Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 55
Found at i:1804219 original size:18 final size:18
Alignment explanation
Indices: 1804196--1804232 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1804186 TAGATTAAAT
* *
1804196 TATAAAATTATCCTAATA
1 TATAAAAATATACTAATA
1804214 TATAAAAATATACTAATA
1 TATAAAAATATACTAATA
1804232 T
1 T
1804233 TAATTAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAAAAATATACTAATA
Found at i:1804251 original size:21 final size:21
Alignment explanation
Indices: 1804222--1804261 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1804212 TATATAAAAA
* *
1804222 TATACTAATATTAATTAATCT
1 TATAATAATAATAATTAATCT
1804243 TATAATAATAATAATTAAT
1 TATAATAATAATAATTAAT
1804262 GATTACAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TATAATAATAATAATTAATCT
Found at i:1805594 original size:15 final size:15
Alignment explanation
Indices: 1805561--1805604 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1805551 TAATTATTAT
*
1805561 TATAATAATAATAATA
1 TATAATAATAA-CATA
1805577 TATAATAATAACATA
1 TATAATAATAACATA
*
1805592 TATAATAAAAACA
1 TATAATAATAACA
1805605 GACAAAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
TATAATAATAACATA
Found at i:1805599 original size:3 final size:3
Alignment explanation
Indices: 1805534--1805587 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
1805524 TAATATTATT
* * *
1805534 TAA TAA TAA TAA -AA TAA TAA TTA TTA TTA TAA TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
1805579 TAA TAA TAA
1 TAA TAA TAA
1805588 CATATATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1805897 original size:29 final size:28
Alignment explanation
Indices: 1805819--1805897 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
1805809 ATGTCGAAAT
* * *
1805819 ATATATTTTATTCTTATCATCACTTAAAA
1 ATATATTTTATT-TTATCTTAAATTAAAA
*
1805848 ATA-ATTTTTATTTTATTTTAAATTAAAA
1 ATATA-TTTTATTTTATCTTAAATTAAAA
*
1805876 ATATATTTTATTAATATCTTAA
1 ATATATTTTATT-TTATCTTAA
1805898 TTTTTTTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
28 23 0.56
29 18 0.44
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (28 bp):
ATATATTTTATTTTATCTTAAATTAAAA
Found at i:1805927 original size:50 final size:50
Alignment explanation
Indices: 1805865--1805960 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
1805855 TTATTTTATT
* *
1805865 TTAAATTAAAAATATATTTTATT-AA-TATCTTAATTTTTTTATAAAATATC
1 TTAAATTAAAAATATATTTT-TTAAATTATATT-ATTTTTTAATAAAATATC
*
1805915 TTAATTTAAAAATATATTTTTTAAATTATATTATTTTTTAATAAAA
1 TTAAATTAAAAATATATTTTTTAAATTATATTATTTTTTAATAAAA
1805961 AAATATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
49 2 0.05
50 34 0.83
51 5 0.12
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (50 bp):
TTAAATTAAAAATATATTTTTTAAATTATATTATTTTTTAATAAAATATC
Found at i:1805944 original size:37 final size:37
Alignment explanation
Indices: 1805903--1805976 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
1805893 CTTAATTTTT
** *
1805903 TTATAAAATATCTTAATTTAAAAATATATTTTTTAAA
1 TTATAAAATATCTTAATAAAAAAATATATATTTTAAA
** * *
1805940 TTATATTATTTTTTAATAAAAAAATATATATTTTAAA
1 TTATAAAATATCTTAATAAAAAAATATATATTTTAAA
1805977 AGTTTATATA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (37 bp):
TTATAAAATATCTTAATAAAAAAATATATATTTTAAA
Found at i:1806000 original size:13 final size:13
Alignment explanation
Indices: 1805982--1806008 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1805972 TTAAAAGTTT
1805982 ATATATTTTTAAA
1 ATATATTTTTAAA
1805995 ATATATTTTTAAA
1 ATATATTTTTAAA
1806008 A
1 A
1806009 ATTAAGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATTTTTAAA
Found at i:1806086 original size:2 final size:2
Alignment explanation
Indices: 1806079--1806116 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1806069 TAAGAACACA
1806079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1806117 TAAAATAAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1806185 original size:29 final size:29
Alignment explanation
Indices: 1806146--1806271 Score: 100
Period size: 28 Copynumber: 4.3 Consensus size: 29
1806136 ATATTCAAAG
1806146 ATATA-TTTTTAAGTCAAAATAATAATAAA
1 ATATATTTTTTAAGTCAAAATAA-AATAAA
*
1806175 ATA-ATTTTTTAAGTGAAGAA-AAAATAAA
1 ATATATTTTTTAAGTCAA-AATAAAATAAA
* *
1806203 ATATATCTTTCT-A-TTAAAATAAAATAAA
1 ATATAT-TTTTTAAGTCAAAATAAAATAAA
** * * *
1806231 ATATATTTAATAATTTAAGAAAAAAAATAAA
1 ATATATTTTTTAA-GTCA-AAATAAAATAAA
1806262 ATATATTTTT
1 ATATATTTTT
1806272 AAAAGTTAAG
Statistics
Matches: 79, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
27 5 0.06
28 28 0.35
29 19 0.24
30 8 0.10
31 19 0.24
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (29 bp):
ATATATTTTTTAAGTCAAAATAAAATAAA
Found at i:1806207 original size:57 final size:57
Alignment explanation
Indices: 1806146--1806273 Score: 145
Period size: 57 Copynumber: 2.2 Consensus size: 57
1806136 ATATTCAAAG
**
1806146 ATATATTTTTAAGTCAAAATAATAATAAAATA-ATTTTTTAAGTGAAG-AAAAAATAAA
1 ATATATTTTTAA-TCAAAATAA-AATAAAATATATTTAATAAGTGAAGAAAAAAATAAA
* * *
1806203 ATATATCTTTCT-ATTAAAATAAAATAAAATATATTTAATAATTTAAGAAAAAAAATAAA
1 ATATAT-TTT-TAATCAAAATAAAATAAAATATATTTAATAAGTGAAG-AAAAAAATAAA
1806262 ATATATTTTTAA
1 ATATATTTTTAA
1806274 AAGTTAAGAT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
56 9 0.15
57 26 0.43
58 8 0.13
59 17 0.28
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (57 bp):
ATATATTTTTAATCAAAATAAAATAAAATATATTTAATAAGTGAAGAAAAAAATAAA
Found at i:1807806 original size:112 final size:112
Alignment explanation
Indices: 1807373--1807944 Score: 900
Period size: 111 Copynumber: 5.1 Consensus size: 112
1807363 CTGTCGGTTT
* *
1807373 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGAC--AACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
1807436 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
1807483 GTGTCGATACTTTATAAAAATATATCTATTCATAACAATATAACAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
1807547 AGCCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
1807594 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACATGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
1807658 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATTTATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
** *
1807705 GCATCGATACTTTATAAAAATATATCGATCTATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
1807770 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
1807817 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAAC
* * *
1807882 CGGTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
1807930 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
1807945 TATAAGTATC
Statistics
Matches: 426, Mismatches: 32, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
109 10 0.02
110 44 0.10
111 192 0.45
112 103 0.24
113 77 0.18
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:1807869 original size:223 final size:223
Alignment explanation
Indices: 1807373--1807944 Score: 918
Period size: 223 Copynumber: 2.6 Consensus size: 223
1807363 CTGTCGGTTT
*
1807373 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAAGTAAAAAAATGAC--AACC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
*
1807436 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
*
1807501 AATATATCTATTCATAACAATATAACAGGTAAAAAATGACAAAACCAGCCTATAAATGACAAAAC
131 AATATATCGATTCATAACAATATAACAGGTAAAAAATGACAAAACCAGCCTATAAATGACAAAAC
*
1807566 AGGTAAAGCGCTACCGGATATATTGAAA
196 AGGTAAAACGCTACCGGATATATTGAAA
*
1807594 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACATGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
* * **
1807658 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATTTATTGAAAGCATCGATACTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
* *
1807723 AATATATCGA-TCTATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
131 AATATATCGATTC-ATAACAATATAACAGGT-AAAAAATGACAAAACCAGCCTATAAATGACAAA
* *
1807787 ACAGGTAAAACGCTACCGGATATGTTGATA
194 ACAGGTAAAACGCTACCGGATATATTGAAA
* * *
1807817 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAAGT-AAAAAAATGACAAAAC
* * *
1807882 CGGTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTAT
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
1807945 TATAAGTATC
Statistics
Matches: 322, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
220 10 0.03
221 48 0.15
222 90 0.28
223 103 0.32
225 71 0.22
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (223 bp):
GTGTCGATACTTTATAAAAATGTATTGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
AATATATCGATTCATAACAATATAACAGGTAAAAAATGACAAAACCAGCCTATAAATGACAAAAC
AGGTAAAACGCTACCGGATATATTGAAA
Found at i:1808120 original size:179 final size:180
Alignment explanation
Indices: 1807816--1808267 Score: 744
Period size: 179 Copynumber: 2.5 Consensus size: 180
1807806 ATATGTTGAT
*
1807816 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAAATGACAAAA
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAAT--AACAGGT-AAAAATATGACAAAA
* ** * * *
1807881 CCGGTCTATAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATT
63 TCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATT
*
1807946 ATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
128 ATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAA
* *
1807999 AGTGTCGATACTTTAT-AAAATGTATCGATCCATAACAATAACATGTAAAAATATGATAAAATCG
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAACAGGTAAAAATATGACAAAATCG
1808063 GTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTATA
66 GTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTATA
1808128 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAA
131 AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAA
1808178 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAAC-A-ATAACAGGTAAAAATATGACAAAAT
* *
1808243 CGATCTCGAAATGATAAAACCGGTA
64 CGGTCTCGAAATGACAAAACCGGTA
1808268 GTAAAAAAGT
Statistics
Matches: 252, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
179 140 0.56
180 26 0.10
181 1 0.00
182 69 0.27
183 16 0.06
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (180 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAACAGGTAAAAATATGACAAAATCG
GTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGATAGTGTCGATACTTTATTATA
AGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTAATAA
Found at i:1811228 original size:19 final size:21
Alignment explanation
Indices: 1811206--1811248 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1811196 CCCCTTAATA
1811206 TTTACA-ATTTTTC-TTATAT
1 TTTACATATTTTTCTTTATAT
* *
1811225 TTTAGATTTTTTTCTTTATAT
1 TTTACATATTTTTCTTTATAT
1811246 TTT
1 TTT
1811249 CTATTGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 6 0.30
21 9 0.45
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTACATATTTTTCTTTATAT
Found at i:1814034 original size:12 final size:13
Alignment explanation
Indices: 1814005--1814034 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1813995 ATTCTTATAG
1814005 GAAAATTTAAAAA
1 GAAAATTTAAAAA
1814018 GAAAATTTAAAAA
1 GAAAATTTAAAAA
1814031 -AAAA
1 GAAAA
1814035 AACTTCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (13 bp):
GAAAATTTAAAAA
Found at i:1817584 original size:30 final size:30
Alignment explanation
Indices: 1817527--1817584 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
1817517 AATAAGATTA
* *
1817527 TAAAATATAAGATTATAATATTATATTATG
1 TAAAATATAACATTACAATATTATATTATG
* * *
1817557 TAAAATATTACATTACATTATTTTATTA
1 TAAAATATAACATTACAATATTATATTA
1817585 AAATTATTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (30 bp):
TAAAATATAACATTACAATATTATATTATG
Found at i:1818083 original size:14 final size:14
Alignment explanation
Indices: 1818064--1818115 Score: 95
Period size: 14 Copynumber: 3.7 Consensus size: 14
1818054 ATTCTATTAG
*
1818064 GATGGCTATGCTTT
1 GATGGCTACGCTTT
1818078 GATGGCTACGCTTT
1 GATGGCTACGCTTT
1818092 GATGGCTACGCTTT
1 GATGGCTACGCTTT
1818106 GATGGCTACG
1 GATGGCTACG
1818116 TCCAATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (14 bp):
GATGGCTACGCTTT
Found at i:1823473 original size:18 final size:18
Alignment explanation
Indices: 1823450--1823484 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1823440 AATTGCTCAA
1823450 ATATTCATCAGACATAAC
1 ATATTCATCAGACATAAC
* *
1823468 ATATTCTTCAGAGATAA
1 ATATTCATCAGACATAA
1823485 ATCCAAAAGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (18 bp):
ATATTCATCAGACATAAC
Found at i:1831684 original size:70 final size:70
Alignment explanation
Indices: 1831553--1831685 Score: 194
Period size: 70 Copynumber: 1.9 Consensus size: 70
1831543 CACCTGATAG
* *
1831553 GGTTAGGCAACAATGCAGAAGCAAAACACCACTGGGGCTAATCCAAGCCACCTAGGTTGAACGGA
1 GGTTAGGCAACAATGCAGAAGCAAAACACCACTGGGGCTAATCCAAGCCACCAAGGCTGAACGGA
1831618 TCTCA
66 TCTCA
** * * * *
1831623 GGTTAGGCAACAATGTGGAAGTAAAACACCACTGGGGCTAATCCAAGGCTCCAATGCTGAACG
1 GGTTAGGCAACAATGCAGAAGCAAAACACCACTGGGGCTAATCCAAGCCACCAAGGCTGAACG
1831686 AATTTGAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
70 55 1.00
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.17
Consensus pattern (70 bp):
GGTTAGGCAACAATGCAGAAGCAAAACACCACTGGGGCTAATCCAAGCCACCAAGGCTGAACGGA
TCTCA
Found at i:1834472 original size:45 final size:45
Alignment explanation
Indices: 1834423--1834882 Score: 647
Period size: 45 Copynumber: 10.2 Consensus size: 45
1834413 AAAATGAATA
* *
1834423 CATAAATGAAATGCATAACGGTGCATTATC-AGCATGAAATGTTGC
1 CATAAATGAAATGCATAACGGTGCATTATCGA-CATGAAAGGATGC
*
1834468 CATAAATGAAATGCATAATGGTGCATTATCGACATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
* * **
1834513 CATAAATGAAATGTATAACGGTCCATTATCGGTATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
* * * *
1834558 CATAAATGAAATGCATAACGGTTCAATATCGACAAGAAATGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
* *
1834603 CATGAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
* * *
1834648 CGTGAATGAAATGCATAACGGTGCATTATCG-CATGAAATGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
* * *
1834692 CTTAAATGAAATGCATAACGGTGTATTATCGACATGAAAAGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
* *
1834737 CATAAATGAAATGCATAATGGTGGATTATCGACATGAAAGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
*
1834782 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGAATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
* * * *
1834827 CATAAATGAAATGCATAATGGTGCAATAT-AAGCATGAACGGATGC
1 CATAAATGAAATGCATAACGGTGCATTATCGA-CATGAAAGGATGC
1834872 CATAAATGAAA
1 CATAAATGAAA
