143037 TTGGGGTGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTGTATCTATTA
Found at i:35143348 original size:27 final size:27
Alignment explanation
Indices: 35143318--35143375 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
35143308 TTCTGTTTAT
35143318 GTAAACTCACAGTCTATTTCTATTCAG
1 GTAAACTCACAGTCTATTTCTATTCAG
* * *
35143345 GTAAACTCACTGTCTGTTTCTGTTCAG
1 GTAAACTCACAGTCTATTTCTATTCAG
35143372 GTAA
1 GTAA
35143376 TCCACAGACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (27 bp):
GTAAACTCACAGTCTATTTCTATTCAG
Found at i:35156731 original size:43 final size:43
Alignment explanation
Indices: 35156664--35156782 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
35156654 AAGCTCGTAC
* *
35156664 AATGCCAATGTCCCAGAC-GAGGTCTTATATGTAATCAAATATT
1 AATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAATACT
* * * * *
35156707 AATGCCACTATCCCAGACAGGGTCTTACAGGAAATCATATACT
1 AATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACT
* *
35156750 -ATGCCAATGTCCTAGACATGGTCTTACATGTAA
1 AATGCCAATGTCCCAGACAGGGTCTTACATGTAA
35156783 ATTTGAAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 27 0.44
43 34 0.55
44 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACT
Found at i:35157132 original size:19 final size:19
Alignment explanation
Indices: 35157110--35157148 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
35157100 AATTAATATA
35157110 AATTAACTTATTTAATCAC
1 AATTAACTTATTTAATCAC
35157129 AATTAACTTATTTAATCAC
1 AATTAACTTATTTAATCAC
35157148 A
1 A
35157149 TATGTACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAACTTATTTAATCAC
Found at i:35174000 original size:26 final size:24
Alignment explanation
Indices: 35173970--35174059 Score: 76
Period size: 24 Copynumber: 3.7 Consensus size: 24
35173960 GGACTCACCA
35173970 CAGCTCATATGAGCTTAATGATATAT
1 CAGCTCATATGAGCTTAAT-AT-TAT
* *
35173996 CAGCTCATAAGAGCTTACTATTAT
1 CAGCTCATATGAGCTTAATATTAT
* ***
35174020 CAACTCAT-TAGAGCTTACCGTT-T
1 CAGCTCATAT-GAGCTTAATATTAT
*
35174043 CAGCTCGTATGAGCTTA
1 CAGCTCATATGAGCTTA
35174060 CTGTTTAGCT
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
23 14 0.26
24 21 0.39
25 2 0.04
26 17 0.31
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (24 bp):
CAGCTCATATGAGCTTAATATTAT
Found at i:35174026 original size:24 final size:26
Alignment explanation
Indices: 35173973--35174037 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 26
35173963 CTCACCACAG
* * *
35173973 CTCATATGAGCTTAATGATATATCAG
1 CTCATAAGAGCTTACTGATATATCAA
35173999 CTCATAAGAGCTTACT-AT-TATCAA
1 CTCATAAGAGCTTACTGATATATCAA
*
35174023 CTCATTAGAGCTTAC
1 CTCATAAGAGCTTAC
35174038 CGTTTCAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 19 0.54
25 2 0.06
26 14 0.40
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (26 bp):
CTCATAAGAGCTTACTGATATATCAA
Found at i:35174057 original size:47 final size:45
Alignment explanation
Indices: 35173995--35174094 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
35173985 TAATGATATA
35173995 TCAGCTCATAAGAGCTTACTATTATCAACTC-ATTAGAGCTTACCGTT
1 TCAGCTCATAAGAGCTTACTATT-T-AACTCGA-TAGAGCTTACCGTT
* * * *
35174042 TCAGCTCGTATGAGCTTACTGTTTAGCTCGATAGAGCTTACCGTT
1 TCAGCTCATAAGAGCTTACTATTTAACTCGATAGAGCTTACCGTT
35174087 TCAGCTCA
1 TCAGCTCA
35174095 ATAGAGCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
45 25 0.53
46 2 0.04
47 20 0.43
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (45 bp):
TCAGCTCATAAGAGCTTACTATTTAACTCGATAGAGCTTACCGTT
Found at i:35174078 original size:22 final size:23
Alignment explanation
Indices: 35174028--35174101 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
35174018 ATCAACTCAT
35174028 TAGAGCTTACCGTTTCAGCTCG-
1 TAGAGCTTACCGTTTCAGCTCGA
*
35174050 TATGAGCTTACTGTTT-AGCTCGA
1 TA-GAGCTTACCGTTTCAGCTCGA
*
35174073 TAGAGCTTACCGTTTCAGCTCAA
1 TAGAGCTTACCGTTTCAGCTCGA
35174096 TAGAGC
1 TAGAGC
35174102 ATACTGTTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
22 20 0.43
23 26 0.57
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGAGCTTACCGTTTCAGCTCGA
Found at i:35174118 original size:25 final size:23
Alignment explanation
Indices: 35174023--35174119 Score: 81
Period size: 23 Copynumber: 4.2 Consensus size: 23
35174013 CTATTATCAA
* *
35174023 CTCATTAGAGCTTACCGTTTCAG
1 CTCAATAGAGCATACCGTTTCAG
* * *
35174046 CTC-GTATGAGCTTACTGTTT-AG
1 CTCAATA-GAGCATACCGTTTCAG
* *
35174068 CTCGATAGAGCTTACCGTTTCAG
1 CTCAATAGAGCATACCGTTTCAG
*
35174091 CTCAATAGAGCATACTGTTCATCAG
1 CTCAATAGAGCATACCGTT--TCAG
35174116 CTCA
1 CTCA
35174120 GGAGGAGCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
22 19 0.31
23 35 0.56
25 8 0.13
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (23 bp):
CTCAATAGAGCATACCGTTTCAG
Found at i:35176661 original size:24 final size:23
Alignment explanation
Indices: 35176615--35176661 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
35176605 TTAACCCCAC
* **
35176615 ATGGTGTGTTGGGATGGTTGTAG
1 ATGGTGTGTAGGGATGGGGGTAG
35176638 ATGGTGTGTAGAGGATGGGGGTAG
1 ATGGTGTGTAG-GGATGGGGGTAG
35176662 GATTCTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.32
Consensus pattern (23 bp):
ATGGTGTGTAGGGATGGGGGTAG
Found at i:35184012 original size:17 final size:18
Alignment explanation
Indices: 35183990--35184024 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
35183980 GATATGATAC
*
35183990 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
35184007 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
35184025 CTGAGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:35184313 original size:22 final size:21
Alignment explanation
Indices: 35184278--35184353 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
35184268 AAAAGGTATC
* * *
35184278 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCAAAGAT
35184299 TACAAAATCATATCTTCAAAGAT
1 TAC-AAATCATATC-TCAAAGAT
* *
35184322 TGCATATCATATCT--AAGAT
1 TACAAATCATATCTCAAAGAT
*
35184341 TGC-AATCATATCT
1 TACAAATCATATCT
35184354 AAGATTGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 9 0.19
19 8 0.17
21 4 0.09
22 17 0.36
23 9 0.19
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCAAAGAT
Found at i:35184350 original size:18 final size:18
Alignment explanation
Indices: 35184317--35184377 Score: 97
Period size: 17 Copynumber: 3.4 Consensus size: 18
35184307 CATATCTTCA
35184317 AAGATTGCATATCATATCT
1 AAGATTGCA-ATCATATCT
35184336 AAGATTGCAATCATATCT
1 AAGATTGCAATCATATCT
*
35184354 AAGATTG-TATCATATCT
1 AAGATTGCAATCATATCT
35184371 AAGATTG
1 AAGATTG
35184378 TATATTATTG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
17 16 0.39
18 16 0.39
19 9 0.22
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (18 bp):
AAGATTGCAATCATATCT
Found at i:35184850 original size:44 final size:45
Alignment explanation
Indices: 35184734--35185007 Score: 257
Period size: 45 Copynumber: 6.1 Consensus size: 45
35184724 GGAAGGCGAT
* * * * *
35184734 ATCTGCTATCTTTGATCTACTCCCTGTCTAATACAGAGAGGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
35184779 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
