Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 25 of 52
Found at i:4131685 original size:20 final size:20
Alignment explanation
Indices: 4131659--4131736 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
4131649 AATGTCCAAA
4131659 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATGTTTCT
* *
4131679 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACA--T-G--TTTCT
*
4131704 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATGTTTCT
*
4131724 TTGTATCGATACA
1 ATGTATCGATACA
4131737 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 28 0.60
22 1 0.02
23 2 0.04
25 16 0.34
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATGTTTCT
Found at i:4131743 original size:13 final size:13
Alignment explanation
Indices: 4131725--4131775 Score: 93
Period size: 13 Copynumber: 3.9 Consensus size: 13
4131715 CATTTTTCTT
*
4131725 TGTATCGATACAA
1 TGTATCGATACAC
4131738 TGTATCGATACAC
1 TGTATCGATACAC
4131751 TGTATCGATACAC
1 TGTATCGATACAC
4131764 TGTATCGATACA
1 TGTATCGATACA
4131776 GGGTGATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4133597 original size:27 final size:27
Alignment explanation
Indices: 4133559--4133612 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4133549 GTGCAAATAA
4133559 ATTTTGATATGAATTACTTGATTAAGG
1 ATTTTGATATGAATTACTTGATTAAGG
4133586 ATTTTGATATGAATTACTTGATTAAGG
1 ATTTTGATATGAATTACTTGATTAAGG
4133613 GGGAGATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTGATATGAATTACTTGATTAAGG
Found at i:4134268 original size:20 final size:20
Alignment explanation
Indices: 4134245--4134317 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4134235 ACAATTCAAA
4134245 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
4134265 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
4134286 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
4134306 GTATCGATACAT
1 GTATCGATACAT
4134318 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:4134289 original size:21 final size:21
Alignment explanation
Indices: 4134263--4134338 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
4134253 ACATGTTGCA
4134263 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
4134284 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
4134304 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
4134325 TTGTATCGATACAT
1 ATGTATCGATACAT
4134339 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:4134296 original size:41 final size:41
Alignment explanation
Indices: 4134245--4134338 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
4134235 ACAATTCAAA
*
4134245 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
4134286 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
4134327 GTATCGATACAT
1 GTATCGATACAT
4134339 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:4134395 original size:13 final size:13
Alignment explanation
Indices: 4134377--4134402 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4134367 TACAGCAAGT
4134377 ATGTATCGATACA
1 ATGTATCGATACA
4134390 ATGTATCGATACA
1 ATGTATCGATACA
4134403 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4137158 original size:84 final size:85
Alignment explanation
Indices: 4137058--4137229 Score: 247
Period size: 89 Copynumber: 2.0 Consensus size: 85
4137048 TATAAGCTAA
4137058 GGTATAATTCTTG-ATCATATGTTTGTTATCCAATTCTTTAATCACATTAAAACTTTATAAGTAT
1 GGTATAATTCTTGAATCATATGTTTGTTATCCAATTCTTTAATCACATTAAAACTTTATAAGTAT
* *
4137122 GATATTGAAAATTTTGACTG
66 AATACTGAAAATTTTGACTG
* * *
4137142 GGTATGATTCTTGATCATATCATATGTTTGTTATCCAATTCTTTAATTACATTAAAACTTTTTAA
1 GGTATAATTCTTG---A-ATCATATGTTTGTTATCCAATTCTTTAATCACATTAAAACTTTATAA
*
4137207 GTATAATCCTGAAAATTTTGACT
62 GTATAATACTGAAAATTTTGACT
4137230 ATCTCTTTGA
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
84 12 0.16
89 65 0.84
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (85 bp):
GGTATAATTCTTGAATCATATGTTTGTTATCCAATTCTTTAATCACATTAAAACTTTATAAGTAT
AATACTGAAAATTTTGACTG
Found at i:4141926 original size:26 final size:21
Alignment explanation
Indices: 4141876--4141918 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4141866 CATGCTTTAA
4141876 TCTTAGTTTGATTTAAATATT
1 TCTTAGTTTGATTTAAATATT
4141897 TCTTAGTTTGATTTAAATATT
1 TCTTAGTTTGATTTAAATATT
4141918 T
1 T
4141919 TCTTTCTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.58
Consensus pattern (21 bp):
TCTTAGTTTGATTTAAATATT
Found at i:4142056 original size:2 final size:2
Alignment explanation
Indices: 4142051--4142099 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
4142041 AAAATATTTC
*
4142051 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4142093 AT AT AT A
1 AT AT AT A
4142100 CACGTAGACA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:4142164 original size:19 final size:19
Alignment explanation
Indices: 4142137--4142195 Score: 50
Period size: 20 Copynumber: 2.9 Consensus size: 19
4142127 TTTATACTAC
*
4142137 TATAAAATTAATTTATTTT
1 TATATAATTAATTTATTTT
4142156 TATATAATT--TTATAATTTTT
1 TATATAATTAATT-T-A-TTTT
4142176 TATATAATTTATATTTATTT
1 TATATAA-TTA-ATTTATTT
4142196 AATTTAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 9 0.28
20 11 0.34
21 5 0.16
22 1 0.03
23 1 0.03
24 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TATATAATTAATTTATTTT
Found at i:4142220 original size:20 final size:19
Alignment explanation
Indices: 4142152--4142214 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
4142142 AATTAATTTA