1834883 ATAAAGAATA
Statistics
Matches: 373, Mismatches: 39, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
44 41 0.11
45 331 0.89
46 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (45 bp):
CATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGC
Found at i:1834829 original size:224 final size:225
Alignment explanation
Indices: 1834423--1834882 Score: 699
Period size: 224 Copynumber: 2.0 Consensus size: 225
1834413 AAAATGAATA
* *
1834423 CATAAATGAAATGCATAACGGTGCATTATCAGCATGAAATGTTGCCATAAATGAAATGCATAATG
1 CATAAATGAAATGCATAACGGTGCATTATCAGCATGAAATGATGCCATAAATGAAATGCATAACG
* * **
1834488 GTGCATTATCGACATGAAAGGATGCCATAAATGAAATGTATAACGGTCCATTATCGGTATGAAAG
66 GTGCATTATCGACATGAAAAGATGCCATAAATGAAATGCATAACGGTCCATTATCGACATGAAAG
* *
1834553 GATGCCATAAATGAAATGCATAACGGTTCAATATCGACAAGAAATGATGCCATGAATGAAATGCA
131 GATGCCATAAATGAAATGCATAACGGTGCAATATCGACAAGAAATGATGCCATAAATGAAATGCA
* **
1834618 TAACGGTGCATTATCGGCATGAAAGGATGC
196 TAACGGTGCAATATAAGCATGAAAGGATGC
* * *
1834648 CGTGAATGAAATGCATAACGGTGCATTATC-GCATGAAATGATGCCTTAAATGAAATGCATAACG
1 CATAAATGAAATGCATAACGGTGCATTATCAGCATGAAATGATGCCATAAATGAAATGCATAACG
* * **
1834712 GTGTATTATCGACATGAAAAGATGCCATAAATGAAATGCATAATGGTGGATTATCGACATGAAAG
66 GTGCATTATCGACATGAAAAGATGCCATAAATGAAATGCATAACGGTCCATTATCGACATGAAAG
* *
1834777 GATGCCATAAATGAAATGCATAACGGTGCATTATCGACATGAAA-GAATGCCATAAATGAAATGC
131 GATGCCATAAATGAAATGCATAACGGTGCAATATCGACAAGAAATG-ATGCCATAAATGAAATGC
* *
1834841 ATAATGGTGCAATATAAGCATGAACGGATGC
195 ATAACGGTGCAATATAAGCATGAAAGGATGC
1834872 CATAAATGAAA
1 CATAAATGAAA
1834883 ATAAAGAATA
Statistics
Matches: 210, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
223 1 0.00
224 181 0.86
225 28 0.13
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (225 bp):
CATAAATGAAATGCATAACGGTGCATTATCAGCATGAAATGATGCCATAAATGAAATGCATAACG
GTGCATTATCGACATGAAAAGATGCCATAAATGAAATGCATAACGGTCCATTATCGACATGAAAG
GATGCCATAAATGAAATGCATAACGGTGCAATATCGACAAGAAATGATGCCATAAATGAAATGCA
TAACGGTGCAATATAAGCATGAAAGGATGC
Found at i:1838625 original size:45 final size:45
Alignment explanation
Indices: 1838558--1839010 Score: 595
Period size: 45 Copynumber: 10.1 Consensus size: 45
1838548 TACATAGATA
* *
1838558 AAATGCATAATGGTGCATTATCGACATGAAAGGATGCCATAAATG
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * * *
1838603 AAATAG-ATAACAGTGAATTATCGGCATGAAAGGATACCTTAAATG
1 AAAT-GCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* **
1838648 AAATGCATAATGGTGCATTATCGGCATGAAAGGATATCATAAATG
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
*
1838693 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATGAATG
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
*
1838738 AAATGCATAACGGTGTATTATCGGCATGAAAGGATGCCATAAATG
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * * *
1838783 AAATGCATAACGATGCATTATCGGCTTGAAAGGATGCTATAAA-A
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * *
1838827 AAATGCATAACGATGCATTATCAGCATGAAAGGATGCAATAAATG
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * **
1838872 AAATGCATAACGGTGCATTATCGACATGAAATGATGTTATAAATG
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* * * *
1838917 AAATGCATAACAGCGCATTATTGGTATGAAAGGATGCCATAAATG
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
* ** * *
1838962 AAAATGCATAATGGTGCATTATAAGCATGAACGGATGCCAAAAATG
1 -AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
1839008 AAA
1 AAA
1839011 ATAAAGAATA
Statistics
Matches: 356, Mismatches: 48, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
44 41 0.12
45 277 0.78
46 38 0.11
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (45 bp):
AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG
Found at i:1838893 original size:179 final size:180
Alignment explanation
Indices: 1838558--1838997 Score: 575
Period size: 179 Copynumber: 2.4 Consensus size: 180
1838548 TACATAGATA
* * *
1838558 AAATGCATAATGGTGCATTATCGACATGAAAGGATGCCATAAATGAAATAG-ATAAC-AGTGAAT
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAT-GCATAACGA-TGCAT
* * * * *
1838621 TATCGGCATGAAAGGATACCTTAAATGAAATGCATAATGGTGCATTATCGGCATGAAAGGATATC
64 TATCGGCATGAAAGGATACCTTAAATAAAATGCATAACGATGCATTATCAGCATGAAAGGATAGC
* *
1838686 ATAAATGAAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATGAATG
129 ATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATG
*
1838738 AAATGCATAACGGTGTATTATCGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGCATTA
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGCATTA
* *
1838803 TCGGCTTGAAAGGAT-GCTATAAA-AAAATGCATAACGATGCATTATCAGCATGAAAGGAT-GCA
66 TCGGCATGAAAGGATACCT-TAAATAAAATGCATAACGATGCATTATCAGCATGAAAGGATAGC-
* **
1838865 ATAAATGAAATGCATAACGGTGCATTATCGACATGAAATGATGTTATAAATG
129 ATAAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATG
* * * * * *
1838917 AAATGCATAACAGCGCATTATTGGTATGAAAGGATGCCATAAATGAAAATGCATAATGGTGCATT
1 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATG-AAATGCATAACGATGCATT
** *
1838982 ATAAGCATGAACGGAT
65 ATCGGCATGAAAGGAT
1838998 GCCAAAAATG
Statistics
Matches: 228, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
178 1 0.00
179 122 0.54
180 104 0.46
181 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (180 bp):
AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAATGCATAACGATGCATTA
TCGGCATGAAAGGATACCTTAAATAAAATGCATAACGATGCATTATCAGCATGAAAGGATAGCAT
AAATGAAATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATG
Found at i:1841443 original size:24 final size:24
Alignment explanation
Indices: 1841416--1841464 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1841406 AGTCTTCCTG
* *
1841416 ATGATGTATAAAACATCTGTGTAC
1 ATGATGTATAAAACATATATGTAC
1841440 ATGATGTATAAAACATATATGTAC
1 ATGATGTATAAAACATATATGTAC
1841464 A
1 A
1841465 ATGTCATGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATATATGTAC
Found at i:1846621 original size:55 final size:55
Alignment explanation
Indices: 1846537--1847009 Score: 615
Period size: 55 Copynumber: 8.6 Consensus size: 55
1846527 CGGATATTAC
* * ** * * * **
1846537 AACTCATTATAAATTCCGTGGTTTTGTACACTTAGTGCCGATACGGTAATTCACA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCACA
* * * *
1846592 AACTCATTATGAAATACGTGGGGTTGTACACATAGTGCCAATACGGAAATTCACA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCACA
* * *
1846647 AACTCATTATGAATTTCGTGGGGTTGCACTCATAGTGCTAATAC-AGAAATTTACA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGA-AAATTCACA
* * *
1846702 AACTCATTATGAATTTTGTGGGGTTGTACACATAGTGCCAATATGAAAATTCACA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCACA
* * * *
1846757 AACTCGTTATGAATTTCGTGGGGTTACACACATAGTGCCAATATGAAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCACA
* * *
1846812 AACTCATTATGATTTTCGTGGGGTTGCACACATAGTGACAATACGAAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCACA
* *
1846867 AACTCATTATGAATTTCGTGGGGTTGCACAAATAGTGCCAATACGAAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCACA
* ** * *
1846922 AACTCAATATGAATTTCGTGGGGTTGCACACATAGTGTGAATACGGAAATTCATA
1 AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCACA
* *
1846977 AACTCATTATAAATTTTGTGGGGTTGCACACAT
1 AACTCATTATGAATTTCGTGGGGTTGCACACAT
1847010 TTACATTAAA
Statistics
Matches: 374, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
55 373 1.00
56 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (55 bp):
AACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAAATTCACA
Found at i:1852423 original size:20 final size:20
Alignment explanation
Indices: 1852398--1852440 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
1852388 TCCTTGTAGA
1852398 CCATCAGAATGGGCTTAGGT
1 CCATCAGAATGGGCTTAGGT
1852418 CCATCAGAATGGGCTTAGGT
1 CCATCAGAATGGGCTTAGGT
1852438 CCA
1 CCA
1852441 ACCTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (20 bp):
CCATCAGAATGGGCTTAGGT
Found at i:1855555 original size:31 final size:31
Alignment explanation
Indices: 1855517--1855578 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
1855507 TCATCACCAT
*
1855517 GAGCAATGTTATGACTATCACATAATAATCC
1 GAGCAATGTTATGACTATCACATAACAATCC
1855548 GAGCAATGTTATGACTATCACATAACAATCC
1 GAGCAATGTTATGACTATCACATAACAATCC
1855579 AAGACTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (31 bp):
GAGCAATGTTATGACTATCACATAACAATCC
Found at i:1867876 original size:5 final size:5
Alignment explanation
Indices: 1867866--1867891 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1867856 GGATAAAAGG
1867866 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
1867892 GAGAGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:1878081 original size:36 final size:36
Alignment explanation
Indices: 1878034--1878108 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
1878024 AGAGAATAAA
1878034 TGCATGCATTTACCGTGTATTGTATTGTGATATGAC
1 TGCATGCATTTACCGTGTATTGTATTGTGATATGAC
1878070 TGCATGCATTTACCGTGTATTGTATTGTGATATGAC
1 TGCATGCATTTACCGTGTATTGTATTGTGATATGAC
1878106 TGC
1 TGC
1878109 GTGTCACACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (36 bp):
TGCATGCATTTACCGTGTATTGTATTGTGATATGAC
Found at i:1881610 original size:89 final size:90
Alignment explanation
Indices: 1881441--1881633 Score: 300
Period size: 89 Copynumber: 2.1 Consensus size: 90
1881431 TGATCCAACT
* * *
1881441 GGTAAGTCCTTACGGACCTAAGGATACCCTTGGGTAGTCCCACAGGCCCCAAGGCATATCCTTAG
1 GGTAAG-CCCTACGGACCTAAGGATACCCTTGGGTAGGCCCACAGGCCCCAAGGAATATCCTTAG
* *
1881506 GTTGGTTCCCTTTGTTTTGTGCTTAG
65 GTTGGCTCCCTTTGTTGTGTGCTTAG
*
1881532 GGTAA-CCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGG-CCCAAGGAATATCCTTAGG
1 GGTAAGCCCTACGGACCTAAGGATACCCTTGGGTAGGCCCACAGGCCCCAAGGAATATCCTTAGG
1881595 TTGGCTCCCTATTGTTGTGTGCTTAG
66 TTGGCTCCCT-TTGTTGTGTGCTTAG
1881621 GGTAAGCCCTACG
1 GGTAAGCCCTACG
1881634 AACGCAATTC
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
88 27 0.29
89 55 0.59
90 7 0.07
91 5 0.05
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.28
Consensus pattern (90 bp):
GGTAAGCCCTACGGACCTAAGGATACCCTTGGGTAGGCCCACAGGCCCCAAGGAATATCCTTAGG
TTGGCTCCCTTTGTTGTGTGCTTAG
Found at i:1886299 original size:89 final size:90
Alignment explanation
Indices: 1886130--1886322 Score: 300
Period size: 89 Copynumber: 2.1 Consensus size: 90
1886120 TGATCCAACT
* * *
1886130 GGTAAGTCCTTACGGACCTAAGGATACCCTTGGGTAGTCCCACAGGCCCCAAGGTATATCCTTAG
1 GGTAAG-CCCTACGGACCTAAGGATACCCTTGGGTAGGCCCACAGGCCCCAAGGAATATCCTTAG
* *
1886195 GTTGGTTCCCTTTGTTTTGTGCTTAG
65 GTTGGCTCCCTTTGTTGTGTGCTTAG
*
1886221 GGTAA-CCCTACGGACCTAAGGATACCCTTGGGTAGGCCCATAGG-CCCAAGGAATATCCTTAGG
1 GGTAAGCCCTACGGACCTAAGGATACCCTTGGGTAGGCCCACAGGCCCCAAGGAATATCCTTAGG
1886284 TTGGCTCCCTATTGTTGTGTGCTTAG
66 TTGGCTCCCT-TTGTTGTGTGCTTAG
1886310 GGTAAGCCCTACG
1 GGTAAGCCCTACG
1886323 AACGTAATTC
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
88 27 0.29
89 55 0.59
90 7 0.07
91 5 0.05
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.28
Consensus pattern (90 bp):
GGTAAGCCCTACGGACCTAAGGATACCCTTGGGTAGGCCCACAGGCCCCAAGGAATATCCTTAGG
TTGGCTCCCTTTGTTGTGTGCTTAG
Found at i:1893806 original size:18 final size:17
Alignment explanation
Indices: 1893783--1893816 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1893773 CCGTTACTAG
1893783 TGAACCGGTCAGAACCGT
1 TGAACCGGTCA-AACCGT
*
1893801 TGAACCGTTCAAACCG
1 TGAACCGGTCAAACCG
1893817 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (17 bp):
TGAACCGGTCAAACCGT
Found at i:1900340 original size:39 final size:39
Alignment explanation
Indices: 1900297--1901077 Score: 829
Period size: 39 Copynumber: 20.2 Consensus size: 39
1900287 TAGTTTCTTT
* * *
1900297 AAATCTTTTGTTTCAAGTGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
1900336 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAAA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
1900375 AAATCTAT-TGTTTCGAGGGAAACTATCTCAAGCGAGACA
1 AAATCT-TCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
*
1900414 AAATCTTCTGTTTAGAGGGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
1900453 AAATCTTCTATTTCGAGGGAAACTATCTCAAGCGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * *
1900492 AAATCTTTTGTTTCGAGGGAAACTATCTCAAACGAGAAA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
1900531 AAATCTTATGTTTCAAGGGAAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
1900570 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCAAGAAA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
1900609 AAATCTTCTGTTTTGAGGGGAACTATCTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * *
1900648 AAATCTTCTGTTTGGAGGGAAACTATCTCAAACGAAATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * * *
1900687 AAATCTTTTGTTTAGAGGGAAACTATCTTAAGCGAGACA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
1900726 AAATCTTTTGTTTCGAGGGAAACTAACTCAAGCGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* *
1900765 AAATCTTATGTTTCGAGGGAAACTATCTCAAGCTAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * ** *
1900804 AAATTTTGTGTTTTAAGGGAAACTATCTCAAGTGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* * * ** * *
1900843 CAATCTTC--TTT--A--AAAACAATCTTGAGTGAAATGA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGAT-A
** **
1900877 AATATCTTCT-TTT-GAGTAAAAACCGTCTCAAGCGAGAT-
1 AA-ATCTTCTGTTTCGAG-GGAAACTATCTCAAGCGAGATA
* * * * * *
1900915 AAATC-T-TGTTT-TAAGAAAAATAATCT-AGAGTGAAAT-
1 AAATCTTCTGTTTCGAGGGAAACT-ATCTCA-AGCGAGATA
* ** * *
1900951 AAATCTTCTTGCTTCGAGTAAAAACTGTCTCAAGCGAGA-C
1 AAATCTTC-TGTTTCGAG-GGAAACTATCTCAAGCGAGATA
*
1900991 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGTGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
* ** * *
1901030 AAATCTTCTGTTTCAAGTAAAACTATCTAAAGAGAGATA
1 AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
1901069 AAATCTTCT
1 AAATCTTCT
1901078 TTAAAAACAA
Statistics
Matches: 631, Mismatches: 91, Indels: 40
0.83 0.12 0.05
Matches are distributed among these distances:
33 15 0.02
34 2 0.00
35 13 0.02
36 22 0.03
37 8 0.01
38 19 0.03
39 514 0.81
40 32 0.05
41 6 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (39 bp):
AAATCTTCTGTTTCGAGGGAAACTATCTCAAGCGAGATA
Found at i:1900972 original size:76 final size:76
Alignment explanation
Indices: 1900854--1901317 Score: 350
Period size: 76 Copynumber: 6.1 Consensus size: 76
1900844 AATCTTCTTT
* * *
1900854 AAAAACAATCTTGAGTGAAATGAAATATCTTC-TTTT-GAGTAAAAACCGTCTCAAGCGAGATAA
1 AAAAACAATCTAGAGTGAAATG-AA-ATCTTCTTTTTCGAGTAAAAACTGTCTCAAGCGAGACAA
1900917 ATCTTGTTTTAAG
64 ATCTTGTTTTAAG
* *
1900930 AAAAATAATCTAGAGTGAAAT-AAATCTTCTTGCTTCGAGTAAAAACTGTCTCAAGCGAGACAAA
