Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 54
Found at i:4701201 original size:57 final size:57
Alignment explanation
Indices: 4701113--4701235 Score: 201
Period size: 57 Copynumber: 2.2 Consensus size: 57
4701103 GCAACGCGAA
* *
4701113 TTTCGCAACATTAATTACCGATATAGGTAAACACAACTATCGCAACGCGAATTTCGT
1 TTTCGCAACACTAATTACCGATATAGGTAAACACAACCATCGCAACGCGAATTTCGT
* *
4701170 TTTCGCAACGCTAATTACCGATATAGTTAAACACAACCATCGCAACGCGAATTTCGT
1 TTTCGCAACACTAATTACCGATATAGGTAAACACAACCATCGCAACGCGAATTTCGT
*
4701227 TTTTGCAAC
1 TTTCGCAAC
4701236 TCGCAAATCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (57 bp):
TTTCGCAACACTAATTACCGATATAGGTAAACACAACCATCGCAACGCGAATTTCGT
Found at i:4705839 original size:105 final size:105
Alignment explanation
Indices: 4705528--4705820 Score: 464
Period size: 105 Copynumber: 2.8 Consensus size: 105
4705518 AATCTCATTT
* * * * * * * *
4705528 TTCTGGTG-GAATGGGCCAGGCTACTTTGGATGCGAGT-ATTACTCCTCTGGGAGCAGCAGTTCA
1 TTCTGGTGAG-ATGGGTCAGGCTACTATAGATACGGGTGA-TACTTCTCTAGGAGCAACAGTTCA
*
4705591 ACAAGAGGTAGCTGGTGCAATTGTAGATAGTGTTGCTGAAGA
64 GCAAGAGGTAGCTGGTGCAATTGTAGATAGTGTTGCTGAAGA
4705633 TTCTGGTGAGATGGGTCAGGCTACTATAGATACGGGTGATACTTCTCTAGGAGCAACAGTTCAGC
1 TTCTGGTGAGATGGGTCAGGCTACTATAGATACGGGTGATACTTCTCTAGGAGCAACAGTTCAGC
4705698 AAGAGGTAGCTGGTGCAATTGTAGATAGTGTTGCTGAAGA
66 AAGAGGTAGCTGGTGCAATTGTAGATAGTGTTGCTGAAGA
*
4705738 TTCTGGTGAGATGGGTCAGGCTACTATAGATACGGGTGATACTTCTCTAGGAGCAATAGTTCAGC
1 TTCTGGTGAGATGGGTCAGGCTACTATAGATACGGGTGATACTTCTCTAGGAGCAACAGTTCAGC
4705803 AAGAGGTAGCTGGTGCAA
66 AAGAGGTAGCTGGTGCAA
4705821 CCTCAGTCAG
Statistics
Matches: 176, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
105 174 0.99
106 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (105 bp):
TTCTGGTGAGATGGGTCAGGCTACTATAGATACGGGTGATACTTCTCTAGGAGCAACAGTTCAGC
AAGAGGTAGCTGGTGCAATTGTAGATAGTGTTGCTGAAGA
Found at i:4710639 original size:18 final size:18
Alignment explanation
Indices: 4710616--4710664 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
4710606 TTTATATTCG
*
4710616 TAAATATAAAATAGAATA
1 TAAATATAAAATACAATA
4710634 TAAATACTCAAAATACAATA
1 TAAATA-T-AAAATACAATA
*
4710654 -AAATTTAAAAT
1 TAAATATAAAAT
4710665 TTTAAAGTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 5 0.19
18 7 0.26
19 5 0.19
20 10 0.37
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (18 bp):
TAAATATAAAATACAATA
Found at i:4711905 original size:23 final size:23
Alignment explanation
Indices: 4711863--4711906 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
4711853 TTAGCATTTT
**
4711863 AAAAATAAAGAAAACTTGAAAAG
1 AAAAATAAAGAAAAAATGAAAAG
4711886 AAAAATAAAGAAAAAATGAAA
1 AAAAATAAAGAAAAAATGAAA
4711907 GTAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAAATAAAGAAAAAATGAAAAG
Found at i:4714777 original size:26 final size:26
Alignment explanation
Indices: 4714748--4714804 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
4714738 TACAACTCTT
*
4714748 TTAATGAATATTT-AATTCAGAATAAA
1 TTAAAGAATATTTGAATTCAGAAT-AA
*
4714774 TTAAAGAATATTTGATTTCAGAATAA
1 TTAAAGAATATTTGAATTCAGAATAA
4714800 TTAAA
1 TTAAA
4714805 ATTAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.39
Consensus pattern (26 bp):
TTAAAGAATATTTGAATTCAGAATAA
Found at i:4716021 original size:19 final size:19
Alignment explanation
Indices: 4715997--4716036 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4715987 CGTTAGAAAA
4715997 ATCATAAATCGGATGCCAC
1 ATCATAAATCGGATGCCAC
4716016 ATCATAAATCGGATGCCAC
1 ATCATAAATCGGATGCCAC
4716035 AT
1 AT
4716037 TAGTAATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (19 bp):
ATCATAAATCGGATGCCAC
Found at i:4717278 original size:46 final size:46
Alignment explanation
Indices: 4717211--4717302 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
4717201 ATTAACTAGA
4717211 TGACTCAATTTTTTAAAGCATGGGCTTTTCCAATTTGATTTCTTCG
1 TGACTCAATTTTTTAAAGCATGGGCTTTTCCAATTTGATTTCTTCG
4717257 TGACTCAATTTTTTAAAGCATGGGCTTTTCCAATTTGATTTCTTCG
1 TGACTCAATTTTTTAAAGCATGGGCTTTTCCAATTTGATTTCTTCG
4717303 GTTAATATGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (46 bp):
TGACTCAATTTTTTAAAGCATGGGCTTTTCCAATTTGATTTCTTCG
Found at i:4722323 original size:21 final size:21
Alignment explanation
Indices: 4722297--4722354 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
4722287 GATACCTCCA
*
4722297 CATCAGTATCTATACTACTTG
1 CATCAGTATCGATACTACTTG
4722318 CATCAGTATCGATACTACTTG
1 CATCAGTATCGATACTACTTG
4722339 CATCAGTATCGATACT
1 CATCAGTATCGATACT
4722355 GTTCACCGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (21 bp):
CATCAGTATCGATACTACTTG
Found at i:4725829 original size:62 final size:62
Alignment explanation
Indices: 4725758--4725882 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
4725748 TTGATACAGA
4725758 TGGATTGTGCATCTTGTGTGATGCTAATGCTGAGACAAGAATCCACCTTTTTATTGAGTGTT
1 TGGATTGTGCATCTTGTGTGATGCTAATGCTGAGACAAGAATCCACCTTTTTATTGAGTGTT
4725820 TGGATTGTGCATCTTGTGTGATGCTAATGCTGAGACAAGAATCCACCTTTTTATTGAGTGTT
1 TGGATTGTGCATCTTGTGTGATGCTAATGCTGAGACAAGAATCCACCTTTTTATTGAGTGTT
4725882 T
1 T
4725883 TTACTCTTGC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.39
Consensus pattern (62 bp):
TGGATTGTGCATCTTGTGTGATGCTAATGCTGAGACAAGAATCCACCTTTTTATTGAGTGTT
Found at i:4727362 original size:23 final size:23
Alignment explanation
Indices: 4727335--4727395 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
4727325 CAACTCGTTA
*
4727335 CTCGTTTCTCATTAAACCCGCTG
1 CTCGTTTCTCATTAAACCCACTG
*
4727358 CTCGTTTCTCATTAAACCCATTG
1 CTCGTTTCTCATTAAACCCACTG
4727381 CTCGTTTCTCATTAA
1 CTCGTTTCTCATTAA
4727396 GCTTTGTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.20, C:0.31, G:0.10, T:0.39
Consensus pattern (23 bp):
CTCGTTTCTCATTAAACCCACTG
Found at i:4727633 original size:43 final size:43
Alignment explanation
Indices: 4727558--4727641 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
4727548 TCTAAATTCC
* * *
4727558 AAAGTAACAATCCACAAATACACCAAATTAACATATTAAAACT
1 AAAGGAACAATCCACAAATAAACCAAACTAACATATTAAAACT
* * *
4727601 AAAGGAACAATCCATACATAAATCAAACTAACATATTAAAA
1 AAAGGAACAATCCACAAATAAACCAAACTAACATATTAAAA
4727642 ACATTCTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.57, C:0.19, G:0.04, T:0.20
Consensus pattern (43 bp):
AAAGGAACAATCCACAAATAAACCAAACTAACATATTAAAACT
Found at i:4728691 original size:34 final size:34
Alignment explanation
Indices: 4728652--4728728 Score: 145
Period size: 34 Copynumber: 2.3 Consensus size: 34
4728642 ATCCAAGTTA
*
4728652 GATCAAATTTGAGGTGAAAGGTGTATTTATATTG
1 GATCAAATCTGAGGTGAAAGGTGTATTTATATTG
4728686 GATCAAATCTGAGGTGAAAGGTGTATTTATATTG
1 GATCAAATCTGAGGTGAAAGGTGTATTTATATTG
4728720 GATCAAATC
1 GATCAAATC
4728729 GGATTAGCCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (34 bp):
GATCAAATCTGAGGTGAAAGGTGTATTTATATTG
Found at i:4734667 original size:12 final size:12
Alignment explanation
Indices: 4734650--4734686 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
4734640 TAATTCCCAT
4734650 ATAAAAATATGA
1 ATAAAAATATGA
4734662 ATAAAAATATGA
1 ATAAAAATATGA
*
4734674 ATAAAAATTTGA
1 ATAAAAATATGA
4734686 A
1 A
4734687 ATACAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (12 bp):
ATAAAAATATGA
Found at i:4751839 original size:13 final size:13
Alignment explanation
Indices: 4751821--4751853 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
4751811 AATCACCAAA
4751821 ATCCAACTTGTTC
1 ATCCAACTTGTTC
4751834 ATCCAACTTGTTC
1 ATCCAACTTGTTC
4751847 ATCCAAC
1 ATCCAAC
4751854 AAAATTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.27, C:0.33, G:0.06, T:0.33
Consensus pattern (13 bp):
ATCCAACTTGTTC
Found at i:4756527 original size:35 final size:36
Alignment explanation
Indices: 4756483--4756570 Score: 96
Period size: 35 Copynumber: 2.5 Consensus size: 36
4756473 ATTTGGTATT
*
4756483 TAAATATAA-CAAACTTACAATAA-GA-ATTAAATGG
1 TAAATATAACCAAA-TTAAAATAACGATATTAAATGG
4756517 TAAATGATAACCAAATTAAAATAACTGATATTAAATGG
1 TAAAT-ATAACCAAATTAAAATAAC-GATATTAAATGG
*
4756555 T-AATA-AACAAAATTAA
1 TAAATATAACCAAATTAA
4756571 CTGAAATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
34 5 0.11
35 22 0.47
36 5 0.11
37 5 0.11
38 10 0.21
ACGTcount: A:0.57, C:0.08, G:0.08, T:0.27
Consensus pattern (36 bp):
TAAATATAACCAAATTAAAATAACGATATTAAATGG
Found at i:4763219 original size:20 final size:19
Alignment explanation
Indices: 4763172--4763219 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4763162 AATGATTTTC
*
4763172 TTTTGAAAACTAAAATGGA
1 TTTTGAAAACTAAAATGAA
*
4763191 TTTTGAAAATTAAAATGAAA
1 TTTTGAAAACTAAAATG-AA
*
4763211 TTTTTAAAA
1 TTTTGAAAA
4763220 AGAATTTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (19 bp):
TTTTGAAAACTAAAATGAA
Found at i:4775039 original size:2 final size:2
Alignment explanation
Indices: 4775034--4775067 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4775024 CACTCTCTCT
4775034 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
4775068 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:4791070 original size:23 final size:22
Alignment explanation
Indices: 4791039--4791088 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
4791029 TTTGAAAAAG
*
4791039 AATTTAAAACTTT-CAAAAATGAA
1 AATTGAAAACTTTGC-AAAA-GAA
*
4791062 AATTGAAAAGTTTGCAAAAGAA
1 AATTGAAAACTTTGCAAAAGAA
4791084 AATTG
1 AATTG
4791089 TGATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.33
23 15 0.62
24 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.28
Consensus pattern (22 bp):
AATTGAAAACTTTGCAAAAGAA
Found at i:4794704 original size:41 final size:41
Alignment explanation
Indices: 4794658--4794738 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
4794648 TATTAATTCG
* * *
4794658 TCAATTCAATCATGAAAACATGCAATAGTTTACCATTCAAT
1 TCAATTCAATCATGAAAACATGCAACACTTCACCATTCAAT
* *
4794699 TCAATTCAATCATGGAAGCATGCAACACTTCACCATTCAA
1 TCAATTCAATCATGAAAACATGCAACACTTCACCATTCAA
4794739 CTTGATTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (41 bp):
TCAATTCAATCATGAAAACATGCAACACTTCACCATTCAAT
Found at i:4794753 original size:41 final size:41
Alignment explanation
Indices: 4794680--4794894 Score: 279
Period size: 41 Copynumber: 5.2 Consensus size: 41
4794670 TGAAAACATG
* * * * * *
4794680 CAATAGTTTACCATTCAA-TTCAATTCAATCATGGAAGCATG
1 CAATAATTCACCATTCAACTT-GATTCGATCATGGTAGCATA
* * * * *
4794721 CAACACTTCACCATTCAACTTGATTTGGTCATGGTAGCATG
1 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATA
4794762 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATA
1 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATA
* * *
4794803 CAATAATTCACCATTCAAATTGATTCGATCATGGCATCATA
1 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATA
*
4794844 CAATAATTCACCATTCAACTTGATTTGATCATGGTAGCATA
1 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATA
4794885 CAATAATTCA
1 CAATAATTCA
4794895 AAAAATAATT
Statistics
Matches: 153, Mismatches: 20, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