4142152 TTTTTATATAATTTTATAAT
1 TTTTTATATAATTTTAT-AT
4142172 TTTTTATATAA-TTTATAT
1 TTTTTATATAATTTTATAT
*
4142190 TTATTTAATTTAATTATTATAT
1 TT-TTT-ATATAATT-TTATAT
4142212 TTT
1 TTT
4142215 ATATTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 4 0.11
19 8 0.21
20 16 0.42
21 2 0.05
22 8 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTATATAATTTTATAT
Found at i:4143166 original size:17 final size:17
Alignment explanation
Indices: 4143144--4143180 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4143134 TACTTATATT
4143144 TAAATATATATTAAACA
1 TAAATATATATTAAACA
4143161 TAAATATATATTAAACA
1 TAAATATATATTAAACA
4143178 TAA
1 TAA
4143181 CAAAAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (17 bp):
TAAATATATATTAAACA
Found at i:4146763 original size:12 final size:12
Alignment explanation
Indices: 4146744--4146781 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4146734 TTGTTTAAAG
4146744 TTTT-ATTAATT
1 TTTTAATTAATT
4146755 TTTTAATTAATT
1 TTTTAATTAATT
* *
4146767 ATTTAAATAATT
1 TTTTAATTAATT
4146779 TTT
1 TTT
4146782 ATATATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTAATTAATT
Found at i:4146879 original size:36 final size:36
Alignment explanation
Indices: 4146799--4146882 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
4146789 TATTTGATAA
*
4146799 TTATTT-TTTTTATTTTAAAATGTGTATATATATAT
1 TTATTTATTTTAATTTTAAAATGTGTATATATATAT
*
4146834 TTATTTATTTTAATTTTAATAAT-TTTATA-AT-TAT
1 TTATTTATTTTAATTTTAA-AATGTGTATATATATAT
4146868 TTATTAATATTTTAA
1 TTATT--TATTTTAA
4146883 CATGTTATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 8 0.19
35 8 0.19
36 24 0.56
37 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (36 bp):
TTATTTATTTTAATTTTAAAATGTGTATATATATAT
Found at i:4146918 original size:15 final size:16
Alignment explanation
Indices: 4146888--4146922 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4146878 TTTAACATGT
4146888 TATAAAATTAATTTTA
1 TATAAAATTAATTTTA
* *
4146904 TATAAATTTAATTTAA
1 TATAAAATTAATTTTA
4146920 TAT
1 TAT
4146923 TCGTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATAAAATTAATTTTA
Found at i:4148911 original size:105 final size:100
Alignment explanation
Indices: 4148743--4148974 Score: 261
Period size: 105 Copynumber: 2.3 Consensus size: 100
4148733 TTATTAATTA
* *
4148743 TTTTATTTTATTTTTAAATGATATATTTAAAAGAATTAATCTATACATTCAGACGTGAGTTGATT
1 TTTTATTTTATTTTTAAATGATATATTTAAAAGAATTAATCTAAACATTCAGACG-GAATTGATT
* * *
4148808 TAAGATCTTTACTCGATC-TGTTTAAAAAAATAATTTTTAT
65 TAAGATCTGTAC-C-AACATGTTT-AAAAAA-AATTATT-T
* * * * * **
4148848 TTTTATTTTATTTTTAAATAATATATTTAAAAGAGTTGATTTAAATATTTACTTAC-GAATTGAT
1 TTTTATTTTATTTTTAAATGATATATTTAAAAGAATTAATCTAAACA-TT-CAGACGGAATTGAT
*
4148912 TTAAGATCTGTACCAACATGTTTAATAAAAATTATTT
64 TTAAGATCTGTACCAACATGTTTAAAAAAAATTATTT
4148949 TTTTATTTTATTTTTAAATGATATAT
1 TTTTATTTTATTTTTAAATGATATAT
4148975 CGACCAAATT
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
101 26 0.24
102 6 0.05
103 7 0.06
104 6 0.05
105 60 0.55
106 2 0.02
107 3 0.03
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (100 bp):
TTTTATTTTATTTTTAAATGATATATTTAAAAGAATTAATCTAAACATTCAGACGGAATTGATTT
AAGATCTGTACCAACATGTTTAAAAAAAATTATTT
Found at i:4149235 original size:24 final size:24
Alignment explanation
Indices: 4149203--4149252 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
4149193 TCACAATAAT
4149203 GATAATTTTGATTCTGTGGCAGCC
1 GATAATTTTGATTCTGTGGCAGCC
4149227 GATAATTTTGATTCTGTGGCAGCC
1 GATAATTTTGATTCTGTGGCAGCC
4149251 GA
1 GA
4149253 GGGAACATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (24 bp):
GATAATTTTGATTCTGTGGCAGCC
Found at i:4156541 original size:23 final size:20
Alignment explanation
Indices: 4156519--4156575 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 20
4156509 CTCTTCTAAT
4156519 TTTTTAAATTTTATTTATTTAA
1 TTTTTAAA--TTATTTATTTAA
4156541 TTTTTAAATTATTTA-TT-A
1 TTTTTAAATTATTTATTTAA
4156559 TTTTT-AATTATTTATTT
1 TTTTTAAATTATTTATTT
4156576 TTAGTATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.26
18 8 0.24
19 2 0.06
20 7 0.21
22 8 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTTAAATTATTTATTTAA
Found at i:4157326 original size:12 final size:12
Alignment explanation
Indices: 4157308--4157372 Score: 57
Period size: 12 Copynumber: 5.7 Consensus size: 12
4157298 TTATTATGAC
4157308 ATATTTAAAATA
1 ATATTTAAAATA
*
4157320 TTATTT--AATA
1 ATATTTAAAATA
*
4157330 AT-TTTAAAACA
1 ATATTTAAAATA
*
4157341 ATATTAAAAATA
1 ATATTTAAAATA
*
4157353 TTATTTAATAA-A
1 ATATTTAA-AATA
4157365 ATATTTAA
1 ATATTTAA
4157373 GTATTATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 3 0.07
10 5 0.12
11 5 0.12
12 26 0.63
13 2 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (12 bp):
ATATTTAAAATA
Found at i:4157496 original size:34 final size:33
Alignment explanation
Indices: 4157423--4157496 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 33
4157413 TATACTATAG
*
4157423 TAAAAATATTTATAAATAATAATGACTATATAA
1 TAAAAATATTTATAAATAATAATGACTATAAAA
*
4157456 TAAAAATATTTTATAATTAATAAT-A-TATTAAAA
1 TAAAAATA-TTTATAAATAATAATGACTA-TAAAA
4157489 TACAAAAT
1 TA-AAAAT
4157497 TATATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
32 2 0.06
33 15 0.42
34 19 0.53
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (33 bp):
TAAAAATATTTATAAATAATAATGACTATAAAA
Found at i:4160958 original size:154 final size:153
Alignment explanation
Indices: 4160783--4161070 Score: 344