1 AAAAACAATCTAGAGTGAAATGAAATCTTCTT-TTTCGAGTAAAAACTGTCTCAAGCGAGACAAA
**
1900994 TCTTCTGTTTCGAG
65 TC-T-TGTTTTAAG
** * * * * * * * * *
1901008 GGAAACTATCTCA-AGTGAGATAAAATCTTCTGTTTCAAGT-AAAACTATCTAAAGAGAGATAAA
1 AAAAACAATCT-AGAGTGAAATGAAATCTTCTTTTTCGAGTAAAAACTGTCTCAAGCGAGA-CAA
*
1901071 ATCTT-CTTT---
64 ATCTTGTTTTAAG
* * * * *
1901080 AAAAACAATCTTA-ATTGAAATG-GATCTTCTTATTTTGAGTAAAAAATGTCTCAAGCGAGACGA
1 AAAAACAATC-TAGAGTGAAATGAAATCTTCTT-TTTCGAGTAAAAACTGTCTCAAGCGAGACAA
*
1901143 ATCTTTTTTTAAG
64 ATCTTGTTTTAAG
* * * * * *
1901156 AAAAAC-AGC-ATGTAGTGAAATGAAAT-GTCTTATTTTGAGTAAAAATTGTTTCAAGCGAGATA
1 AAAAACAATCTA-G-AGTGAAATGAAATCTTCTT-TTTCGAGTAAAAACTGTCTCAAGCGAGACA
*
1901218 AATCTTGTTTTAGG
63 AATCTTGTTTTAAG
* * * *
1901232 AAAAACAATCTTGAGTCAAATGAAAT-GTCTTCTTTCGAGT-AAAACTGTCTCAAGTGAGACAAA
1 AAAAACAATCTAGAGTGAAATGAAATCTTCTT-TTTCGAGTAAAAACTGTCTCAAGCGAGACAAA
1901295 GTC-TGTTTTAAG
65 -TCTTGTTTTAAG
*
1901307 AAAAATAATCT
1 AAAAACAATCT
1901318 CAAGTGAGAT
Statistics
Matches: 307, Mismatches: 59, Indels: 45
0.75 0.14 0.11
Matches are distributed among these distances:
71 7 0.02
72 26 0.08
73 26 0.08
74 3 0.01
75 43 0.14
76 137 0.45
77 23 0.07
78 32 0.10
79 10 0.03
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (76 bp):
AAAAACAATCTAGAGTGAAATGAAATCTTCTTTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAT
CTTGTTTTAAG
Found at i:1901031 original size:226 final size:227
Alignment explanation
Indices: 1900752--1901160 Score: 599
Period size: 226 Copynumber: 1.8 Consensus size: 227
1900742 GGGAAACTAA
* *
1900752 CTCAAGCGAGATAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCTAGATAAAATTTTGTGTTT
1 CTCAAGCGAGATAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCTAGATAAAATCTTCTGTTT
* * * * * *
1900817 TAAGGGAAACTATCTCAAGTGAGATACAATCTTCTTTAAAAACAATCTTGAGTGAAATGAAAT-A
66 CAAGGAAAACTATCTAAAGAGAGATAAAATCTTCTTTAAAAACAATCTTAAGTGAAATG-AATCA
* * *
1900881 TCTTCTTTTGAGTAAAAACCGTCTCAAGCGAGATAAATCTTGTTTTAAGAAAAATAATCTAGAGT
130 TCTTATTTTGAGTAAAAAACGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAATAATCTAGAGT
1900946 GAAATAAATCTTCTTGCTTCGAGTAAAAACTGT
195 GAAATAAATCTTCTTGCTTCGAGTAAAAACTGT
* *
1900979 CTCAAGCGAGA-CAAATCTTCTGTTTCGAGGGAAACTATCTCAAG-TGAGATAAAATCTTCTGTT
1 CTCAAGCGAGATAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCT-AGATAAAATCTTCTGTT
* * * *
1901042 TCAAGTAAAACTATCTAAAGAGAGATAAAATCTTCTTTAAAAACAATCTTAATTGAAATGGATCT
65 TCAAGGAAAACTATCTAAAGAGAGATAAAATCTTCTTTAAAAACAATCTTAAGTGAAATGAATCA
* * *
1901107 TCTTATTTTGAGTAAAAAATGTCTCAAGCGAGACGAATCTTTTTTTAAGAAAAA
130 TCTTATTTTGAGTAAAAAACGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAA
1901161 CAGCATGTAG
Statistics
Matches: 160, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
225 3 0.02
226 146 0.91
227 11 0.07
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (227 bp):
CTCAAGCGAGATAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCTAGATAAAATCTTCTGTTT
CAAGGAAAACTATCTAAAGAGAGATAAAATCTTCTTTAAAAACAATCTTAAGTGAAATGAATCAT
CTTATTTTGAGTAAAAAACGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAATAATCTAGAGTG
AAATAAATCTTCTTGCTTCGAGTAAAAACTGT
Found at i:1901175 original size:226 final size:225
Alignment explanation
Indices: 1900752--1901223 Score: 592
Period size: 226 Copynumber: 2.1 Consensus size: 225
1900742 GGGAAACTAA
* *
1900752 CTCAAGCGAGATAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCTAGATAAAATTTTGTGTTT
1 CTCAAGCGAGA-AAAATCTTATGTTTCGAGGGAAACTATCTCAAGCTAGATAAAATCTTCTGTTT
* * * * * *
1900817 TAAGGGAAACTATCTCAAGTGAGATACAATCTTCTTTAAAAACAATCTTGAGTGAAATGAAATAT
65 CAAGGAAAACTATCTAAAGAGAGATAAAATCTTCTTTAAAAACAATCTTAAGTGAAATGAAATAT
* * * *
1900882 CTTCTTTTGAGTAAAAACCGTCTCAAGCGAGATAAATCTTGTTTTAAGAAAAATAATCTAGAGTG
130 CTTATTTTGAGTAAAAAACGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTA-AGTG
* *
1900947 AAAT-AAATCTTCTTGCTTCGAGTAAAAACTGT
194 AAATGAAAT-GTCTTACTTCGAGTAAAAACTGT
* *
1900979 CTCAAGCGAGACAAATCTTCTGTTTCGAGGGAAACTATCTCAAG-TGAGATAAAATCTTCTGTTT
1 CTCAAGCGAGAAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCT-AGATAAAATCTTCTGTTT
* * * *
1901043 CAAGTAAAACTATCTAAAGAGAGATAAAATCTTCTTTAAAAACAATCTTAATTGAAATG-GATCT
65 CAAGGAAAACTATCTAAAGAGAGATAAAATCTTCTTTAAAAACAATCTTAAGTGAAATGAAAT-A
* * * *
1901107 TCTTATTTTGAGTAAAAAATGTCTCAAGCGAGACGAATCTTTTTTTAAGAAAAACAGCATGT-AG
129 TCTTATTTTGAGTAAAAAACGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACA--ATCTAAG
* * *
1901171 TGAAATGAAATGTCTTATTTTGAGTAAAAATTGT
192 TGAAATGAAATGTCTTACTTCGAGTAAAAACTGT
* *
1901205 TTCAAGCGAGATAAATCTT
1 CTCAAGCGAGAAAAATCTT
1901224 GTTTTAGGAA
Statistics
Matches: 211, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
225 3 0.01
226 190 0.90
227 15 0.07
228 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.32
Consensus pattern (225 bp):
CTCAAGCGAGAAAAATCTTATGTTTCGAGGGAAACTATCTCAAGCTAGATAAAATCTTCTGTTTC
AAGGAAAACTATCTAAAGAGAGATAAAATCTTCTTTAAAAACAATCTTAAGTGAAATGAAATATC
TTATTTTGAGTAAAAAACGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAATCTAAGTGAA
ATGAAATGTCTTACTTCGAGTAAAAACTGT
Found at i:1912755 original size:24 final size:24
Alignment explanation
Indices: 1912723--1912770 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1912713 AAGGAGACTG
*
1912723 ACACAACAAACTTACATGATTATA
1 ACACAACAAACTTACATAATTATA
*
1912747 ACACGACAAACTTACATAATTATA
1 ACACAACAAACTTACATAATTATA
1912771 GTACATAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (24 bp):
ACACAACAAACTTACATAATTATA
Found at i:1920262 original size:12 final size:13
Alignment explanation
Indices: 1920243--1920268 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1920233 AATATATTAA
1920243 TAAAAAAAATAGT
1 TAAAAAAAATAGT
1920256 TAAAAAAAATAGT
1 TAAAAAAAATAGT
1920269 GATCATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
TAAAAAAAATAGT
Found at i:1924823 original size:21 final size:22
Alignment explanation
Indices: 1924799--1924843 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1924789 AATCAAAGGG
1924799 AAAAA-TATAAAAATA-AACATA
1 AAAAACTA-AAAAATATAACATA
*
1924820 AAAAACTAAAAAATATAAGATA
1 AAAAACTAAAAAATATAACATA
1924842 AA
1 AA
1924844 GAAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (22 bp):
AAAAACTAAAAAATATAACATA
Found at i:1924891 original size:18 final size:16
Alignment explanation
Indices: 1924860--1924910 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
1924850 AATATAAAGG
*
1924860 AAAATAAATCAAATAGA
1 AAAATAAATAAAATA-A
1924877 AAAATGAAATAAAATAA
1 AAAAT-AAATAAAATAA
1924894 AAAAT-AATAATAATAA
1 AAAATAAATAA-AATAA
1924910 A
1 A
1924911 TTAATAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 5 0.16
16 6 0.19
17 11 0.35
18 9 0.29
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (16 bp):
AAAATAAATAAAATAA
Found at i:1931812 original size:21 final size:20
Alignment explanation
Indices: 1931731--1931792 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
1931721 TTTTGGTACA
* * *
1931731 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATTCCCCCTT
1931751 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC-TT
1931772 GAATGGGAACCGATTCCCCCT
1 G-A-GGGAACCGATTCCCCCT
1931793 GTAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 16 0.44
21 2 0.06
22 2 0.06
23 16 0.44
ACGTcount: A:0.24, C:0.32, G:0.24, T:0.19
Consensus pattern (20 bp):
GAGGGAACCGATTCCCCCTT
Found at i:1934740 original size:37 final size:36
Alignment explanation
Indices: 1934692--1935013 Score: 140
Period size: 38 Copynumber: 8.7 Consensus size: 36
1934682 CAACAAAAAC
*
1934692 ATTTTCTAAAACCATATAATATATATGTTTAAAAAATA
1 ATTTTC-AAAACTATATAATATATAT-TTTAAAAAATA
* * *
1934730 ATTTTCAAAACTATATAATTTATATTTTCAAAAATT
1 ATTTTCAAAACTATATAATATATATTTTAAAAAATA
* * * *
1934766 GTTTTAAAAACTTATATATTATATATATTTTTCAAAAA-C
1 ATTTTCAAAAC-TATATA--ATATATA-TTTTAAAAAATA
* * * **
1934805 GTTTTAAAAATTATATAATATATATAAGTTTTTTTAAAAT-
1 ATTTTCAAAACTATAT-A-ATATAT-A--TTTTAAAAAATA
* * *
1934845 GTTTTAAAAACTATATAATATATATATGGTCT-CAAAAT-
1 ATTTTCAAAACTATATAATATATAT-T--T-TAAAAAATA
* * **
1934883 GTTTTAAAAACTATATAATATAT-TTTTTCAAAAT-
1 ATTTTCAAAACTATATAATATATATTTTAAAAAATA
* * * * *
1934917 GTTTTAAAAATTATATAATATATATGTTTTCAAAAATG
1 ATTTTCAAAACTATATAATATATA--TTTTAAAAAATA
* * *
1934955 A-TTTAAAAACTATATATCATATAGATTTT-CAAAAT-
1 ATTTTCAAAACTATATA--ATATATATTTTAAAAAATA
* *
1934990 GTTTTCAAAATTATATAATATATA
1 ATTTTCAAAACTATATAATATATA
1935014 CATATATAAA
Statistics
Matches: 240, Mismatches: 24, Indels: 44
0.78 0.08 0.14
Matches are distributed among these distances:
33 1 0.00
34 35 0.15
35 1 0.00
36 38 0.16
37 52 0.22
38 53 0.22
39 26 0.11
40 34 0.14
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (36 bp):
ATTTTCAAAACTATATAATATATATTTTAAAAAATA
Found at i:1934828 original size:38 final size:37
Alignment explanation
Indices: 1934699--1935013 Score: 299
Period size: 36 Copynumber: 8.5 Consensus size: 37
1934689 AACATTTTCT
* * ** * *
1934699 AAAACCATATAATATATAT-GTTTAAAAAATAATTTTC
1 AAAACTATATAATATATATATTTTTCAAAAT-GTTTTA
1934736 AAAACTATATAAT-T-TATA-TTTTCAAAAATTGTTTTA
1 AAAACTATATAATATATATATTTTTC-AAAA-TGTTTTA
* *
1934772 AAAACTTATATATTATATATATTTTTCAAAAACGTTTTA
1 AAAAC-TATATAATATATATATTTTTC-AAAATGTTTTA
* *
1934811 AAAATTATATAATATATATAAGTTTTTTTAAAATGTTTTA
1 AAAACTATATAATATATAT-A--TTTTTCAAAATGTTTTA
* *
1934851 AAAACTATATAATATATATATGGTCTCAAAATGTTTTA
1 AAAACTATATAATATATATAT-TTTTCAAAATGTTTTA
1934889 AAAACTATAT-A-ATATAT-TTTTTCAAAATGTTTTA
1 AAAACTATATAATATATATATTTTTCAAAATGTTTTA
* * *
1934923 AAAATTATATAATATATAT-GTTTTCAAAAATGATTTA
1 AAAACTATATAATATATATATTTTTC-AAAATGTTTTA
* *
1934960 AAAACTATAT-ATCATATAGA-TTTTCAAAATGTTTTC
1 AAAACTATATAAT-ATATATATTTTTCAAAATGTTTTA
*
1934996 AAAATTATATAATATATA
1 AAAACTATATAATATATA
1935014 CATATATAAA
Statistics
Matches: 236, Mismatches: 25, Indels: 35
0.80 0.08 0.12
Matches are distributed among these distances:
34 23 0.10
35 8 0.03
36 56 0.24
37 53 0.22
38 37 0.16
39 16 0.07
40 38 0.16
41 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
AAAACTATATAATATATATATTTTTCAAAATGTTTTA
Found at i:1935025 original size:36 final size:36
Alignment explanation
Indices: 1934699--1935013 Score: 316
Period size: 37 Copynumber: 8.5 Consensus size: 36
1934689 AACATTTTCT
* * ** * *
1934699 AAAACCATATAATATATATGTTTAAAAAATAATTTTC
1 AAAACTATATAATATATATATTTTCAAAAT-GTTTTA
1934736 AAAACTATATAAT-T-TATATTTTCAAAAATTGTTTTA
1 AAAACTATATAATATATATATTTTC-AAAA-TGTTTTA
* *
1934772 AAAACTTATATATTATATATATTTTTCAAAAACGTTTTA
1 AAAAC-TATATAATATATATA-TTTTC-AAAATGTTTTA
* *
1934811 AAAATTATATAATATATATAAGTTTTTTTAAAATGTTTTA
1 AAAACTATATAATATATAT-A---TTTTCAAAATGTTTTA
*
1934851 AAAACTATATAATATATATATGGTCTCAAAATGTTTTA
1 AAAACTATATAATATATATAT--TTTCAAAATGTTTTA
1934889 AAAACTATATAATATAT-T-TTTTCAAAATGTTTTA
1 AAAACTATATAATATATATATTTTCAAAATGTTTTA
* * *
1934923 AAAATTATATAATATATATGTTTTCAAAAATGATTTA
1 AAAACTATATAATATATATATTTTC-AAAATGTTTTA
* *
1934960 AAAACTATAT-ATCATATAGATTTTCAAAATGTTTTC
1 AAAACTATATAAT-ATATATATTTTCAAAATGTTTTA
*
1934996 AAAATTATATAATATATA
1 AAAACTATATAATATATA
1935014 CATATATAAA
Statistics
Matches: 238, Mismatches: 24, Indels: 33
0.81 0.08 0.11
Matches are distributed among these distances:
34 30 0.13
35 7 0.03
36 46 0.19
37 52 0.22
38 44 0.18
39 16 0.07
40 38 0.16
41 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (36 bp):
AAAACTATATAATATATATATTTTCAAAATGTTTTA
Found at i:1935739 original size:84 final size:84
Alignment explanation
Indices: 1935609--1936556 Score: 946
Period size: 84 Copynumber: 11.4 Consensus size: 84
1935599 AATTTATTGA
* * * * * * ** *
1935609 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATTTGGTTTGCCTCT-GAGCTGAATGTAATC
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA--TGATGTGCCT-TGGAGCTGAGCGTAGTC
* *
1935673 GAACTCGGAGGTCTTCGGTTGG
63 GAACTCGAAGGTCTTTGGTTGG
*** * *
1935695 CAGATAGTTTTTCTCGACTTAAGCTATACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1935760 CTCGAAGGTC--T--TTGG
66 CTCGAAGGTCTTTGGTTGG
*
1935775 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
1935840 CTCGAAGGTCTTTGGTTGA
66 CTCGAAGGTCTTTGGTTGG
* * * * * *
1935859 CAGATAACCCGTCTCGACTTAAGTTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
1935924 CTCGAAGGTCTTTGGTTGA
66 CTCGAAGGTCTTTGGTTGG
* * * * * * *
1935943 CAGATAACCCTACTTGACTTAAGTTATGCTGAAAATGATATGCCTTAGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
1936008 CTCGAAGGTCTTTTGG-TGA
66 CTCGAAGGTC-TTTGGTTGG
* * * * * ** *** * *
1936027 CAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCAAAGCTGAGTGTAATCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
* * *
1936092 ACTTGAGGGTC--T--TCGG
65 ACTCGAAGGTCTTTGGTTGG
* * *
1936108 CAGATAGCCCTTCTCGACTTAAGCTTTGCTGCAAATGATGCGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1936173 CTCGAAGGTCTTTGGTTGG
66 CTCGAAGGTCTTTGGTTGG
* * * * * * *
1936192 CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGTTGAGTGTAATCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
*
1936257 ACTTGAAGGTC--T--TTGG
65 ACTCGAAGGTCTTTGGTTGG
1936273 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
1936338 CTCGAAGGTCTTTGG-TGA
66 CTCGAAGGTCTTTGGTTGG
* * * * * * * * * * * *
1936356 CAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTTCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATG-TGCCTTGGAGCTGAGCGTAGTCGA
**
1936421 ACTCGGGGGTC--T--TTGG
65 ACTCGAAGGTCTTTGGTTGG
* * * * *
1936437 CAGATAGCCCTTATTGACTTAAGCTATTCTGCAAATGATATGCCTCGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
1936502 CTCGAATGTCTTTTGG-TGA
66 CTCGAAGGTC-TTTGGTTGG
*
1936521 CAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAAT
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAAT
1936557 AGTTTCTTTA
Statistics
Matches: 718, Mismatches: 120, Indels: 50
0.81 0.14 0.06
Matches are distributed among these distances:
80 155 0.22
81 111 0.15
82 5 0.01
83 38 0.05
84 324 0.45
85 58 0.08
86 27 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (84 bp):
CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTTGG
Found at i:1935851 original size:164 final size:163
Alignment explanation
Indices: 1935609--1936556 Score: 1106
Period size: 165 Copynumber: 5.7 Consensus size: 163
1935599 AATTTATTGA
* * * * * * ** *
1935609 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATTTGGTTTGCCTCT-GAGCTGAATGTAATC
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA--TGATGTGCCT-TGGAGCTGAGCGTAGTC
* * * **** * *
1935673 GAACTCGGAGGTCTTCGGTTGGCAGATAGTTTTTCTCGACTTAAGCTATACTGCAAATGATATGC