41 151 0.99
42 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (41 bp):
CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATA
Found at i:4794915 original size:82 final size:81
Alignment explanation
Indices: 4794762--4794916 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 81
4794752 TGGTAGCATG
** * *
4794762 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCACCATTCAAATTGAT
1 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCAAAAAT-AAATTAAT
*
4794827 TCGATCATGGCATCATA
65 TAGATCATGGCATCATA
*
4794844 CAATAATTCACCATTCAACTTGATTTGATCATGGTAGCATACAATAATTCAAAAA-ATAATTCAA
1 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCAAAAATA-AATT-AA
4794908 TTAGATCAT
64 TTAGATCAT
4794917 AGAAACATGT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 4 0.06
82 60 0.92
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCAAAAATAAATTAATT
AGATCATGGCATCATA
Found at i:4801860 original size:41 final size:41
Alignment explanation
Indices: 4801810--4801983 Score: 226
Period size: 41 Copynumber: 4.2 Consensus size: 41
4801800 GACAACATGA
* * * *
4801810 AATACTTCACCATTCAACTTGATTCGGTCATGGTAGTATGC
1 AATAATTCACCATTCAACTTGATTCGATCATGGTAGCATAC
4801851 AATAATTCACCATTCAACTTGATTCGATCATGGTAGCATAC
1 AATAATTCACCATTCAACTTGATTCGATCATGGTAGCATAC
* * *
4801892 AATAATTCTCCATTCAA-TTGGATTCGATCATGGAAACATAC
1 AATAATTCACCATTCAACTT-GATTCGATCATGGTAGCATAC
* * *
4801933 AATAATTCACTATTCAACTTGATTCAATCATGG-GGTCATAC
1 AATAATTCACCATTCAACTTGATTCGATCATGGTAG-CATAC
4801974 AATAATTCAC
1 AATAATTCAC
4801984 AAACCAATTC
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 2 0.02
41 114 0.97
42 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (41 bp):
AATAATTCACCATTCAACTTGATTCGATCATGGTAGCATAC
Found at i:4802004 original size:82 final size:82
Alignment explanation
Indices: 4801850--4802027 Score: 205
Period size: 82 Copynumber: 2.2 Consensus size: 82
4801840 TGGTAGTATG
* * * * ** **
4801850 CAATAATTCACCATTCAACTTGATTCGATCATGGTAGCATACAATAATTCTCCATTCAATTGGAT
1 CAATAATTCACTATTCAACTTGATTCAATCATGGTAGCATACAATAATTCACAAACCAATTCAAT
* *
4801915 TCGATCATGGAAACATA
66 TAGATCATAGAAACATA
*
4801932 CAATAATTCACTATTCAACTTGATTCAATCATGG-GGTCATACAATAATTCACAAACCAATTCAA
1 CAATAATTCACTATTCAACTTGATTCAATCATGGTAG-CATACAATAATTCACAAACCAATTCAA
* *
4801996 TTATATCATAGAAACATG
65 TTAGATCATAGAAACATA
* *
4802014 TATTAATTCACTAT
1 CAATAATTCACTAT
4802028 CCAATTCAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
81 1 0.01
82 79 0.99
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (82 bp):
CAATAATTCACTATTCAACTTGATTCAATCATGGTAGCATACAATAATTCACAAACCAATTCAAT
TAGATCATAGAAACATA
Found at i:4806227 original size:2 final size:2
Alignment explanation
Indices: 4806216--4806249 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4806206 GCCTAAAATT
4806216 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4806250 TAATTATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4812351 original size:18 final size:19
Alignment explanation
Indices: 4812328--4812363 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4812318 ACTTGTCCTA
4812328 TTAAAAATAGA-AAATATT
1 TTAAAAATAGACAAATATT
*
4812346 TTAAAATTAGACAAATAT
1 TTAAAAATAGACAAATAT
4812364 GGATTCTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (19 bp):
TTAAAAATAGACAAATATT
Found at i:4815004 original size:2 final size:2
Alignment explanation
Indices: 4814997--4815050 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
4814987 ATATCTTGAA
* * *
4814997 AT AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4815039 AT AT AT AT AT AT
1 AT AT AT AT AT AT
4815051 GAAATGTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4824692 original size:15 final size:16
Alignment explanation
Indices: 4824667--4824706 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
4824657 CCATGAATCT
4824667 AAATAACTAATAAA-TA
1 AAATAA-TAATAAATTA
4824683 AAATAATAATAAATTA
1 AAATAATAATAAATTA
4824699 AAGATAAT
1 AA-ATAAT
4824707 TTTTTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.32
16 10 0.45
17 5 0.23
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (16 bp):
AAATAATAATAAATTA
Found at i:4829571 original size:21 final size:21
Alignment explanation
Indices: 4829545--4829600 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
4829535 TCAAAGGAAG
* *
4829545 AGTATCGGTACTCCCATCAAC
1 AGTATCGGTACTCCCATAAAA
4829566 AGTATCGGTACTCCCATAAAA
1 AGTATCGGTACTCCCATAAAA
*
4829587 AGTATCAGTACTCC
1 AGTATCGGTACTCC
4829601 TAATAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (21 bp):
AGTATCGGTACTCCCATAAAA
Found at i:4829608 original size:21 final size:21
Alignment explanation
Indices: 4829545--4829608 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
4829535 TCAAAGGAAG
* * * *
4829545 AGTATCGGTACTCCCATCAAC
1 AGTATCAGTACTCCAATAAAA
* *
4829566 AGTATCGGTACTCCCATAAAA
1 AGTATCAGTACTCCAATAAAA
4829587 AGTATCAGTACTCCTAATAAAA
1 AGTATCAGTACTCC-AATAAAA
4829609 TAACCCAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
21 32 0.84
22 6 0.16
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (21 bp):
AGTATCAGTACTCCAATAAAA
Found at i:4831710 original size:81 final size:81
Alignment explanation
Indices: 4831573--4831742 Score: 209
Period size: 81 Copynumber: 2.1 Consensus size: 81
4831563 TTGACCTTTC
** * * ** *
4831573 ATCTTTTACTCAACAGTGGTTAATTATTCATCTAATTGGCATAATTGAAAACTTTCTGCCAATTT
1 ATCTTTTACTCAACAGTGGTTAACCATTAATCTAACTAACATAATTGAAAACTTTCTGCCAATTG
* *
4831638 CACAGTTAGTCCA-TT
66 CACAGCTAGGCCATTT
* *
4831653 ATTCTTTTACTCAACAGTGTTTAACCATTAATCTAACTAACATAATT-AACACATTTCTGCCAAT
1 A-TCTTTTACTCAACAGTGGTTAACCATTAATCTAACTAACATAATTGAAAAC-TTTCTGCCAAT
4831717 TGCACAGCTAGGCCATTT
64 TGCACAGCTAGGCCATTT
4831735 ATCTTTTA
1 ATCTTTTA
4831743 TTTTGGACTA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
80 5 0.07
81 68 0.89
82 3 0.04
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (81 bp):
ATCTTTTACTCAACAGTGGTTAACCATTAATCTAACTAACATAATTGAAAACTTTCTGCCAATTG
CACAGCTAGGCCATTT
Found at i:4832224 original size:164 final size:164
Alignment explanation
Indices: 4831943--4832487 Score: 620
Period size: 164 Copynumber: 3.3 Consensus size: 164
4831933 ACTTAGTGCA
* * * * * *
4831943 TGTACGGTTATTCATCAAATAATGATGAATTTTGTGGATTTGCATACGTAGTGCCTGTACGGTTA
1 TGTACGGTTATTCATCAACTCATGATGAATTTCGTGGA-ATGCACACTTAGTGCCTGTACGGTTA
* * *
4832008 TTCATCAACTCATGATGAATTTCGTTGAATATACACTTAGTGCATGTACGGTTATTCATTAACTC
65 TTCATCAACTCATGATGAATTTCGTGGATTTTACACTTAGTGCATGTACGGTTATTCATTAACTC
**
4832073 ATGATGAATTCAATGGATTTTTACACATACTG-CC
130 ATGATGAATTCAATGGATTTGCACACATACTGTCC
* * *
4832107 TGTACGGTTATTCATCAACTCATGATGAATTACGTGGAATGCCCACTTAGTGCCTGTACGATTAT
1 TGTACGGTTATTCATCAACTCATGATGAATTTCGTGGAATGCACACTTAGTGCCTGTACGGTTAT
* * * *
4832172 TCATCAACTCGTGATGAATTCCGTGGATTTTCACACTTAGTGCTTCTACGGTTATTCATTAACTC
66 TCATCAACTCATGATGAATTTCGTGGATTTT-ACACTTAGTGCATGTACGGTTATTCATTAACTC
** * *
4832237 ATGATGAATTCCGTGGATTTGCACACTTAGTGTCC
130 ATGATGAATTCAATGGATTTGCACACATACTGTCC
* *
4832272 -GTACGGTTATTCATCAACTCGTGATCAATTTCGTGGAATGCACACTTAGTGCCTGTACGGTTAT
1 TGTACGGTTATTCATCAACTCATGATGAATTTCGTGGAATGCACACTTAGTGCCTGTACGGTTAT
* * * * *
4832336 TCATCGACTAATGATGAATTTCGTGGATTTGTACACTCTA-TGCCTGTATGGTTATTCATCAACT
66 TCATCAACTCATGATGAATTTCGTGGATTT-TACACT-TAGTGCATGTACGGTTATTCATTAACT
* * * *
4832400 CATGATGAATTTC-GTGGA-ATGCACAC-T-TTGTGCT
129 CATGATGAA-TTCAATGGATTTGCACACATACTGT-CC
* * * * *
4832434 TGTACGGTTATTTATCATCTAATGATGAA-TTCTGTGGATTTGCACTCTTAGTGC
1 TGTACGGTTATTCATCAACTCATGATGAATTTC-GTGGA-ATGCACACTTAGTGC
4832488 TTTTAATACA
Statistics
Matches: 327, Mismatches: 45, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
161 3 0.01
162 5 0.02
163 83 0.25
164 228 0.70
165 8 0.02
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (164 bp):
TGTACGGTTATTCATCAACTCATGATGAATTTCGTGGAATGCACACTTAGTGCCTGTACGGTTAT
TCATCAACTCATGATGAATTTCGTGGATTTTACACTTAGTGCATGTACGGTTATTCATTAACTCA
TGATGAATTCAATGGATTTGCACACATACTGTCC
Found at i:4832418 original size:273 final size:273
Alignment explanation
Indices: 4831928--4832489 Score: 770
Period size: 273 Copynumber: 2.1 Consensus size: 273
4831918 TTTTTTGGAA
* * ** *
4831928 TGCACACTTAGTGCATGTACGGTTATTCATCAAATAATGATGAATTTTGTGGATTTGCATACGTA
1 TGCACACTTAGTGCTTCTACGGTTATTCATCAAATAATGATGAATTCCGTGGATTTGCACACGTA
* * *
4831993 GTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTTGAATATACACTTAGTGCATGTACG
66 GTGCCTGTACGGTTATTCATCAACTCATGATCAATTTCGTGGAATACACACTTAGTGCATGTACG
* * *
4832058 GTTATTCATTAACTCATGATGAATTCAATGGATTTTTACACATACTGCCTGTACGGTTATTCATC
131 GTTATTCATCAACTAATGATGAATTCAATGGATTTGTACACATACTGCCTGTACGGTTATTCATC
* **
4832123 AACTCATGATGAATTACGTGGAATGCCCACTTAGTGCCTGTACGATTATTCATCAACTCGTGATG
196 AACTCATGATGAATTACGTGGAATGCACACTTAGTGCCTGTACGATTATTCATCAACTAATGATG
4832188 AATTCCGTGGATT
261 AATTCCGTGGATT
* * * * *
4832201 TTCACACTTAGTGCTTCTACGGTTATTCATTAACTCATGATGAATTCCGTGGATTTGCACACTTA
1 TGCACACTTAGTGCTTCTACGGTTATTCATCAAATAATGATGAATTCCGTGGATTTGCACACGTA
* * *
4832266 GTGTCC-GTACGGTTATTCATCAACTCGTGATCAATTTCGTGGAATGCACACTTAGTGCCTGTAC
66 GTG-CCTGTACGGTTATTCATCAACTCATGATCAATTTCGTGGAATACACACTTAGTGCATGTAC
* * * *
4832330 GGTTATTCATCGACTAATGATGAATTTC-GTGGATTTGTACACTCTA-TGCCTGTATGGTTATTC
130 GGTTATTCATCAACTAATGATGAA-TTCAATGGATTTGTACAC-ATACTGCCTGTACGGTTATTC
* * * * * *
4832393 ATCAACTCATGATGAATTTCGTGGAATGCACACTTTGTGCTTGTACGGTTATTTATCATCTAATG
193 ATCAACTCATGATGAATTACGTGGAATGCACACTTAGTGCCTGTACGATTATTCATCAACTAATG
*
4832458 ATGAATTCTGTGGATT
258 ATGAATTCCGTGGATT
*
4832474 TGCACTCTTAGTGCTT
1 TGCACACTTAGTGCTT
4832490 TTAATACACA
Statistics
Matches: 251, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
273 244 0.97
274 7 0.03
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (273 bp):
TGCACACTTAGTGCTTCTACGGTTATTCATCAAATAATGATGAATTCCGTGGATTTGCACACGTA
GTGCCTGTACGGTTATTCATCAACTCATGATCAATTTCGTGGAATACACACTTAGTGCATGTACG
GTTATTCATCAACTAATGATGAATTCAATGGATTTGTACACATACTGCCTGTACGGTTATTCATC
AACTCATGATGAATTACGTGGAATGCACACTTAGTGCCTGTACGATTATTCATCAACTAATGATG
AATTCCGTGGATT
Found at i:4832471 original size:109 final size:110
Alignment explanation
Indices: 4831928--4832487 Score: 629
Period size: 109 Copynumber: 5.1 Consensus size: 110
4831918 TTTTTTGGAA
* * * * * *
4831928 TGCACACTTAGTGCATGTACGGTTATTCATCAAATAATGATGAATTTTGTGGATTTGCATACGTA
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACTTA
* *
4831993 GTGCCTGTACGGTTATTCATCAACTCATGATGAATT-TCGTTGAATA
66 GTGCCTGTACGGTTATTCATCAACTCATGATGAATTCT-G-TGGATT
* * * ** *
4832039 T--ACACTTAGTGCATGTACGGTTATTCATTAACTCATGATGAA-TTCAATGGATTTTTACACAT
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTC-GTGGATTTGCACACTT
* *
4832101 ACTGCCTGTACGGTTATTCATCAACTCATGATGAATTAC-GTGGA-A
65 AGTGCCTGTACGGTTATTCATCAACTCATGATGAATT-CTGTGGATT
* * * * *
4832146 TGCCCACTTAGTGCCTGTACGATTATTCATCAACTCGTGATGAATTCCGTGGATTTTCACACTTA
1 TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACTTA
* * * *
4832211 GTGCTTCTACGGTTATTCATTAACTCATGATGAATTCCGTGGATT
66 GTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * *
4832256 TGCACACTTAGTGTCC-GTACGGTTATTCATCAACTCGTGATCAATTTCGTGGA-ATGCACACTT
1 TGCACACTTAGTG-CCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACTT
* *
4832319 AGTGCCTGTACGGTTATTCATCGACTAATGATGAATT-TCGTGGATT
65 AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCT-GTGGATT
* * *
4832365 TGTACACTCTA-TGCCTGTATGGTTATTCATCAACTCATGATGAATTTCGTGGA-ATGCACACTT
1 TGCACACT-TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACTT
* * * * *
4832428 TGTGCTTGTACGGTTATTTATCATCTAATGATGAATTCTGTGGATT
65 AGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
*
4832474 TGCACTCTTAGTGC
1 TGCACACTTAGTGC
4832488 TTTTAATACA
Statistics
Matches: 387, Mismatches: 48, Indels: 30
0.83 0.10 0.06
Matches are distributed among these distances:
107 2 0.01
108 10 0.03
109 321 0.83
110 51 0.13
111 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (110 bp):
TGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGGATTTGCACACTTA
GTGCCTGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
Found at i:4837441 original size:54 final size:53
Alignment explanation
Indices: 4837373--4838773 Score: 1117
Period size: 54 Copynumber: 25.9 Consensus size: 53
4837363 CATTTATTAA
* * *
4837373 GATGCACACGTAGTGTCTATACAG-TAGTTCATCAACTCATGATGAATTTCATGG
1 GATGCACACTTAGTG-CTGTACGGTTA-TTCATCAACTCATGATGAATTTCATGG
* * * *
4837427 GATGCACACTTAGTGAATGTACGGTTATTCATCAACCCATGATGAA-TTCCTTG
1 GATGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
*
4837480 GATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAA-TTC-TGAAG
1 GA--TGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATG--G
* * *
4837536 AATGTACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGT-G
1 GATGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
*
4837589 GATTTGCACACATAGTGCTTGTACGGTTATTCATCAACTCATGATGAA-TTC-TGTG
1 GA--TGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATG-G
* * * *
4837644 GAATGTACACTTAGTGCATGTACGATTATTCATCAACTCATGATAAATTCCAT-G
1 G-ATGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * *
4837698 GATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGCATTCCGTGG
1 GA--TGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* *
4837754 AATGCACACTTAGTGCATGTATGGTTATTCATCAACTCATGATGAA-TTCTAT-G
1 GATGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTC-ATGG
* ** *
4837807 AATTTGCACACTTAGTGCCTGTAAAGTTATTCATCAACTCATGATGTA-TTC-TGTG
1 GA--TGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATG-G
* * *
4837862 GAATACAAACTTAGTGCATGTATGGTTATTCATCAACTCATGATGAA-TT--T--
1 G-ATGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * ** * * *
4837912 -A--CACACTTAGTTCCTGCACATTTTTTCATCTACTCATGATTAA-TT-ATGTG
1 GATGCACACTTAG-TGCTGTACGGTTATTCATCAACTCATGATGAATTTCATG-G
* * *
4837962 GATTTGCACACTTAGTGCTTGTACGGCTATTCATCAACTTATGATGAATTTAATGG
1 GA--TGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * * * *
4838018 AATGCACACTTAGTGCCTATACGATTATTCATCAACTCATGATGAATTCCGT-G
1 GATGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * * *
4838071 TATTTACACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTTCGTGG
1 GA--TGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * * *
4838127 AATGCACACTTAGTTTCTGTATGGTTATTCATCAACTCATGATGAATTTCGT-G
1 GATGCACACTTAG-TGCTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* *
4838180 GATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGG
1 GA--TGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * *
4838236 AATGCACACTTATTGCATGTATGGTTATTCATCAACTCATGATGAA-TTC-TGTG
1 GATGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATG-G
* * * * *
4838289 GATTTGCACACATAGTGTCTGTAAGGTTATCCATAAACTCATGATGAATTTCGTGG
1 GA--TGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* *
4838345 AATGCACACTTAGTGCATGTACGGTTATTCATAAACTCATGATGAATTTCAT-G
1 GATGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * * **
4838398 GATTTGCACACTTAGTGCCTATA-GGTTATTAATCAACTCATGATGAATTTCGTAT
1 GA--TGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * * * * * * * * *
4838453 AATACATACTTACTGCATGTATGGTTATCCATCAACGCATGATAAATTACAT-T
1 GATGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * *
4838506 GATTTGCACACTTAGTGTATGTACAGTTATTCATCAACTCATGGTGAA-TTC-TGTG
1 GA--TGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCATG-G
* * *
4838561 TAATACACACTTAGCGCCTGTACGGTTATTCATCAACTCATGATGAA-TT-ATAGG
1 -GATGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATTTCAT-GG
* * *
4838615 GATTTGCATACTTAGTGCATGTACAGTTATTCATCAACTCGTGATGAA-TTCTAT-G
1 GA--TGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTC-ATGG
* ** * * *
4838670 GATTTGCACACTTAGTGCTTATACAATTATTCATCTACTCATGATGAATTCCTTGG
1 GA--TGCACACTTAGTGC-TGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* **
4838726 TATGCACACTTAGTGCCTGTACAATTATTCATCAACTCATGATGAATT
1 GATGCACACTTAGTG-CTGTACGGTTATTCATCAACTCATGATGAATT
4838774 CTGTGGATTT
Statistics
Matches: 1111, Mismatches: 153, Indels: 166
0.78 0.11 0.12
Matches are distributed among these distances:
46 32 0.03
47 3 0.00
48 1 0.00
51 1 0.00
52 3 0.00
53 49 0.04
54 513 0.46
55 472 0.42
56 30 0.03
57 7 0.01
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (53 bp):
GATGCACACTTAGTGCTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
Found at i:4837566 original size:109 final size:106
Alignment explanation
Indices: 4837400--4838801 Score: 1310
Period size: 109 Copynumber: 12.9 Consensus size: 106
4837390 TATACAGTAG
* * *
4837400 TTCATCAACTCATGATGAATTTCATGGGATGCACACTTAGTGAATGTACGGTTATTCATCAACCC
1 TTCATCAACTCATGATGAA-TTC-TGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
*
4837465 ATGATGAATTCCTTGGATTTGCACACATAGTGCATGTACGGTTA
64 ATGATGAATT-CTTGGATTTGCACACTTAGTGCATGTACGGTTA
* *
4837509 TTCATCAACTCATGATGAATTCTGAAGAATGTACACTTAGTGCCTGTACGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCTG--GAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
* * *
4837574 ATGATGAATTTCGTGGATTTGCACACATAGTGCTTGTACGGTTA
64 ATGATGAA-TTCTTGGATTTGCACACTTAGTGCATGTACGGTTA
* *
4837618 TTCATCAACTCATGATGAATTCTGTGGAATGTACACTTAGTGCATGTACGATTATTCATCAACTC
1 TTCATCAACTCATGATGAATTC--TGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
* * *
4837683 ATGATAAATTCCATGGATTTGCACACTTAGTGCCTGTACGGTTA
64 ATGATGAATT-CTTGGATTTGCACACTTAGTGCATGTACGGTTA
* *
4837727 TTCATCAACTCATGATGCATTCCGTGGAATGCACACTTAGTGCATGTATGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATT-C-TGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
* * **
4837792 ATGATGAATTCTATGAATTTGCACACTTAGTGCCTGTAAAGTTA
64 ATGATGAATTCT-TGGATTTGCACACTTAGTGCATGTACGGTTA
* * * *
4837836 TTCATCAACTCATGATGTATTCTGTGGAATACAAACTTAGTGCATGTATGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTC--TGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
* * * ** *
4837901 ATGATGAA-T-TT--A----CACACTTAGTTCCTGCACATTTT
64 ATGATGAATTCTTGGATTTGCACACTTAGTGCATGTACGGTTA
* * * * * *
4837936 TTCATCTACTCATGATTAATTATGTGGATTTGCACACTTAGTGCTTGTACGGCTATTCATCAACT
1 TTCATCAACTCATGATGAA-T-TCTGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
* * * * *
4838001 TATGATGAATT-TAATGGA-ATGCACACTTAGTGCCTATACGATTA
63 CATGATGAATTCT--TGGATTTGCACACTTAGTGCATGTACGGTTA
* * * *
4838045 TTCATCAACTCATGATGAATTCCGTGTATTTACACACATAGTGCATGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATT-C-TGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
* * * *
4838110 CATGATGAATTTCGTGGA-ATGCACACTTAGTTTC-TGTATGGTTA
63 CATGATGAA-TTCTTGGATTTGCACACTTAG-TGCATGTACGGTTA
* *
4838154 TTCATCAACTCATGATGAATTTCGTGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAA-TTC-TGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
* * * *
4838219 CATGATGAATTCCGTGGA-ATGCACACTTATTGCATGTATGGTTA
63 CATGATGAATT-CTTGGATTTGCACACTTAGTGCATGTACGGTTA
* * * * *
4838263 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGTC-TGTAAGGTTATCCATAAAC
1 TTCATCAACTCATGATGAATTC--TGGA-ATGCACACTTAGTG-CATGTACGGTTATTCATCAAC
* *
4838327 TCATGATGAATTTCGTGGA-ATGCACACTTAGTGCATGTACGGTTA
62 TCATGATGAA-TTCTTGGATTTGCACACTTAGTGCATGTACGGTTA
* * * * *
4838372 TTCATAAACTCATGATGAATTTCATGGATTTGCACACTTAGTGCCTATA-GGTTATTAATCAACT
1 TTCATCAACTCATGATGAA-TTC-TGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
* * * * * * *
4838436 CATGATGAATT-TCGTATAATACATACTTACTGCATGTATGGTTA
63 CATGATGAATTCTTGGAT-TTGCACACTTAGTGCATGTACGGTTA
* * * * * * *
4838480 TCCATCAACGCATGATAAATTACATTGATTTGCACACTTAGTGTATGTACAGTTATTCATCAACT
1 TTCATCAACTCATGATGAATT-C-TGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
* * * * * *
4838545 CATGGTGAATTCTGTGTA-ATACACACTTAGCGCCTGTACGGTTA
63 CATGATGAATTCT-TGGATTTGCACACTTAGTGCATGTACGGTTA
* * * *
4838589 TTCATCAACTCATGATGAATTATAGGGATTTGCATACTTAGTGCATGTACAGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCT--GGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
* * * **
4838654 CGTGATGAATTCTATGGATTTGCACACTTAGTGCTTATACAATTA
63 CATGATGAATTCT-TGGATTTGCACACTTAGTGCATGTACGGTTA
* * * **
4838699 TTCATCTACTCATGATGAATTCCTTGGTATGCACACTTAGTGCCTGTACAATTATTCATCAACTC
1 TTCATCAACTCATGATGAATT-C-TGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
* * *
4838764 ATGATGAATTCTGTGGATTTTCATACTTAGTGCCTGTA
64 ATGATGAATTCT-TGGATTTGCACACTTAGTGCATGTA
4838802 GTACAGATGT
Statistics
Matches: 1114, Mismatches: 135, Indels: 88
0.83 0.10 0.07
Matches are distributed among these distances:
100 38 0.03
101 39 0.04
102 3 0.00
104 2 0.00
106 4 0.00
107 9 0.01
108 98 0.09
109 858 0.77
110 57 0.05
111 5 0.00
112 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (106 bp):
TTCATCAACTCATGATGAATTCTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTCAT
GATGAATTCTTGGATTTGCACACTTAGTGCATGTACGGTTA
Found at i:4837765 original size:218 final size:218
Alignment explanation
Indices: 4837400--4838801 Score: 1508
Period size: 218 Copynumber: 6.5 Consensus size: 218
4837390 TATACAGTAG
*
4837400 TTCATCAACTCATGATGAATTTCATG-GG-ATGCACACTTAGTGAATGTACGGTTATTCATCAAC
1 TTCATCAACTCATGATGAA-TTC-TGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAAC
* * * * *
4837463 CCATGATGAATTCCTTGGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAA
64 TCATGATGAATTCCGTGGA-ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAA
* * *
4837528 -TTC-TGAAGA-ATGTACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCGTGG
128 TTTCGTG--GATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGG
* * *
4837590 ATTTGCACACATAGTGCTTGTACGGTTA
191 ATATGCACACTTAGTGCATGTACGGTTA
* *
4837618 TTCATCAACTCATGATGAATTCTGTGGAATGTACACTTAGTGCATGTACGATTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
* * * *
4837683 ATGATAAATTCCATGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGCATT
66 ATGATGAATTCCGTGGA-ATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATT
* * * * * *
4837748 CCGTGGA-ATGCACACTTAGTGCATGTATGGTTATTCATCAACTCATGATGAA-TTCTATGAATT