Period size: 153 Copynumber: 1.9 Consensus size: 153
4160773 ATCGAACCGA
* * *
4160783 AAAAATTTACAAAGTAAAAAACTACGTATTTTGGAAACAAAAAAAATTCTAAAACTCATAAAATA
1 AAAAATTTACAAAGTAAAAAACTACATA-TGTCGAAACAAAAAAAATTCTAAAACTCATAAAATA
* * * * * * *
4160848 AATTGAATTTTTTAAAAGTAATCAAATATGAATT-AAACAATAATATTTGAAGAATTTTAAAAAA
65 AATTAAATTTTTCAAAACTAATCAAATATAAATTAAAAAAATAATATTTAAAAAATTTT-AAAAA
4160912 TTATAAGCATAGAAAAGTTTTGTCG
129 TTATAAGCATAGAAAAGTTTTGTCG
* * * * ** * *
4160937 AAAAATTTACGAATTAGAAAACTACATATGTCGATATTAGAAAAATTCTAAAACTCATAAAATAG
1 AAAAATTTACAAAGTAAAAAACTACATATGTCGAAACAAAAAAAATTCTAAAACTCATAAAATAA
* * ** *
4161002 ATTAAATTTTTCAACACTGATTTAATATAAATTAAAAAAATAGTATTTAAAAAATTTTAAAAATT
66 ATTAAATTTTTCAAAACTAATCAAATATAAATTAAAAAAATAATATTTAAAAAATTTTAAAAATT
4161067 ATAA
131 ATAA
4161071 ACTCAGAAAA
Statistics
Matches: 110, Mismatches: 23, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
153 66 0.60
154 44 0.40
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (153 bp):
AAAAATTTACAAAGTAAAAAACTACATATGTCGAAACAAAAAAAATTCTAAAACTCATAAAATAA
ATTAAATTTTTCAAAACTAATCAAATATAAATTAAAAAAATAATATTTAAAAAATTTTAAAAATT
ATAAGCATAGAAAAGTTTTGTCG
Found at i:4162084 original size:42 final size:42
Alignment explanation
Indices: 4162035--4162116 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
4162025 AAAGATAGAA
4162035 TATGAGCATATACATTAAGACTTAGAGATTAAAAGGGAAAAT
1 TATGAGCATATACATTAAGACTTAGAGATTAAAAGGGAAAAT
4162077 TATGAGCATATACATTAAGACTTAGAGATTAAAAGGGAAA
1 TATGAGCATATACATTAAGACTTAGAGATTAAAAGGGAAA
4162117 CTTTTAGGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.26
Consensus pattern (42 bp):
TATGAGCATATACATTAAGACTTAGAGATTAAAAGGGAAAAT
Found at i:4162507 original size:45 final size:43
Alignment explanation
Indices: 4162456--4162581 Score: 123
Period size: 43 Copynumber: 2.9 Consensus size: 43
4162446 AAATGTGGGT
* * *
4162456 AGAACCATCATGTTAAAC-AATAGTGAAAATGGGTTTGACTAAGGC
1 AGAACCATCAAGTCAAACGAA-AGT-AAAATGAGTTTGACT-AGGC
* * *
4162501 CGAACCATCAAGTCAGACGAAAGTAAAATGAGTTTGACTAGGT
1 AGAACCATCAAGTCAAACGAAAGTAAAATGAGTTTGACTAGGC
*
4162544 AGAACCATCACGTCAAACTG-AAGTGAAAAT-AGTTTGAC
1 AGAACCATCAAGTCAAAC-GAAAGT-AAAATGAGTTTGAC
4162582 CAGGTATAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
43 30 0.43
44 20 0.29
45 17 0.25
46 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (43 bp):
AGAACCATCAAGTCAAACGAAAGTAAAATGAGTTTGACTAGGC
Found at i:4162536 original size:44 final size:44
Alignment explanation
Indices: 4162477--4162581 Score: 126
Period size: 43 Copynumber: 2.4 Consensus size: 44
4162467 GTTAAACAAT
* * *
4162477 AGTGAAAATGGGTTTGACTAAGGCCGAACCATCAAGTCAGAC-GAA
1 AGTGAAAATGAGTTTGACT-AGGCAGAACCATCAAGTCAAACTG-A
* *
4162522 AGT-AAAATGAGTTTGACTAGGTAGAACCATCACGTCAAACTGA
1 AGTGAAAATGAGTTTGACTAGGCAGAACCATCAAGTCAAACTGA
4162565 AGTGAAAAT-AGTTTGAC
1 AGTGAAAATGAGTTTGAC
4162582 CAGGTATAGT
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
43 30 0.57
44 20 0.38
45 3 0.06
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (44 bp):
AGTGAAAATGAGTTTGACTAGGCAGAACCATCAAGTCAAACTGA
Found at i:4162578 original size:43 final size:43
Alignment explanation
Indices: 4162391--4162587 Score: 152
Period size: 44 Copynumber: 4.5 Consensus size: 43
4162381 CGAACGAGGA
* *
4162391 TGAAAAGAGTTTGACTAGGGCTA-AACTATCACGTCAAACGAAAG
1 TGAAAATAGTTTGACTA-GG-TAGAACCATCACGTCAAACGAAAG
** * * * *
4162435 TGAACAA-AGTTAAATGTGGGTAGAACCATCATGTTAAAC-AATAG
1 TGAA-AATAGTTTGA-CTAGGTAGAACCATCACGTCAAACGAA-AG
* ** * *
4162479 TGAAAATGGGTTTGACTAAGGCCGAACCATCAAGTCAGACGAAAG
1 TGAAAAT-AGTTTGACT-AGGTAGAACCATCACGTCAAACGAAAG
4162524 T-AAAATGAGTTTGACTAGGTAGAACCATCACGTCAAACTG-AAG
1 TGAAAAT-AGTTTGACTAGGTAGAACCATCACGTCAAAC-GAAAG
*
4162567 TGAAAATAGTTTGACCAGGTA
1 TGAAAATAGTTTGACTAGGTA
4162588 TAGTCACACG
Statistics
Matches: 120, Mismatches: 23, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
43 41 0.34
44 51 0.43
45 26 0.22
46 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (43 bp):
TGAAAATAGTTTGACTAGGTAGAACCATCACGTCAAACGAAAG
Found at i:4162739 original size:44 final size:45
Alignment explanation
Indices: 4162691--4162877 Score: 195
Period size: 44 Copynumber: 4.2 Consensus size: 45
4162681 TAGTGAACGA
* * *
4162691 AGTTTGATCAAGGCAAAACCATCACGTCAAACGAAGG-TGAGAGG
1 AGTTTGACCAAGGCAAAACCATCACGTCAAACGAAGGATGAAAAG
* ** * * *
4162735 AGTTTAACCAAGGCTGAACCATCACATTAAACGAAAG-TGAATAA-
1 AGTTTGACCAAGGCAAAACCATCACGTCAAACGAAGGATGAA-AAG
* *
4162779 AGTTTGACCAAGGCATAACCATCACAGTCCAACG-AGGATGAAAAG
1 AGTTTGACCAAGGCAAAACCATCAC-GTCAAACGAAGGATGAAAAG
* * *
4162824 AGTTTGACTAAGGCTAAACCATCATGTCAAAC-AAGGATGAAAAG
1 AGTTTGACCAAGGCAAAACCATCACGTCAAACGAAGGATGAAAAG
4162868 AGTTTGACCA
1 AGTTTGACCA
4162878 GGTAAGTTAA
Statistics
Matches: 116, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
44 85 0.73
45 31 0.27
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (45 bp):
AGTTTGACCAAGGCAAAACCATCACGTCAAACGAAGGATGAAAAG
Found at i:4162872 original size:89 final size:88
Alignment explanation
Indices: 4162663--4162877 Score: 220
Period size: 88 Copynumber: 2.4 Consensus size: 88
4162653 CTAGGGCGAG
* ** ** *
4162663 AACCATCACATCAAATGGTAGTGAACGAAGTTTGATCAAGGCAAAACCATCACGTCAAACGAAGG
1 AACCATCACATCAAACGAAAGTGAATAAAGTTTGACCAAGGCAAAACCATCACGTCAAACGAAGG
* * *
4162728 TGAGAGGAGTTTAACCAAGGCTG
66 TGAAAAGAGTTTAACCAAGGCTA
* * *
4162751 AACCATCACATTAAACGAAAGTGAATAAAGTTTGACCAAGGCATAACCATCACAGTCCAACG-AG