63 GAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGC
* * * *
1935738 CTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
127 CTCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
*
1935775 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * *
1935840 CTCGAAGGTCTTTGGTTGACAGATAACCCGTCTCGACTTAAGTTATGTTGTAAATGATATGCCTT
66 CTCGAAGGTCTTTGG-TGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTC
* * *
1935905 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTG
130 GAAGCTGAGTGTAATCGAACTCGAAGGTCTTT-G--G
* * * * * * *
1935942 ACAGATAACCCTACTTGACTTAAGTTATGCTGAAAATGATATGCCTTAGAGCTGAGCGTAGTCGA
1 -CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
* * * ** *
1936007 ACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCC
65 ACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CC
* * * *
1936072 TCAAAGCTGAGTGTAATCGAACTTGAGGGTCTTCGG
128 TCGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
* * *
1936108 CAGATAGCCCTTCTCGACTTAAGCTTTGCTGCAAATGATGCGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
1936173 CTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCT
66 CTCGAAGGTCTTTGG-TGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATG-CCT
* *
1936238 CGAAGTTGAGTGTAATCGAACTTGAAGGTCTTTGG
129 CGAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
1936273 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * * * * *
1936338 CTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATGTTCCCTC
66 CTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-ATGCCTC
**
1936403 GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG
130 GAAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
* * * * *
1936437 CAGATAGCCCTTATTGACTTAAGCTATTCTGCAAATGATATGCCTCGGAGCTGAGCGTAGTCGAA
1 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * *
1936502 CTCGAATGTCTTTTGGTGACAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAAT
66 CTCGAAGGTC-TTTGGTGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1936557 AGTTTCTTTA
Statistics
Matches: 679, Mismatches: 93, Indels: 21
0.86 0.12 0.03
Matches are distributed among these distances:
163 1 0.00
164 252 0.37
165 255 0.38
166 31 0.05
167 1 0.00
168 106 0.16
169 33 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (163 bp):
CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTGACAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTCG
AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG
Found at i:1936471 original size:329 final size:332
Alignment explanation
Indices: 1935743--1936556 Score: 1199
Period size: 329 Copynumber: 2.5 Consensus size: 332
1935733 TATGCCTTGG
* * * *
1935743 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCA
*
1935808 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCGTCT
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCT
* * * * *
1935873 CGACTTAAGTTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
131 CGACTTAAGTTATGCTGCAAATGATATGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTG
* *
1935938 GTTGACAGATAACCCTACTTGACTTAAGTTATGCTGAAAATGATATGCCTTAGAGCTGAGCGTAG
196 G-TGACAGATAACCCTACTCGACTTAAGCTATGCTGAAAATGATATGCCTTAGAGCTGAGCGTAG
*
1936003 TCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGT
260 TCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGT
1936068 GCCCTCAA
325 GCCCTCAA
* *
1936076 AGCTGAGTGTAATCGAACTTGAGGGTCTTCGGCAGATAGCCCTTCTCGACTTAAGCT-TTGCTGC
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATT-CTGC
* * *
1936140 AAATGATGCGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
65 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTC
* * * *
1936205 TCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGTTGAGTGTAATCGAACTTGAAGGTCTT
130 TCGACTTAAGTTATGCTGCAAATGATATG-CCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTT
* * * * *
1936270 T-G-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
194 TGGTGACAGATAACCCTACTCGACTTAAGCTATGCTGAAAATGATATGCCTTAGAGCTGAGCGTA
*
1936332 GTCGAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTGTAAATGATG
259 GTCGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTATAAATGATG
* *
1936396 TTCCCTCGA
324 TGCCCTCAA
* * *
1936405 AGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTATTGACTTAAGCTATTCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCA
* * * *
1936470 AATGATATGCCTCGGAGCTGAGCGTAGTCGAACTCGAATGTCTTTTGG-TGACAGATAGCCCTTC
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGACAGATAACCCTTC
* *
1936534 TTGACTTAAGCTATGCTGCAAAT
130 TCGACTTAAGTTATGCTGCAAAT
1936557 AGTTTCTTTA
Statistics
Matches: 433, Mismatches: 44, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
329 182 0.42
330 75 0.17
331 1 0.00
332 1 0.00
333 144 0.33
334 30 0.07
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (332 bp):
AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATTCTGCA
AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGACAGATAACCCTTCT
CGACTTAAGTTATGCTGCAAATGATATGCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTG
GTGACAGATAACCCTACTCGACTTAAGCTATGCTGAAAATGATATGCCTTAGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTG
CCCTCAA
Found at i:1939322 original size:15 final size:15
Alignment explanation
Indices: 1939302--1939338 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1939292 ATATTTAGCT
*
1939302 GGGCGGGCGGATATG
1 GGGCGGGCGGATACG
*
1939317 GGGCGGGCGGATGCG
1 GGGCGGGCGGATACG
1939332 GGGCGGG
1 GGGCGGG
1939339 TAATGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.16, G:0.68, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATACG
Found at i:1941667 original size:5 final size:5
Alignment explanation
Indices: 1941657--1941714 Score: 57
Period size: 5 Copynumber: 11.6 Consensus size: 5
1941647 CAAAAGGGGA
** *
1941657 AAAAT AAAAT AAAAT AAAAT -AAAT CAAAGG AAAAT AAAAT AAAA- ATATAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT A-AAAT
1941707 AAAAT AAA
1 AAAAT AAA
1941715 GCAAAGGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 5 0.12
5 35 0.81
6 3 0.07
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:1941811 original size:18 final size:16
Alignment explanation
Indices: 1941780--1941839 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
1941770 TATATAAAGG
*
1941780 AAAATAAATCAAATAGA
1 AAAATAAATAAAATA-A
1941797 AAAATGAAATAAAATAA
1 AAAAT-AAATAAAATAA
1941814 AAAAT-AATAATAATAA
1 AAAATAAATAA-AATAA
1941830 AATAATAAAT
1 AA-AATAAAT
1941840 GAAACAAAGG
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
15 5 0.13
16 7 0.18
17 14 0.37
18 12 0.32
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAATAAATAAAATAA
Found at i:1941818 original size:34 final size:33
Alignment explanation
Indices: 1941602--1941820 Score: 99
Period size: 34 Copynumber: 6.2 Consensus size: 33
1941592 CATAAATATT
* *
1941602 AAATAAATC-AAAGAAAAAACAAAAACAATAATAATA
1 AAATAAATCAAAAG-AAAAA-TAAAATAA-AATAA-A
*
1941638 ATAATAAAGCAAAAGGGGAAAAATAAAATAAAAT--A
1 A-AATAAATCAAAA---GAAAAATAAAATAAAATAAA
*
1941673 AAATAAATC-AAAGGAAAATAAAATAAAAATATATA
1 AAATAAATCAAAAGAAAAATAAAAT-AAAATA-A-A
* *
1941708 AAATAAAGCAAAGGGAAAAATGTAAAAATAAACATAAAA
1 AAATAAATCAAA-AGAAAAA--T-AAAATAAA-AT-AAA
** * **
1941747 AAATAAAAGATAAAGAAAAA-ATATATATAAA-GGA
1 AAATAAATCA-AAAGAAAAATA-AAATA-AAATAAA
*
1941781 AAATAAATCAAATAGAAAAATGAAATAAAATAAA
1 AAATAAATCAAA-AGAAAAATAAAATAAAATAAA
1941815 AAATAA
1 AAATAA
1941821 TAATAATAAA
Statistics
Matches: 140, Mismatches: 20, Indels: 48
0.67 0.10 0.23
Matches are distributed among these distances:
30 11 0.08
31 5 0.04
33 8 0.06
34 34 0.24
35 12 0.09
36 8 0.06
37 14 0.10
38 6 0.04
39 25 0.18
40 15 0.11
41 2 0.01
ACGTcount: A:0.72, C:0.04, G:0.09, T:0.16
Consensus pattern (33 bp):
AAATAAATCAAAAGAAAAATAAAATAAAATAAA
Found at i:1943125 original size:70 final size:71
Alignment explanation
Indices: 1943068--1943240 Score: 240
Period size: 73 Copynumber: 2.4 Consensus size: 71
1943058 GTTTTTTTTT
1943068 AAATGTTTTAAAAACTATATAATATATATATGGTTTC-AAAATATTTTAAAAACTATATAATATA
1 AAATGTTTTAAAAACTATAT-A-ATATATATGGTTTCAAAAATATTTTAAAAACTATATAATATA
1943132 TTTTTTCA
64 TTTTTTCA
* * *
1943140 AAATGTTTTAAAAATTATATAATATATATGTTTTCAAAAATGTTTTAAAAACTATATATCATATA
1 AAATGTTTTAAAAACTATATAATATATATGGTTTCAAAAATATTTTAAAAACTATATA--ATATA
**
1943205 GATTTTCA
64 TTTTTTCA
* *
1943213 AAATGTTTTCAAAATTATATAATATATA
1 AAATGTTTTAAAAACTATATAATATATA
1943241 CATATATAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
70 13 0.14
71 22 0.24
72 19 0.21
73 38 0.41
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (71 bp):
AAATGTTTTAAAAACTATATAATATATATGGTTTCAAAAATATTTTAAAAACTATATAATATATT
TTTTCA
Found at i:1943221 original size:36 final size:35
Alignment explanation
Indices: 1943068--1943240 Score: 215
Period size: 36 Copynumber: 4.8 Consensus size: 35
1943058 GTTTTTTTTT
1943068 AAATGTTTTAAAAACTATATAATATATATATGGTTTCA
1 AAATGTTTTAAAAACTATAT-ATATATATAT--TTTCA
* *
1943106 AAATATTTTAAAAACTATATA-ATATATTTTTTCA
1 AAATGTTTTAAAAACTATATATATATATATTTTCA
* *
1943140 AAATGTTTTAAAAATTATATAATATATATGTTTTCAA
1 AAATGTTTTAAAAACTATAT-ATATATATATTTTC-A
*
1943177 AAATGTTTTAAAAACTATATATCATATAGATTTTCA
1 AAATGTTTTAAAAACTATATAT-ATATATATTTTCA
* *
1943213 AAATGTTTTCAAAATTATATA-ATATATA
1 AAATGTTTTAAAAACTATATATATATATA
1943241 CATATATAAA
Statistics
Matches: 120, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
34 29 0.24
35 1 0.01
36 40 0.33
37 31 0.26
38 19 0.16
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (35 bp):
AAATGTTTTAAAAACTATATATATATATATTTTCA
Found at i:1943252 original size:36 final size:36
Alignment explanation
Indices: 1942925--1943240 Score: 291
Period size: 37 Copynumber: 8.5 Consensus size: 36
1942915 AACATTTTCT
* * ** * *
1942925 AAAACCATATAATATATATGTTTAAAAAATAATTTTC
1 AAAACTATATAATATATATATTTTCAAAAT-GTTTTA
1942962 AAAACTATATAAT-T-TATATTTTCAAAATTTGTTTTA
1 AAAACTATATAATATATATATTTTCAAAA--TGTTTTA
* **
1942998 AAAACTTATATATTATATATATTTTTCAAAAACATTTTA
1 AAAAC-TATATAATATATATA-TTTTC-AAAATGTTTTA
* * **
1943037 AAAATTATGTAATATATATAAGTTTTTTTTTAAATGTTTTA
1 AAAACTATATAATATATAT-A----TTTTCAAAATGTTTTA
*
1943078 AAAACTATATAATATATATATGGTTTCAAAATATTTTA
1 AAAACTATATAATATATATAT--TTTCAAAATGTTTTA
1943116 AAAACTATATAATATAT-T-TTTTCAAAATGTTTTA
1 AAAACTATATAATATATATATTTTCAAAATGTTTTA
* *
1943150 AAAATTATATAATATATATGTTTTCAAAAATGTTTTA
1 AAAACTATATAATATATATATTTTC-AAAATGTTTTA
* *
1943187 AAAACTATAT-ATCATATAGATTTTCAAAATGTTTTC
1 AAAACTATATAAT-ATATATATTTTCAAAATGTTTTA
*
1943223 AAAATTATATAATATATA
1 AAAACTATATAATATATA
1943241 CATATATAAA
Statistics
Matches: 233, Mismatches: 28, Indels: 37
0.78 0.09 0.12
Matches are distributed among these distances:
34 30 0.13
35 11 0.05
36 43 0.18
37 53 0.23
38 42 0.18
39 14 0.06
40 6 0.03
41 29 0.12
42 5 0.02
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (36 bp):
AAAACTATATAATATATATATTTTCAAAATGTTTTA
Found at i:1943263 original size:73 final size:71
Alignment explanation
Indices: 1943068--1943263 Score: 173
Period size: 73 Copynumber: 2.7 Consensus size: 71
1943058 GTTTTTTTTT
* * * ** *
1943068 AAATGTTTTAAAAACTATATAATATATATATGGTTTC-AAAATATTTTAAAAACTATATAATATA
1 AAATGTTTTAAAAATTATATAATATATACAT--TATCAAAAATAAATAAAAAACTATATAATATA
**
1943132 TTTTTTCA
64 GATTTTCA
** * *** *
1943140 AAATGTTTTAAAAATTATATAATATATATGTTTTCAAAAATGTTTTAAAAACTATATATCATATA
1 AAATGTTTTAAAAATTATATAATATATACATTATCAAAAATAAATAAAAAACTATATA--ATATA
1943205 GATTTTCA
64 GATTTTCA
*
1943213 AAATGTTTTCAAAATTATATAATATATACA-TAT-ATAAAATAAAATAAAAAA
1 AAATGTTTTAAAAATTATATAATATATACATTATCA-AAAAT-AAATAAAAAA
1943264 GACCAAAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
70 4 0.04
71 22 0.21
72 36 0.34
73 44 0.42
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.41
Consensus pattern (71 bp):
AAATGTTTTAAAAATTATATAATATATACATTATCAAAAATAAATAAAAAACTATATAATATAGA
TTTTCA
Found at i:1943278 original size:16 final size:16
Alignment explanation
Indices: 1943253--1943294 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
1943243 TATATAAAAT
1943253 AAAAT-AAAAAAGACCA
1 AAAATGAAAAAA-ACCA
**
1943269 AAAATGAAAAAAATGA
1 AAAATGAAAAAAACCA
1943285 AAAATGAAAA
1 AAAATGAAAA
1943295 TAAATATGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.76, C:0.05, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATGAAAAAAACCA
Found at i:1944596 original size:3 final size:3
Alignment explanation
Indices: 1944584--1944616 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1944574 ATTATATTAC
1944584 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1944617 ATTTACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1944957 original size:22 final size:22
Alignment explanation
Indices: 1944916--1944962 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1944906 CAACCTACAT
1944916 AAACAACAACCCAAAACAGTACG
1 AAACAACAACCCAAAACAGTA-G
* *
1944939 AAACAATAA-CCAAATCAGTAG
1 AAACAACAACCCAAAACAGTAG
1944960 AAA
1 AAA
1944963 TCAAGACCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 10 0.45
23 8 0.36
ACGTcount: A:0.60, C:0.23, G:0.09, T:0.09
Consensus pattern (22 bp):
AAACAACAACCCAAAACAGTAG
Found at i:1951502 original size:38 final size:34
Alignment explanation
Indices: 1951460--1951552 Score: 96
Period size: 38 Copynumber: 2.6 Consensus size: 34
1951450 AGCAAACTGG
*
1951460 TTGTCGCCTTTGAGACAATTTCTTTATAAAAACAATTT
1 TTGTCG-C-TTGAGACAATTTCTCTA-AAAAA-AATTT
*
1951498 TTGTCTTGCTTGAGACAATCTCTCTAAAAAAAATTT
1 TTGTC--GCTTGAGACAATTTCTCTAAAAAAAATTT
* *
1951534 GTCTCGCTTGAGACAATTT
1 TTGTCGCTTGAGACAATTT
1951553 TCAACAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
34 13 0.27
36 8 0.17
37 5 0.10
38 20 0.42
39 1 0.02
40 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (34 bp):
TTGTCGCTTGAGACAATTTCTCTAAAAAAAATTT
Found at i:1951543 original size:34 final size:37
Alignment explanation
Indices: 1951469--1951550 Score: 107
Period size: 34 Copynumber: 2.3 Consensus size: 37
1951459 GTTGTCGCCT
* * *
1951469 TTGAGACAATTTCTTTATAAAAACAATTTTTGTCTTGC
1 TTGAGACAATCTCTCTATAAAAACAA-TTTTGTCTCGC
1951507 TTGAGACAATCTCTCTA-AAAAA-AA-TTTGTCTCGC
1 TTGAGACAATCTCTCTATAAAAACAATTTTGTCTCGC
1951541 TTGAGACAAT
1 TTGAGACAAT
1951551 TTTCAACAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
34 19 0.46
36 2 0.05
37 5 0.12
38 15 0.37
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (37 bp):
TTGAGACAATCTCTCTATAAAAACAATTTTGTCTCGC
Found at i:1958187 original size:20 final size:21
Alignment explanation
Indices: 1958162--1958200 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1958152 TTGCCCCAAT
*