35184824 ATCTGCT-TCTTCAATCTGATCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
35184868 ATCTATTATCTCCGATTTGCTACCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * * * *
35184913 ATCTGTCATCTTGGATCTACT--TCGATGTAAACACATAAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCT-AATACAGAGATGCCAA
* *
35184958 ATATGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
35185005 ATC
1 ATC
35185008 ATCTTGGATC
Statistics
Matches: 178, Mismatches: 44, Indels: 12
0.76 0.19 0.05
Matches are distributed among these distances:
43 2 0.01
44 41 0.23
45 107 0.60
46 1 0.01
47 23 0.13
48 2 0.01
49 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:35184912 original size:89 final size:89
Alignment explanation
Indices: 35184754--35184917 Score: 265
Period size: 89 Copynumber: 1.8 Consensus size: 89
35184744 TTTGATCTAC
* * * *
35184754 TCCCTGTCTAATACAGAGAGGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGAC
1 TCCCCGTCTAATACAGAGAGGCCAAATCTATTATCTCCGATCTGCTACCCGTCTAATACAGAGAC
35184819 GCCAAATCTGCTTCTTCAATCTGA
66 GCCAAATCTGCTTCTTCAATCTGA
* * *
35184843 TCCCCGTCTAATACAGAGATGCCAAATCTATTATCTCCGATTTGCTACCCGTCTAATACAGAGAT
1 TCCCCGTCTAATACAGAGAGGCCAAATCTATTATCTCCGATCTGCTACCCGTCTAATACAGAGAC
35184908 GCCAAATCTG
66 GCCAAATCTG
35184918 TCATCTTGGA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 68 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (89 bp):
TCCCCGTCTAATACAGAGAGGCCAAATCTATTATCTCCGATCTGCTACCCGTCTAATACAGAGAC
GCCAAATCTGCTTCTTCAATCTGA
Found at i:35185076 original size:78 final size:78
Alignment explanation
Indices: 35184950--35185458 Score: 671
Period size: 78 Copynumber: 6.4 Consensus size: 78
35184940 TAAACACATA
*
35184950 AAGGTCAGATATGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
* *
35185015 ATCTGCTTCAATA
66 ATCTACTTCAATG
*
35185028 AAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
35185092 GATCTACTTCAATG
65 GATCTACTTCAATG
* * **
35185106 AAGGTCAGATCTGCTGTGTCTTCGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
*
35185171 ATCTACTTTAATG
66 ATCTACTTCAATG
* * * ** * *
35185184 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGTCAAATCATCTTAG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
*
35185249 ATCTGCTTCAGCGTAAACACGTG
66 ATCTACTT---C----A-A--TG
* *
35185272 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGTCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
35185337 ATCTACTTCAATG
66 ATCTACTTCAATG
*
35185350 AAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
1 AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
*
35185414 GATCTGCTTCAATG
65 GATCTACTTCAATG
* * * *
35185428 AAGGTCAGATCTGTTGTGTATTTGATCTGCT
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCT
35185459 TCAATGAAGG
Statistics
Matches: 383, Mismatches: 34, Indels: 28
0.86 0.08 0.06
Matches are distributed among these distances:
77 4 0.01
78 301 0.79
79 4 0.01
80 1 0.00
81 1 0.00
85 2 0.01
86 1 0.00
88 69 0.18
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTACTTCAATG
Found at i:35185294 original size:88 final size:88
Alignment explanation
Indices: 35185182--35185424 Score: 292
Period size: 88 Copynumber: 2.9 Consensus size: 88
35185172 TCTACTTTAA
* **
35185182 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGTCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGTCAAATCATCTT
*
35185247 AGATCTGCTTCAGCGTAAACACG
66 AGATCTACTTCAGCGTAAACACG
*
35185270 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGTCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGTCAAATCATCTT
*
35185335 GGATCTACTT---C----A-A--
66 AGATCTACTTCAGCGTAAACACG
* * * *
35185348 TGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 TGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGTCAAATCATCT
* *
35185412 TGGATCTGCTTCA
65 TAGATCTACTTCA
35185425 ATGAAGGTCA
Statistics
Matches: 142, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
78 68 0.48
79 2 0.01
80 1 0.01
81 1 0.01
85 1 0.01
88 69 0.49
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (88 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCGAATACAGAGATGTCAAATCATCTT
AGATCTACTTCAGCGTAAACACG
Found at i:35185330 original size:244 final size:234
Alignment explanation
Indices: 35184950--35185458 Score: 689
Period size: 244 Copynumber: 2.1 Consensus size: 234
35184940 TAAACACATA
* * *
35184950 AAGGTCAGATATGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCATCTTAG
*
35185015 ATCTGCTTCAATAAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
66 ATCTGCTTCAATAAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
* *
35185080 CAAATCATCTTGGATCTACTTCAATGAAGGT-CAGATCTGCTGTGTCTTCGATCTACTCCCTATC
131 CAAATCATCTTGGATCTACTTCAATGAAGGTCCA-ATCTGCTATGTCTTCGATCTACTCCCCATC
*
35185144 TAATACAGAGATGCCAAATCATCTTGGATCTACTTTAATG
195 TAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATG
* * ** *
35185184 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGTCAAATCATCTTAG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCATCTTAG
* *
35185249 ATCTGCTTCAGCGTAAACACGTGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAA
66 ATCTGCTT---C----A-A--TAAAGGTCCA-ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAA
* *
35185313 TACAGAGATGTCAAATCATCTTGGATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCT
120 TACAGAGATGCCAAATCATCTTGGATCTACTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCT
* * *
35185378 GCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATG
185 ACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTACTTCAATG
* * * *
35185428 AAGGTCAGATCTGTTGTGTATTTGATCTGCT
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCT
35185459 TCAATGAAGG
Statistics
Matches: 240, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
234 65 0.27
237 1 0.00
241 1 0.00
242 1 0.00
243 2 0.01
244 168 0.70
245 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (234 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGCCAAATCATCTTAG
ATCTGCTTCAATAAAGGTCCAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
CAAATCATCTTGGATCTACTTCAATGAAGGTCCAATCTGCTATGTCTTCGATCTACTCCCCATCT
AATACAGAGATGCCAAATCATCTTGGATCTACTTCAATG
Found at i:35185378 original size:166 final size:166
Alignment explanation
Indices: 35185104--35185424 Score: 509
Period size: 166 Copynumber: 1.9 Consensus size: 166
35185094 TCTACTTCAA
*
35185104 TGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCTT
* * * **
35185169 GGATCTACTTTAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGAT
66 GGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGAT
*
35185234 GTCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
131 GCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
* * *
35185270 TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCTGTCTAATACAGAGATGTCAAATCATCTT
1 TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCTT
* *
35185335 GGATCTACTTCAATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGA
66 GGATCTACTTCAATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGA
*
35185399 TGCCAAATCATCTTGGATCTGCTTCA
130 TGCCAAATCATCTTAGATCTGCTTCA
35185425 ATGAAGGTCA