1 AACCATCACATCAAACGAAAGTGAATAAAGTTTGACCAAGGCAAAACCATCAC-GTCAAACGAAG
* *
4162815 GATGAAAAGAGTTTGACTAAGGCTA
65 G-TGAAAAGAGTTTAACCAAGGCTA
** *
4162840 AACCATCATGTCAAAC-AAGGATGAA-AAGAGTTTGACCA
1 AACCATCACATCAAACGAAAG-TGAATAA-AGTTTGACCA
4162878 GGTAAGTTAA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
88 53 0.50
89 52 0.50
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (88 bp):
AACCATCACATCAAACGAAAGTGAATAAAGTTTGACCAAGGCAAAACCATCACGTCAAACGAAGG
TGAAAAGAGTTTAACCAAGGCTA
Found at i:4162947 original size:80 final size:80
Alignment explanation
Indices: 4162816--4163071 Score: 304
Period size: 81 Copynumber: 3.2 Consensus size: 80
4162806 TCCAACGAGG
* * *
4162816 ATGAAAAGAGTTTGACTAAGGCT-A-AACCATCATGTCAAACAAG-GATGAAAAGAGTTTGACCA
1 ATGAAAAGAGTTTGAC-AAGGGTGAGAACCATCATGTCAAA-TAGTAATGAAAAGAGTTTGACCA
* *
4162878 GGTA-AGTTAAATAGGA
64 GGTATAGTCAAACAGGA
* * *
4162894 ATGAAAAGATGTTTGACCAGGGTGAGAACCATCATGTCAAATAGTAATGAAAAGAGTTGGACCGG
1 ATGAAAAGA-GTTTGACAAGGGTGAGAACCATCATGTCAAATAGTAATGAAAAGAGTTTGACCAG
* *
4162959 GTATAATCAAACGGGA
65 GTATAGTCAAACAGGA
* * * *
4162975 ATGAAAAGATGTTTGACAAGGGTGAGAACCGTCATGTCAAATGGTAATGAAAAGAGTTTAACTAG
1 ATGAAAAGA-GTTTGACAAGGGTGAGAACCATCATGTCAAATAGTAATGAAAAGAGTTTGACCAG
* *
4163040 ATATAGTCAAACAAGA
65 GTATAGTCAAACAGGA
4163056 ATGAAAAGAGTTTGAC
1 ATGAAAAGAGTTTGAC
4163072 TAGTTATAGT
Statistics
Matches: 152, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
78 13 0.09
79 10 0.07
80 42 0.28
81 87 0.57
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.22
Consensus pattern (80 bp):
ATGAAAAGAGTTTGACAAGGGTGAGAACCATCATGTCAAATAGTAATGAAAAGAGTTTGACCAGG
TATAGTCAAACAGGA
Found at i:4163059 original size:35 final size:35
Alignment explanation
Indices: 4163020--4163243 Score: 177
Period size: 35 Copynumber: 6.4 Consensus size: 35
4163010 GTCAAATGGT
*
4163020 AATGAAAAGAGTTTAACTAGATATAGTCAAACAAG
1 AATGAAAAGAGTTTGACTAGATATAGTCAAACAAG
* **
4163055 AATGAAAAGAGTTTGACTAGTTATAGTCAAACGCG
1 AATGAAAAGAGTTTGACTAGATATAGTCAAACAAG
* * *
4163090 AATGAAAAAAGTTTGACCAAGA-ATAGTCAAATGAA-
1 AATGAAAAGAGTTTGA-CTAGATATAGTCAAA-CAAG
* * * ***
4163125 AATGAAAAGAGTTTGACCAGGTACAGTCAAATGGG
1 AATGAAAAGAGTTTGACTAGATATAGTCAAACAAG
* * * * *
4163160 AATGAAAAGAGTTTGACTAGTTACAATCAAATAGG
1 AATGAAAAGAGTTTGACTAGATATAGTCAAACAAG
* * * * *
4163195 AATG-AAAGAAGTTTGACCA-AGTACAATCTAACGAG
1 AATGAAAAG-AGTTTGACTAGA-TATAGTCAAACAAG
4163230 AATGAAAAGAGTTT
1 AATGAAAAGAGTTT
4163244 ATTCATTTTC
Statistics
Matches: 155, Mismatches: 27, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
34 7 0.05
35 141 0.91
36 7 0.05
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (35 bp):
AATGAAAAGAGTTTGACTAGATATAGTCAAACAAG
Found at i:4163129 original size:70 final size:71
Alignment explanation
Indices: 4163020--4163243 Score: 224
Period size: 70 Copynumber: 3.2 Consensus size: 71
4163010 GTCAAATGGT
* * * * *
4163020 AATGAAAAGAGTTT-AACTAGATATAGTCAAACAAGAATGAAAAGAGTTTGACTAGTTATAGTCA
1 AATGAAAAGAGTTTGACCAAGATATAGTCAAACAAGAATGAAAAGAGTTTGACCAGGTACAGTCA
4163084 AACGCG
66 AACGCG
* *
4163090 AATGAAAAAAGTTTGACCAAGA-ATAGTCAAATGAA-AATGAAAAGAGTTTGACCAGGTACAGTC
1 AATGAAAAGAGTTTGACCAAGATATAGTCAAA-CAAGAATGAAAAGAGTTTGACCAGGTACAGTC
* *
4163153 AAATGGG
65 AAACGCG
* * * * * * * *
4163160 AATGAAAAGAGTTTGA-CTAGTTACAATCAAATAGGAATG-AAAGAAGTTTGACCAAGTACAATC
1 AATGAAAAGAGTTTGACCAAGATATAGTCAAACAAGAATGAAAAG-AGTTTGACCAGGTACAGTC
* *
4163223 TAACGAG
65 AAACGCG
4163230 AATGAAAAGAGTTT
1 AATGAAAAGAGTTT
4163244 ATTCATTTTC
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
69 8 0.06
70 113 0.88
71 7 0.05
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (71 bp):
AATGAAAAGAGTTTGACCAAGATATAGTCAAACAAGAATGAAAAGAGTTTGACCAGGTACAGTCA
AACGCG
Found at i:4163198 original size:105 final size:105
Alignment explanation
Indices: 4163010--4163244 Score: 283
Period size: 105 Copynumber: 2.2 Consensus size: 105
4163000 GAACCGTCAT
** * *
4163010 GTCAAATGGTAATGAAAAGAGTTTAACTAGATATAGTCAAACAAGAATGAAAAGAGTTTGACTAG
1 GTCAAATGAAAATGAAAAGAGTTTAACCAGATACAGTCAAACAAGAATGAAAAGAGTTTGACTAG
* * * *
4163075 TTATAGTCAAACGCGAATGAAAAAAGTTTGACCAAGAATA
66 TTACAATCAAAAGCGAATGAAAAAAGTTTGACCAAGAACA
* * ***
4163115 GTCAAATGAAAATGAAAAGAGTTTGACCAGGTACAGTCAAATGGGAATGAAAAGAGTTTGACTAG
1 GTCAAATGAAAATGAAAAGAGTTTAACCAGATACAGTCAAACAAGAATGAAAAGAGTTTGACTAG
* *
4163180 TTACAATCAAATAG-GAATGAAAGAAGTTTGACCAAGTACA
66 TTACAATCAAA-AGCGAATGAAAAAAGTTTGACCAAGAACA
* * * *
4163220 ATCTAACGAGAATGAAAAGAGTTTA
1 GTCAAATGAAAATGAAAAGAGTTTA
4163245 TTCATTTTCA
Statistics
Matches: 109, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
105 108 0.99
106 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (105 bp):
GTCAAATGAAAATGAAAAGAGTTTAACCAGATACAGTCAAACAAGAATGAAAAGAGTTTGACTAG
TTACAATCAAAAGCGAATGAAAAAAGTTTGACCAAGAACA
Found at i:4164209 original size:11 final size:11
Alignment explanation
Indices: 4164169--4164208 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
4164159 TTCTTTTTTC
*
4164169 TTCTTTTTGAT
1 TTCTTTTTGGT
*
4164180 TTCTTTGTGGT
1 TTCTTTTTGGT
4164191 TTCTTTTTGGT
1 TTCTTTTTGGT
4164202 TT-TTTTT
1 TTCTTTTT
4164209 TTCCTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 5 0.19
11 21 0.81
ACGTcount: A:0.03, C:0.07, G:0.15, T:0.75
Consensus pattern (11 bp):
TTCTTTTTGGT
Found at i:4166711 original size:4 final size:4
Alignment explanation
Indices: 4166702--4166745 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
4166692 TTGGAGTGTA