1958162 TCATCC-ATTATCGATACTAC
1 TCATCCTAGTATCGATACTAC
1958182 TCATCCTAGTATCGATACT
1 TCATCCTAGTATCGATACT
1958201 TCAACCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (21 bp):
TCATCCTAGTATCGATACTAC
Found at i:1961576 original size:22 final size:22
Alignment explanation
Indices: 1961498--1961578 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 22
1961488 ATATTCTTCT
* * * *
1961498 ATCAGTGCTAAGGCACTTTAGT
1 ATCAGTGTTGAGGCATTTTAGC
* *
1961520 ATCAGTGTTGAGCCATTTTACC
1 ATCAGTGTTGAGGCATTTTAGC
* * *
1961542 ATCAGCGCTGAGGCGTTTTAGC
1 ATCAGTGTTGAGGCATTTTAGC
1961564 ATCAGTGTTGAGGCA
1 ATCAGTGTTGAGGCA
1961579 CTTCCATTAA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (22 bp):
ATCAGTGTTGAGGCATTTTAGC
Found at i:1969955 original size:42 final size:42
Alignment explanation
Indices: 1969830--1969955 Score: 146
Period size: 42 Copynumber: 3.0 Consensus size: 42
1969820 GCCCCTAGGC
* ***
1969830 CATTAGTAAGTCTTCCGAGCACGATGATTAAATCCTATGCCC
1 CATTAGTAAGTCTTCCGAGCATGATGATTAAATCCTATGGGT
* * **
1969872 CATTAGTAAATCTTTCGAGCATGATGATTAAATCCGCTGGGT
1 CATTAGTAAGTCTTCCGAGCATGATGATTAAATCCTATGGGT
* *
1969914 CATTAGTAAGTATTCCGAGCAT-AGTGATTAAATTCTATGGGT
1 CATTAGTAAGTCTTCCGAGCATGA-TGATTAAATCCTATGGGT
1969956 TATCTTTAAG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
41 1 0.01
42 68 0.99
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (42 bp):
CATTAGTAAGTCTTCCGAGCATGATGATTAAATCCTATGGGT
Found at i:1970467 original size:44 final size:44
Alignment explanation
Indices: 1970360--1970618 Score: 177
Period size: 44 Copynumber: 5.9 Consensus size: 44
1970350 AAATTAAAAT
* * * * * *
1970360 TTTTGCTCGATTCAATCACAAAAGAAGGTGGATCAACATTCA--T
1 TTTTGTTCGATTCCATCACATAAGGAGTTGGATCAACA-TCACCC
** *
1970403 TTTTGCTT-GATTATATCACATAAGGATTTGGATCAACATCACCC
1 TTTTG-TTCGATTCCATCACATAAGGAGTTGGATCAACATCACCC
* * * * *
1970447 TTTTGTTCGATTCCTTCACATAAGGAGTTGGATCAGCATTATCT
1 TTTTGTTCGATTCCATCACATAAGGAGTTGGATCAACATCACCC
** * * * * * *
1970491 TTTTACTCGATT-CATCACATAAGAAGTTTGATTAGCAACATCC
1 TTTTGTTCGATTCCATCACATAAGGAGTTGGATCAACATCACCC
* * * * *
1970534 TTTTGTTCGATTCCAACACAGAAGGAGGTGGATCAACAT-TCCT
1 TTTTGTTCGATTCCATCACATAAGGAGTTGGATCAACATCACCC
* * * *
1970577 TTTTTTCTCAATTCCATGACATAAGAAGTTGGATCAACATCA
1 TTTTGT-TCGATTCCATCACATAAGGAGTTGGATCAACATCA
1970619 ATTATCACAC
Statistics
Matches: 163, Mismatches: 46, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
42 3 0.02
43 71 0.44
44 89 0.55
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (44 bp):
TTTTGTTCGATTCCATCACATAAGGAGTTGGATCAACATCACCC
Found at i:1970508 original size:87 final size:88
Alignment explanation
Indices: 1970360--1970618 Score: 240
Period size: 87 Copynumber: 3.0 Consensus size: 88
1970350 AAATTAAAAT
* * * * * ** **
1970360 TTTTGCTCGATT-CAATCACAAAAGAAGGTGGATCAACATT-CATTTTTGCTTGATTATATCACA
1 TTTTGTTCGATTCCAA-CACAGAAGGAGGTGGATCAACATTCCTTTTTTACTCAATTCCATCACA
*
1970423 TAAGGATTTGGATCAACATCACCC
65 TAAGAATTTGGATCAACATCACCC
** * * * * *
1970447 TTTTGTTCGATTCCTTCACATAAGGAGTTGGATCAGCATT-ATCTTTTTACTCGATT-CATCACA
1 TTTTGTTCGATTCCAACACAGAAGGAGGTGGATCAACATTCCT-TTTTTACTCAATTCCATCACA
* * * *
1970510 TAAGAAGTTT-GATTAGCAACATCC
65 TAAGAA-TTTGGATCAACATCACCC
* *
1970534 TTTTGTTCGATTCCAACACAGAAGGAGGTGGATCAACATTCCTTTTTTTCTCAATTCCATGACAT
1 TTTTGTTCGATTCCAACACAGAAGGAGGTGGATCAACATTCCTTTTTTACTCAATTCCATCACAT
*
1970599 AAGAAGTTGGATCAACATCA
66 AAGAATTTGGATCAACATCA
1970619 ATTATCACAC
Statistics
Matches: 136, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
87 100 0.74
88 36 0.26
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (88 bp):
TTTTGTTCGATTCCAACACAGAAGGAGGTGGATCAACATTCCTTTTTTACTCAATTCCATCACAT
AAGAATTTGGATCAACATCACCC
Found at i:1974684 original size:20 final size:23
Alignment explanation
Indices: 1974659--1974701 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
1974649 AAAATTATTA
1974659 TATTTAT-TATTT-T-AATTTTT
1 TATTTATATATTTGTCAATTTTT
1974679 TATTTATATATTTGTCAATTTTT
1 TATTTATATATTTGTCAATTTTT
1974702 GTTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 1 0.05
23 7 0.35
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TATTTATATATTTGTCAATTTTT
Found at i:1974829 original size:22 final size:22
Alignment explanation
Indices: 1974804--1974849 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
1974794 AATAAAATAA
*
1974804 TATTTTTATATTCAAATGAATT
1 TATTTTAATATTCAAATGAATT
1974826 TATTTTAATATTCAAATGAATT
1 TATTTTAATATTCAAATGAATT
1974848 TA
1 TA
1974850 AATATTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (22 bp):
TATTTTAATATTCAAATGAATT
Found at i:1974864 original size:22 final size:22
Alignment explanation
Indices: 1974811--1974864 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1974801 TAATATTTTT
**
1974811 ATATTCAAATGAATTTATTTTA
1 ATATTCAAATGAATTTATAATA
1974833 ATATTCAAATGAATTTA-AATA
1 ATATTCAAATGAATTTATAATA
*
1974854 TTATTCGAAAT
1 ATATTC-AAAT
1974865 TGCCAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 7 0.25
22 21 0.75
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (22 bp):
ATATTCAAATGAATTTATAATA
Found at i:1975028 original size:17 final size:16
Alignment explanation
Indices: 1974999--1975040 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
1974989 ATCACATATC
1974999 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
1975016 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
1975031 AATTATTTTA
1 AATTATTTTA
1975041 AAATGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:1977770 original size:22 final size:23
Alignment explanation
Indices: 1977743--1977800 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
1977733 TATCTAAGAG
*
1977743 TTTGCATTCCCA-TTTCTGTATT
1 TTTGCATTCACATTTTCTGTATT
* *
1977765 TTTGCATTTACATTTTTTGTATT
1 TTTGCATTCACATTTTCTGTATT
*
1977788 TTTACATTCACAT
1 TTTGCATTCACAT
1977801 CTATTCGTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.57
Consensus pattern (23 bp):
TTTGCATTCACATTTTCTGTATT
Found at i:1982314 original size:67 final size:67
Alignment explanation
Indices: 1982205--1983104 Score: 820
Period size: 67 Copynumber: 13.5 Consensus size: 67
1982195 ACTTGAAACA
* * * * * *
1982205 TCAATCCTTGACTTACTCGTGCAGAGAAGTCAATATTTGTTATTCTTAATTCCCTCACGAAGAGA
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTAACTCCCTCGCGAAGAGG
1982270 AG
66 AG
* * * * * * *
1982272 CCAATCCATGATTTCCACGTGAAGAGAAGTCAACCTTTGTTATT-TCCAACTCCCTCGTGAAGAG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT-TAACTCCCTCGCGAAGAG
1982336 GAG
65 GAG
* * * * *
1982339 TCAATCCTTGATTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTAACTACCTTGCGAA-A-G
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTAACTCCCTCGCGAAGAGG
1982402 -G
66 AG
* * ** * * * * * * *
1982403 -CAATCAATTGACTTCCTTGAAAAGAGAATTCAATCTTTGTAATTCCTGACTCCCTAGCAAAAAG
1 TCAATC-CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTAACTCCCTCGCGAAGAG
1982467 GAG
65 GAG
* * * * * * *
1982470 TCAATCATTGACTTTCTCATTAAGAGATGTCAATCTTTGTTATTAC-TGACTCCCTCGCGAAGAT
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT-CTTAACTCCCTCGCGAAGAG
1982534 GAG
65 GAG
* * * * * *
1982537 TCAA-CCTTGACTTACTCGTGAAGAGAAGTCAATTTTTGTTATTCTTGATTCCCTTGTGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTAACTCCCTCGCGAAGAGG
1982601 AG
66 AG
* * * * * * * * * * *
1982603 TCAATCCTTGACTTCATCGTAAAGAGAAGTAAACCATTGTTATTCCTGACTTCTTCGTGAAGATG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTAACTCCCTCGCGAAGAGG
1982668 AG
66 AG
* * ** * *
1982670 TCAATCCTTTACTTCCTCGTGAAGAGAAGTCAATATTTGTTATT-TATGTCTCCCTCACGAGGAG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCT-TAACTCCCTCGCGAAGAG
1982734 GAG
65 GAG
* * * * * * ** *
1982737 TCAA-CCTTGACTTCATCATAAAGAGAAGTCAATCTTTGTTATTCCTGACTCCTTCTTG-AGAAT
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTAACTCCCTCGCGAAG-AG
1982800 GAG
65 GAG
* * * * *
1982803 TCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCATAACTCCCTAGAGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTAACTCCCTCGCGAAGAGG
1982868 AG
66 AG
* * * * *
1982870 TCAATCCTTGACATCCTCGTGAAGAGAAGTAAACCTTTTTTATTC-CAGACTCCCTCGCGAAGAG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTA-ACTCCCTCGCGAAGAG
1982934 GAG
65 GAG
* ** **
1982937 TCAATCCTTGACTTTCC-CTTGAAGAGAAGTCAATCTTTGTTATTTCTGGA-TCCCTCATGAAGA
1 TCAATCCTTGAC-TTCCTCGTGAAGAGAAGTCAATCTTTGTTA-TTCTTAACTCCCTCGCGAAGA
1983000 GGAG
64 GGAG
* *
1983004 CCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGAA-TCCCTCGCGAAGAG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATT-CTTAACTCCCTCGCGAAGAG
1983068 GAG
65 GAG
* * **
1983071 TCAATTCATGACTTCCTTATGAAGAGAAGTCAAT
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAAT
1983105 ATTCACGTGA
Statistics
Matches: 676, Mismatches: 136, Indels: 42
0.79 0.16 0.05
Matches are distributed among these distances:
63 5 0.01
64 44 0.07
65 4 0.01
66 115 0.17
67 493 0.73
68 15 0.02
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (67 bp):
TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTTAACTCCCTCGCGAAGAGG
AG
Found at i:1982950 original size:134 final size:134
Alignment explanation
Indices: 1982205--1984422 Score: 2078
Period size: 134 Copynumber: 16.8 Consensus size: 134
1982195 ACTTGAAACA
* * * * * * * *
1982205 TCAATCCTTGACTTACTCGTGCAGAGAAGTCAATATTTGTTATTCTTAATTCCCTCACGAAGAGA
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * * * * *
1982270 AGCCAATCCATGATTTC-CACGTGAAGAGAAGTCAACCTTTGTTATTTCC-AACTCCCTCGTGAA
66 AGTCAATCCTTGACTTCTTA-GTGAAGAGAAGTCAATCTTTGTTA-TTCCTGACTCCCTAGCGAA
1982333 GAGGAG
129 GAGGAG
* * * * *
1982339 TCAATCCTTGATTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTAACTACCTTGCGAA-A-G
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* ** * * *
1982402 -G-CAATCAATTGACTTCCTT-GAAAAGAGAATTCAATCTTTGTAATTCCTGACTCCCTAGCAAA
66 AGTCAATC-CTTGACTT-CTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAA
*
1982464 AAGGAG
129 GAGGAG
* * * * * * *
1982470 TCAATCATTGACTTTCTCATTAAGAGATGTCAATCTTTGTTATTACTGACTCCCTCGCGAAGATG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * * *
1982535 AGTCAA-CCTTGACTTAC-TCGTGAAGAGAAGTCAATTTTTGTTATTCTTGATTCCCTTGTGAAG
66 AGTCAATCCTTGACTT-CTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAG
1982598 AGGAG
130 AGGAG
* * * * * * * * *
1982603 TCAATCCTTGACTTCATCGTAAAGAGAAGTAAACCATTGTTATTCCTGACTTCTTCGTGAAGATG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * ** * *
1982668 AGTCAATCCTTTACTTCCTCGTGAAGAGAAGTCAATATTTGTTATTTATGTCTCCCTCA-CGAGG
66 AGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCT-AGCGAAG
1982732 AGGAG
130 AGGAG
* * * * ** *
1982737 TCAA-CCTTGACTTCATCATAAAGAGAAGTCAATCTTTGTTATTCCTGACTCCTTCTTG-AGAAT
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAG-AG
* * *
1982800 GAGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCATAACTCCCTAGAGAAG
65 GAGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAG
1982865 AGGAG
130 AGGAG
* * * * *
1982870 TCAATCCTTGACATCCTCGTGAAGAGAAGTAAACCTTTTTTATTCCAGACTCCCTCGCGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * *
1982935 AGTCAATCCTTGACTTTCCCT--TGAAGAGAAGTCAATCTTTGTTATTTCTGGA-TCCCTCA-TG
66 AGTCAATCCTTGAC-TT-CTTAGTGAAGAGAAGTCAATCTTTGTTATTCCT-GACTCCCT-AGCG
1982996 AAGAGGAG
127 AAGAGGAG
* *
1983004 CCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGAATCCCTCGCGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * *
1983069 AGTCAATTCATGACTTCCTTA-TGAAGAGAAGTCAA-------TATT-C--A----C--GTGAAG
66 AGTCAATCCTTGACTT-CTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAG
1983117 AGGAG
130 AGGAG
* * * * *
1983122 TCAATCCATGACTTCCTTGTGAAGAGAAGTCAATATTTGTTATTTCTGACTCCCTCGCAAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * ** * * *
1983187 AGTTAATCCTTGACTTTCTCA-TGAAGAAAAGTCAATCTTTTTTATTATTTACTCCCTCGTGAAG
66 AGTCAATCCTTGAC-TTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAG
1983251 AGGAG
130 AGGAG
* * * * *
1983256 TCAATCCTTGACTTACTCGTGAAGAGAAGTCAATTTTTGTTATTCTTGATTCCCTCGCGGAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * ** *
1983321 AGTCAAACATTGACTTCCTTA-TGAAGAGAAGTCAATTTTTGTTATTCCTGATTCCCTCTCGAGG
66 AGTCAATCCTTGACTT-CTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAG
*
1983385 ATGAG
130 AGGAG
* * *
1983390 TCAATCCTTGACTTCCTCATGAAGAGAAGTCAATATTTGTTATTCCTGACTCCCTAGCGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * * * * * *
1983455 AGTAAATCTTTGAATTCCTCGTGAAGAGAAGTCAACCATTGTTATTCCTAACTCCCTCA-CGAAT
66 AGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCT-AGCGAAG
*
1983519 AAGAG
130 AGGAG
* * * *
1983524 TCAATCCTTGACTTCCTCGTGAAGAGGAGTCAATCCTTG--A---CT---T-CCTCGTGAAGATG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* *
1983580 AGTCAATCCTTGACTTCCTCA-TGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAA
66 AGTCAATCCTTGACTT-CTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAG
1983644 AGGAG
130 AGGAG
* * * * *
1983649 TTAATCATTGACTTCCTCGTGAAGAGAAGTCAAT-TTTTTGTATTCATGATTCCCTCGCGAAGAG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGT-TATTCCTGACTCCCTCGCGAAGAG
* * * * *
1983713 GAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTCTGTTATTCATGACTCCCTCA-TGAA
65 GAGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCT-AGCGAA
*
1983777 TAGGAG
129 GAGGAG
* * * *
1983783 TCAATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTTTTCCTGACTCCCTAGCGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * *
1983848 AGTCAATCCTTGATTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCTCGCGAAGA
66 AGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGA
1983913 GGAG
131 GGAG
* * * ** * *
1983917 TCAATCCTGGACTTCCTCATGAAGAGAAGTTAATCTTTGTTATTCCTGACTCCCTATCAAAGATG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * * *
1983982 AGTCAAACCTTGATTTCCTCA-TGAAGAGAAGTTAACCTTTGTTATTCCTGACTCTC-ACGCGAA
66 AGTCAATCCTTGACTT-CTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTA-GCGAA
*
1984045 GAGAAG
129 GAGGAG
* * *
1984051 TCAATCCTTGACTTCCTCGTGGAGAGAAATCAATCTTTGTTATTCCTGACTCCCTCGCGGAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * ** * *
1984116 AGTCAATCCTTGATTTCTTCGTGAAGAGAAGTCAATCTTTTTTATTATTGACTCCCTCGCGAAGT
66 AGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGA
1984181 GGAG
131 GGAG
* * * * * *
1984185 TCAAACCTTGACTTCCTTGTGAAGAGAAGTCAACCTTTATTATTCCTGACTCCCTCGTGAGGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
* * * * *
1984250 AGTCAATCCTTGACTTCCTCA-TGGAA-A-AAATCAATTTTTGTTATTCCTGACTCCCTGGCGAG
66 AGTCAATCCTTGACTT-CTTAGT-GAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAA
* *
1984312 GAGCAA
129 GAGGAG
* * * * ** * * *
1984318 TCAATCGTTGACTTCTTCAT-AATGAGAAGTCAATCATTGTTATTCCCAACTTCCTTGGGAAGAG
1 TCAATCCTTGACTTCCTCGTGAA-GAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAG
* * * *
1984382 GAGTCAATCCTTGACTTCCTCGCGAAGAGGAGTCAATCTTT
65 GAGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTT
1984423 CTGATTTATT
Statistics
Matches: 1717, Mismatches: 299, Indels: 136
0.80 0.14 0.06
Matches are distributed among these distances:
118 95 0.06
119 2 0.00
120 1 0.00
123 1 0.00
124 3 0.00
125 99 0.06
126 3 0.00
127 5 0.00
128 1 0.00
129 2 0.00
130 10 0.01
131 92 0.05
132 14 0.01
133 329 0.19
134 1038 0.60
135 20 0.01
136 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (134 bp):
TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTCGCGAAGAGG
AGTCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGA
GGAG
Found at i:1983000 original size:38 final size:36
Alignment explanation
Indices: 1982956--1983075 Score: 101
Period size: 38 Copynumber: 3.4 Consensus size: 36
1982946 GACTTTCCCT
*
1982956 TGAAGAGAAGTCAATCTTTGTTATTTCTGGATCCCTCA
1 TGAAGAGAAGTCAATCTTTGTTA-TTCT-GATCCCTCG
* * *
1982994 TGAAGAGGAGCCAATCCTTG--A--CT--T-CCTCG
1 TGAAGAGAAGTCAATCTTTGTTATTCTGATCCCTCG
1983023 TGAAGAGAAGTCAATCTTTGTTATTCCTGAATCCCTCG
1 TGAAGAGAAGTCAATCTTTGTTATT-CTG-ATCCCTCG
* *
1983061 CGAAGAGGAGTCAAT
1 TGAAGAGAAGTCAAT
1983076 TCATGACTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
29 21 0.33
30 1 0.02
31 1 0.02
33 2 0.03
34 2 0.03
36 1 0.02
37 1 0.02
38 35 0.55
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (36 bp):
TGAAGAGAAGTCAATCTTTGTTATTCTGATCCCTCG
Found at i:1983032 original size:201 final size:199
Alignment explanation
Indices: 1982205--1984422 Score: 2098
Period size: 201 Copynumber: 11.2 Consensus size: 199
1982195 ACTTGAAACA
* * * * * *
1982205 TCAATCCTTGACTTACTCGTGCAGAGAAGTCAATATTTGTTATTCTTAATTCCCTCA-CGAAGAG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCT-AGCGAAGAG
* * * * * *
1982269 AAGCCAATCCATGATTTCCACGTGAAGAGAAGTCAACCTTTGTTATTTCCA-ACTCCCTCGTGAA
65 GAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAA-CTTTGTTA-TTCCAGACTCCCTCGCGAA
* * * * * *
1982333 GAGGAGTCAATCCTTGATTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTAACTACCTTGCG
128 GAGGAGTCAATCCTTGACTTCC-CATGAAGAGAAGTCAATCTTTGTTATTTCTGACTCCCTCGTG
1982398 AA-A-G-G
192 AAGAGGAG
* * ** * * * *
1982403 -CAATCAATTGACTTCCTTGAAAAGAGAATTCAATCTTTGTAATTCCTGACTCCCTAGCAAAAAG
1 TCAATC-CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAG
* * * * * * *
1982467 GAGTCAATCATTGACTTTCTCATTAAGAGATGTCAATCTTTGTTATTACTGACTCCCTCGCGAAG
65 GAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAA-CTTTGTTATTCCAGACTCCCTCGCGAAG
* * * * * *
1982532 ATGAGTCAA-CCTTGACTTACTCGTGAAGAGAAGTCAATTTTTGTTA-TTCTTGATTCCCTTGTG
129 AGGAGTCAATCCTTGACTT-CCCATGAAGAGAAGTCAATCTTTGTTATTTC-TGACTCCCTCGTG
1982595 AAGAGGAG
192 AAGAGGAG
* * * * * * * * * *
1982603 TCAATCCTTGACTTCATCGTAAAGAGAAGTAAACCATTGTTATTCCTGACTTCTTCGTGAAGATG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
* * * * * *
1982668 AGTCAATCCTTTACTTCCTCGTGAAGAGAAGTCAATATTTGTTATT-TATGTCTCCCTCACGAGG
66 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAA-CTTTGTTATTCCA-GACTCCCTCGCGAAG
* * * * *
1982732 AGGAGTCAA-CCTTGACTTCATCATAAAGAGAAGTCAATCTTTGTTATTCCTGACTCCTTCTTG-
129 AGGAGTCAATCCTTGACTTC-CCATGAAGAGAAGTCAATCTTTGTTATTTCTGACTCCCTCGTGA
*
1982795 AGAATGAG
193 AG-AGGAG
* * * * *
1982803 TCAATCCTTGACTTCTTAGTGAAGAGAAGTCAATCTTTGTTATTCATAACTCCCTAGAGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
* * *
1982868 AGTCAATCCTTGACATCCTCGTGAAGAGAAGTAAACCTTTTTTATTCCAGACTCCCTCGCGAAGA
66 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAA-CTTTGTTATTCCAGACTCCCTCGCGAAGA
* *
1982933 GGAGTCAATCCTTGACTTTCCCTTGAAGAGAAGTCAATCTTTGTTATTTCTGGA-TCCCTCATGA
130 GGAGTCAATCCTTGAC-TTCCCATGAAGAGAAGTCAATCTTTGTTATTTCT-GACTCCCTCGTGA
1982997 AGAGGAG
193 AGAGGAG
* * *
1983004 CCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGAATCCCTCGCGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
* * ** *
1983069 AGTCAATTCATGACTTCCTTATGAAGAGAAGTCAA------TATT-C--A------CGTGAAGAG
66 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACTTTGTTATTCCAGACTCCCTCGCGAAGAG
* ** * **
1983119 GAGTCAATCCATGACTTCCTTGTGAAGAGAAGTCAATATTTGTTATTTCTGACTCCCTCGCAAAG
131 GAGTCAATCCTTGACTTCC-CATGAAGAGAAGTCAATCTTTGTTATTTCTGACTCCCTCGTGAAG
1983184 AGGAG
195 AGGAG
* * * * * ** * * *
1983189 TTAATCCTTGACTTTCTCATGAAGAAAAGTCAATCTTTTTTATTATTTACTCCCTCGTGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
* * ** * *
1983254 AGTCAATCCTTGACTTACTCGTGAAGAGAAGTCAATTTTTGTTATTCTTGATTCCCTCGCGGAGA
66 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAA-CTTTGTTATTCCAGACTCCCTCGCGAAGA
* * * * * *
1983319 GGAGTCAAACATTGACTTCCTTATGAAGAGAAGTCAATTTTTGTTATTCCTGATTCCCTC-TCGA
130 GGAGTCAATCCTTGACTTCC-CATGAAGAGAAGTCAATCTTTGTTATTTCTGACTCCCTCGT-GA
* *
1983383 GGATGAG
193 AGAGGAG
* *
1983390 TCAATCCTTGACTTCCTCATGAAGAGAAGTCAATATTTGTTATTCCTGACTCCCTAGCGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
* * * * * *
1983455 AGTAAATCTTTGAATTCCTCGTGAAGAGAAGTCAACCATTGTTATTCCTA-ACTCCCTCACGAAT
66 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAA-CTTTGTTATTCC-AGACTCCCTCGCGAAG
* * * *
1983519 AAGAGTCAATCCTTGACTTCCTCGTGAAGAGGAGTCAATCCTTG--A---CT---T-CCTCGTGA
129 AGGAGTCAATCCTTGACTTCC-CATGAAGAGAAGTCAATCTTTGTTATTTCTGACTCCCTCGTGA
*
1983575 AGATGAG
193 AGAGGAG
* *
1983582 TCAATCCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAAAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
* * * * *
1983647 AGTTAATCATTGACTTCCTCGTGAAGAGAAGTCAATTTTTTGTATT-CATGATTCCCTCGCGAAG
66 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACTTTGT-TATTCCA-GACTCCCTCGCGAAG
* * *
1983711 AGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTCTGTTA-TTCATGACTCCCTCATG
129 AGGAGTCAATCCTTGACTTCC-CATGAAGAGAAGTCAATCTTTGTTATTTC-TGACTCCCTCGTG
*
1983775 AATAGGAG
192 AAGAGGAG
* * *
1983783 TCAATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTTTTCCTGACTCCCTAGCGAAGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
* *
1983848 AGTCAATCCTTGATTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCTCGCGAAGA
66 AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAA-CTTTGTTATTCCAGACTCCCTCGCGAAGA
* * * * *
1983913 GGAGTCAATCCTGGACTTCCTCATGAAGAGAAGTTAATCTTTGTTATTCCTGACTCCCT-ATCAA
130 GGAGTCAATCCTTGACTTCC-CATGAAGAGAAGTCAATCTTTGTTATTTCTGACTCCCTCGT-GA
*
1983977 AGATGAG
193 AGAGGAG
* * * * * *
1983984 TCAAACCTTGATTTCCTCATGAAGAGAAGTTAACCTTTGTTATTCCTGACTCTC-ACGCGAAGAG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTA-GCGAAGAG
* * * * *
1984048 AAGTCAATCCTTGACTTCCTCGTGGAGAGAAATCAATCTTTGTTATTCCTGACTCCCTCGCGGAG
65 GAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAA-CTTTGTTATTCCAGACTCCCTCGCGAAG
* * * * *
1984113 AGGAGTCAATCCTTGATTTCTTCGTGAAGAGAAGTCAATCTTTTTTATTAT-TGACTCCCTCGCG
129 AGGAGTCAATCCTTGACTTC-CCATGAAGAGAAGTCAATCTTTGTTATT-TCTGACTCCCTCGTG
*
1984177 AAGTGGAG
192 AAGAGGAG
* * * * * * *
1984185 TCAAACCTTGACTTCCTTGTGAAGAGAAGTCAACCTTTATTATTCCTGACTCCCTCGTGAGGAGG
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
* * * * * *
1984250 AGTCAATCCTTGACTTCCTCATGGAA-A-AAATCAATTTTTGTTATTCCTGACTCCCTGGCGAGG
66 AGTCAATCCTTGACTTCCTCGT-GAAGAGAAGTCAA-CTTTGTTATTCCAGACTCCCTCGCGAAG
* * * * * * ** * * *
1984313 AGCAATCAATCGTTGACTTCTTCAT-AATGAGAAGTCAATCATTGTTATTCCCAACTTCCTTGGG
129 AGGAGTCAATCCTTGACTTC-CCATGAA-GAGAAGTCAATCTTTGTTATTTCTGACTCCCTCGTG
1984377 AAGAGGAG
192 AAGAGGAG
* *
1984385 TCAATCCTTGACTTCCTCGCGAAGAGGAGTCAATCTTT
1 TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
1984423 CTGATTTATT
Statistics
Matches: 1671, Mismatches: 286, Indels: 124
0.80 0.14 0.06
Matches are distributed among these distances:
184 6 0.00
185 147 0.09
190 1 0.00
191 5 0.00
192 166 0.10
193 3 0.00
194 5 0.00
195 1 0.00
196 5 0.00
197 52 0.03
198 99 0.06
199 7 0.00
200 384 0.23
201 774 0.46
202 16 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (199 bp):
TCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAGAGG
AGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAACTTTGTTATTCCAGACTCCCTCGCGAAGAG
GAGTCAATCCTTGACTTCCCATGAAGAGAAGTCAATCTTTGTTATTTCTGACTCCCTCGTGAAGA
GGAG
Found at i:1983037 original size:29 final size:29
Alignment explanation
Indices: 1982989--1983155 Score: 78
Period size: 29 Copynumber: 5.7 Consensus size: 29
1982979 TTTCTGGATC
* * * *
1982989 CCTCATGAAGAGGAGCCAATCCTTGACTT
1 CCTCGTGAAGAGAAGTCAATCCATGACTT
**
1983018 CCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGAAT
1 CCTCGTGAAGAGAAGTCAATCCATG--A---CT---T
* * *
1983055 CCCTCGCGAAGAGGAGTCAATTCATGACTT
1 C-CTCGTGAAGAGAAGTCAATCCATGACTT
**
1983085 CCTTATGAAGAGAAGTC-A---AT-A-TT
1 CCTCGTGAAGAGAAGTCAATCCATGACTT
* *
1983108 -CACGTGAAGAGGAGTCAATCCATGACTT
1 CCTCGTGAAGAGAAGTCAATCCATGACTT
*
1983136 CCTTGTGAAGAGAAGTCAAT
1 CCTCGTGAAGAGAAGTCAAT
1983156 ATTTGTTATT
Statistics
Matches: 102, Mismatches: 20, Indels: 32
0.66 0.13 0.21
Matches are distributed among these distances:
22 12 0.12
23 3 0.03
24 1 0.01
25 2 0.02
26 2 0.02
27 1 0.01
28 3 0.03
29 49 0.48
30 2 0.02
31 1 0.01
33 2 0.02
34 2 0.02
36 1 0.01
37 2 0.02
38 19 0.19
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (29 bp):
CCTCGTGAAGAGAAGTCAATCCATGACTT
Found at i:1983138 original size:51 final size:51
Alignment explanation
Indices: 1983062--1983158 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
1983052 AATCCCTCGC
*
1983062 GAAGAGGAGTCAATTCATGACTTCCTTATGAAGAGAAGTCAATATTCACGT
1 GAAGAGGAGTCAATCCATGACTTCCTTATGAAGAGAAGTCAATATTCACGT
*
1983113 GAAGAGGAGTCAATCCATGACTTCCTTGTGAAGAGAAGTCAATATT
1 GAAGAGGAGTCAATCCATGACTTCCTTATGAAGAGAAGTCAATATT
1983159 TGTTATTTCT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (51 bp):
GAAGAGGAGTCAATCCATGACTTCCTTATGAAGAGAAGTCAATATTCACGT
Found at i:1983202 original size:118 final size:118
Alignment explanation
Indices: 1982994--1983222 Score: 341
Period size: 118 Copynumber: 1.9 Consensus size: 118
1982984 GGATCCCTCA
* *
1982994 TGAAGAGGAGCCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGAATCCCT
1 TGAAGAGGAGCCAATCCATGACTTCCTCGTGAAGAGAAGTCAATATTTGTTATTCCTGAATCCCT
* * * *
1983059 CGCGAAGAGGAGTCAATTCATGACTTCCTTATGAAGAGAAGTCAATATTCACG
66 CGCAAAGAGGAGTCAATCCATGACTTCCTCATGAAGAAAAGTCAATATTCACG
* * * *
1983112 TGAAGAGGAGTCAATCCATGACTTCCTTGTGAAGAGAAGTCAATATTTGTTATTTCTGACTCCCT
1 TGAAGAGGAGCCAATCCATGACTTCCTCGTGAAGAGAAGTCAATATTTGTTATTCCTGAATCCCT
* * *
1983177 CGCAAAGAGGAGTTAATCCTTGACTTTCTCATGAAGAAAAGTCAAT
66 CGCAAAGAGGAGTCAATCCATGACTTCCTCATGAAGAAAAGTCAAT
1983223 CTTTTTTATT
Statistics
Matches: 98, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
118 98 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (118 bp):
TGAAGAGGAGCCAATCCATGACTTCCTCGTGAAGAGAAGTCAATATTTGTTATTCCTGAATCCCT
CGCAAAGAGGAGTCAATCCATGACTTCCTCATGAAGAAAAGTCAATATTCACG
Found at i:1983222 original size:67 final size:67
Alignment explanation
Indices: 1983113--1984422 Score: 1503
Period size: 67 Copynumber: 19.7 Consensus size: 67
1983103 ATATTCACGT
* * * *
1983113 GAAGAGGAGTCAATCCATGACTTCCTTGTGAAGAGAAGTCAATATTTGTTATTTCTGACTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1983178 GC
66 GC
* * * * * * ** *
1983180 AAAGAGGAGTTAATCCTTGACTTTCTCATGAAGAAAAGTCAATCTTTTTTATTATTTACTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
*
1983245 GT
66 GC
* * * *
1983247 GAAGAGGAGTCAATCCTTGACTTACTCGTGAAGAGAAGTCAATTTTTGTTATTCTTGATTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1983312 GC
66 GC
* * * ** * *
1983314 GGAGAGGAGTCAAACATTGACTTCCTTATGAAGAGAAGTCAATTTTTGTTATTCCTGATTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
*
1983379 TC
66 GC
* * * * *
1983381 GAGGATGAGTCAATCCTTGACTTCCTCATGAAGAGAAGTCAATATTTGTTATTCCTGACTCCCTA
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1983446 GC
66 GC
* * * * * *
1983448 GAAGAGGAGTAAATCTTTGAATTCCTCGTGAAGAGAAGTCAACCATTGTTATTCCTAACTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
*
1983513 AC
66 GC
* * * *
1983515 GAATAAGAGTCAATCCTTGACTTCCTCGTGAAGAGGAGTCAATCCTTG--A---CT---T-CCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
*
1983571 GT
66 GC
* * *
1983573 GAAGATGAGTCAATCCTTGACTTCCTCATGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTA
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1983638 GC
66 GC
* * * * * *
1983640 GAAAAGGAGTTAATCATTGACTTCCTCGTGAAGAGAAGTCAAT-TTTTTGTATTCATGATTCCCT
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGT-TATTCCTGACTCCCT
1983704 CGC
65 CGC
* *
1983707 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTCTGTTATTCATGACTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
**
1983772 AT
66 GC
* * * * *
1983774 GAATAGGAGTCAATCCTTGACTTTCTCATGAAGAGAAGTCAATCTTTGTTTTTCCTGACTCCCTA
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1983839 GC
66 GC
* *
1983841 GAAGAGGAGTCAATCCTTGATTTCCTCGTGAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1983906 GC
66 GC
* * * *
1983908 GAAGAGGAGTCAATCCTGGACTTCCTCATGAAGAGAAGTTAATCTTTGTTATTCCTGACTCCCTA
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
*
1983973 TC
66 GC
* * * * * * * * *
1983975 AAAGATGAGTCAAACCTTGATTTCCTCATGAAGAGAAGTTAACCTTTGTTATTCCTGACTCTCAC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1984040 GC
66 GC
* * *
1984042 GAAGAGAAGTCAATCCTTGACTTCCTCGTGGAGAGAAATCAATCTTTGTTATTCCTGACTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1984107 GC
66 GC
* * * * **
1984109 GGAGAGGAGTCAATCCTTGATTTCTTCGTGAAGAGAAGTCAATCTTTTTTATTATTGACTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
1984174 GC
66 GC
* * * * *
1984176 GAAGTGGAGTCAAACCTTGACTTCCTTGTGAAGAGAAGTCAACCTTTATTATTCCTGACTCCCTC
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
*
1984241 GT
66 GC
* * * *
1984243 GAGGAGGAGTCAATCCTTGACTTCCTCATGGAA-A-AAATCAATTTTTGTTATTCCTGACTCCCT
1 GAAGAGGAGTCAATCCTTGACTTCCTCGT-GAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCT
*
1984306 GGC
65 CGC
* * * * * * * ** *
1984309 GAGGAGCAATCAATCGTTGACTTCTTCAT-AATGAGAAGTCAATCATTGTTATTCCCAACTTCCT
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAA-GAGAAGTCAATCTTTGTTATTCCTGACTCCCT
* *
1984373 TGG
65 CGC
* *
1984376 GAAGAGGAGTCAATCCTTGACTTCCTCGCGAAGAGGAGTCAATCTTT
1 GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTT
1984423 CTGATTTATT
Statistics
Matches: 1042, Mismatches: 185, Indels: 32
0.83 0.15 0.03
Matches are distributed among these distances:
58 47 0.05
59 1 0.00
60 1 0.00