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
166 139 0.99
167 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (166 bp):
TGAAGGTCAGATCTGCTATGTCTTCGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCTT
GGATCTACTTCAATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGAT
GCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
Found at i:35185440 original size:21 final size:21
Alignment explanation
Indices: 35185414--35185477 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
35185404 AATCATCTTG
35185414 GATCTGCTTCAATGAAGGTCA
1 GATCTGCTTCAATGAAGGTCA
* * **
35185435 GATCTG-TT--GTGTA--TTT
1 GATCTGCTTCAATGAAGGTCA
35185451 GATCTGCTTCAATGAAGGTCA
1 GATCTGCTTCAATGAAGGTCA
35185472 GATCTG
1 GATCTG
35185478 TTATGTCTTC
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 7 0.23
17 2 0.07
18 3 0.10
19 3 0.10
20 2 0.07
21 13 0.43
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (21 bp):
GATCTGCTTCAATGAAGGTCA
Found at i:35185458 original size:37 final size:37
Alignment explanation
Indices: 35185414--35185495 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
35185404 AATCATCTTG
* *
35185414 GATCTGCTTCAATGAAGGTCAGATCTGTTGTGTATTT
1 GATCTGCTTCAATGAAGGTCAGATCTGTTATGTATTC
*
35185451 GATCTGCTTCAATGAAGGTCAGATCTGTTATGTCTTC
1 GATCTGCTTCAATGAAGGTCAGATCTGTTATGTATTC
35185488 GATCTGCT
1 GATCTGCT
35185496 CTCCGTCGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (37 bp):
GATCTGCTTCAATGAAGGTCAGATCTGTTATGTATTC
Found at i:35185864 original size:220 final size:220
Alignment explanation
Indices: 35185464--35186057 Score: 938
Period size: 220 Copynumber: 2.7 Consensus size: 220
35185454 CTGCTTCAAT
* * *
35185464 GAAGGTCAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGAAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * *
35185529 TTCAATTTGTTCTCTGACAGTATAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
* * * * *
35185594 TGAAAGCCAAATCTGCTATGTCTTCGATCTGGTCCTTGTCAACACAAGGATGCCAAATCATTTTG
131 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTATAAACACAAGGATGCCAAATCATCTTG
*
35185659 GATCTACTTCGATGTGAAGACATCC
196 GATCTACTTCGATGTGAAAACATCC
* *
35185684 GAAGGTTAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAGTATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
*
35185749 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
66 TTCGATTTGTTCTCTGACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
*
35185814 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTATAAACGCAAGGATGCCAAATCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTATAAACACAAGGATGCCAAATCATCTTG
*
35185879 GATCTACTTCGATGTGAAAACATCT
196 GATCTACTTCGATGTGAAAACATCC
* *
35185904 GAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCTGTCGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * * ** *
35185969 TTCGATTTGTTCTCTGACAATACAGAGATGTTAAATCATCTTGGATCCACTTCAGCGTAAACACC
66 TTCGATTTGTTCTCTGACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
* *
35186034 TGAAGGTCAAATCTGCTATG-CTTT
131 TGAAAGCCAAATCTGCTATGTCTTT
35186058 AGCCTGTTAC
Statistics
Matches: 344, Mismatches: 30, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
219 4 0.01
220 340 0.99
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (220 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAGTACAGAGATGTCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTATAAACACAAGGATGCCAAATCATCTTG
GATCTACTTCGATGTGAAAACATCC
Found at i:35196190 original size:22 final size:21
Alignment explanation
Indices: 35196155--35196230 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
35196145 AAAAGGTATC
* *
35196155 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
35196176 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
35196199 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
35196218 TGC-AATCATATCT
1 TACAAATCATATCT
35196231 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:35196215 original size:42 final size:35
Alignment explanation
Indices: 35196168--35196262 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
35196158 AAATTAAATC
35196168 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC--AATCATA---TCTAAGATTG--TATCATA
*
35196210 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTACAATCATATCTAAGATTGTATCATA
*
35196245 TCTAAGATTGCATATCAT
1 TCTAAGATTACA-ATCAT
35196263 TGAAGATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
35 19 0.37
36 5 0.10
37 10 0.20
40 7 0.14
42 10 0.20
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (35 bp):
TCTAAGATTACAATCATATCTAAGATTGTATCATA
Found at i:35196247 original size:35 final size:37
Alignment explanation
Indices: 35196184--35196262 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
35196174 ATTACAAAAT
35196184 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
35196220 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
35196255 CATATCAT
1 CATATCAT
35196263 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:35196260 original size:14 final size:15
Alignment explanation
Indices: 35196205--35196260 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
35196195 AGATTGCATA
35196205 TCATATCTAAGATTG
1 TCATATCTAAGATTG
35196220 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
35196238 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
35196255 -CATATC
1 TCATATC
35196261 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:35196270 original size:17 final size:19
Alignment explanation
Indices: 35196191--35196262 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
35196181 AATCATATCT
35196191 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
35196210 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
35196228 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
35196245 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
35196263 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:35201314 original size:40 final size:40
Alignment explanation
Indices: 35201178--35201363 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
35201168 GCTACTCGTT
* *
35201178 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
** * *
35201218 CAAATGCCTTCGGGA-CTTAACCCAGATTTAGTAACTCGTA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
* *
35201258 CAAATGCCTTCAGATCTTAGTCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
* * * *
35201298 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCA
*
35201339 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGTCCGGA
35201364 CATCATTCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 110 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:35201357 original size:80 final size:80
Alignment explanation
Indices: 35201178--35201362 Score: 198
Period size: 80 Copynumber: 2.3 Consensus size: 80
35201168 GCTACTCGTT
*
35201178 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* * *
35201243 ATTTAGTAACTCGTA
66 ATATAGTAACTAGCA
* * * **
35201258 CAAATGCCTTC-AGATCTTAGTCTGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* * *
35201320 CGGATATGGTCACTTAGCA
63 CAGATATAGTAAC-TAGCA