4166702 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
4166746 GTATGGACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:4169279 original size:20 final size:20
Alignment explanation
Indices: 4169233--4169289 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
4169223 TTGTATCCAT
*
4169233 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
* *
4169252 TC-ATTGTATTGATACATGG
1 ACAATTGTATCGATACATGG
4169271 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
4169290 AAACTGCAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 1 0.03
19 15 0.48
20 15 0.48
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:4169351 original size:13 final size:13
Alignment explanation
Indices: 4169333--4169385 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
4169323 CGATACATGG
4169333 TACATTGTATCGA
1 TACATTGTATCGA
4169346 TACATTGTATCGA
1 TACATTGTATCGA
4169359 TACA-TG-AT-G-
1 TACATTGTATCGA
4169368 -A-ATTGTATCGA
1 TACATTGTATCGA
4169379 TACATTG
1 TACATTG
4169386 CTTATAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:4169357 original size:33 final size:33
Alignment explanation
Indices: 4169317--4169385 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
4169307 CTACCATTGT
*
4169317 TTGTATCGATACATGGT-ACATTGTATCGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
4169350 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
4169383 TTG
1 TTG
4169386 CTTATAACGG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:4176999 original size:13 final size:13
Alignment explanation
Indices: 4176981--4177006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4176971 CAATTTTTTG
4176981 TGTATCGATACAT
1 TGTATCGATACAT
4176994 TGTATCGATACAT
1 TGTATCGATACAT
4177007 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4177755 original size:21 final size:21
Alignment explanation
Indices: 4177714--4177757 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4177704 CTCCCCTTTA
* *
4177714 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
4177735 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
4177756 TC
1 TC
4177758 ATATTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:4179580 original size:13 final size:13
Alignment explanation
Indices: 4179562--4179587 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4179552 ATAATCACCC
4179562 TGTATCGATACAA
1 TGTATCGATACAA
4179575 TGTATCGATACAA
1 TGTATCGATACAA
4179588 GGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4181643 original size:15 final size:15
Alignment explanation
Indices: 4181623--4181653 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4181613 ATTTCGTTTG
*
4181623 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4181638 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4181653 G
1 G
4181654 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4183502 original size:21 final size:21
Alignment explanation
Indices: 4183456--4183500 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
4183446 AAGTTTTCAT
4183456 TTTTC-TTAGCTAACTCATTA
1 TTTTCATTAGCTAACTCATTA
*
4183476 TTTTCATTAGCTAACTTCTTTA
1 TTTTCATTAGCTAAC-TCATTA
4183498 TTT
1 TTT
4183501 CAACTTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTCATTAGCTAACTCATTA
Found at i:4185734 original size:13 final size:13
Alignment explanation
Indices: 4185716--4185741 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4185706 CAATTTTTTG
4185716 TGTATCGATACAT
1 TGTATCGATACAT
4185729 TGTATCGATACAT
1 TGTATCGATACAT
4185742 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4187924 original size:13 final size:13
Alignment explanation
Indices: 4187906--4187932 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4187896 ACATTATGCT
4187906 TTGTATCGATACA
1 TTGTATCGATACA
4187919 TTGTATCGATACA
1 TTGTATCGATACA
4187932 T
1 T
4187933 GGACAATTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4188007 original size:20 final size:20
Alignment explanation
Indices: 4187982--4188035 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
4187972 CTACCACTGT
*
4187982 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
4188002 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
4188022 TTGTATCGATACAT
1 TTGTATCGATACAT
4188036 TTCTAACGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:4190779 original size:142 final size:141
Alignment explanation
Indices: 4190484--4190786 Score: 432
Period size: 141 Copynumber: 2.1 Consensus size: 141
4190474 TTCGAAAATC
* * * *
4190484 TTATTTCGTACCTTAATGAAGACTCGGAAAGATACGAAAAGTTTTGAAGATTGCTATACCCATAC
1 TTATTTCGTACCTTAATGAAGACTCGAAAAGATACAAAAAATTTTGAAGATTGCTAAACCCATAC
* *
4190549 GAAAAACCATAGGAATATAGAAATATTTAAAAATTAAGATAATAATTTTTATTTAATTTTTAATT
66 GAAAAACCATAAGAATATAGAAATATTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATT
4190614 TTTTAAAAAAA
131 TTTTAAAAAAA
** * * *
4190625 TTATTTTATACCTTAATGGAGAACT-GAAAAGATACAAAAAATTTTGAAGATTTCTAAACCCCTA
1 TTATTTCGTACCTTAATGAAG-ACTCGAAAAGATACAAAAAATTTTGAAGATTGCTAAACCCATA
* *
4190689 CGAAAAATCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTTA
65 CGAAAAACCATAAGAATA-TAGAAATATTGAAAAATTAAGATAATAATTTTTATTTAA-TTTTTA
4190754 A-TTTTT-AAAAAA
128 ATTTTTTAAAAAAA
4190766 TTCATTTCGTACCTTAATGAA
1 TT-ATTTCGTACCTTAATGAA
4190787 AAATATAAAA
Statistics
Matches: 142, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
141 75 0.53
142 60 0.42
143 7 0.05
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (141 bp):