130 TCGTGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTC-ATGGATA
* **
4837811 TGCACACTTAGTGCCTGTAAAGTTA
194 TGCACACTTAGTGCATGTACGGTTA
* * * *
4837836 TTCATCAACTCATGATGTATTCTGTGGAATACAAACTTAGTGCATGTATGGTTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
* * ** * * *
4837901 ATGATGAATT---T---A--CACACTTAGTTCCTGCACATTTTTTCATCTACTCATGATTAATTA
66 ATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATT-
* * * *
4837958 T-GTGGATTTGCACACTTAGTGCTTGTACGGCTATTCATCAACTTATGATGAATTTAATGGA-AT
130 TCGTGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGATAT
* * *
4838021 GCACACTTAGTGCCTATACGATTA
195 GCACACTTAGTGCATGTACGGTTA
* * * * *
4838045 TTCATCAACTCATGATGAATTCCGTGTATTTACACACATAGTGCATGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCTGTGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAACT
* ** *
4838110 CATGATGAATTTCGTGGAATGCACACTTAGTTTCTGTATGGTTATTCATCAACTCATGATGAATT
65 CATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATT
* *
4838175 TCGTGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGA-AT
130 TCGTGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGATAT
* *
4838239 GCACACTTATTGCATGTATGGTTA
195 GCACACTTAGTGCATGTACGGTTA
* * * * *
4838263 TTCATCAACTCATGATGAATTCTGTGGATTTGCACACATAGTGTC-TGTAAGGTTATCCATAAAC
1 TTCATCAACTCATGATGAATTCTGTGGA-ATGCACACTTAGTG-CATGTACGGTTATTCATCAAC
* * *
4838327 TCATGATGAATTTCGTGGAATGCACACTTAGTGCATGTACGGTTATTCATAAACTCATGATGAAT
64 TCATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAAT
* * * *
4838392 TTCATGGATTTGCACACTTAGTGCCTATA-GGTTATTAATCAACTCATGATGAATTTC--GTATA
129 TTCGTGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGAT-
* * * *
4838454 ATACATACTTACTGCATGTATGGTTA
193 ATGCACACTTAGTGCATGTACGGTTA
* * * * * *
4838480 TCCATCAACGCATGATAAATTACAT-T-GATTTGCACACTTAGTGTATGTACAGTTATTCATCAA
1 TTCATCAACTCATGATGAATT-C-TGTGGA-ATGCACACTTAGTGCATGTACGGTTATTCATCAA
* * * * *
4838543 CTCATGGTGAATTCTGTGTAATACACACTTAGCGCCTGTACGGTTATTCATCAACTCATGATGAA
63 CTCATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAA
* * * * *
4838608 TTATAG-GGATTTGCATACTTAGTGCATGTACAGTTATTCATCAACTCGTGATGAA-TTCTATGG
128 TT-TCGTGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTC-ATGG
* * * **
4838671 ATTTGCACACTTAGTGCTTATACAATTA
191 ATATGCACACTTAGTGCATGTACGGTTA
* * * **
4838699 TTCATCTACTCATGATGAATTCCT-TGGTATGCACACTTAGTGCCTGTACAATTATTCATCAACT
1 TTCATCAACTCATGATGAATT-CTGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACT
* * * *
4838763 CATGATGAATTCTGTGGATTTTCATACTTAGTGCCTGTA
65 CATGATGAATTCCGTGGA-ATGCACACTTAGTGCCTGTA
4838802 GTACAGATGT
Statistics
Matches: 1009, Mismatches: 144, Indels: 61
0.83 0.12 0.05
Matches are distributed among these distances:
209 87 0.09
210 87 0.09
211 2 0.00
213 1 0.00
215 3 0.00
216 3 0.00
217 189 0.19
218 576 0.57
219 56 0.06
220 5 0.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (218 bp):
TTCATCAACTCATGATGAATTCTGTGGAATGCACACTTAGTGCATGTACGGTTATTCATCAACTC
ATGATGAATTCCGTGGAATGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTT
CGTGGATTTGCACACTTAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGATATG
CACACTTAGTGCATGTACGGTTA
Found at i:4849296 original size:95 final size:95
Alignment explanation
Indices: 4849174--4849351 Score: 275
Period size: 95 Copynumber: 1.9 Consensus size: 95
4849164 TACATGGTGT
**
4849174 CGATAACCCCTTCTAGTATCGATACCAATTTTAGGTTCGATGTTACCTCGTATCGATACCCTTAC
1 CGATAACCCCTTCTAGTATCGATACCAATTTTACATTCGATGTTACCTCGTATCGATACCCTTAC
4849239 CATGGTATCGATACTACCATTCTATGGTAC
66 CATGGTATCGATACTACCATTCTATGGTAC
* * * * * * *
4849269 CGATACCCCCTTCTCGTATCGATACCAATTTTACATTCGATGTTGCTTGGTATCGATACCTTTAT
1 CGATAACCCCTTCTAGTATCGATACCAATTTTACATTCGATGTTACCTCGTATCGATACCCTTAC
4849334 CATGGTATCGATACTACC
66 CATGGTATCGATACTACC
4849352 TCGTCAATAT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (95 bp):
CGATAACCCCTTCTAGTATCGATACCAATTTTACATTCGATGTTACCTCGTATCGATACCCTTAC
CATGGTATCGATACTACCATTCTATGGTAC
Found at i:4849587 original size:20 final size:20
Alignment explanation
Indices: 4849562--4849608 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
4849552 TTAACTTATT
*
4849562 AGAACATCTAAAATGTTCCA
1 AGAACATCTAAAATGTTACA
4849582 AGAACATCTAAAATGTTACA
1 AGAACATCTAAAATGTTACA
4849602 AGAACAT
1 AGAACAT
4849609 TCAAATCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (20 bp):
AGAACATCTAAAATGTTACA
Found at i:4854695 original size:13 final size:13
Alignment explanation
Indices: 4854677--4854706 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4854667 AATGACATGC
*
4854677 AATGTAAGTCGTA
1 AATGTAAGTCATA
4854690 AATGTAAGTCATA
1 AATGTAAGTCATA
4854703 AATG
1 AATG
4854707 CATGTCAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (13 bp):
AATGTAAGTCATA
Found at i:4854811 original size:13 final size:13
Alignment explanation
Indices: 4854775--4854845 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
4854765 AATGACGCGC
*
4854775 AATGCGCGTCATA
1 AATGCGTGTCATA
** *
4854788 AATAAGCGTCATA
1 AATGCGTGTCATA
4854801 AATGCGTGTCATA
1 AATGCGTGTCATA
**
4854814 AATGTTTGTCATA
1 AATGCGTGTCATA
4854827 AATGTC-TGTCATA
1 AATG-CGTGTCATA
4854840 AATGCG
1 AATGCG
4854846 CGCTATAGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 1 0.02
13 47 0.98
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:4857315 original size:29 final size:29
Alignment explanation
Indices: 4857251--4857318 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
4857241 CACAGCTAGT
* ** *
4857251 CCATTAATCTTTTACTCAACAGTGTTTGA
1 CCATTCATCTTTTACTCAACAGTGAATAA
*
4857280 CCTTTCATCTTTTACTCAACAGTGAATAA
1 CCATTCATCTTTTACTCAACAGTGAATAA
4857309 CCATTCATCT
1 CCATTCATCT
4857319 AACTAGCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (29 bp):
CCATTCATCTTTTACTCAACAGTGAATAA
Found at i:4857423 original size:81 final size:81
Alignment explanation
Indices: 4857286--4857455 Score: 204
Period size: 81 Copynumber: 2.1 Consensus size: 81
4857276 TTGACCTTTC
* **
4857286 ATCTTTTACTCAACAGTGAATAACCATTCATCTAACTAGCATAATTGAAATTTTTCTGCCAATTG
1 ATCTTTTACTCAACAGTGAATAACCATTAATCTAACTAGCATAATTGAAACATTTCTGCCAATTG
* *
4857351 CACAGTTAGTCTA-TT
66 CACAGCTAGTCCATTT
* * *
4857366 ACTCTTTTACTCAACAGTG-TTAAACCGTTAATCTAACT-GACATAATT-AACACATTTCTTCCA
1 A-TCTTTTACTCAACAGTGAAT-AACCATTAATCTAACTAG-CATAATTGAA-ACATTTCTGCCA
4857428 ATTGCACAGCTAGTCCATTT
62 ATTGCACAGCTAGTCCATTT
4857448 ATCTTTTA
1 ATCTTTTA
4857456 TTTTGGACTA
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
80 5 0.06
81 69 0.90
82 3 0.04
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
ATCTTTTACTCAACAGTGAATAACCATTAATCTAACTAGCATAATTGAAACATTTCTGCCAATTG
CACAGCTAGTCCATTT
Found at i:4862952 original size:3 final size:3
Alignment explanation
Indices: 4862930--4862970 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
4862920 TTAGTGAGGC
*
4862930 ATA ATCA ATA ATA CAAA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
4862971 CAAAACATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 29 0.85
4 5 0.15
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:4865092 original size:51 final size:51
Alignment explanation
Indices: 4865026--4865129 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
4865016 AATAAATTAG
4865026 TTACCCTAACATATTAGGGATTTTAAGTTATTTCGAATTAATTAAAAAATA
1 TTACCCTAACATATTAGGGATTTTAAGTTATTTCGAATTAATTAAAAAATA
4865077 TTACCCTAACATATTAGGGATTTTAAGTTATTTCGAATTAATTAAAAAATA
1 TTACCCTAACATATTAGGGATTTTAAGTTATTTCGAATTAATTAAAAAATA
4865128 TT
1 TT
4865130 TATTTAATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (51 bp):
TTACCCTAACATATTAGGGATTTTAAGTTATTTCGAATTAATTAAAAAATA
Found at i:4867021 original size:183 final size:185
Alignment explanation
Indices: 4866794--4867226 Score: 436
Period size: 183 Copynumber: 2.3 Consensus size: 185
4866784 TTTTATTTCA
* * * *
4866794 TGACAAAATAAATTTTACATAATTTCTTATTTTGACTCAATTTAATATGTTATTGTGACTAAATA
1 TGACTAAATAAATTTGA-AAAATTTCTTATTTTGACTAAATTTAATATGTTATTGTGACTAAATA
* * * **
4866859 TTTTTTATAATTTTATTACTGTGAAGGAATATTATTTTTCAT-AA-TTATATATT-A-AAAATAA
65 TTTGTTACAATTTGA-TACTGT-AAAAAATATTATTTTTCATAAATTTATATATTGAGAAAATAA
*** * * * ** * *
4866920 TATTTGTTATAAATTGTTATTTTGATTAATTTATC-AA-AATTTATTTTGA-AAAAATAG
128 TATAAATTAT-AATTATGA-CTAAATAAATTTATCTAATAATTTATTATGAGAAAAATAG
* *
4866977 TGACTAAATAAATTTGATAAAATTTCTTATTTTGACTAAATTTAATATGTTTTTGTGAGT-AA-A
1 TGACTAAATAAATTTGA-AAAATTTCTTATTTTGACTAAATTTAATATGTTATTGTGACTAAATA
* * *
4867040 TTTGTTACAATTTGATATTGTAAAAAATATTATTTTTCATAAATTTTTATATTGAGAAATTAATA
65 TTTGTTACAATTTGATACTGTAAAAAATATTATTTTTCATAAATTTATATATTGAGAAAATAATA
* * ** *
4867105 TAAATTATTATTATGACTAAATAAATTTGTCTTAATTTTTTTATTATGAGAAAAATTG
130 TAAATTATAATTATGACTAAATAAATTTATC-TAA-TAATTTATTATGAGAAAAATAG
* *
4867163 T-ACCTAAATAAATTTGAAATATTTTTTATTTTGACTAAATTTAATATGTTATTGTGACTAAATA
1 TGA-CTAAATAAATTTGAAAAATTTCTTATTTTGACTAAATTTAATATGTTATTGTGACTAAATA
4867227 AATTTATCAT
Statistics
Matches: 204, Mismatches: 34, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
179 17 0.08
180 7 0.03
181 31 0.15
182 8 0.04
183 68 0.33
185 48 0.24
186 24 0.12
187 1 0.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (185 bp):
TGACTAAATAAATTTGAAAAATTTCTTATTTTGACTAAATTTAATATGTTATTGTGACTAAATAT
TTGTTACAATTTGATACTGTAAAAAATATTATTTTTCATAAATTTATATATTGAGAAAATAATAT
AAATTATAATTATGACTAAATAAATTTATCTAATAATTTATTATGAGAAAAATAG
Found at i:4868384 original size:20 final size:20
Alignment explanation
Indices: 4868359--4868399 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4868349 TTCATTATGC
4868359 AGTTCACAATATACATTCAT
1 AGTTCACAATATACATTCAT
4868379 AGTTCACAATATACATTCAT
1 AGTTCACAATATACATTCAT
4868399 A
1 A
4868400 AAATAACAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (20 bp):
AGTTCACAATATACATTCAT
Found at i:4870378 original size:16 final size:16
Alignment explanation
Indices: 4870357--4870407 Score: 93
Period size: 16 Copynumber: 3.2 Consensus size: 16
4870347 ATTTTCGATA
4870357 AGCTTAACGAGCATCG
1 AGCTTAACGAGCATCG
4870373 AGCTTAACGAGCATCG
1 AGCTTAACGAGCATCG
*
4870389 AGCTTAACGAGCAACG
1 AGCTTAACGAGCATCG
4870405 AGC
1 AGC
4870408 CGAGTAACAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (16 bp):
AGCTTAACGAGCATCG
Found at i:4870460 original size:58 final size:57
Alignment explanation
Indices: 4870392--4870501 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 57
4870382 AGCATCGAGC
* * *
4870392 TTAACGAGCAACGAGCCGAGTAACAAATTTTTTTAACGAGCATGAGTCGAGCAAAAAT
1 TTAACGAGCAACGAGCCGAGCAACAAA-TTTTTTAACGAACACGAGTCGAGCAAAAAT
* *
4870450 TTAACGAGCAACGAGTCGAGCAATAAATTTTTTAACGAACACGAGTCGAGCA
1 TTAACGAGCAACGAGCCGAGCAACAAATTTTTTAACGAACACGAGTCGAGCA
4870502 TTGTTCAACT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 23 0.49
58 24 0.51
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (57 bp):
TTAACGAGCAACGAGCCGAGCAACAAATTTTTTAACGAACACGAGTCGAGCAAAAAT
Found at i:4870472 original size:27 final size:28
Alignment explanation