35201339 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
35201363 ACATCATTCA
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
79 5 0.06
80 69 0.81
81 11 0.13
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCA
Found at i:35203648 original size:27 final size:27
Alignment explanation
Indices: 35203618--35203758 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
35203608 GTAACGAAGT
35203618 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
* *
35203645 CACCAGA-ATAGATATATGTGGTAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
35203672 CACCAGAT-CAGATAATCGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
*
35203699 CACCAGA-ATAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
35203726 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
35203753 CACCAG
1 CACCAG
35203759 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 9 0.09
27 83 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:35203693 original size:54 final size:54
Alignment explanation
Indices: 35203618--35203758 Score: 239
Period size: 54 Copynumber: 2.6 Consensus size: 54
35203608 GTAACGAAGT
* *
35203618 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAATAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
*
35203672 CACCAGATCAGATAATCGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
35203726 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
35203759 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
Found at i:35203926 original size:28 final size:26
Alignment explanation
Indices: 35203864--35203926 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
35203854 AAAGTAACCC
** * *
35203864 TAGGGGTATAATGGTAATTTTTCACC
1 TAGGGGTATAACAGTAATTTTCCACA
35203890 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
35203918 TAGGGGTAT
1 TAGGGGTAT
35203927 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:35205394 original size:26 final size:26
Alignment explanation
Indices: 35205364--35205463 Score: 182
Period size: 26 Copynumber: 3.8 Consensus size: 26
35205354 TGAAATTCCC
35205364 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
35205390 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
35205416 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
35205442 ATCATGGAACATTTACCTAACC
1 ATCATGGAACATTTACCTAACC
35205464 AATTTTCAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:35206935 original size:14 final size:14
Alignment explanation
Indices: 35206916--35206944 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35206906 ATTCATATCT
35206916 ATATCATGATGACC
1 ATATCATGATGACC
35206930 ATATCATGATGACC
1 ATATCATGATGACC
35206944 A
1 A
35206945 AAAAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (14 bp):
ATATCATGATGACC
Found at i:35213258 original size:170 final size:170
Alignment explanation
Indices: 35212971--35213307 Score: 602
Period size: 170 Copynumber: 2.0 Consensus size: 170
35212961 GGCTATATAC
** *
35212971 TTGTAAATTGAGATTCTTTTTTAAATGATTGAATAACTAATGATTATATGCAAGCCTAATTCTAA
1 TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
*
35213036 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
66 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGCTGGTATGAGTTAGGTATGATATTTTTGGG
35213101 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTTG
131 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTTG
* *
35213141 TTGTGAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGGTTATATGCAAGCCTAATTCTAA
1 TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
* *
35213206 GTTTAAGCATAAGTGGGTGAGCATGAAGTGGTAAGCTGGTATGAGTTAGGTATGGTATTTTTGGG
66 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGCTGGTATGAGTTAGGTATGATATTTTTGGG
35213271 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTT
131 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTT
35213308 GCATTTTAAA
Statistics
Matches: 159, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
170 159 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (170 bp):
TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGCTGGTATGAGTTAGGTATGATATTTTTGGG
TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTTG
Found at i:35216874 original size:12 final size:12
Alignment explanation
Indices: 35216847--35216889 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
35216837 CCATTTTAAT
35216847 TTTATCATACGCTC
1 TTTATCA-A-GCTC
*
35216861 TTTATCGAGCTC
1 TTTATCAAGCTC
*
35216873 TTTATTAAGCTC
1 TTTATCAAGCTC
35216885 TTTAT
1 TTTAT
35216890 TACCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 19 0.73
13 1 0.04
14 6 0.23
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (12 bp):
TTTATCAAGCTC
Found at i:35216890 original size:12 final size:12
Alignment explanation
Indices: 35216857--35216891 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
35216847 TTTATCATAC
**
35216857 GCTCTTTATCGA
1 GCTCTTTATTAA
35216869 GCTCTTTATTAA
1 GCTCTTTATTAA
35216881 GCTCTTTATTA
1 GCTCTTTATTA
35216892 CCTCCATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.49
Consensus pattern (12 bp):
GCTCTTTATTAA
Found at i:35217142 original size:2 final size:2
Alignment explanation
Indices: 35217137--35217170 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
35217127 ATATATACAT
*
35217137 AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35217171 GTAAAAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35217903 original size:103 final size:103
Alignment explanation
Indices: 35217724--35217932 Score: 355
Period size: 103 Copynumber: 2.0 Consensus size: 103
35217714 GCAAGCTGAA
*
35217724 GTCTTTGAGCTGTAAAATAAAATCATAGCCAAGTTATGCATTTCTTCAAATTTCAGACAAATGGA
1 GTCTTTGAGCTGTAAAACAAAATCATAGCCAAGTTATGCATTTCTTCAAATTTCAGACAAATGGA
* * * *
35217789 TCTCAGGAGTCCAAGAGTATTAGACTCGAGTTTGCATG
66 TCTAAAGAGTCCAAGAGTATTAGACTCGAGATTGAATG
* *
35217827 GTCTTTGAGCTGTAAAACAAAATCATAGCCAAGTTATGCGTTTCTTCAAATTTCAGATAAATGGA
1 GTCTTTGAGCTGTAAAACAAAATCATAGCCAAGTTATGCATTTCTTCAAATTTCAGACAAATGGA
35217892 TCTAAAGAGTCCAAGAGTATTAGACTCGAGATTGAATG
66 TCTAAAGAGTCCAAGAGTATTAGACTCGAGATTGAATG
35217930 GTC
1 GTC
35217933 ACTGAATTTC
Statistics
Matches: 99, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 99 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (103 bp):
GTCTTTGAGCTGTAAAACAAAATCATAGCCAAGTTATGCATTTCTTCAAATTTCAGACAAATGGA
TCTAAAGAGTCCAAGAGTATTAGACTCGAGATTGAATG
Found at i:35218664 original size:15 final size:15
Alignment explanation
Indices: 35218644--35218673 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35218634 TCTACTAAAA
35218644 AATGGGCAAATTAGT
1 AATGGGCAAATTAGT
35218659 AATGGGCAAATTAGT
1 AATGGGCAAATTAGT
35218674 CTCTATACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (15 bp):
AATGGGCAAATTAGT
Found at i:35224581 original size:20 final size:21
Alignment explanation
Indices: 35224544--35224585 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
35224534 ATTATTTTGT
35224544 AATTAAAAAGAGAAATAAATA
1 AATTAAAAAGAGAAATAAATA
*
35224565 AATTAAATAGA-AAATAAATA
1 AATTAAAAAGAGAAATAAATA
35224585 A
1 A