62 2 0.00
63 2 0.00
64 2 0.00
65 1 0.00
66 57 0.05
67 921 0.88
68 8 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (67 bp):
GAAGAGGAGTCAATCCTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCCTGACTCCCTC
GC
Found at i:1983553 original size:29 final size:29
Alignment explanation
Indices: 1983521--1983750 Score: 172
Period size: 29 Copynumber: 7.3 Consensus size: 29
1983511 TCACGAATAA
1983521 GAGTCAATCCTTGACTTCCTCGTGAAGAG
1 GAGTCAATCCTTGACTTCCTCGTGAAGAG
*
1983550 GAGTCAATCCTTGACTTCCTCGTGAAGAT
1 GAGTCAATCCTTGACTTCCTCGTGAAGAG
*
1983579 GAGTCAATCCTTGACTTCCTCATGAAGAG
1 GAGTCAATCCTTGACTTCCTCGTGAAGAG
* * * * *
1983608 AAGTCAATCTTTGTTATTCCTGACTCCCTAGCGAAAAG
1 GAGTCAATCCTTG--A---CT---T-CCTCGTGAAGAG
* *
1983646 GAGTTAATCATTGACTTCCTCGTGAAGAG
1 GAGTCAATCCTTGACTTCCTCGTGAAGAG
* ** *
1983675 AAGTCAATTTTTTGTATTCATGATTCCCTCGCGAAGAG
1 GAGTCAA-TCCTTG-A--C----TT-CCTCGTGAAGAG
1983713 GAGTCAATCCTTGACTTCCTCGTGAAGAG
1 GAGTCAATCCTTGACTTCCTCGTGAAGAG
*
1983742 AAGTCAATC
1 GAGTCAATC
1983751 TCTGTTATTC
Statistics
Matches: 158, Mismatches: 25, Indels: 36
0.72 0.11 0.16
Matches are distributed among these distances:
29 99 0.63
30 7 0.04
31 2 0.01
33 3 0.02
34 3 0.02
36 2 0.01
37 7 0.04
38 35 0.22
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (29 bp):
GAGTCAATCCTTGACTTCCTCGTGAAGAG
Found at i:1983845 original size:38 final size:37
Alignment explanation
Indices: 1983803--1983922 Score: 103
Period size: 38 Copynumber: 3.4 Consensus size: 37
1983793 ACTTTCTCAT
1983803 GAAGAGAAGTCAATCTTTGTTTTTCCTGACTCCCTAGC
1 GAAGAGAAGTCAATCTTTGTTTTTCCTGACTCCCT-GC
* * * *
1983841 GAAGAGGAGTCAATCCTTG-ATTT-C---CT--C-GT
1 GAAGAGAAGTCAATCTTTGTTTTTCCTGACTCCCTGC
* *
1983870 GAAGAGAAGTCAACCTTTGTTATTCCTGACTCCCTCGC
1 GAAGAGAAGTCAATCTTTGTTTTTCCTGACTCCCT-GC
*
1983908 GAAGAGGAGTCAATC
1 GAAGAGAAGTCAATC
1983923 CTGGACTTCC
Statistics
Matches: 61, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
29 17 0.28
30 2 0.03
31 2 0.03
33 2 0.03
34 2 0.03
36 2 0.03
37 3 0.05
38 31 0.51
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (37 bp):
GAAGAGAAGTCAATCTTTGTTTTTCCTGACTCCCTGC
Found at i:1985179 original size:55 final size:55
Alignment explanation
Indices: 1984508--1985175 Score: 813
Period size: 55 Copynumber: 12.1 Consensus size: 55
1984498 TCAAAGATTT
* * * *
1984508 TTTTTTGAGT-TTGATCTCCCATGAAAGAAGAGTGGAGCAGACACATCTTCCAAAGA
1 TTTTTCGAGTCTT-ATCTCCC-TGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
* * * * * * * *
1984564 TTTTTCGACTCTTATCTCCCTAAAAGAATA-ATGGAGAAAACTCGTGTTTCAAAGA
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGA-GGAGCAGACCCGTCTTCCAAAGA
* **
1984619 TTTTTTGAGTCTTATCTCTATGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAA-A
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
* * * * *
1984673 TGTTTTTGAGTCTTATTTCACTGAAAGAAGAGTGGAGTAGACCCGTCTTCCAAAGA
1 T-TTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
* * *
1984729 TTTTTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGCAAACCCGTCTTCCAAAGA
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
* * * * *
1984784 TTTTTCGAGTCTTATCTACCTGAAAGAAGAGTGGAGTAGACCTGTCTTCCAAATA
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
*
1984839 TTTTTCGAGTCTTATCTCCCTGAAAGAATAGAGGAGCAGACCCGTCTTCCAAAGA
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
* * *
1984894 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGATGAGCATACCCATCTTCCAAAGA
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
** * * ** *
1984949 TTTTTTTAGTCTTATCTCCCTGAAAGAAGAGATGAGCATATTCGTCTTCCAAATA
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
* * *
1985004 TTTTCCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCATCTTCCAATGA
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
*
1985059 TTTTTTCGAGTATTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
1 -TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
* * * * * *
1985115 TTTTTCAAGTCTTTTCTCCCTGAAAGAATAGTA-GAGCAGACACGTTTTCCAAATA
1 TTTTTCGAGTCTTATCTCCCTGAAAGAAGAG-AGGAGCAGACCCGTCTTCCAAAGA
1985170 TTTTTC
1 TTTTTC
1985176 AAGTGTGAAA
Statistics
Matches: 529, Mismatches: 76, Indels: 15
0.85 0.12 0.02
Matches are distributed among these distances:
54 2 0.00
55 455 0.86
56 70 0.13
57 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (55 bp):
TTTTTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAGA
Found at i:1985361 original size:82 final size:82
Alignment explanation
Indices: 1985244--1985518 Score: 338
Period size: 82 Copynumber: 3.4 Consensus size: 82
1985234 AGTGAAATAG
* * * * * *
1985244 ACTCGTTTTCCAAAATTGATTTGAATACCCAAAAAAGAGGAACATATCAGGTGTGATCTCCCCTG
1 ACTCGTTTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTCTGATCTCCCCTG
*
1985309 AATGAAGAGATGAGCAT
66 AATGAAGAGATGAGCAC
* *
1985326 ACTCGTTTTCCAAAATTGTTCTGACTACCCGAAAAAGAGGAACAAATCAAGTCTAATCTCCCCTG
1 ACTCGTTTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTCTGATCTCCCCTG
* * *
1985391 AAAT-AAGAGAAGAGTAG
66 -AATGAAGAGATGAGCAC
* * *
1985408 ACTCATTTTCCAAAATTGATCTGGCTACCCGAAAAAGAGGAGCAAATCAAGTCTGATCTCCCCTG
1 ACTCGTTTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTCTGATCTCCCCTG
* *
1985473 AAAGAATAG-TGGAGCAC
66 AATGAAGAGAT-GAGCAC
* * *
1985490 ACCCGTCTTCCAAAATTGACCTGACTACC
1 ACTCGTTTTCCAAAATTGATCTGACTACC
1985519 GATCAAGTCT
Statistics
Matches: 164, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
81 2 0.01
82 159 0.97
83 3 0.02
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.24
Consensus pattern (82 bp):
ACTCGTTTTCCAAAATTGATCTGACTACCCGAAAAAGAGGAACAAATCAAGTCTGATCTCCCCTG
AATGAAGAGATGAGCAC
Found at i:1987211 original size:20 final size:23
Alignment explanation
Indices: 1987186--1987228 Score: 65
Period size: 20 Copynumber: 2.0 Consensus size: 23
1987176 AAAATTATTA
1987186 TATTTAT-TATTT-T-AATTTTT
1 TATTTATATATTTGTCAATTTTT
1987206 TATTTATATATTTGTCAATTTTT
1 TATTTATATATTTGTCAATTTTT
1987229 GTTAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 1 0.05
23 7 0.35
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (23 bp):
TATTTATATATTTGTCAATTTTT
Found at i:1987350 original size:20 final size:22
Alignment explanation
Indices: 1987325--1987366 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1987315 TATTTGAATA
1987325 AAAT-AATATATTTT-ATATTC
1 AAATAAATATATTTTAATATTC
*
1987345 AAATAAATTTATTTTAATATTC
1 AAATAAATATATTTTAATATTC
1987367 TTAATATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AAATAAATATATTTTAATATTC
Found at i:1993318 original size:18 final size:18
Alignment explanation
Indices: 1993295--1993329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1993285 GAAGAATTTT
*
1993295 TCCCGAATGACCACTATA
1 TCCCGAAGGACCACTATA
*
1993313 TCCCGAAGGATCACTAT
1 TCCCGAAGGACCACTAT
1993330 CACATAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.23
Consensus pattern (18 bp):
TCCCGAAGGACCACTATA
Found at i:1994203 original size:21 final size:22
Alignment explanation
Indices: 1994176--1994224 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
1994166 CGATGTTCCC
1994176 TGGTATCGATACC-C-TCCATA
1 TGGTATCGATACCTCTTCCATA
1994196 TAGGTATCGATACCTCTTCCATA
1 T-GGTATCGATACCTCTTCCATA
1994219 TGGTAT
1 TGGTAT
1994225 TGATTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 1 0.04
21 12 0.46
22 6 0.23
23 7 0.27
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (22 bp):
TGGTATCGATACCTCTTCCATA
Found at i:1997833 original size:2 final size:2
Alignment explanation
Indices: 1997826--1997875 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1997816 GTGCTATGCG
1997826 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1997868 AT AT AT AT
1 AT AT AT AT
1997876 CGTATAACAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1998440 original size:21 final size:21
Alignment explanation
Indices: 1998410--1998486 Score: 84
Period size: 21 Copynumber: 3.6 Consensus size: 21
1998400 AATGTTCCTT
*
1998410 GGTATTGATACCCTCCATATA
1 GGTATCGATACCCTCCATATA
1998431 GGTATCGATACCTCTTCCATAT-
1 GGTATCGATACC-C-TCCATATA
** * *
1998453 GGTATCGATACTGTTCATACA
1 GGTATCGATACCCTCCATATA
1998474 GGTATCGATACCC
1 GGTATCGATACCC
1998487 CATGCATCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 5 0.11
21 22 0.48
22 12 0.26
23 7 0.15
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (21 bp):
GGTATCGATACCCTCCATATA
Found at i:2006731 original size:31 final size:31
Alignment explanation
Indices: 2006647--2006733 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
2006637 ACATTTCACA
* *
2006647 AATTATAAATTTAATCATTAAACTTCCCAAAT
1 AATTATAAA-ATAATCATTAAATTTCCCAAAT
2006679 AATTATAAAATAATCATTAAATTTCCCAAAT
1 AATTATAAAATAATCATTAAATTTCCCAAAT
2006710 AATTATAAAATAATCATTAAATTT
1 AATTATAAAATAATCATTAAATTT
2006734 TATGAAACTG
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
31 44 0.83
32 9 0.17
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (31 bp):
AATTATAAAATAATCATTAAATTTCCCAAAT
Found at i:2009085 original size:3 final size:3
Alignment explanation
Indices: 2009074--2009131 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
2009064 GTTTTTTTCG
** *
2009074 TTA TT- TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2009119 TTA TTTA TTA TTA
1 TTA -TTA TTA TTA
2009132 CAAATTTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2010317 original size:20 final size:23
Alignment explanation
Indices: 2010270--2010323 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 23
2010260 TCAGTCATTA
*
2010270 ATTTATATATTATGTTTGCTGAT
1 ATTTATATATTATGGTTGCTGAT
2010293 A-TTATA-ATT-TGGTTG-TGAT
1 ATTTATATATTATGGTTGCTGAT
2010312 ATTTATAT-TTAT
1 ATTTATATATTAT
2010324 TTCGTTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 4 0.15
22 5 0.19
23 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (23 bp):
ATTTATATATTATGGTTGCTGAT
Found at i:2011313 original size:22 final size:22
Alignment explanation
Indices: 2011288--2011331 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2011278 TCAAACGATG
*
2011288 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
2011310 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
2011332 ATGTAAAGTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:2015609 original size:23 final size:24
Alignment explanation
Indices: 2015583--2015627 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2015573 TGAAAGGAGC
*
2015583 AATA-TTTTCAAAACTTTTGATTA
1 AATATTTTTCAAAACTATTGATTA
2015606 AATATTTTTCAAAACTATTGAT
1 AATATTTTTCAAAACTATTGAT
2015628 ATTTTCAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (24 bp):
AATATTTTTCAAAACTATTGATTA
Found at i:2015921 original size:4 final size:4
Alignment explanation
Indices: 2015912--2015957 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
2015902 GATCGAGAAA
*
2015912 ACAT ACAT ACAT ACAT ACAT ATAT AC-- ACAT ACAT ACAT A-AT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
2015957 A
1 A
2015958 AAATTTGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ACAT
Found at i:2015943 original size:18 final size:17
Alignment explanation
Indices: 2015920--2015955 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
2015910 AAACATACAT
2015920 ACATACATACATATATAC
1 ACATACATACATA-ATAC
2015938 ACATACATACATAATAC
1 ACATACATACATAATAC
2015955 A
1 A
2015956 TAAAATTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.53, C:0.22, G:0.00, T:0.25
Consensus pattern (17 bp):
ACATACATACATAATAC
Found at i:2016354 original size:36 final size:35
Alignment explanation
Indices: 2016299--2016436 Score: 161
Period size: 36 Copynumber: 3.9 Consensus size: 35
2016289 TTTTGAGAAT
2016299 TTTAAAACAAATTTTTGTCTCGCTTGAGACAATTTC
1 TTTAAAACAAA-TTTTGTCTCGCTTGAGACAATTTC
* * *
2016335 TTTCAAAGCAAATTTTGTCTCGCTTGAAACAGCTTTC
1 TTT-AAAACAAATTTTGTCTCGCTTGAGACA-ATTTC
* * *
2016372 -TAAAAACAAATTTTGTCTCGTTTGAGACAAATTC
1 TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
* *
2016406 TCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 T-TTAAAACAAATTTTGTCTCGCTTGAGACA
2016437 TTTTTCCTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.04
35 24 0.28
36 47 0.55
37 11 0.13
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (35 bp):
TTTAAAACAAATTTTGTCTCGCTTGAGACAATTTC
Found at i:2016530 original size:105 final size:102
Alignment explanation
Indices: 2016410--2016648 Score: 288
Period size: 105 Copynumber: 2.3 Consensus size: 102
2016400 AAATTCTCTT
* * *
2016410 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
2016474 TTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TT-AAACAAAATTAATCTCA-CTTGAGA---TCGTTTC-CTCA
* * *
2016515 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
2016580 TTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCA
66 TTAAACAAAATTAATCTCACTTGAGATCGTTTCCTCA
*
2016617 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
2016649 TCTAAAAACA
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 32 0.27
103 3 0.03
104 3 0.03
105 76 0.64
106 2 0.02
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAATTAATCTCACTTGAGATCGTTTCCTCA
Found at i:2016656 original size:36 final size:34
Alignment explanation
Indices: 2016616--2016713 Score: 108
Period size: 36 Copynumber: 2.8 Consensus size: 34
2016606 TCGTTTCCTC
*
2016616 AAAAACAAACTTTGTCTCGCTTGAGACAATTTCTCT
1 AAAAACAAA-TTTGTCTCGCTTGAGACAATATCT-T
** *
2016652 AAAAACAAATTTTGTCTCATTTGAGACTATATCTT
1 AAAAACAAA-TTTGTCTCGCTTGAGACAATATCTT
*
2016687 -AAAGCAAATTTCGTCTCGCTTGAGACA
1 AAAAACAAATTT-GTCTCGCTTGAGACA
2016714 TCATTTTCTC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
33 3 0.06
34 19 0.37
35 1 0.02
36 29 0.56
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (34 bp):
AAAAACAAATTTGTCTCGCTTGAGACAATATCTT
Found at i:2016995 original size:29 final size:27
Alignment explanation
Indices: 2016955--2017059 Score: 140
Period size: 29 Copynumber: 3.8 Consensus size: 27
2016945 AAGACAATTT
2016955 CTTTTGAAAAAATCTTTGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAGTTTGTTC
*
2016982 CTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTC
*
2017011 CTTTTGAATAAAAATCTTTGAG-TTGTTT
1 CTTTTG-A-AAAAATCTTTGAGTTTGTTC
*
2017039 CGTTTGAAAAAATCTTTGAGT
1 CTTTTGAAAAAATCTTTGAGT
2017060 CTATTTATTT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
26 13 0.18
27 7 0.10
28 11 0.15
29 40 0.56
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.46
Consensus pattern (27 bp):
CTTTTGAAAAAATCTTTGAGTTTGTTC
Found at i:2017027 original size:58 final size:53
Alignment explanation
Indices: 2016955--2017059 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 53