Indices: 4870422--4870501 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 28
4870412 TAACAAATTT
*
4870422 TTTTAACGAGCATGAGTCGAGCAA-AAA
1 TTTTAACGAGCACGAGTCGAGCAATAAA
4870449 -TTTAACGAGCAACGAGTCGAGCAATAAA
1 TTTTAACGAGC-ACGAGTCGAGCAATAAA
*
4870477 TTTTTTAACGAACACGAGTCGAGCA
1 --TTTTAACGAGCACGAGTCGAGCA
4870502 TTGTTCAACT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
26 10 0.22
27 12 0.26
28 3 0.07
30 12 0.26
31 9 0.20
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (28 bp):
TTTTAACGAGCACGAGTCGAGCAATAAA
Found at i:4870496 original size:30 final size:30
Alignment explanation
Indices: 4870392--4870501 Score: 122
Period size: 31 Copynumber: 3.7 Consensus size: 30
4870382 AGCATCGAGC
* *
4870392 TTAACGAGCAACGAGCCGAGTAACAAATTTTT
1 TTAACGAGCAACGAGTCGAGCAA-AAA-TTTT
*
4870424 TTAACGAGC-ATGAGTCGAGCAAAAA---T
1 TTAACGAGCAACGAGTCGAGCAAAAATTTT
4870450 TTAACGAGCAACGAGTCGAGCAATAAATTTT
1 TTAACGAGCAACGAGTCGAGCAA-AAATTTT
*
4870481 TTAACGAAC-ACGAGTCGAGCA
1 TTAACGAGCAACGAGTCGAGCA
4870502 TTGTTCAACT
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
26 10 0.15
27 12 0.18
28 3 0.04
30 15 0.22
31 19 0.28
32 9 0.13
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (30 bp):
TTAACGAGCAACGAGTCGAGCAAAAATTTT
Found at i:4870991 original size:64 final size:64
Alignment explanation
Indices: 4870912--4871041 Score: 233
Period size: 64 Copynumber: 2.0 Consensus size: 64
4870902 TATGTTATAT
4870912 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
* * *
4870976 TATTTAACCGGAAATATTATCAAGTATAATAACATATTAGGTAGCGCTTATATAATATAATAGG
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
4871040 TA
1 TA
4871042 GCGCTTATAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (64 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATAAAATAGG
Found at i:4871050 original size:21 final size:23
Alignment explanation
Indices: 4871004--4871051 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4870994 ATCAAGTATA
*
4871004 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
4871027 ATAATATAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
4871050 AT
1 AT
4871052 TGACCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:4871499 original size:182 final size:181
Alignment explanation
Indices: 4871187--4872208 Score: 1712
Period size: 182 Copynumber: 5.6 Consensus size: 181
4871177 TGTGTTCACC
** *
4871187 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
* *
4871252 TCTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAAATGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
4871316 ATACTTATAATAAATTATCGACACTTTCAACATATCTGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATATC-GGTAGCGCTTTACCTG
*
4871369 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
*
4871434 TTTATAAAGTATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
4871499 TACTTATAATAAATTATCGACACTTTCAACATAATCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACAT-ATCGGTAGCGCTTTACCTG
* *
4871551 TTTTGTCATTTCGAGACTGGTTTTGTCATATTATTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
4871616 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
4871681 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACAT-ATCGGTAGCGCTTTACCTG
* * *
4871733 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATGTTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
*
4871798 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
* *
4871860 ATACTTATAATAAATTATCGACACTTTCAACATAACCGATAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACAT-ATCGGTAGCGCTTTACCTG
* * *
4871913 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACAGT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
*
4871978 TTTATAAAGCATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
4872042 TACGTATAATAAATTATCGACACTTTCAACATAATCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACAT-ATCGGTAGCGCTTTACCTG
* * *
4872094 TTTTGTCATTTTGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
* *
4872159 TTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCTCTTTTAAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAA
4872209 AAAGGTAAAA
Statistics
Matches: 800, Mismatches: 33, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
178 2 0.00
179 19 0.02
180 152 0.19
181 149 0.19
182 473 0.59
183 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (181 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTATTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATATCGGTAGCGCTTTACCTG
Found at i:4872527 original size:20 final size:19
Alignment explanation
Indices: 4872481--4872527 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
4872471 TCCGGTATCA
*
4872481 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
4872500 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
4872521 TTTTACC
1 TTTTACC
4872528 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:4872786 original size:181 final size:181
Alignment explanation
Indices: 4872448--4872921 Score: 680
Period size: 182 Copynumber: 2.6 Consensus size: 181
4872438 CGTACTTACG
* * * * *
4872448 AAAGTATCGACCCTTTTAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGATTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTCGATACCG-TTT
*
4872513 TATCATATTTTTACCTGTTATATCGTTGTTTGATCGATACATTTTTTTAAAGTATCGACACTTTA
65 TATCATATTTTTACCTGTTATATCGTTG-TTGATCGATACATTTTTTGAAAGTATCGACACTTTA
* *
4872578 TAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
129 TAAGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * * * *
4872630 AAAGTTTCGACACTTTCAATATATCCTGTAGCGTTTTACCGGTTTCATCATTTGGATACCAGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTCGATACC-GTTT
*
4872695 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTAT
65 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTAT
**
4872760 AAGCGCTAAAACTGCTTCTCTTTTAAATTAATGAAGTGTCGATCCTTATATT
130 AAGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * * *
4872812 AAAGTACCGACACTTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTCGATAC-CGTTT
* * *
4872877 TGTCATAGTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
65 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTT
4872922 AATTTGGATC
Statistics
Matches: 260, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
181 81 0.31
182 178 0.68
183 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTCGATACCGTTTT
ATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTGAAAGTATCGACACTTTATA
AGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:4873300 original size:20 final size:21
Alignment explanation
Indices: 4873275--4873314 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4873265 TGTAAAAAAT
4873275 TCAATTTTAAT-AATATTTTA
1 TCAATTTTAATAAATATTTTA
*
4873295 TCAATTTTATTAAATATTTT
1 TCAATTTTAATAAATATTTT
4873315 TTTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TCAATTTTAATAAATATTTTA
Found at i:4873323 original size:28 final size:31
Alignment explanation
Indices: 4873291--4873360 Score: 76
Period size: 32 Copynumber: 2.3 Consensus size: 31
4873281 TTAATAATAT
*
4873291 TTTATCAATT-TTAT-TAAA-TAT-TTTTTTA
1 TTTAT-AATTATTATCTAAATTATATTCTTTA
*
4873319 TTTATTTATTATTATCTAAATTATATTCTTTA
1 TTTA-TAATTATTATCTAAATTATATTCTTTA
4873351 TTTATAATTA
1 TTTATAATTA
4873361 AATTTCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 7 0.21
29 5 0.15
30 4 0.12
31 8 0.24
32 10 0.29
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTATAATTATTATCTAAATTATATTCTTTA
Found at i:4876539 original size:25 final size:25
Alignment explanation
Indices: 4876511--4876572 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
4876501 TAACCAACCA
*
4876511 TTGACCGTTGACTGTTTACAGACAG
1 TTGATCGTTGACTGTTTACAGACAG
4876536 TTGATCGTTGACTGTTTACAGACAG
1 TTGATCGTTGACTGTTTACAGACAG
4876561 TTGATCGTTGAC
1 TTGATCGTTGAC
4876573 CGTTGAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (25 bp):
TTGATCGTTGACTGTTTACAGACAG
Found at i:4877884 original size:2 final size:2
Alignment explanation
Indices: 4877877--4877906 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4877867 ACATTTTCTG
4877877 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4877907 GTTTATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4882505 original size:14 final size:14
Alignment explanation
Indices: 4882486--4882526 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
4882476 CCGACCATTT
4882486 ACCATTGACTGTTG
1 ACCATTGACTGTTG
*
4882500 ACCATTGACCGTTG
1 ACCATTGACTGTTG
*
4882514 ATCATTGACTGTT
1 ACCATTGACTGTT
4882527 AACTGACCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (14 bp):
ACCATTGACTGTTG
Found at i:4883354 original size:39 final size:39
Alignment explanation
Indices: 4883289--4883438 Score: 210
Period size: 39 Copynumber: 3.8 Consensus size: 39
4883279 CCTTACTATT
* *
4883289 TACCGAAGGCTCCTCGGCTTTGTGCTCAGGGTAAATCCA
1 TACCGCAGGCTCCTCGACTTTGTGCTCAGGGTAAATCCA
* * *
4883328 TACTGCAGGCTCCTCGACTTTTTGCTCAGGGTAAATCTA
1 TACCGCAGGCTCCTCGACTTTGTGCTCAGGGTAAATCCA
* * *
4883367 TACCGTAGGCTCCTCGACTTTGTGCTCAGGTTTAATCCA
1 TACCGCAGGCTCCTCGACTTTGTGCTCAGGGTAAATCCA
* *
4883406 TACCGCATGCTCCTCGACTTTGTGCTTAGGGTA
1 TACCGCAGGCTCCTCGACTTTGTGCTCAGGGTA
4883439 TGTCCTTACT
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (39 bp):
TACCGCAGGCTCCTCGACTTTGTGCTCAGGGTAAATCCA
Found at i:4883496 original size:117 final size:117
Alignment explanation
Indices: 4883297--4883513 Score: 253
Period size: 117 Copynumber: 1.9 Consensus size: 117
4883287 TTTACCGAAG
* * * * *
4883297 GCTCCTCGGCTTTGTGCTCAGGGTAAATCCATACTGCAGGCTCCTCGACTTTTTGCTCAGGGTAA
1 GCTCCTCGACTTTGTGCTCAGGGTAAATCCATACTACAGACTCCTCGACTTTGTGCTCAGGATAA
* * *
4883362 ATCTATACCGTAGGCTCCTC-GACTTTGTGCTCAGGTTTAATCCATACCGCAT
66 AGCTATACCGCAGGCTCCTCTG-CTTTGTGCACAGGTTTAATCCATACCGCAT
* ** *
4883414 GCTCCTCGACTTTGTGCTTAGGGTATGTCCTTACTACAGACTCCTCTG-CTTTGTGCAT-AGGAT
1 GCTCCTCGACTTTGTGCTCAGGGTAAATCCATACTACAGACTCCTC-GACTTTGTGC-TCAGGAT
*
4883477 AAGAGCT-TACCGCATGCTCCTCTGCTTTGTGCACAGG
64 AA-AGCTATACCGCAGGCTCCTCTGCTTTGTGCACAGG
4883514 GTAAGCCCTT
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
117 77 0.93
118 6 0.07
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.32
Consensus pattern (117 bp):
GCTCCTCGACTTTGTGCTCAGGGTAAATCCATACTACAGACTCCTCGACTTTGTGCTCAGGATAA
AGCTATACCGCAGGCTCCTCTGCTTTGTGCACAGGTTTAATCCATACCGCAT
Found at i:4883525 original size:39 final size:39
Alignment explanation
Indices: 4883288--4883525 Score: 198
Period size: 39 Copynumber: 6.1 Consensus size: 39
4883278 ACCTTACTAT
* * *
4883288 TTACCGAAGGCTCCTCGGCTTTGTGCTCAGGGTAAATCC
1 TTACCGCAGGCTCCTCGACTTTGTGCTCAGGGTAAGTCC
* * * *
4883327 ATACTGCAGGCTCCTCGACTTTTTGCTCAGGGTAAAT-C
1 TTACCGCAGGCTCCTCGACTTTGTGCTCAGGGTAAGTCC
* *
4883365 TATACCGTAGGCTCCTCGACTTTGTGCTCAGGTTTAA-TCC
1 T-TACCGCAGGCTCCTCGACTTTGTGCTCAGG-GTAAGTCC
* * * *
4883405 ATACCGCATGCTCCTCGACTTTGTGCTTAGGGTATGTCC
1 TTACCGCAGGCTCCTCGACTTTGTGCTCAGGGTAAGTCC