35224586 TAATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (21 bp):
AATTAAAAAGAGAAATAAATA
Found at i:35225024 original size:30 final size:30
Alignment explanation
Indices: 35224990--35225051 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
35224980 ACTTGTTTTA
*
35224990 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
35225020 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
35225050 TT
1 TT
35225052 ACTTGTTAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.61
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:35229803 original size:9 final size:9
Alignment explanation
Indices: 35229782--35229822 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
35229772 TCACCATTCG
35229782 AATAACTTT-
1 AATAA-TTTA
*
35229791 AATAATTTG
1 AATAATTTA
35229800 AATAATTTA
1 AATAATTTA
35229809 AATAATTTA
1 AATAATTTA
35229818 AATAA
1 AATAA
35229823 CAAATTGGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 3 0.10
9 27 0.90
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (9 bp):
AATAATTTA
Found at i:35229804 original size:18 final size:19
Alignment explanation
Indices: 35229781--35229823 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
35229771 TTCACCATTC
35229781 GAATAACTTT-AATAATTT
1 GAATAACTTTAAATAATTT
35229799 GAATAA-TTTAAATAATTT
1 GAATAACTTTAAATAATTT
*
35229817 AAATAAC
1 GAATAAC
35229824 AAATTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.40
Consensus pattern (19 bp):
GAATAACTTTAAATAATTT
Found at i:35229925 original size:21 final size:20
Alignment explanation
Indices: 35229901--35229954 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
35229891 AAAACTACAA
35229901 AAAAAAGTTCAAAATAATTT-T
1 AAAAAA-TTCAAAAT-ATTTAT
35229922 --AAAATTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
35229940 AAAAAAATTCAAAAT
1 -AAAAAATTCAAAAT
35229955 TTATATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.14
18 9 0.31
19 4 0.14
21 12 0.41
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:35229931 original size:18 final size:19
Alignment explanation
Indices: 35229903--35229943 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
35229893 AACTACAAAA
35229903 AAAAGTTCAAAATAATTT-T
1 AAAAGTTCAAAAT-ATTTAT
35229922 AAAA-TTCAAAATATTTAT
1 AAAAGTTCAAAATATTTAT
35229940 AAAA
1 AAAA
35229944 AAATTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAAGTTCAAAATATTTAT
Found at i:35229981 original size:10 final size:10
Alignment explanation
Indices: 35229966--35230010 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
35229956 TATATTTTTA
35229966 AAAAATATAT
1 AAAAATATAT
35229976 AAAAATATA-
1 AAAAATATAT
*
35229985 AAATAAT-TCT
1 AAA-AATATAT
35229995 AAAAATATAT
1 AAAAATATAT
35230005 AAAAAT
1 AAAAAT
35230011 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 7 0.23
10 23 0.77
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATATAT
Found at i:35229997 original size:19 final size:19
Alignment explanation
Indices: 35229975--35230017 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
35229965 AAAAAATATA
35229975 TAAAAATATA-AAATAATTC
1 TAAAAATATATAAA-AATTC
*
35229994 TAAAAATATATAAAAATTT
1 TAAAAATATATAAAAATTC
35230013 TAAAA
1 TAAAA
35230018 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATATATAAAAATTC
Found at i:35230019 original size:8 final size:9
Alignment explanation
Indices: 35229961--35230030 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 9
35229951 AAATTTATAT
35229961 TTTTAAAAAA
1 TTTT-AAAAA
*
35229971 TATATAAAAA
1 T-TTTAAAAA
* *
35229981 TATAAAATAA
1 TTTTAAA-AA
*
35229991 TTCTAAAAA
1 TTTTAAAAA
*
35230000 TATATAAAAA
1 T-TTTAAAAA
35230010 TTTT-AAAA
1 TTTTAAAAA
35230018 TTTTAAAAA
1 TTTTAAAAA
35230027 TTTT
1 TTTT
35230031 CTAAAATAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
8 8 0.17
9 16 0.34
10 21 0.45
11 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:35231024 original size:21 final size:21
Alignment explanation
Indices: 35230998--35231045 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
35230988 ATATTGATAC
35230998 ATATAAAATA-TATTTTTAATT
1 ATATAAAATATTA-TTTTAATT
* *
35231019 ATAT-AATTATTATTTTATTT
1 ATATAAAATATTATTTTAATT
35231039 ATATAAA
1 ATATAAA
35231046 TAAAAGAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATAAAATATTATTTTAATT
Found at i:35233499 original size:16 final size:16
Alignment explanation
Indices: 35233480--35233511 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35233470 AATTGTTTTA
35233480 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
35233496 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
35233512 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:35233776 original size:50 final size:51
Alignment explanation
Indices: 35233715--35234153 Score: 377
Period size: 50 Copynumber: 8.7 Consensus size: 51
35233705 AAGCTCTCTA
*
35233715 GTACACATAGTAGCCTGCACTTAGTACTACACATGCT-ATCTATCAATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
* * * *
35233765 GTACACGTAGTAGTCTGCACTTAGTACTACAC-T-CGTGACTTATCCATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGC-TGACCTATCAATCTG
* * * * ** * *
35233815 ATACACATAGTACCCTGCACTTAGTACTATACACG-TGATCGAAGTTAA-CGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCTGA-CCTA-TCAATCTG
* *
35233866 GTACGCATAGTAGCCTGCACTTAGTACTACACATG-TGACCTATCAATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
* * *
35233916 GTACACGTAGTAGCCTGCACTTAGTACTACACACG-TAACCTAATC-ATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCTGACCT-ATCAATCTG
* * * ** * * *
35233966 ATACACGTAGTAGCCTGCGCTTAGTACTACACA--CATGATCGAAACTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGC-TGA-CCTATCAATCTG
* *
35234017 GTA-AGCATAGTAGCCTACACTTAGTACTACACATGCT-ACCTAACAATCTG
1 GTACA-CATAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
* * *
35234067 GTACACGTAGTAGCCTGCATTTAGTACTACACATG-TGACCTA--AAACTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
* *
35234115 TCTTAAACACATAGTAGCCTGCACATAGTACTACACATG
1 --GT--ACACATAGTAGCCTGCACTTAGTACTACACATG
35234154 TTTTCTCACA
Statistics
Matches: 315, Mismatches: 53, Indels: 40
0.77 0.13 0.10
Matches are distributed among these distances:
48 6 0.02
49 6 0.02
50 195 0.62
51 74 0.23
52 33 0.10
53 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (51 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCTGACCTATCAATCTG
Found at i:35233895 original size:101 final size:99
Alignment explanation
Indices: 35233716--35234151 Score: 362
Period size: 101 Copynumber: 4.3 Consensus size: 99
35233706 AGCTCTCTAG
* * * * *
35233716 TACACATAGTAGCCTGCACTTAGTACTACACATGCTATCTATCAATCTGGTACACGTAGTAGTCT
1 TACACATAGTAGCCTGCACTTAGTACTACACACG-TATCAATCAATCGGGTACACATAGTAGCCT
* * *
35233781 GCACTTAGTACTACAC-TCGTGACTTATCCATCTGA
65 GCACTTAGTACTACACAT-GTGACCTATCAATCCGA
* * * *
35233816 TACACATAGTACCCTGCACTTAGTACTATACACGTGATCGAAGTTAA-CGGGTACGCATAGTAGC
1 TACACATAGTAGCCTGCACTTAGTACTACACACGT-ATC-AA-TCAATCGGGTACACATAGTAGC
*
35233880 CTGCACTTAGTACTACACATGTGACCTATCAATCCGG
63 CTGCACTTAGTACTACACATGTGACCTATCAATCCGA
* * * * *
35233917 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAATC-ATCTGATACACGTAGTAGCC