2016945 AAGACAATTT
*
2016955 CTTTTGAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTC
1 CTTTTGAAAAAATCTTTGAG-TTGTTCCGTTTG-A-AAAAATCTTGGAGTTTGTTC
* *
2017011 CTTTTGAATAAAAATCTTTGAGTTGTTTCGTTTGAAAAAATCTTTGAGT
1 CTTTTG-A-AAAAATCTTTGAGTTGTTCCGTTTGAAAAAATCTTGGAGT
2017060 CTATTTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
55 13 0.30
56 7 0.16
57 11 0.25
58 13 0.30
ACGTcount: A:0.29, C:0.10, G:0.16, T:0.46
Consensus pattern (53 bp):
CTTTTGAAAAAATCTTTGAGTTGTTCCGTTTGAAAAAATCTTGGAGTTTGTTC
Found at i:2017143 original size:30 final size:30
Alignment explanation
Indices: 2017109--2017171 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
2017099 ATTTTGTGAA
*
2017109 AAAAATCTTTGAGAT-TGTTTCTTTTGAAAC
1 AAAAATCTTTGAG-TCTATTTCTTTTGAAAC
2017139 AAAAATCTTTGAGTCTATTTCTTTTGAAAC
1 AAAAATCTTTGAGTCTATTTCTTTTGAAAC
2017169 AAA
1 AAA
2017172 GTTTTGTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (30 bp):
AAAAATCTTTGAGTCTATTTCTTTTGAAAC
Found at i:2017148 original size:93 final size:90
Alignment explanation
Indices: 2017015--2017201 Score: 295
Period size: 93 Copynumber: 2.0 Consensus size: 90
2017005 TTGTTCCTTT
2017015 TGAATAAAAATCTTTGAGTTGTTTCGTTTGAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAG
1 TGAATAAAAATCTTTGAGTTGTTTCGTTTGAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAG
* *
2017080 TTTTGTCTCTCTTGAGACAATTTTG
66 TTTTGTCTCTCTTAAGACAATTTCG
* *
2017105 TGAA-AAAAATCTTTGAGATTGTTTCTTTTGAAACAAAAATCTTTGAGTCTATTTCTTTTGAAAC
1 TGAATAAAAATCTTTGAG-TTGTTTCGTTTG--A-AAAAATCTTTGAGTCTATTTATTTTGAAAC
2017169 AAAGTTTTGTCTCTCTTAAGACAATTTCG
62 AAAGTTTTGTCTCTCTTAAGACAATTTCG
2017198 TGAA
1 TGAA
2017202 GAATATTTGA
Statistics
Matches: 89, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
89 13 0.15
90 15 0.17
92 1 0.01
93 60 0.67
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (90 bp):
TGAATAAAAATCTTTGAGTTGTTTCGTTTGAAAAAATCTTTGAGTCTATTTATTTTGAAACAAAG
TTTTGTCTCTCTTAAGACAATTTCG
Found at i:2017241 original size:145 final size:146
Alignment explanation
Indices: 2017070--2017337 Score: 475
Period size: 148 Copynumber: 1.8 Consensus size: 146
2017060 CTATTTATTT
*
2017070 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTTGTG-AAAAAAATCTTTGAGATTGTTTCTTTT
1 TGAAACAAAGTTTTGTCTCCCTTGAGACAATTTTGTGAAAAAAAATCTTTGAGATTGTTTCTTTT
* *
2017134 GAAACAAAAATCTTTGAGTCTATTTCTTTTGAAACAAAGTTTTGTCTCTCTTAAGACAATTTCGT
66 GAAACAAAAATCTTTGAGTCTATTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATTTCGT
2017199 GAAGAATATTTGAGTC
131 GAAGAATATTTGAGTC
2017215 TGAAACAAAGTTTTGTCTCCCTTGAGACAATTTTGTGAAAAAAAAAATCTTTGAGATTGTTTCTT
1 TGAAACAAAGTTTTGTCTCCCTTGAGACAATTTTGTG--AAAAAAAATCTTTGAGATTGTTTCTT
*
2017280 TTGAAACAAAAATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
64 TTGAAACAAAAATCTTTGAGTCTATTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGA
2017338 TATTTTCTTT
Statistics
Matches: 116, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
145 36 0.31
148 80 0.69
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (146 bp):
TGAAACAAAGTTTTGTCTCCCTTGAGACAATTTTGTGAAAAAAAATCTTTGAGATTGTTTCTTTT
GAAACAAAAATCTTTGAGTCTATTTCTTTGGAAACAAAATTTTGTCTCTCTTAAGACAATTTCGT
GAAGAATATTTGAGTC
Found at i:2017321 original size:29 final size:30
Alignment explanation
Indices: 2017257--2017320 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
2017247 TTGTGAAAAA
*
2017257 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
2017287 AAAAATCTTTGAG-TCTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGAT-TGTTTCTTTGGAAAC
2017317 AAAA
1 AAAA
2017321 TTTTGTCTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:2017639 original size:119 final size:121
Alignment explanation
Indices: 2017481--2017704 Score: 262
Period size: 120 Copynumber: 1.9 Consensus size: 121
2017471 TTAACAAAAT
* * * *
2017481 CATCTTTGAGTCTATTTGTTTAAAAACATATGTTATATCTCTTGA-GACAGTTTCTAATGA-AAA
1 CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTATATCTCTTAATGACAATTTCTAATGAGAAA
2017544 ACTAA-CTTTTGAGATTGTTTCATTTGAAACAAA-TTTGGTCTTACTTAAGATGTAATC
66 A--AATC-TTTGAGATTGTTTCATTTGAAACAAACTTTGGTCTTACTTAAGATGTAATC
* ** **
2017601 CATCTTTGAGTCTGTTTCTTTTGAAACAAAAT-TT-TATCTCTTAATGACAATTTCTTTTGAGAA
1 CATCTTTGAGTCTATTTCTTTAAAAAC-AAATGTTATATCTCTTAATGACAATTTCTAATGAGAA
* * *
2017664 AAAATCTTTGAGTTTGTTTCCTTTGAAACAAACTTTTGTCT
65 AAAATCTTTGAGATTGTTTCATTTGAAACAAACTTTGGTCT
2017705 CTCGAGACAA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
119 35 0.40
120 45 0.52
121 7 0.08
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (121 bp):
CATCTTTGAGTCTATTTCTTTAAAAACAAATGTTATATCTCTTAATGACAATTTCTAATGAGAAA
AAATCTTTGAGATTGTTTCATTTGAAACAAACTTTGGTCTTACTTAAGATGTAATC
Found at i:2017682 original size:65 final size:64
Alignment explanation
Indices: 2017602--2017724 Score: 183
Period size: 65 Copynumber: 1.9 Consensus size: 64
2017592 GATGTAATCC
* *
2017602 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAATGACAATTTCTTTTGAGAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTCAA-GACAATTTCTTTTGAGAAAAA
* * * *
2017667 ATCTTTGAGTTTGTTTCCTTTGAAACAAACTTTTGTCTCTCGAGACAATTTCTTTTGA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTCAAGACAATTTCTTTTGA
2017725 AAATACACAC
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
64 15 0.29
65 37 0.71
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.46
Consensus pattern (64 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTCAAGACAATTTCTTTTGAGAAAAA
Found at i:2017885 original size:15 final size:16
Alignment explanation
Indices: 2017844--2017891 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
2017834 CTTTGAGTCG
2017844 TTTCCCTTGAAACAAATT
1 TTTCCCTTGAAAC--ATT
2017862 TTGTCCCTTGAAACA-T
1 TT-TCCCTTGAAACATT
*
2017878 TTTCCCTTAAAACA
1 TTTCCCTTGAAACA
2017892 AGAACATCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 11 0.39
16 3 0.11
17 1 0.04
18 2 0.07
19 11 0.39
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (16 bp):
TTTCCCTTGAAACATT
Found at i:2018322 original size:66 final size:65
Alignment explanation
Indices: 2018201--2018339 Score: 172
Period size: 66 Copynumber: 2.1 Consensus size: 65
2018191 ACAAAACAAA
* * ** *
2018201 CATCTTTGAGATCGTTTCCCTTGAAATGAATTTTGTCTCATTTGAGACAATTTCCCATGAAACGC
1 CATCTTTGAGAACGTTTCCCTTAAAACAAATTTTGTCTCACTTGAGACAATTTCCCATGAAACGC
* * * *
2018266 CGATCTTTGAGAACGTTTCCCTTAAAAACAAATTTTGTCTCGCTTGAGACAA-TTCCCTTTAAAT
1 C-ATCTTTGAGAACGTTTCCCTT-AAAACAAATTTTGTCTCACTTGAGACAATTTCCCATGAAAC
2018330 GC
64 GC
2018332 CATCTTTG
1 CATCTTTG
2018340 GGTTGTTTCC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
65 8 0.13
66 32 0.51
67 23 0.37
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (65 bp):
CATCTTTGAGAACGTTTCCCTTAAAACAAATTTTGTCTCACTTGAGACAATTTCCCATGAAACGC
Found at i:2018548 original size:28 final size:28
Alignment explanation
Indices: 2018498--2018551 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
2018488 TCAAAATCCA
* * *
2018498 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTCTCCATTGAAACAC
*
2018526 ATCTTTGAGTTGGTCTCCCTTGAAAC
1 ATCTTTGAGTTGGTCTCCATTGAAAC
2018552 CATTATCCCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.43
Consensus pattern (28 bp):
ATCTTTGAGTTGGTCTCCATTGAAACAC
Found at i:2018633 original size:46 final size:45
Alignment explanation
Indices: 2018580--2018897 Score: 178
Period size: 46 Copynumber: 7.4 Consensus size: 45
2018570 CCAGCCGTCC
* *
2018580 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTATGAGCCGTGTTATCACC-TTAGATGGCCAGAACTCT
* * *
2018626 TCATCACGTATGAGCCGTGTCATTC-CC--CGA---CCAGATCTCT
1 TCATCACGTATGAGCCGTGTTA-TCACCTTAGATGGCCAGAACTCT
* ** * *
2018666 TCATCACGTATGAGCCGTG---TCACCCTAGATAACCAG-CCGTCC
1 TCATCACGTATGAGCCGTGTTATCACCTTAGATGGCCAGAAC-TCT
* *
2018708 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTATGAGCCGTGTTATCACC-TTAGATGGCCAGAACTCT
* *
2018754 TCATCACGTATGAGCCGTGTCATTC-CC---GA---CCAGATCTCT
1 TCATCACGTATGAGCCGTGTTA-TCACCTTAGATGGCCAGAACTCT
* * ** * *
2018793 TCATCACGTATGAACCGTG---TCACCCTAGATAACCAG-CCGTCC
1 TCATCACGTATGAGCCGTGTTATCACCTTAGATGGCCAGAAC-TCT
* * * *
2018835 TCATCACGTAGGAGCCGTGTCA-C-CCTTAGATGACCAGACCTCT
1 TCATCACGTATGAGCCGTGTTATCACCTTAGATGGCCAGAACTCT
** *
2018878 TCATTGCGTATGAGCAGTGT
1 TCATCACGTATGAGCCGTGT
2018898 CGTCCCCACC
Statistics
Matches: 215, Mismatches: 31, Indels: 55
0.71 0.10 0.18
Matches are distributed among these distances:
35 2 0.01
36 4 0.02
37 2 0.01
39 31 0.14
40 28 0.13
41 2 0.01
42 48 0.22
43 32 0.15
44 3 0.01
45 5 0.02
46 53 0.25
47 5 0.02
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (45 bp):
TCATCACGTATGAGCCGTGTTATCACCTTAGATGGCCAGAACTCT
Found at i:2018898 original size:43 final size:42
Alignment explanation
Indices: 2018609--2018898 Score: 233
Period size: 42 Copynumber: 6.9 Consensus size: 42
2018599 TTATCACCTT
* *
2018609 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCC
1 TAGATGACCAGACCTCTTCATCACGTATGAGCCGTGTCA--CCC
* *
2018653 ----CGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCC
1 TAGATGACCAGACCTCTTCATCACGTATGAGCCGTGTCACCC
* * * * *
2018691 TAGATAACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
1 TAGATGACCAGACC-TCTTCATCACGTATGAGCCGTG---TCACC-C
* *
2018737 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCC
1 TAGATGACCAGACCTCTTCATCACGTATGAGCCGTGTCA--CCC
* *
2018781 -----GACCAGATCTCTTCATCACGTATGAACCGTGTCACCC
1 TAGATGACCAGACCTCTTCATCACGTATGAGCCGTGTCACCC
* * *
2018818 TAGATAACCAG-CCGTCCTCATCACGTAGGAGCCGTGTCACCC
1 TAGATGACCAGACC-TCTTCATCACGTATGAGCCGTGTCACCC
** *
2018860 TTAGATGACCAGACCTCTTCATTGCGTATGAGCAGTGTC
1 -TAGATGACCAGACCTCTTCATCACGTATGAGCCGTGTC
2018899 GTCCCCACCA
Statistics
Matches: 195, Mismatches: 31, Indels: 41
0.73 0.12 0.15
Matches are distributed among these distances:
37 3 0.02
38 3 0.02
39 31 0.16
40 32 0.16
41 2 0.01
42 54 0.28
43 32 0.16
44 2 0.01
45 7 0.04
46 28 0.14
47 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (42 bp):
TAGATGACCAGACCTCTTCATCACGTATGAGCCGTGTCACCC
Found at i:2019065 original size:3 final size:3
Alignment explanation
Indices: 2019054--2019111 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
2019044 GTTTTTTTCG
** *
2019054 TTA TT- TTA TTA TTA TTA TTA TTA TCG TTA -TC TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2019099 TTA TTTA TTA TTA
1 TTA -TTA TTA TTA
2019112 CAAATTTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
2 5 0.11
3 37 0.82
4 3 0.07
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2020295 original size:20 final size:23
Alignment explanation
Indices: 2020248--2020301 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 23
2020238 TCAGTCATTA
*
2020248 ATTTATATATTATGTTTGCTGAT
1 ATTTATATATTATGGTTGCTGAT
2020271 A-TTATA-ATT-TGGTTG-TGAT
1 ATTTATATATTATGGTTGCTGAT
2020290 ATTTATAT-TTAT
1 ATTTATATATTAT
2020302 TTCGTTTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 4 0.15
22 5 0.19
23 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (23 bp):
ATTTATATATTATGGTTGCTGAT
Found at i:2021291 original size:22 final size:22
Alignment explanation
Indices: 2021266--2021309 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2021256 TCAAACGATG
*
2021266 CAATGTGTGTTATTTTAAGTGA
1 CAATGTATGTTATTTTAAGTGA
* * *
2021288 CAATTTATTTTATTTTATGTGA
1 CAATGTATGTTATTTTAAGTGA
2021310 ATGTAAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (22 bp):
CAATGTATGTTATTTTAAGTGA
Found at i:2023807 original size:11 final size:11
Alignment explanation
Indices: 2023791--2023815 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2023781 AAGAGGATCA
2023791 CATTGGATTTT
1 CATTGGATTTT
2023802 CATTGGATTTT
1 CATTGGATTTT
2023813 CAT
1 CAT
2023816 AGTAAAAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.12, G:0.16, T:0.52
Consensus pattern (11 bp):
CATTGGATTTT
Found at i:2028455 original size:19 final size:20
Alignment explanation
Indices: 2028423--2028461 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
2028413 ATGGGCTAAA
*
2028423 TAAACTAATGGATAT-GAAT
1 TAAACAAATGGATATAGAAT
*
2028442 TAAACAAATTGATATAGAAT
1 TAAACAAATGGATATAGAAT
2028462 GAAAATTGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (20 bp):
TAAACAAATGGATATAGAAT
Found at i:2029016 original size:43 final size:44
Alignment explanation
Indices: 2028932--2029018 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
2028922 TTGCTAATGT
* *
2028932 TAGCGGCGTTTGTGAAATAAAAACGCCGCAAAAAGTTGAGATCTA
1 TAGCGGCGTTTGTGAAAT-AAAACGCCACAAAAAGTCGAGATCTA
* *
2028977 TAGCGGCGTTTTTGAAAT-AAACGCCACAAAAGGTCGAGATCT
1 TAGCGGCGTTTGTGAAATAAAACGCCACAAAAAGTCGAGATCT
2029019 CTAAAAACGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 21 0.55
45 17 0.45
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (44 bp):
TAGCGGCGTTTGTGAAATAAAACGCCACAAAAAGTCGAGATCTA
Found at i:2029165 original size:43 final size:43
Alignment explanation
Indices: 2029023--2029180 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
2029013 AGATCTCTAA
* * * *
2029023 AAACGCTGCAAAAAGTCAGATCTATAGCGGC-GTTTT-TATAT
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGTATAC
* *
2029064 AAACGCCGCAAAAGGTCAGATCTGTAGCGGCATTTTTTTGGA-AC
1 AAACGCCGCAAAAGGTCAGATCTATAGCGGCA--TTTTTGTATAC
* *
2029108 AAAAGGCCGCAAAAGGTCAGATCTATAGAGGCATTTTTGTATAC
1 -AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGTATAC
* * *
2029152 AAATGCCGTAAAAGGTCAGATCTGTAGCG
1 AAACGCCGCAAAAGGTCAGATCTATAGCG
2029181 ACGTTTGTGG
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
41 28 0.29
43 32 0.33
44 7 0.07
45 30 0.31
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGTATAC
Found at i:2029203 original size:86 final size:86
Alignment explanation
Indices: 2029022--2029191 Score: 207
Period size: 88 Copynumber: 2.0 Consensus size: 86
2029012 GAGATCTCTA
* * *
2029022 AAAACGCTGCAAAAAGTCAGATCTATAGCGGCGTTTTTATATAAACGCCGCAAAAGGTCAGATCT
1 AAAACGCCGCAAAAAGTCAGATCTATAGAGGCGTTTTTATACAAACGCCGCAAAAGGTCAGATCT
* * * *
2029087 GTAGCGGCATTTTTTTGGAAC
66 GTAGCGACAGTTTGTGGGAAC
* * * * *
2029108 AAAAGGCCGCAAAAGGTCAGATCTATAGAGGCATTTTTGTATACAAATGCCGTAAAAGGTCAGAT
1 AAAACGCCGCAAAAAGTCAGATCTATAGAGGC-GTTTT-TATACAAACGCCGCAAAAGGTCAGAT
2029173 CTGTAGCGAC-GTTTGTGGG
64 CTGTAGCGACAGTTTGTGGG
2029192 TATAAACGCC
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
86 28 0.40
87 10 0.14
88 32 0.46
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (86 bp):
AAAACGCCGCAAAAAGTCAGATCTATAGAGGCGTTTTTATACAAACGCCGCAAAAGGTCAGATCT
GTAGCGACAGTTTGTGGGAAC
Done.