** * * **
4883444 TTACTACAGACTCCTCTG-CTTTGTGCAT-AGGATAAGAGC
1 TTACCGCAGGCTCCTC-GACTTTGTGC-TCAGGGTAAGTCC
* * *
4883483 TTACCGCATGCTCCTCTG-CTTTGTGCACAGGGTAAGCCC
1 TTACCGCAGGCTCCTC-GACTTTGTGCTCAGGGTAAGTCC
4883522 TTAC
1 TTAC
4883526 TGGGTGTACA
Statistics
Matches: 159, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
38 3 0.02
39 150 0.94
40 6 0.04
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.32
Consensus pattern (39 bp):
TTACCGCAGGCTCCTCGACTTTGTGCTCAGGGTAAGTCC
Found at i:4887327 original size:20 final size:21
Alignment explanation
Indices: 4887280--4887328 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
4887270 ACAACTTCAT
* *
4887280 AATATTTTTTTCATAATTTTG
1 AATATTTTATTCATAATTTTA
* *
4887301 AACATTTTATTGA-AATTTTA
1 AATATTTTATTCATAATTTTA
4887321 AATATTTT
1 AATATTTT
4887329 TCTCTGATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (21 bp):
AATATTTTATTCATAATTTTA
Found at i:4891854 original size:24 final size:24
Alignment explanation
Indices: 4891827--4891958 Score: 156
Period size: 24 Copynumber: 5.5 Consensus size: 24
4891817 TTCCAGTTGA
*
4891827 ACCAAAGGCAGGGGTGCTCGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
* *
4891851 ACCAAACGCAGGAGTGCTTGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
* * * * *
4891875 ACCGAATGCAGGAGTACTTGAGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
4891899 ACCAAAGGCAGGGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
* * * *
4891923 ACCAAAAGCCGGGGTGCTAGTGGT
1 ACCAAAGGCAGGGGTGCTTGTGGC
4891947 ACCAAAGGCAGG
1 ACCAAAGGCAGG
4891959 ACTGGAACCA
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 90 1.00
ACGTcount: A:0.26, C:0.23, G:0.37, T:0.14
Consensus pattern (24 bp):
ACCAAAGGCAGGGGTGCTTGTGGC
Found at i:4904565 original size:43 final size:43
Alignment explanation
Indices: 4904504--4904592 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
4904494 ATGATATATA
*
4904504 AAACAGCCATGTATAATGTTATGTATGCATTGCACTCACTTTG
1 AAACAGCCACGTATAATGTTATGTATGCATTGCACTCACTTTG
* *
4904547 AAACATCCACGTATAATGTTATGTATGCATTTCACTCACTTTG
1 AAACAGCCACGTATAATGTTATGTATGCATTGCACTCACTTTG
4904590 AAA
1 AAA
4904593 TTATATACAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (43 bp):
AAACAGCCACGTATAATGTTATGTATGCATTGCACTCACTTTG
Found at i:4911691 original size:4 final size:4
Alignment explanation
Indices: 4911682--4911842 Score: 216
Period size: 4 Copynumber: 40.0 Consensus size: 4
4911672 ATCTGGAAGC
4911682 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT -TTGT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT-T
* *
4911730 CTTT CTTT CTTT CTTT CTTT CTTT CTGT CTTT CTTT CTTT CTTT ATTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* * * * * *
4911778 CCTT CTTT CTTT CTTT CCCTT CCTT GTTT CTTT CCTT CTTT CTTT CCTT
1 CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
*
4911827 CTTT CTTT CCTT CTTT
1 CTTT CTTT CTTT CTTT
4911843 TTCTTGTCGT
Statistics
Matches: 138, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
3 2 0.01
4 131 0.95
5 5 0.04
ACGTcount: A:0.01, C:0.27, G:0.02, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:4912022 original size:25 final size:25
Alignment explanation
Indices: 4911988--4912048 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
4911978 GAGTGTATTA
*
4911988 GAGATGAAATTGTAAAATGGGTTTT
1 GAGATGAAATTGTAAAATGGGGTTT
4912013 GAGATGAAATTGTAAAATGGGGTTT
1 GAGATGAAATTGTAAAATGGGGTTT
*
4912038 GAAATGAAATT
1 GAGATGAAATT
4912049 TTTATATGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (25 bp):
GAGATGAAATTGTAAAATGGGGTTT
Found at i:4918415 original size:31 final size:31
Alignment explanation
Indices: 4918377--4918500 Score: 122
Period size: 31 Copynumber: 4.0 Consensus size: 31
4918367 CCTCGACAAC
* *
4918377 TGTCCATAGGTCCCGAAGAACCTAGGTAAAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* ** * *
4918408 TGTCCATATGTTCCTTAGAACTTAGGTATAT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
* * *
4918439 TGTCCATATGTCTCGAAAAACATAGGTAATT
1 TGTCCATATGTCCCGAAGAACATAGGTAAAT
** *
4918470 CTGTCCATATGTTTCGTAGAACATAGGTAAA
1 -TGTCCATATGTCCCGAAGAACATAGGTAAA
4918501 CCCTCGACTC
Statistics
Matches: 74, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
31 48 0.65
32 26 0.35
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (31 bp):
TGTCCATATGTCCCGAAGAACATAGGTAAAT
Found at i:4918480 original size:32 final size:32
Alignment explanation
Indices: 4918439--4918499 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
4918429 TTAGGTATAT
4918439 TGTCCATATGTCTCGAAAAACATAGGTAATTC
1 TGTCCATATGTCTCGAAAAACATAGGTAATTC
* * *
4918471 TGTCCATATGTTTCGTAGAACATAGGTAA
1 TGTCCATATGTCTCGAAAAACATAGGTAA
4918500 ACCCTCGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (32 bp):
TGTCCATATGTCTCGAAAAACATAGGTAATTC
Found at i:4918490 original size:63 final size:62
Alignment explanation
Indices: 4918377--4918498 Score: 163
Period size: 62 Copynumber: 2.0 Consensus size: 62
4918367 CCTCGACAAC
* * * *
4918377 TGTCCATAGGTCCCGAAGAACCTAGGTAAATTGTCCATATGTTCCTTAGAACTTAGGTATAT
1 TGTCCATAGGTCCCGAAAAACATAGGTAAATTGTCCATATGTTCCGTAGAACATAGGTATAT
* * * *
4918439 TGTCCATATGTCTCGAAAAACATAGGTAATTCTGTCCATATGTTTCGTAGAACATAGGTA
1 TGTCCATAGGTCCCGAAAAACATAGGTAAAT-TGTCCATATGTTCCGTAGAACATAGGTA
4918499 AACCCTCGAC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
62 26 0.51
63 25 0.49
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (62 bp):
TGTCCATAGGTCCCGAAAAACATAGGTAAATTGTCCATATGTTCCGTAGAACATAGGTATAT
Found at i:4919520 original size:24 final size:20
Alignment explanation
Indices: 4919463--4919520 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
4919453 TTTCCCTTGA
*
4919463 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
4919483 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
4919506 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
4919521 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:4923146 original size:30 final size:31
Alignment explanation
Indices: 4923107--4923173 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
4923097 GAAAGACCTA
* * * *
4923107 TCCAGAGGTCATAAAGAACCTCGG-CAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
* *
4923137 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCATAGGTCACAAAGAACCTAGGTAAACTG
4923168 TCCATA
1 TCCATA
4923174 TGTTCTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.33, C:0.27, G:0.21, T:0.19
Consensus pattern (31 bp):
TCCATAGGTCACAAAGAACCTAGGTAAACTG
Found at i:4923192 original size:31 final size:31
Alignment explanation
Indices: 4923157--4923259 Score: 102
Period size: 31 Copynumber: 3.3 Consensus size: 31
4923147 CCGAAGAACC
4923157 TAGGTAAACTGTCCATATGTTCTTTAAAACA
1 TAGGTAAACTGTCCATATGTTCTTTAAAACA
* * **
4923188 TAGGTATATTGTCCATATG-TCTCGAAAGACA
1 TAGGTAAACTGTCCATATGTTCTTTAAA-ACA
* * *
4923219 TAGGTAATTCTGTCTATATGTT-TTGTAGAACA
1 TAGGTAA-ACTGTCCATATGTTCTT-TAAAACA
4923251 TAGGTAAAC
1 TAGGTAAAC
4923260 CCTCGAATCT
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
30 6 0.11
31 27 0.48
32 20 0.36
33 3 0.05
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (31 bp):
TAGGTAAACTGTCCATATGTTCTTTAAAACA
Found at i:4923251 original size:63 final size:62
Alignment explanation
Indices: 4923135--4923256 Score: 149
Period size: 62 Copynumber: 2.0 Consensus size: 62
4923125 CCTCGGCAAC
*
4923135 TGTCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCATATGTTCTTTAAAACATAGGTATAT
1 TGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCTTTAAAACATAGGTATAT
* * * * *
4923197 TGTCCATATGTCTCGAA-AGACATAGGTAATTCTGTCTATATGTT-TTGTAGAACATAGGTA
1 TGTCCATAGGTCCCGAAGA-ACATAGGTAA-ACTGTCCATATGTTCTT-TAAAACATAGGTA
4923257 AACCCTCGAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
61 1 0.02
62 26 0.51
63 24 0.47
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (62 bp):
TGTCCATAGGTCCCGAAGAACATAGGTAAACTGTCCATATGTTCTTTAAAACATAGGTATAT
Found at i:4924279 original size:24 final size:20
Alignment explanation
Indices: 4924222--4924279 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
4924212 TTTCCCTTGA
*
4924222 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
*
4924242 AGTGTATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
4924265 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
4924280 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 15 0.48
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:4931224 original size:19 final size:21
Alignment explanation
Indices: 4931200--4931251 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
4931190 ATGCCAAAAT
4931200 GGTATCGGTACCTT-AA-GGA
1 GGTATCGGTACCTTGAAGGGA
*
4931219 GGTATCGATACCCTTGAAGGGA
1 GGTATCGGTA-CCTTGAAGGGA
*
4931241 AGTATCGGTAC
1 GGTATCGGTAC
4931252 TGGAGAGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 9 0.33
20 4 0.15
21 3 0.11
22 11 0.41
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (21 bp):
GGTATCGGTACCTTGAAGGGA
Found at i:4931672 original size:15 final size:15
Alignment explanation
Indices: 4931652--4931688 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
4931642 TGAACAAGTG
4931652 TATGTGAAAAGT-CTC
1 TATGTGAAAAGTAC-C
4931667 TATGTG-AAAGTACC
1 TATGTGAAAAGTACC
4931681 TATGTGAA
1 TATGTGAA
4931689 TAAGAGACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (15 bp):
TATGTGAAAAGTACC
Found at i:4931827 original size:21 final size:22
Alignment explanation
Indices: 4931803--4931867 Score: 62
Period size: 23 Copynumber: 2.9 Consensus size: 22
4931793 TTATATAGTC
4931803 CTTCGG-GACAAA-TATGTGGAA
1 CTTCGGTG-CAAACTATGTGGAA
*
4931824 CTTCGGTGCAAACCTATGTGGCA
1 CTTCGGTGCAAA-CTATGTGGAA
* *
4931847 CTTCGATGCAATCCTATGTGG
1 CTTCGGTGCAA-ACTATGTGG
4931868 TCCTTCGGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 10 0.27
22 1 0.03
23 26 0.70
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (22 bp):
CTTCGGTGCAAACTATGTGGAA
Found at i:4931849 original size:23 final size:23
Alignment explanation
Indices: 4931815--4931875 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
4931805 TCGGGACAAA
*
4931815 TATGTGGAACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
* *
4931838 TATGTGGCACTTCGATGCAATCC
1 TATGTGGCACTTCGGTGCAAACC
4931861 TATGTGGTC-CTTCGG
1 TATGTGG-CACTTCGG
4931876 GACAATTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:4940326 original size:14 final size:14
Alignment explanation
Indices: 4940292--4940329 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
4940282 TACTTAAATA
4940292 TTAATCTTTATTTTT
1 TTAAT-TTTATTTTT
*
4940307 AT-ATTTTATTTTT
1 TTAATTTTATTTTT
4940320 TTAATTTTAT
1 TTAATTTTAT
4940330 ATATTCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 10 0.50
14 9 0.45
15 1 0.05
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
TTAATTTTATTTTT
Found at i:4942143 original size:21 final size:21
Alignment explanation
Indices: 4942118--4942172 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