TTATTTCGTACCTTAATGAAGACTCGAAAAGATACAAAAAATTTTGAAGATTGCTAAACCCATAC
GAAAAACCATAAGAATATAGAAATATTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATT
TTTTAAAAAAA
Found at i:4190849 original size:142 final size:143
Alignment explanation
Indices: 4190511--4190850 Score: 401
Period size: 142 Copynumber: 2.4 Consensus size: 143
4190501 GAAGACTCGG
*
4190511 AAAGATACGAAAAGTTTTGAAGATTGCTATA-CCCATACGAAAAACCATAGG-AATA-TAGAAAT
1 AAAGATACGAAAAGTTTTGAAGATTTCTATACCCCATACGAAAAACCAT-GGAAATATTAGAAAT
* *
4190573 ATTTAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTTAAAAAAATTATTTTATACCT
65 ATTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTTAAAAAAATTATTTCATACCT
* * * *
4190638 TAATGGAGAACTGA
130 TAATGAAAAAATAA
* * * * *
4190652 AAAGATACAAAAAATTTTGAAGATTTCTAAACCCC-TACGAAAAATCAT-AAGAATATTAGAAAT
1 AAAGATACGAAAAGTTTTGAAGATTTCTATACCCCATACGAAAAACCATGGA-AATATTAGAAAT
* *
4190715 CTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTTAA-TTTTT-AAAAAATTCATTTCGTAC
65 ATTGAAAAATTAAGATAATAATTTTTATTTAA-TTTTTAATTTTTTAAAAAAATT-ATTTCATAC
4190778 CTTAATGAAAAATATAA
128 CTTAATGAAAAA-ATAA
* * * * *
4190795 AAAGATACGAAAAGTTTTAAAAATTTCCATACCCCATA-G-ATACCCATGGAAATATT
1 AAAGATACGAAAAGTTTTGAAGATTTCTATACCCCATACGAAAAACCATGGAAATATT
4190851 CTGAAAAATT
Statistics
Matches: 166, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
141 51 0.31
142 73 0.44
143 40 0.24
144 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (143 bp):
AAAGATACGAAAAGTTTTGAAGATTTCTATACCCCATACGAAAAACCATGGAAATATTAGAAATA
TTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTTAAAAAAATTATTTCATACCTT
AATGAAAAAATAA
Found at i:4191583 original size:167 final size:165
Alignment explanation
Indices: 4191226--4191648 Score: 423
Period size: 167 Copynumber: 2.6 Consensus size: 165
4191216 GTGGGAGTTC
* * ** * * * * *
4191226 AATAACAATATTAGATGAATTTTAAAAATTTCAAACCGAGAAAAATTTCCCCGAAAACACTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCCAAAAACATTTAT-
* * * * *
4191291 GAA-TAGAAAACT-CGATTTTTAGGAAATAGAAAAATTTCAAAGAAAAATTCAAAACTCGTGAAA
65 GAAGTAGAAAACTCCGATTTTCAGGAAATAGAAAAATTTCAAAGAAAAAATCAAAAATCCTAAAA
4191354 AGAAATAATTTTTAAAAACTAATTTAAAATAAATTA
130 AGAAATAATTTTTAAAAACTAATTTAAAATAAATTA
*
4191390 AATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCCAAAAACATTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCCAAAAACATTTATG
* * * *
4191455 AAGTAGAAAACTCCTG-TATTTCA-TAAATAGGAGAATTTCAAGGAAAAAAT-AAAAATCCTAAG
66 AAGTAGAAAACTCC-GAT-TTTCAGGAAATAGAAAAATTTCAAAGAAAAAATCAAAAATCCTAA-
* * * * * *
4191517 AAAGTGAATGAATTTTTGAAAACTGATTTGATATGAATTA
128 AAAG-AAAT-AATTTTTAAAAACTAATTTAAAATAAATTA
* * *
4191557 AATAATAATATTTGATGAATTTTAAAAA-TATAAACTAAGAAAAATC-CTCCCGAAAAAAATTTA
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCT-CC-AAAAACATTTA
* * *
4191620 CGGAGAAGAAAACTCC-ATATTTC-GGAAAT
64 TGAAGTAGAAAACTCCGAT-TTTCAGGAAAT
4191649 GAGATGCATT
Statistics
Matches: 215, Mismatches: 33, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
163 3 0.01
164 71 0.33
165 30 0.14
166 36 0.17
167 75 0.35
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.29
Consensus pattern (165 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCCAAAAACATTTATG
AAGTAGAAAACTCCGATTTTCAGGAAATAGAAAAATTTCAAAGAAAAAATCAAAAATCCTAAAAA
GAAATAATTTTTAAAAACTAATTTAAAATAAATTA
Found at i:4194210 original size:21 final size:21
Alignment explanation
Indices: 4194170--4194210 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4194160 TTAAGTATAA
*
4194170 ATATTTTTCAAGCTATAAATC
1 ATATTTTTCAAGCTAAAAATC
4194191 ATATGTTTTCAAG-TAAAAAT
1 ATAT-TTTTCAAGCTAAAAAT
4194211 ATTCCAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (21 bp):
ATATTTTTCAAGCTAAAAATC
Found at i:4194348 original size:13 final size:13
Alignment explanation
Indices: 4194330--4194354 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4194320 ATATTGCTTA
4194330 GTATCGATACATT
1 GTATCGATACATT
4194343 GTATCGATACAT
1 GTATCGATACAT
4194355 GTTCATAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4194369 original size:32 final size:33
Alignment explanation
Indices: 4194309--4194372 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
4194299 CACACCCGGA
*
4194309 TGTATCAATACATATTGCTTAGTATCGATACAT
1 TGTATCAATACATATTGCATAGTATCGATACAT
* *
4194342 TGTATCGATACATGTT-CATAGTATCGATACA
1 TGTATCAATACATATTGCATAGTATCGATACA
4194373 CCTTGAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCAATACATATTGCATAGTATCGATACAT
Found at i:4194746 original size:34 final size:36
Alignment explanation
Indices: 4194707--4194781 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 36
4194697 AATTTTTACA
*
4194707 TTTCAAAGAGCTTTTGTATT-CTTTGCTG-TTATT-C
1 TTTCAAAGAGCATTTGTATTCCTTTG-TGTTTATTCC
**
4194741 TTTCAAAGCTCATTTGTATTCCTTTGTGTTTATTCC
1 TTTCAAAGAGCATTTGTATTCCTTTGTGTTTATTCC
4194777 TTTCA
1 TTTCA
4194782 CAAACACCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 19 0.54
35 10 0.29
36 6 0.17
ACGTcount: A:0.17, C:0.17, G:0.12, T:0.53
Consensus pattern (36 bp):
TTTCAAAGAGCATTTGTATTCCTTTGTGTTTATTCC
Found at i:4199348 original size:20 final size:20
Alignment explanation
Indices: 4199306--4199358 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
4199296 TTAAGCAATT
*
4199306 TGTATCGATAGAATAAGGTAA
1 TGTATCGATA-CATAAGGTAA
4199327 TGTATCGATACATAA-GTGAA
1 TGTATCGATACATAAGGT-AA
4199347 TGTATCGATACA
1 TGTATCGATACA
4199359 AGACCATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 18 0.60