1 TACACATAGTAGCCTGCACTTAGTACTACACACGT-ATC-AATCAATCGGGTACACATAGTAGCC
* ** ** * * * *
35233981 TGCGCTTAGTACTACACACATGATCGAAACTATCGGG
64 TGCACTTAGTACTACACATGTGA-CCTATCAATCCGA
* * * * *
35234018 TA-AGCATAGTAGCCTACACTTAGTACTACACATGCTACCTAA-CAATCTGGTACACGTAGTAGC
1 TACA-CATAGTAGCCTGCACTTAGTACTACACACG-TATC-AATCAATCGGGTACACATAGTAGC
* * **
35234081 CTGCATTTAGTACTACACATGTGACCTA-AAACTGTCTTA
63 CTGCACTTAGTACTACACATGTGACCTATCAA---TCCGA
* *
35234120 AACACATAGTAGCCTGCACATAGTACTACACA
1 TACACATAGTAGCCTGCACTTAGTACTACACA
35234152 TGTTTTCTCA
Statistics
Matches: 273, Mismatches: 50, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
99 3 0.01
100 73 0.27
101 162 0.59
102 34 0.12
103 1 0.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (99 bp):
TACACATAGTAGCCTGCACTTAGTACTACACACGTATCAATCAATCGGGTACACATAGTAGCCTG
CACTTAGTACTACACATGTGACCTATCAATCCGA
Found at i:35233910 original size:151 final size:151
Alignment explanation
Indices: 35233715--35234151 Score: 581
Period size: 151 Copynumber: 2.9 Consensus size: 151
35233705 AAGCTCTCTA
* * *
35233715 GTACACATAGTAGCCTGCACTTAGTACTACACATGCTATCTATCAATCTGGTACACGTAGTAGTC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGCC
* * *
35233780 TGCACTTAGTACTACACTCGTGA-CTTATCCATCTGATACACATAGTACCCTGCACTTAGTACTA
66 TGCACTTAGTACTACACACGTAACCTAAT-CATCTGATACACATAGTACCCTGCACTTAGTACTA
* * **
35233844 TACACGTGATCGAAGTTAACGG
130 CACACATGATCGAAACTAACGG
*
35233866 GTACGCATAGTAGCCTGCACTTAGTACTACACATG-TGACCTATCAATCCGGTACACGTAGTAGC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCT-ACCTATCAATCTGGTACACGTAGTAGC
* * *
35233930 CTGCACTTAGTACTACACACGTAACCTAATCATCTGATACACGTAGTAGCCTGCGCTTAGTACTA
65 CTGCACTTAGTACTACACACGTAACCTAATCATCTGATACACATAGTACCCTGCACTTAGTACTA
*
35233995 CACACATGATCGAAACTATCGG
130 CACACATGATCGAAACTAACGG
* * *
35234017 GTAAGCATAGTAGCCTACACTTAGTACTACACATGCTACCTAACAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGCC
* * * * * * * * *
35234082 TGCATTTAGTACTACACATGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACT
66 TGCACTTAGTACTACACACGTAACCT-AATC-ATCTGATACACATAGTACCCTGCACTTAGTACT
35234147 ACACA
129 ACACA
35234152 TGTTTTCTCA
Statistics
Matches: 252, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
150 1 0.00
151 211 0.84
152 8 0.03
153 32 0.13
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (151 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTAACCTAATCATCTGATACACATAGTACCCTGCACTTAGTACTAC
ACACATGATCGAAACTAACGG
Found at i:35237146 original size:15 final size:14
Alignment explanation
Indices: 35237121--35237178 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 14
35237111 TAGACAACAG
*
35237121 GAAAACCAAGATTAA
1 GAAATCCAAGA-TAA
*
35237136 GAAGTCCAAGATAGA
1 GAAATCCAAGATA-A
35237151 GAAATCCAAGATAA
1 GAAATCCAAGATAA
35237165 GGAAATCCAAGATA
1 -GAAATCCAAGATA
35237179 CAATATCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
14 3 0.08
15 35 0.92
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (14 bp):
GAAATCCAAGATAA
Found at i:35237162 original size:30 final size:30
Alignment explanation
Indices: 35237121--35237178 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
35237111 TAGACAACAG
*
35237121 GAAAACCAAGATTAA-GAAGTCCAAGATAGA
1 GAAAACCAAGA-TAAGGAAATCCAAGATAGA
*
35237151 GAAATCCAAGATAAGGAAATCCAAGATA
1 GAAAACCAAGATAAGGAAATCCAAGATA
35237179 CAATATCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (30 bp):
GAAAACCAAGATAAGGAAATCCAAGATAGA
Found at i:35251543 original size:180 final size:180
Alignment explanation
Indices: 35251223--35251565 Score: 508
Period size: 180 Copynumber: 1.9 Consensus size: 180
35251213 GAGCTACGAA
* ** *
35251223 ACTCCAAATTAAGATCCGTTAATTTTCTATGAAACTAAACTCATATATATTCTTACCAGAAAATT
1 ACTCCAAATTAAGAACCACTAATTTTCTATGAAACTAAACTCAAATATATTCTTACCAGAAAATT
* *
35251288 TTTAGAATTTTTGGTTTATCCAATTAGTACAGTATATTCATTAAAGATACCCCTAATTCACTATC
66 TTCAGAATTTTTAGTTTATCCAATTAGTACAGTATATTCATTAAAGATACCCCTAATTCACTATC
*
35251353 TGATAGTTCCGACCTCTCTTCACTAAAAATTATTTATTTCATGGTAATGG
131 TGACAGTTCCGACCTCTCTTCACTAAAAATTATTTATTTCATGGTAATGG
* *
35251403 ACTCCAAATTAAGAACCACTAATTTTCTCA-GAAACTAGACTCAAATATATTCTTACCATAAAAT
1 ACTCCAAATTAAGAACCACTAATTTTCT-ATGAAACTAAACTCAAATATATTCTTACCAGAAAAT
* * * ** *
35251467 TTTCAGAATTTTTAGTTTTTCCAATTAGTACAGTTTATTCATTAAAGATACCTCTGTTTCACTGT
65 TTTCAGAATTTTTAGTTTATCCAATTAGTACAGTATATTCATTAAAGATACCCCTAATTCACTAT
** *
35251532 CTTCCAGTTCCGATCTCTCTTCACTAAAAATTAT
130 CTGACAGTTCCGACCTCTCTTCACTAAAAATTAT
35251566 ATATCTTATG
Statistics
Matches: 144, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
180 143 0.99
181 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (180 bp):
ACTCCAAATTAAGAACCACTAATTTTCTATGAAACTAAACTCAAATATATTCTTACCAGAAAATT
TTCAGAATTTTTAGTTTATCCAATTAGTACAGTATATTCATTAAAGATACCCCTAATTCACTATC
TGACAGTTCCGACCTCTCTTCACTAAAAATTATTTATTTCATGGTAATGG
Found at i:35252212 original size:50 final size:50
Alignment explanation
Indices: 35252148--35252634 Score: 480
Period size: 50 Copynumber: 9.7 Consensus size: 50
35252138 CTGGTACGCA
* * *
35252148 TAGTAGCCTGCACTTAGTACCACACATGCGACCTATCAATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* * * * * *
35252198 TGGTAGCCTACACTTAGTACTACATACGTGACTTATCCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
** * * * * *
35252248 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTGATACACG
* * ** *
35252299 TAGTAGCCGGCACTTAGTACTACACATGCAACCTATCAATC-CAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGA-TACACG
* * *
35252349 TAGTAGCCTGCACTTAGTACTATACACGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* * ** ** ** *
35252399 TAGTAGCCTACACTTAGTACTACATACGTGATCGAAGTTTATGGGTATGCA--
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTG-ATACACG
* * *
35252450 TAGTAGCCTACAGTTAGTACTACACATGTGACCTATCAATCT-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGA-TACACG
* *
35252500 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
* * * * * *
35252550 TAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACAGG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
35252600 TAGTAGCCTGCACTTAGTACTACACACGTGACCTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTA
35252635 AAACTGTCTT
Statistics
Matches: 351, Mismatches: 74, Indels: 24
0.78 0.16 0.05
Matches are distributed among these distances:
47 1 0.00
48 3 0.01
49 6 0.02
50 265 0.75
51 66 0.19
52 6 0.02
53 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTGATACACG
Found at i:35252403 original size:151 final size:151
Alignment explanation
Indices: 35252140--35252575 Score: 667
Period size: 151 Copynumber: 2.9 Consensus size: 151
35252130 GAAGCTCTCT
* * *
35252140 GGTACGCATAGTAGCCTGCACTTAGTACCACACATGCGACCTATCAAT-CTGATACACGTGGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCAG-TACACGTAGTAG
* * *
35252204 CCTACACTTAGTACTACATACGTGACTTATCCATCTAATACACGTAGTAGCCTGCACTTAGTACT
65 CCTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACT
35252269 ACACACGTGATCGAAGTTAACG
130 ACACACGTGATCGAAGTTAACG
* *
35252291 GGTACGCATAGTAGCCGGCACTTAGTACTACACATGCAACCTATCAATCCAGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCAGTACACGTAGTAGC
* *
35252356 CTGCACTTAGTACTATACACGTGACTTATCCATCTGATACACGTAGTAGCCTACACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
* * *
35252421 CATACGTGATCGAAGTTTATG
131 CACACGTGATCGAAGTTAACG
* * * * *
35252442 GGTATGCATAGTAGCCTACAGTTAGTACTACACATGTGACCTATCAATCTAGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCAGTACACGTAGTAGC
* * *
35252507 CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
35252572 CACA
131 CACA
35252576 TGCGACCTAA
Statistics
Matches: 258, Mismatches: 26, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
151 256 0.99
152 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCAGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAGTTAACG
Found at i:35252506 original size:201 final size:200
Alignment explanation
Indices: 35252148--35252631 Score: 546
Period size: 201 Copynumber: 2.4 Consensus size: 200
35252138 CTGGTACGCA
* *
35252148 TAGTAGCCTGCACTTAGTACCACACATGCGACCTATCAATCTGATACACGTGGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTACACTT
** *
35252213 AGTACTACATACGTGACTTATCCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
66 AGTACTACATACGTGACGAATCCATCTAATACAC-TAGTAGCCTACACTTAGTACTACACACGTG
* * * * * *
35252278 ATCGAAGTTAACGGGTACGCATAGTAGCCGGCACTTAGTACTACACATGCAACCTATCAATCCAG
130 ATCCAAGTCAACGAGTACACATAGTAGCCGGCACTTAGTACTACACACGCAACCTAACAAT-CAG
35252343 -TACACG
194 ATACACG
* * * * *
35252349 TAGTAGCCTGCACTTAGTACTATACACGTGACTTATCCATCTGATACACGTAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTACACTT
** * * * *
35252414 AGTACTACATACGTGATCGAAGTTTATGGGT-ATGCA-TAGTAGCCTACAGTTAGTACTACACAT
66 AGTACTACATACGTGA-CGAA-TCCAT--CTAATACACTAGTAGCCTACACTTAGTACTACACAC
* * * * ** *
35252477 GTGA-CCTA-TCAATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCAT
127 GTGATCCAAGTCAA-CGAGTACACATAGTAGCCGGCACTTAGTACTACACACGCAACCTAACAAT
*
35252540 CTGATACACG
191 CAGATACACG
* * * * *
35252550 TAGTAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACAGGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTACACTT
*
35252615 AGTACTACACACGTGAC
66 AGTACTACATACGTGAC
35252632 CTAAAACTGT
Statistics
Matches: 236, Mismatches: 41, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
200 6 0.03
201 192 0.81
202 30 0.13
203 3 0.01
204 4 0.02
205 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (200 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGATACACGTAGTAGCCTACACTT
AGTACTACATACGTGACGAATCCATCTAATACACTAGTAGCCTACACTTAGTACTACACACGTGA
TCCAAGTCAACGAGTACACATAGTAGCCGGCACTTAGTACTACACACGCAACCTAACAATCAGAT
ACACG
Found at i:35252674 original size:151 final size:149
Alignment explanation
Indices: 35252148--35252634 Score: 604
Period size: 151 Copynumber: 3.2 Consensus size: 149
35252138 CTGGTACGCA
* * * *
35252148 TAGTAGCCTGCACTTAGTACCACACATGCGACCTATCAATCT-GATACACGTGGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTAG-TACACGTAGTAGCCTGCACT
* *
35252212 TAGTACTACATACGTGACTTATCCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGT
65 TAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGT
* *
35252277 GATCGAAGTTAA-CGGGTAC-G
130 GATCGAA--CAATCTGGTACAG
* ** *
35252297 CATAGTAGCCGGCACTTAGTACTACACATGCAACCTATCAATCCAGTACACGTAGTAGCCTGCAC
1 --TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTAGTACACGTAGTAGCCTGCAC
* * *
35252362 TTAGTACTATACACGTGACTTATCCATCTGATACACGTAGTAGCCTACACTTAGTACTACATACG
64 TTAGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACG
*** *
35252427 TGATCGAAGTTTATGGGTATGCA-
129 TGATCGAACAATCT-GGTA--CAG
* *
35252450 TAGTAGCCTACAGTTAGTACTACACATGTGACCTATCAATCTAGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTAGTACACGTAGTAGCCTGCACTT
* * * * *
35252515 AGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCTTGCACTTAGTACTACACATGCG
66 AGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
* *
35252580 ACCTAACAATCTGGTACAGG
131 ATCGAACAATCTGGTACA-G
*
35252600 TAGTAGCCTGCACTTAGTACTACACACGTGACCTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTA
35252635 AAACTGTCTT
Statistics
Matches: 289, Mismatches: 39, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
148 2 0.01
150 36 0.12
151 249 0.86
152 1 0.00
153 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (149 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTAGTACACGTAGTAGCCTGCACTT
AGTACTACACACGTGACTTATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
ATCGAACAATCTGGTACAG
Found at i:35253060 original size:19 final size:20
Alignment explanation
Indices: 35253032--35253078 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
35253022 AAGAACATGT
35253032 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
35253053 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
35253072 TATATAT
1 TATATAT
35253079 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:35262672 original size:30 final size:30
Alignment explanation
Indices: 35262620--35262678 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
35262610 CAAAAATCAT
* * *
35262620 ACTTTTACAAATTTTCATTTTGACCCCTAA
1 ACTTTCACAAATTTACACTTTGACCCCTAA
*
35262650 ACTTTCACATATTTACACTTTGACCCCTA
1 ACTTTCACAAATTTACACTTTGACCCCTA
35262679 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.03, T:0.41
Consensus pattern (30 bp):
ACTTTCACAAATTTACACTTTGACCCCTAA
Found at i:35263684 original size:17 final size:17
Alignment explanation
Indices: 35263615--35263685 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 17
35263605 CAACCACCGA
35263615 AAGAGAGAAAGAAATGAGAG
1 AAGA-AGAAAGAAA-GA-AG
* *
35263635 AAAGGAGAAGAGAAA-AAT
1 -AAGAAGAA-AGAAAGAAG
35263653 AAGAA-AAAGAGAAGAAG
1 AAGAAGAAAGA-AAGAAG
35263670 AAGAAGAAAGAAAGAA
1 AAGAAGAAAGAAAGAA
35263686 AAAAAAGGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 3 0.07
16 4 0.10
17 16 0.38
18 6 0.14
19 1 0.02
20 4 0.10
21 8 0.19
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (17 bp):
AAGAAGAAAGAAAGAAG
Found at i:35263691 original size:31 final size:31
Alignment explanation
Indices: 35263613--35263692 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 31
35263603 AGCAACCACC
* * * *
35263613 GAAAGAGAGAAAGAAATGAGAGAAAGGAGAA
1 GAAAGAAAGAAAAAAAAGAGAGAAAGAAGAA
* *
35263644 GAGAA-AAATAAGAAAAAGAGA-AGAAGAAGAA
1 GA-AAGAAAGAAAAAAAAGAGAGA-AAGAAGAA
35263675 GAAAGAAAGAAAAAAAAG
1 GAAAGAAAGAAAAAAAAG
35263693 GGTAATGTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
30 3 0.08
31 33 0.87
32 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (31 bp):
GAAAGAAAGAAAAAAAAGAGAGAAAGAAGAA
Found at i:35263917 original size:27 final size:27
Alignment explanation
Indices: 35263887--35263939 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
35263877 TAGGATTATG
35263887 TTATAAATTGTTGTGTTTAGTTTAGTT
1 TTATAAATTGTTGTGTTTAGTTTAGTT
35263914 TTATAAATTGTTGTGTTTAGTTTAGT
1 TTATAAATTGTTGTGTTTAGTTTAGT
35263940 ATTTGGTGAG
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:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (27 bp):
TTATAAATTGTTGTGTTTAGTTTAGTT
Found at i:35264233 original size:103 final size:103
Alignment explanation