4942108 AGGGTTAAGA
4942118 CCTTTCGATGAAATGACTTAAT
1 CCTTTCGATGAAATGACTT-AT
* *
4942140 -CTTTCAATTAAATGACTTAT
1 CCTTTCGATGAAATGACTTAT
*
4942160 CCTTTTGATGAAA
1 CCTTTCGATGAAA
4942173 AGTGTTTAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (21 bp):
CCTTTCGATGAAATGACTTAT
Found at i:4942192 original size:22 final size:22
Alignment explanation
Indices: 4942160--4942214 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
4942150 AATGACTTAT
*
4942160 CCTTTTGATGAAAAGTG-TTTAA
1 CCTTTTCATGAAAAG-GATTTAA
4942182 CCTTTTCATG-AAAGGATTTAA
1 CCTTTTCATGAAAAGGATTTAA
*
4942203 TCTTTTCATGAA
1 CCTTTTCATGAA
4942215 GAGAATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 1 0.03
21 18 0.62
22 10 0.34
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (22 bp):
CCTTTTCATGAAAAGGATTTAA
Found at i:4944608 original size:35 final size:29
Alignment explanation
Indices: 4944534--4944600 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
4944524 ATCTTGGTCC
4944534 AAATTTTTAAAGTTATTGTTATTTAGCTT
1 AAATTTTTAAAGTTATTGTTATTTAGCTT
4944563 AAATTTTTAAAGTTATTGTTATTTAGCTT
1 AAATTTTTAAAGTTATTGTTATTTAGCTT
4944592 AAATATTTT
1 AAAT-TTTT
4944601 GGTTTAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 33 0.89
30 4 0.11
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (29 bp):
AAATTTTTAAAGTTATTGTTATTTAGCTT
Found at i:4944865 original size:20 final size:21
Alignment explanation
Indices: 4944818--4944866 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
4944808 ATAACTTCAT
* *
4944818 AATATTTTTTTCATAATTTTG
1 AATATTTTATTCATAATTTTA
* *
4944839 AACATTTTATTGA-AATTTTA
1 AATATTTTATTCATAATTTTA
4944859 AATATTTT
1 AATATTTT
4944867 TCTCTGATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (21 bp):
AATATTTTATTCATAATTTTA
Found at i:4948817 original size:31 final size:31
Alignment explanation
Indices: 4948722--4948819 Score: 94
Period size: 30 Copynumber: 3.2 Consensus size: 31
4948712 GAAAACAAAT
* *
4948722 CAAAGAAAGA-AAAAACCCACCACAAC-AAAC
1 CAAAGAAA-ACAAAAACCCATCACAACAAAAA
* * * *
4948752 CAAATAAAACAAAAACCC-TCACAGCAGAAG
1 CAAAGAAAACAAAAACCCATCACAACAAAAA
* *
4948782 CAAAGGAATCAAAAACCCATCACAACAAAAA
1 CAAAGAAAACAAAAACCCATCACAACAAAAA
4948813 CAAAGAA
1 CAAAGAA
4948820 GCAAATATAA
Statistics
Matches: 53, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
29 6 0.11
30 32 0.60
31 15 0.28
ACGTcount: A:0.61, C:0.27, G:0.08, T:0.04
Consensus pattern (31 bp):
CAAAGAAAACAAAAACCCATCACAACAAAAA
Found at i:4950906 original size:24 final size:24
Alignment explanation
Indices: 4950874--4950965 Score: 105
Period size: 24 Copynumber: 3.9 Consensus size: 24
4950864 GCTTGTGGCA
*
4950874 CTTGTGGCACCAAACGCAGGAGTG
1 CTTGTGGCACCAAAGGCAGGAGTG
* *
4950898 CTTGTGGCACCCAAGGCAGGGGTG
1 CTTGTGGCACCAAAGGCAGGAGTG
* * *
4950922 CTTGTGGCAGCAAAAGCCGG-GTG
1 CTTGTGGCACCAAAGGCAGGAGTG
* *
4950945 CTAGTGGTACCAAAGGCAGGA
1 CTTGTGGCACCAAAGGCAGGA
4950966 CTGGAACCAA
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 18 0.33
24 37 0.67
ACGTcount: A:0.24, C:0.23, G:0.37, T:0.16
Consensus pattern (24 bp):
CTTGTGGCACCAAAGGCAGGAGTG
Found at i:4950961 original size:47 final size:48
Alignment explanation
Indices: 4950874--4950964 Score: 121
Period size: 47 Copynumber: 1.9 Consensus size: 48
4950864 GCTTGTGGCA
* * *
4950874 CTTGTGGCACCAAACGCAGGAGTGCTTGTGGCACCCAAGGCAGGGGTG
1 CTTGTGGCACCAAAAGCAGGAGTGCTAGTGGCACCAAAGGCAGGGGTG
* * *
4950922 CTTGTGGCAGCAAAAGCCGG-GTGCTAGTGGTACCAAAGGCAGG
1 CTTGTGGCACCAAAAGCAGGAGTGCTAGTGGCACCAAAGGCAGG
4950965 ACTGGAACCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
47 20 0.54
48 17 0.46
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.16
Consensus pattern (48 bp):
CTTGTGGCACCAAAAGCAGGAGTGCTAGTGGCACCAAAGGCAGGGGTG
Found at i:4953064 original size:37 final size:37
Alignment explanation
Indices: 4953018--4953094 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
4953008 AAATTATATA
4953018 TCGGGTTGAGTTCGGGTCAGGTGAAAACTTATTTTGG
1 TCGGGTTGAGTTCGGGTCAGGTGAAAACTTATTTTGG
*
4953055 TCGGGTTGAGTTCGGGTCAGGTGAAAACTTTTTTTGG
1 TCGGGTTGAGTTCGGGTCAGGTGAAAACTTATTTTGG
4953092 TCG
1 TCG
4953095 AGTCGGATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.17, C:0.12, G:0.35, T:0.36
Consensus pattern (37 bp):
TCGGGTTGAGTTCGGGTCAGGTGAAAACTTATTTTGG
Found at i:4954792 original size:32 final size:31
Alignment explanation
Indices: 4954741--4954808 Score: 91
Period size: 32 Copynumber: 2.2 Consensus size: 31
4954731 ATGTGCTTAA
* *
4954741 TGACATGACACCCAAATGATGACGTGGTATG
1 TGACATGACACCAAAATGATGACGTGATATG
* *
4954772 TGACATGTCACCAAAAATGATGATGTGATATG
1 TGACATGACACC-AAAATGATGACGTGATATG
4954804 TGACA
1 TGACA
4954809 CATAAGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 11 0.34
32 21 0.66
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (31 bp):
TGACATGACACCAAAATGATGACGTGATATG
Found at i:4959658 original size:19 final size:19
Alignment explanation
Indices: 4959636--4959678 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
4959626 CAATTCAGTC
4959636 TCCTCAAGAACTTTCAATT
1 TCCTCAAGAACTTTCAATT
4959655 TCCTCAAGAACTTTCAATT
1 TCCTCAAGAACTTTCAATT
*
4959674 CCCTC
1 TCCTC
4959679 TCAACTTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.35
Consensus pattern (19 bp):
TCCTCAAGAACTTTCAATT
Found at i:4959684 original size:18 final size:19
Alignment explanation
Indices: 4959637--4959692 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
4959627 AATTCAGTCT
* *
4959637 CCTCAAGAACTTTCAATTT
1 CCTCAACAACTTTCAATTC
*
4959656 CCTCAAGAACTTTCAATTC
1 CCTCAACAACTTTCAATTC
* *
4959675 CCTC-TCAACTTCCAATTC
1 CCTCAACAACTTTCAATTC
4959693 ATCATTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.29, C:0.34, G:0.04, T:0.34
Consensus pattern (19 bp):
CCTCAACAACTTTCAATTC
Found at i:4966654 original size:13 final size:13
Alignment explanation
Indices: 4966618--4966658 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
4966608 TAAATATTAT
4966618 TATTATTA-TAAA
1 TATTATTATTAAA
* *
4966630 TA-AATAATTAAA
1 TATTATTATTAAA
4966642 TATTATTATTAAA
1 TATTATTATTAAA
4966655 TATT
1 TATT
4966659 TTCATATACA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
11 3 0.13
12 8 0.35
13 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTATTATTAAA
Found at i:4968195 original size:20 final size:20
Alignment explanation
Indices: 4968159--4968197 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4968149 TTTAACTTAA
*
4968159 TTTCCTTATTTATAATTATT
1 TTTCCTTATTTACAATTATT
4968179 TTTCCTT-TTTAGCAATTAT
1 TTTCCTTATTTA-CAATTAT
4968198 ATTAATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTCCTTATTTACAATTATT
Found at i:4969495 original size:18 final size:18
Alignment explanation
Indices: 4969472--4969506 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4969462 TGTCATTGTT
*
4969472 TTTTATGTTTATTCATTG
1 TTTTATATTTATTCATTG
4969490 TTTTATATTTATTCATT
1 TTTTATATTTATTCATT
4969507 TTAGTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTATATTTATTCATTG
Found at i:4969514 original size:27 final size:27
Alignment explanation
Indices: 4969479--4969548 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 27
4969469 GTTTTTTATG
*
4969479 TTTATTCATTGTTTTATATTTATTCAT
1 TTTAGTCATTGTTTTATATTTATTCAT
* *
4969506 TTTAGTCATTATTTTTTATGTTTATTCAT
1 TTTAGTCA-T-TGTTTTATATTTATTCAT
*
4969535 TTTAGTCACTGTTT
1 TTTAGTCATTGTTT
4969549 ATTTTAGTCA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.31
28 1 0.03
29 24 0.67
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (27 bp):
TTTAGTCATTGTTTTATATTTATTCAT
Found at i:4969552 original size:16 final size:16
Alignment explanation
Indices: 4969533--4969564 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4969523 ATGTTTATTC
4969533 ATTTTAGTCACTGTTT
1 ATTTTAGTCACTGTTT
4969549 ATTTTAGTCACTGTTT
1 ATTTTAGTCACTGTTT
4969565 GGATTTTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.56
Consensus pattern (16 bp):
ATTTTAGTCACTGTTT
Found at i:4973615 original size:28 final size:28
Alignment explanation
Indices: 4973563--4973626 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
4973553 TAACATATAG
* *
4973563 AGAAAAAAAGAAAGACATAGCAAAAAAA
1 AGAAAAAAAAAAAGACATAGAAAAAAAA
* *
4973591 AGAAAAAGAAAAAAGACATA-AAAAAGAT
1 AGAAAAA-AAAAAAGACATAGAAAAAAAA
4973619 AGAAAAAA
1 AGAAAAAA
4973627 CCAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 1 0.03
28 19 0.61
29 11 0.35
ACGTcount: A:0.77, C:0.05, G:0.14, T:0.05
Consensus pattern (28 bp):
AGAAAAAAAAAAAGACATAGAAAAAAAA
Found at i:4973625 original size:29 final size:28
Alignment explanation
Indices: 4973559--4973626 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
4973549 TTGATAACAT
*
4973559 ATAGAGAAAAAAAGAAAGACATAGCAAAAA
1 ATAGA-AAAAAAAAAAAGACATA-CAAAAA
* *
4973589 AAAGAAAAAGAAAAAAGACATA-AAAAA
1 ATAGAAAAAAAAAAAAGACATACAAAAA
4973616 GATAGAAAAAA
1 -ATAGAAAAAA
4973627 CCAAAAAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 5 0.16
28 8 0.25
29 15 0.47
30 4 0.12
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.06
Consensus pattern (28 bp):
ATAGAAAAAAAAAAAAGACATACAAAAA
Found at i:4973677 original size:37 final size:37
Alignment explanation
Indices: 4973583--4973712 Score: 92
Period size: 37 Copynumber: 3.5 Consensus size: 37
4973573 AAAGACATAG
4973583 CAAAAAAAAGAAAAAGAAAAAAGACATAAAAAAGATAGAA
1 CAAAAAAAAGAAAAA-AAAAAA-A-ATAAAAAAGATAGAA
* * *
4973623 -AAAACCAAAA-AATAAAAATAAAATAAAAAAGA-GGAA
1 CAAAA--AAAAGAAAAAAAAAAAAATAAAAAAGATAGAA
* *
4973659 CAAAATAAAGAAAAAAAAACAAAA-AAATAGAA-AAAGAA
1 CAAAAAAAAGAAAAAAAAA-AAAATAAA-A-AAGATAGAA
*
4973697 -AGAAAAAAGAAAAAAA
1 CAAAAAAAAGAAAAAAA
4973713 GAGAACAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 19
0.72 0.09 0.19
Matches are distributed among these distances:
35 3 0.04
36 13 0.18
37 34 0.47
38 6 0.08
39 9 0.12
40 4 0.05
41 4 0.05
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (37 bp):
CAAAAAAAAGAAAAAAAAAAAAATAAAAAAGATAGAA
Found at i:4973681 original size:19 final size:18
Alignment explanation
Indices: 4973584--4973714 Score: 70
Period size: 19 Copynumber: 6.9 Consensus size: 18
4973574 AAGACATAGC
*
4973584 AAAAAAA-AGAAAAAG-A
1 AAAAAAACAAAAAAAGAA
*
4973600 AAAAAGACATAAAAAAGATA
1 AAAAAAACA-AAAAAAGA-A
* * *
4973620 GAAAAAACCAAAAAATAA
1 AAAAAAACAAAAAAAGAA
*
4973638 AAATAAAATAAAAAAGAGGAA
1 AAA-AAAACAAAAAA-A-GAA
*
4973659 CAAAATAAAGAAAAAAA-AA
1 -AAAA-AAACAAAAAAAGAA
* *
4973678 CAAAAAAATAGAAAAAGAA
1 -AAAAAAACAAAAAAAGAA
*
4973697 AGAAAAAAGAAAAAAAGA
1 A-AAAAAACAAAAAAAGA
4973715 GAACAAATAG
Statistics
Matches: 89, Mismatches: 15, Indels: 19
0.72 0.12 0.15
Matches are distributed among these distances:
16 6 0.07
17 1 0.01
18 19 0.21
19 39 0.44
20 8 0.09
21 4 0.04
22 12 0.13
ACGTcount: A:0.80, C:0.04, G:0.11, T:0.05
Consensus pattern (18 bp):
AAAAAAACAAAAAAAGAA
Found at i:4973694 original size:26 final size:27
Alignment explanation
Indices: 4973665--4973717 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