21 10 0.33
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATAAGGTAA
Found at i:4199458 original size:51 final size:52
Alignment explanation
Indices: 4199395--4199512 Score: 134
Period size: 52 Copynumber: 2.3 Consensus size: 52
4199385 TTGGAAAGAA
* ** * *
4199395 AATGTATTGATACATTTTGGG-TTTTGACCCAATTGTATC-AT-TACATTCTTC
1 AATGTATCGATACATGCTGGGTTTTTCACCCAAATGTATCGATGT--ATTCTTC
* *
4199446 ATTGTATCGATACATGCTGGGTTTTTCACCCAAATGTATCGATGTATTCTTT
1 AATGTATCGATACATGCTGGGTTTTTCACCCAAATGTATCGATGTATTCTTC
4199498 AATGTATCGATACAT
1 AATGTATCGATACAT
4199513 CCAGTCAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 17 0.30
52 36 0.64
53 2 0.04
54 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.42
Consensus pattern (52 bp):
AATGTATCGATACATGCTGGGTTTTTCACCCAAATGTATCGATGTATTCTTC
Found at i:4204426 original size:13 final size:13
Alignment explanation
Indices: 4204408--4204432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4204398 ATATTTGACC
4204408 ATGTATCGATACA
1 ATGTATCGATACA
4204421 ATGTATCGATAC
1 ATGTATCGATAC
4204433 TAAGTAAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4217637 original size:20 final size:19
Alignment explanation
Indices: 4217612--4217670 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
4217602 TACTGCTAGT
4217612 TTCATGTATCGATACAATTG
1 TTCATGTATCGATACAA-TG
* *
4217632 TTCATGTATCAATATAATG
1 TTCATGTATCGATACAATG
** *
4217651 AGCATGTATCGATATAATG
1 TTCATGTATCGATACAATG
4217670 T
1 T
4217671 ATCGATACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:4218244 original size:16 final size:16
Alignment explanation
Indices: 4218212--4218241 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4218202 TTTTCAATAT
4218212 ATAAAACTCTCCCTTA
1 ATAAAACTCTCCCTTA
4218228 ATAAAACTC-CCCTT
1 ATAAAACTCTCCCTT
4218242 TAAGAAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (16 bp):
ATAAAACTCTCCCTTA
Found at i:4219890 original size:20 final size:20
Alignment explanation
Indices: 4219865--4219902 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4219855 TACCATTATT
*
4219865 TGTATCGATACATGGTATAA
1 TGTATCAATACATGGTATAA
*
4219885 TGTATCAATACATTGTAT
1 TGTATCAATACATGGTAT
4219903 CGATACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (20 bp):
TGTATCAATACATGGTATAA
Found at i:4220234 original size:19 final size:18
Alignment explanation
Indices: 4220210--4220306 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
4220200 TTTCAGCGAT
4220210 TTGTATCGATACATAAGTG
1 TTGTATCGATACA-AAGTG
4220229 TTGTATCGATAC-AA---
1 TTGTATCGATACAAAGTG
4220243 -TGTATCGATACATAAGTG
1 TTGTATCGATACA-AAGTG
*
4220261 TTGTATCAATAC-AA---
1 TTGTATCGATACAAAGTG
4220275 -TGTATCGATACACAAGTG
1 TTGTATCGATACA-AAGTG
*
4220293 ATGTATCGATACAA
1 TTGTATCGATACAA
4220307 TGTATCGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 34 0.53
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (18 bp):
TTGTATCGATACAAAGTG
Found at i:4220247 original size:32 final size:32
Alignment explanation
Indices: 4220211--4220318 Score: 180
Period size: 32 Copynumber: 3.4 Consensus size: 32
4220201 TTCAGCGATT
4220211 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4220243 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
4220275 TGTATCGATACACAAGTGATGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4220307 TGTATCGCTACA
1 TGTATCGATACA
4220319 ACGCTACTGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4220248 original size:13 final size:13
Alignment explanation
Indices: 4220230--4220319 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
4220220 ACATAAGTGT
4220230 TGTATCGATACAA
1 TGTATCGATACAA
4220243 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
4220258 GTGTTGTATCAATACAA
1 ----TGTATCGATACAA
4220275 TGTATCGATACACAAGTGA
1 TGTATCGAT--AC-A---A
4220294 TGTATCGATACAA
1 TGTATCGATACAA
*
4220307 TGTATCGCTACAA
1 TGTATCGATACAA
4220320 CGCTACTGCC
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
13 32 0.52
15 4 0.06
16 2 0.03
17 4 0.06
19 20 0.32
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4220378 original size:13 final size:13
Alignment explanation
Indices: 4220357--4220417 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
4220347 CGTTATTCCA
4220357 TGTATCGATACAT
1 TGTATCGATACAT
*
4220370 TGAATCGATACA-
1 TGTATCGATACAT
*
4220382 TG----GAT-CTT
1 TGTATCGATACAT
4220390 TGTATCGATACAT
1 TGTATCGATACAT
4220403 TGTATCGATACAT
1 TGTATCGATACAT
4220416 TG
1 TG
4220418 GGAATTTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
7 1 0.03
8 5 0.13
12 5 0.13
13 28 0.72
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4220439 original size:30 final size:30
Alignment explanation
Indices: 4220403--4220506 Score: 190
Period size: 30 Copynumber: 3.5 Consensus size: 30
4220393 ATCGATACAT
*
4220403 TGTATCGATACATTGGGAATTTTACCTAGA
1 TGTATCGATACATTGGGAATTTTACCCAGA
4220433 TGTATCGATACATTGGGAATTTTACCCAGA
1 TGTATCGATACATTGGGAATTTTACCCAGA
*
4220463 TGTATCGATACATTGGGAATTTTACCCAAA
1 TGTATCGATACATTGGGAATTTTACCCAGA
4220493 TGTATCGATACATT
1 TGTATCGATACATT
4220507 TTACAATGTA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 72 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (30 bp):
TGTATCGATACATTGGGAATTTTACCCAGA
Found at i:4222872 original size:51 final size:53
Alignment explanation
Indices: 4222813--4222937 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 53
4222803 CTCAATTCTC
* *
4222813 CACAATCGGGGATA-TCCCAACTCCGATTTTATTT-T-CAAAACACTAA-TTTT