Indices: 35264126--35264389 Score: 356
Period size: 103 Copynumber: 2.6 Consensus size: 103
35264116 TTATAGTTAT
* * * * *
35264126 TTATTTTGTTAATAATTTATGGGATTAGG-T-TACAAATTGTTAGTATTTAGTGGTTTAG-GGTA
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTGATGT-GTGGTA
*
35264188 TGATTTTTTAGTAATGTAATTT-AAAAAAAATAATTTTATGG
63 TGATTTTTTAGTAATGT-ATTTAAAAAAAAATAATTTTATAG
* * ** *
35264229 TTATTTTATTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTGATGTGTGGTATGA
35264294 TTTTTTAGTAATGTATTTAAAAAAAAATAATTTTATAG
66 TTTTTTAGTAATGTATTTAAAAAAAAATAATTTTATAG
*
35264332 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGT
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTGATGTGT
35264390 TTTGTGATTT
Statistics
Matches: 145, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
101 7 0.05
102 6 0.04
103 132 0.91
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (103 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTGATGTGTGGTATGA
TTTTTTAGTAATGTATTTAAAAAAAAATAATTTTATAG
Found at i:35264385 original size:50 final size:49
Alignment explanation
Indices: 35264228--35264385 Score: 129
Period size: 50 Copynumber: 3.1 Consensus size: 49
35264218 TAATTTTATG
35264228 GTTATTTTATTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
1 GTTATTTT-TTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
* * * * * * * **** * *
35264278 GTTATGTGTTTT-GTGATTTTTTAGTAATGTATTTAAAAAAAAATAATTTTATA
1 GTTAT-T-TTTTAGTAATTTATGA-TTAGGT-TATATAAATTGTTAGTGTT-TA
35264331 GTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
1 GTTATTTT-TTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
35264381 GTTAT
1 GTTAT
35264386 GTGTTTTGTG
Statistics
Matches: 75, Mismatches: 26, Indels: 14
0.65 0.23 0.12
Matches are distributed among these distances:
50 20 0.27
51 20 0.27
52 20 0.27
53 15 0.20
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (49 bp):
GTTATTTTTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTA
Found at i:35264390 original size:103 final size:102
Alignment explanation
Indices: 35264188--35264409 Score: 394
Period size: 103 Copynumber: 2.2 Consensus size: 102
35264178 GTTTAGGGTA
*
35264188 TGATTTTTTAGTAATGTAATTTAAAAAAAATAATTTTATGGTTATTTTATTAGTAATTTATGATT
1 TGATTTTTTAGTAATGT-ATTTAAAAAAAATAATTTTATAGTTATTTTATTAGTAATTTATGATT
35264253 AGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
65 AGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
*
35264291 TGATTTTTTAGTAATGTATTTAAAAAAAAATAATTTTATAGTTATTTTGTTAGTAATTTATGATT
1 TGATTTTTTAGTAATGTATTT-AAAAAAAATAATTTTATAGTTATTTTATTAGTAATTTATGATT
35264356 AGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
65 AGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
35264394 TGATTTTTT--TAATGTA
1 TGATTTTTTAGTAATGTA
35264410 ATTCTTATAT
Statistics
Matches: 116, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
101 7 0.06
102 4 0.03
103 105 0.91
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (102 bp):
TGATTTTTTAGTAATGTATTTAAAAAAAATAATTTTATAGTTATTTTATTAGTAATTTATGATTA
GGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
Found at i:35264434 original size:15 final size:16
Alignment explanation
Indices: 35264403--35264434 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
35264393 GTGATTTTTT
35264403 TAATGTAATTCTTATA
1 TAATGTAATTCTTATA
35264419 TAATGTAATT-TTATA
1 TAATGTAATTCTTATA
35264434 T
1 T
35264435 TATTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (16 bp):
TAATGTAATTCTTATA
Found at i:35266290 original size:29 final size:29
Alignment explanation
Indices: 35266236--35266291 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
35266226 TTTCGACCCT
* **
35266236 AGGGGCAAAATGGTCATTTTGTCAAAGTC
1 AGGGGCAAAATGGTCAGTTTACCAAAGTC
*
35266265 AGGGGCAAAATGGTTAGTTTACCAAAG
1 AGGGGCAAAATGGTCAGTTTACCAAAG
35266292 ATATGAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (29 bp):
AGGGGCAAAATGGTCAGTTTACCAAAGTC
Found at i:35266773 original size:46 final size:44
Alignment explanation
Indices: 35266720--35266831 Score: 170
Period size: 46 Copynumber: 2.5 Consensus size: 44
35266710 GACGAGTACT
*
35266720 AGTGTAAGACATGTTTGGGACATGCATCAGCTTCGAGATGTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGT--GCC
* *
35266766 AGTGTAAGACATGTCTGGGACATGCATTAGCTACGAGATGTGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGCC
35266810 AGTGTAAGACCATGTTTGGGAC
1 AGTGTAAGA-CATGTTTGGGAC
35266832 GTGGCATCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
44 12 0.20
45 11 0.18
46 38 0.62
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGATGTGCC
Found at i:35272997 original size:66 final size:66
Alignment explanation
Indices: 35272891--35273022 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
35272881 TTAATTTAAC
*
35272891 TTAATTCGAAATCAAATTAAATATTAAAAATATTACAAGTAGCAGCAAAGACTCAGGCTTTGGGA
1 TTAATTCGAAATCAAATTAAATATTAAAAATATTACAAGTAGCAGCAAAGACTCAAGCTTTGGGA
35272956 T
66 T
35272957 TTAATTCGAAATCAAATTAAATATTAAAAATATTACAAGTAGCAGCAAAGACTCAAGCTTTGGGA
1 TTAATTCGAAATCAAATTAAATATTAAAAATATTACAAGTAGCAGCAAAGACTCAAGCTTTGGGA
35273022 T
66 T
35273023 ATTTAGTTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (66 bp):
TTAATTCGAAATCAAATTAAATATTAAAAATATTACAAGTAGCAGCAAAGACTCAAGCTTTGGGA
T
Found at i:35274376 original size:24 final size:24
Alignment explanation
Indices: 35274348--35274393 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
35274338 TGACTTAATT
35274348 TCATTACACCATCCAA-TTCATATA
1 TCATTACA-CATCCAATTTCATATA
* *
35274372 TCATTTCACATTCAATTTCATA
1 TCATTACACATCCAATTTCATA
35274394 GTCTCATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (24 bp):
TCATTACACATCCAATTTCATATA
Found at i:35276506 original size:46 final size:45
Alignment explanation
Indices: 35276373--35276540 Score: 124
Period size: 46 Copynumber: 3.6 Consensus size: 45
35276363 TTGCGTGTGT
* * * * *
35276373 TAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGC
1 TAGTGTAAGACATGT-TTGGACATGCATCGGCCTCGA-GACGAGAGC
* * * * *
35276419 TAGTGTAAGACCATGTCTAGGGCATGGCATCGGCATTGAGACGAGGGC
1 TAGTGTAAGA-CATGT-TTGGACAT-GCATCGGCCTCGAGACGAGAGC
35276467 TAGTGTAAGACATGTTTGGAACATGCATCGGCCTCGAGACGTA-AGC
1 TAGTGTAAGACATGTTTGG-ACATGCATCGGCCTCGAGACG-AGAGC
* * * *
35276513 CAATATAAGACATGTCTGGGACATGCAT
1 TAGTGTAAGACATGT-TTGGACATGCAT
35276541 TGGCTACGAC
Statistics
Matches: 98, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
46 50 0.51
47 24 0.24
48 23 0.23
49 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
TAGTGTAAGACATGTTTGGACATGCATCGGCCTCGAGACGAGAGC
Found at i:35282489 original size:50 final size:50
Alignment explanation
Indices: 35282427--35282527 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
35282417 GTGGTTACCG
* * *
35282427 AGAGAGTGGGGCCAGTTGCTTATCGATTGGATTTACCGCTAAAATTGGAA
1 AGAGAGTAGGGCCAGTTGCTTACCGATTGGATTTACCACTAAAATTGGAA
35282477 AGAGAGTAGGGCCAGTTGCTTACCGATTGGATTTACCACTAAAATTGGAA
1 AGAGAGTAGGGCCAGTTGCTTACCGATTGGATTTACCACTAAAATTGGAA
35282527 A
1 A
35282528 AGATTCACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (50 bp):
AGAGAGTAGGGCCAGTTGCTTACCGATTGGATTTACCACTAAAATTGGAA
Done.