4973655 GGAACAAAAT
*
4973665 AAAGAAA-AAAAAACAAAAAAATAGAA
1 AAAGAAAGAAAAAACAAAAAAAGAGAA
*
4973691 AAAGAAAGAAAAAAGAAAAAAAGAGAA
1 AAAGAAAGAAAAAACAAAAAAAGAGAA
4973718 CAAATAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (27 bp):
AAAGAAAGAAAAAACAAAAAAAGAGAA
Found at i:4973705 original size:11 final size:11
Alignment explanation
Indices: 4973595--4973717 Score: 58
Period size: 11 Copynumber: 11.2 Consensus size: 11
4973585 AAAAAAAGAA
4973595 AAAGAAAAAAG
1 AAAGAAAAAAG
* *
4973606 ACATAAAAAAG
1 AAAGAAAAAAG
* *
4973617 ATAGAAAAAACCA
1 AAAGAAAAAA--G
* *
4973630 AAAAATAAAAATA
1 AAAGA-AAAAA-G
*
4973643 AAATAAAAAAG
1 AAAGAAAAAAG
* *
4973654 -AGGAACAAAAT
1 AAAGAA-AAAAG
4973665 AAAGAAAAAA-
1 AAAGAAAAAAG
*
4973675 AAACAAAAAA-
1 AAAGAAAAAAG
*
4973685 ATAG-AAAAAG
1 AAAGAAAAAAG
4973695 AAAGAAAAAAG
1 AAAGAAAAAAG
*
4973706 AAA-AAAAGAG
1 AAAGAAAAAAG
4973716 AA
1 AA
4973718 CAAATAGAGA
Statistics
Matches: 86, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
9 5 0.06
10 25 0.29
11 34 0.40
12 9 0.10
13 8 0.09
14 5 0.06
ACGTcount: A:0.79, C:0.04, G:0.11, T:0.06
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:4977144 original size:91 final size:90
Alignment explanation
Indices: 4977029--4977289 Score: 371
Period size: 91 Copynumber: 2.9 Consensus size: 90
4977019 ATTGACATTG
* * * *
4977029 CCAGTGGATAATTCATAATGAGAAGAACTCATCTAATATGGGAGAAGAAGTTCATAATGAGAAGA
1 CCAGTGGAGAGTTCATAATAAGAAGAACTCATCCAATA-GGGAGAAGAAGTTCATAATGAGAAGA
*
4977094 ACTTGTTCAACCTTGACTCAGCAGTT
65 ACTTGTTAAACCTTGACTCAGCAGTT
*
4977120 CCAGTGGAGAGTTCATAATAAGAAGAACTCATCCAACTAGGGAGAAGAAGTTCATAATAAGAAGA
1 CCAGTGGAGAGTTCATAATAAGAAGAACTCATCCAA-TAGGGAGAAGAAGTTCATAATGAGAAGA
** * *
4977185 ACTTGTTTGACCTTGGCTCAGCATTT
65 ACTTGTTAAACCTTGACTCAGCAGTT
* *
4977211 CCTGTGGAGAGTTCATAATGAA-AATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGAGAAG
1 CCAGTGGAGAGTTCATAAT-AAGAAGAACTCATCCAAT-AGGGAGAAGAAGTTCATAATGAGAAG
4977275 AACTTGTTAAACCTT
64 AACTTGTTAAACCTT
4977290 AGCTTGATTC
Statistics
Matches: 153, Mismatches: 14, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
90 1 0.01
91 148 0.97
92 4 0.03
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (90 bp):
CCAGTGGAGAGTTCATAATAAGAAGAACTCATCCAATAGGGAGAAGAAGTTCATAATGAGAAGAA
CTTGTTAAACCTTGACTCAGCAGTT
Found at i:4977369 original size:116 final size:113
Alignment explanation
Indices: 4977206--4977419 Score: 311
Period size: 116 Copynumber: 1.9 Consensus size: 113
4977196 CTTGGCTCAG
* * * **
4977206 CATTTCCTGTGGAGAGTTCATAATGAAAATAACTCATCCAATGAGGGAGAAGAAGTTCATAATGA
1 CATTTCCAGTAGAGAGTTCATAATGAAAAGAACTCATCCAACAAGGGAGAAGAAGTTCATAATGA
*
4977271 GAAGAACTTGTTAAACCTTAGCTTGATTCCATCACATAATAAACCGATCAA
66 GAAGAACTTATTAAACCTT--C-TGATTCCATCACATAATAAACCGATCAA
* *
4977322 CATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCCGACAAGGGAGAAGAAGTTCATAATGA
1 CATTTCCAGTAGAGAGTTCATAATGAAAAGAACTCATCCAACAAGGGAGAAGAAGTTCATAATGA
**
4977387 GAAGAACTTATTCGACCTTCTGATTCCATCACA
66 GAAGAACTTATTAAACCTTCTGATTCCATCACA
4977420 GAATGAAGTG
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
113 13 0.15
114 1 0.01
116 74 0.84
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (113 bp):
CATTTCCAGTAGAGAGTTCATAATGAAAAGAACTCATCCAACAAGGGAGAAGAAGTTCATAATGA
GAAGAACTTATTAAACCTTCTGATTCCATCACATAATAAACCGATCAA
Found at i:4982617 original size:2 final size:2
Alignment explanation
Indices: 4982610--4982635 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4982600 CTTTTAAAAC
4982610 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4982636 TTAAAACCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4982881 original size:24 final size:24
Alignment explanation
Indices: 4982854--4982910 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
4982844 AACAAAATCT
4982854 AGATCAGAAAT-TAGAACATAATTC
1 AGATCAGAAATCTA-AACATAATTC
*
4982878 AGATCAAAAATCTAAACATAATTC
1 AGATCAGAAATCTAAACATAATTC
*
4982902 AAATC-GAAA
1 AGATCAGAAA
4982911 ATCAGATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.10
24 24 0.83
25 2 0.07
ACGTcount: A:0.54, C:0.14, G:0.09, T:0.23
Consensus pattern (24 bp):
AGATCAGAAATCTAAACATAATTC
Found at i:4982911 original size:24 final size:24
Alignment explanation
Indices: 4982868--4982913 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4982858 CAGAAATTAG
*
4982868 AACATAATTCAGATCAAAAATCTA
1 AACATAATTCAAATCAAAAATCTA
*
4982892 AACATAATTCAAATCGAAAATC
1 AACATAATTCAAATCAAAAATC
4982914 AGATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.54, C:0.17, G:0.04, T:0.24
Consensus pattern (24 bp):
AACATAATTCAAATCAAAAATCTA
Found at i:4985357 original size:9 final size:9
Alignment explanation
Indices: 4985345--4985402 Score: 62
Period size: 9 Copynumber: 6.2 Consensus size: 9
4985335 GTTGGGTCTA
*
4985345 GTCAGACCG
1 GTCAAACCG
4985354 GTCAAACCAG
1 GTCAAACC-G
*
4985364 TTCAAACCG
1 GTCAAACCG
4985373 GTCAAACCAG
1 GTCAAACC-G
* *
4985383 TTCAAACTG
1 GTCAAACCG
4985392 GTCAAACCG
1 GTCAAACCG
4985401 GT
1 GT
4985403 TTTCTTTCTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 25 0.62
10 15 0.38
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (9 bp):
GTCAAACCG
Found at i:4985370 original size:10 final size:10
Alignment explanation
Indices: 4985355--4985389 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
4985345 GTCAGACCGG
4985355 TCAAACCAGT
1 TCAAACCAGT
*
4985365 TCAAACC-GG
1 TCAAACCAGT
4985374 TCAAACCAGT
1 TCAAACCAGT
4985384 TCAAAC
1 TCAAAC
4985390 TGGTCAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.40, C:0.31, G:0.11, T:0.17
Consensus pattern (10 bp):
TCAAACCAGT
Found at i:4985374 original size:19 final size:19
Alignment explanation
Indices: 4985350--4985399 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
4985340 GTCTAGTCAG
4985350 ACCGGTCAAACCAGTTCAA
1 ACCGGTCAAACCAGTTCAA
4985369 ACCGGTCAAACCAGTTCAA
1 ACCGGTCAAACCAGTTCAA
*
4985388 ACTGGTCAAACC
1 ACCGGTCAAACC
4985400 GGTTTTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.36, C:0.32, G:0.16, T:0.16
Consensus pattern (19 bp):
ACCGGTCAAACCAGTTCAA
Found at i:4987486 original size:24 final size:24
Alignment explanation
Indices: 4987459--4987566 Score: 101
Period size: 24 Copynumber: 4.5 Consensus size: 24
4987449 AAACGGAGAT
* *
4987459 ATCATAAATCAAAACAGAATTCAA
1 ATCAGAAATCAGAACAGAATTCAA
* * * **
4987483 ATCAGATATCAGAATAGAATCCCG
1 ATCAGAAATCAGAACAGAATTCAA
*
4987507 ATCAGAAATCAGAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAA
* * *
4987531 ATAAAAAATCAGAACAAAATTCAA
1 ATCAGAAATCAGAACAGAATTCAA
4987555 AT-AGAAAATCAG
1 ATCAG-AAATCAG
4987567 TTAAAATATT
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
23 1 0.01
24 66 0.99
ACGTcount: A:0.55, C:0.16, G:0.11, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAA
Found at i:4992154 original size:24 final size:24
Alignment explanation
Indices: 4992077--4992158 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
4992067 CAGAGATATC
* *
4992077 AGAAATCAAAACAGAATTCAAATA
1 AGAAATTAGAACAGAATTCAAATA
* *
4992101 AGATATAAGAACAGAATTCAAATA
1 AGAAATTAGAACAGAATTCAAATA
*
4992125 AGAAATTAGAACAAAATTCAAATA
1 AGAAATTAGAACAGAATTCAAATA
4992149 TA-AAATTAGA
1 -AGAAATTAGA
4992159 TAAAATATTC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
24 50 0.98
25 1 0.02
ACGTcount: A:0.61, C:0.09, G:0.10, T:0.21
Consensus pattern (24 bp):
AGAAATTAGAACAGAATTCAAATA
Found at i:5001778 original size:2 final size:2
Alignment explanation
Indices: 5001773--5001807 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
5001763 TTCTTCAAAT
*
5001773 AC AC AC AC AC AC AC AC AC AC GC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
5001808 TATATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.49, G:0.03, T:0.00
Consensus pattern (2 bp):
AC
Found at i:5006702 original size:21 final size:21
Alignment explanation
Indices: 5006660--5006714 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
5006650 AAGGCCTTAT
*
5006660 CCTTTTGATGAAAAGTGATTAA
1 CCTTTTCATG-AAAGTGATTAA
5006682 CCTTTTCATGAAAG-GATTTAA
1 CCTTTTCATGAAAGTGA-TTAA
*
5006703 TCTTTTCATGAA
1 CCTTTTCATGAA
5006715 GAGAATTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 19 0.63
22 9 0.30
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (21 bp):
CCTTTTCATGAAAGTGATTAA
Found at i:5009938 original size:10 final size:10
Alignment explanation
Indices: 5009923--5009971 Score: 57
Period size: 10 Copynumber: 5.1 Consensus size: 10
5009913 GTCAGATCGG
5009923 TCAAACCAGT
1 TCAAACCAGT
*
5009933 TCAAACC-GG
1 TCAAACCAGT
5009942 TCAAACCAGT
1 TCAAACCAGT
* *
5009952 TCAAA-CTGG
1 TCAAACCAGT
5009961 TCAAACCAGT
1 TCAAACCAGT
5009971 T
1 T
5009972 TTCTTTCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (10 bp):
TCAAACCAGT
Found at i:5009944 original size:19 final size:19
Alignment explanation
Indices: 5009920--5009971 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
5009910 CTAGTCAGAT
5009920 CGGTCAAACCAGTTCAAAC
1 CGGTCAAACCAGTTCAAAC
5009939 CGGTCAAACCAGTTCAAAC
1 CGGTCAAACCAGTTCAAAC
*
5009958 TGGTCAAACCAGTT
1 CGGTCAAACCAGTT
5009972 TTCTTTCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.35, C:0.29, G:0.17, T:0.19
Consensus pattern (19 bp):
CGGTCAAACCAGTTCAAAC
Found at i:5009947 original size:9 final size:9
Alignment explanation
Indices: 5009920--5009967 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
5009910 CTAGTCAGAT
5009920 CGGTCAAAC
1 CGGTCAAAC
*
5009929 CAGTTCAAAC
1 C-GGTCAAAC
5009939 CGGTCAAAC
1 CGGTCAAAC
*
5009948 CAGTTCAAAC
1 C-GGTCAAAC
*
5009958 TGGTCAAAC
1 CGGTCAAAC
5009967 C
1 C
5009968 AGTTTTCTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 16 0.52
10 15 0.48
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (9 bp):
CGGTCAAAC
Found at i:5012086 original size:24 final size:24
Alignment explanation
Indices: 5012027--5012135 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
5012017 AAACGGAGAT
* * * *
5012027 ATCATAAATCAAAATTGAATTCAA
1 ATCAGAAATCAGAATAGAATTCAG
* *
5012051 ATCAGATATCAGAATAGAATCCAG
1 ATCAGAAATCAGAATAGAATTCAG
* *
5012075 ATCAGAAATCAGAACATAATTCAG
1 ATCAGAAATCAGAATAGAATTCAG
* * * *
5012099 ATAAGAAATCAGAACAAAATTCAA
1 ATCAGAAATCAGAATAGAATTCAG
5012123 AT-AGAAAATCAGA
1 ATCAG-AAATCAGA
5012136 TAAAATATTC
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
23 2 0.03
24 69 0.97
ACGTcount: A:0.54, C:0.14, G:0.11, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAATAGAATTCAG
Found at i:5015891 original size:23 final size:23
Alignment explanation
Indices: 5015865--5015916 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
5015855 CCACTAAATA
5015865 TAACCCCCTCACACCAATACAGG
1 TAACCCCCTCACACCAATACAGG
* * *
5015888 TAACCCCCTCAGACCGATGCAGG
1 TAACCCCCTCACACCAATACAGG
5015911 TAACCC
1 TAACCC
5015917 GATCTGATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.42, G:0.13, T:0.13
Consensus pattern (23 bp):
TAACCCCCTCACACCAATACAGG
Done.