1 CACAATCGGGGATACT-CCAACTCCGATTTTATTTCTAAAAAACACCAATTTTT
*
4222863 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAAACACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAAACACCAATTTTT
*
4222917 CACAATCGGGGATACACCAAC
1 CACAATCGGGGATACTCCAAC
4222938 CCCGTTATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
50 1 0.02
51 30 0.46
52 2 0.03
53 27 0.42
54 5 0.08
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (53 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAAACACCAATTTTT
Found at i:4223068 original size:28 final size:28
Alignment explanation
Indices: 4222995--4223071 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
4222985 CATCAATTTT
4222995 TCATC-GGGGATACTCCAACCCCGTTAA
1 TCATCAGGGGATACTCCAACCCCGTTAA
*
4223022 TCATCA-GGGATACGCCAACCCCGTT-A
1 TCATCAGGGGATACTCCAACCCCGTTAA
**
4223048 TTTTCGAGGGGATACTCCAACCCC
1 TCATC-AGGGGATACTCCAACCCC
4223072 CGACTTTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
26 4 0.09
27 24 0.56
28 15 0.35
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (28 bp):
TCATCAGGGGATACTCCAACCCCGTTAA
Found at i:4223178 original size:80 final size:79
Alignment explanation
Indices: 4223028--4223182 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 79
4223018 TTAATCATCA
*
4223028 GGGATACGCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGACTTTATTCCTAAAATATT
1 GGGATACGCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCCGAC-TTATTCCTAAAATATT
*
4223093 GATTTCTCATAATCG
65 AATTTCTCATAATCG
* *
4223108 GGGATACTCCAACCCTGTTATTTTCAAGGGGATACTCCAA-CCCCGTTAC-TATCTCC-AAAATA
1 GGGATACGCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCCG--ACTTAT-TCCTAAAATA
4223170 TTAAATTTCTCAT
63 TT-AATTTCTCAT
4223183 CGGGCAATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
79 16 0.24
80 49 0.73
81 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
GGGATACGCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCCGACTTATTCCTAAAATATTA
ATTTCTCATAATCG
Found at i:4226385 original size:21 final size:20
Alignment explanation
Indices: 4226351--4226393 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
4226341 TATTAAAAAG
*
4226351 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAACAA-GAA
4226372 TTAGCTAA-GAAAAACAAGAA
1 TTAGCTAATG-AAAACAAGAA
4226392 TT
1 TT
4226394 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (20 bp):
TTAGCTAATGAAAACAAGAA
Found at i:4226392 original size:20 final size:21
Alignment explanation
Indices: 4226351--4226393 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
4226341 TATTAAAAAG
*
4226351 TTAGCTAATGAAAATAATGAA
1 TTAGCTAATGAAAATAAAGAA
4226372 TTAGCTAA-GAAAA-ACAAGAA
1 TTAGCTAATGAAAATA-AAGAA
4226392 TT
1 TT
4226394 TGCATGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.55
21 8 0.40
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (21 bp):
TTAGCTAATGAAAATAAAGAA
Found at i:4232798 original size:13 final size:13
Alignment explanation
Indices: 4232780--4232806 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4232770 AAATTATGCT
4232780 TTGTATCGATACA
1 TTGTATCGATACA
4232793 TTGTATCGATACA
1 TTGTATCGATACA
4232806 T
1 T
4232807 GAAATTGGCA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:4238234 original size:15 final size:16
Alignment explanation
Indices: 4238214--4238251 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
4238204 AAGTTTAGAG
4238214 AGAATTTTC-TTTTCA
1 AGAATTTTCATTTTCA
4238229 AGAA-TTTCATTTTCA
1 AGAATTTTCATTTTCA
*
4238244 ACAATTTT
1 AGAATTTT
4238252 TTATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (16 bp):
AGAATTTTCATTTTCA
Found at i:4240237 original size:20 final size:21
Alignment explanation
Indices: 4240207--4240246 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
4240197 GCTATTGTCA
4240207 GTTTCATGTATCGATACAATT
1 GTTTCATGTATCGATACAATT
4240228 GTTT-ATGTATCGATACAAT
1 GTTTCATGTATCGATACAAT
4240247 GTATCGATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.30, C:0.12, G:0.15, T:0.42
Consensus pattern (21 bp):
GTTTCATGTATCGATACAATT
Found at i:4240250 original size:13 final size:13
Alignment explanation
Indices: 4240232--4240256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4240222 ACAATTGTTT
4240232 ATGTATCGATACA
1 ATGTATCGATACA
4240245 ATGTATCGATAC
1 ATGTATCGATAC
4240257 TTTCTAGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4246458 original size:13 final size:13
Alignment explanation
Indices: 4246440--4246464 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4246430 ACCAACATCA
4246440 TGTATCAATACAG
1 TGTATCAATACAG
4246453 TGTATCAATACA
1 TGTATCAATACA
4246465 AAGCAATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
TGTATCAATACAG
Found at i:4246900 original size:117 final size:117
Alignment explanation
Indices: 4246658--4246892 Score: 353
Period size: 117 Copynumber: 2.0 Consensus size: 117
4246648 TTTGATATTG
*
4246658 AAAACCATTTTGAGCAAGGTTTTAGAGTACTTTTAAGTGAATAAAACTTATTACGATCTTTCAAA
1 AAAATCATTTTGAGCAAGGTTTTAGAGTACTTTTAAGTGAATAAAACTTATTACGATCTTTCAAA
4246723 GTATTCTCCGATTTTATTCATACTTTGTTATATCAAAACCAAGATCCTAACA
66 GTATTCTCCGATTTTATTCATACTTTGTTATATCAAAACCAAGATCCTAACA
* * ** * * *
4246775 AAAATCATTTTGATCCAGGTTTTAGAGTGTTTTTTAGTGAATAAAACTTGTTACGGTCTTTCAAA
1 AAAATCATTTTGAGCAAGGTTTTAGAGTACTTTTAAGTGAATAAAACTTATTACGATCTTTCAAA
* ** * *
4246840 GTATTTTTTGGTTTTATTCATACTTTGTTATATGAAAACCAAGATCCTAACA
66 GTATTCTCCGATTTTATTCATACTTTGTTATATCAAAACCAAGATCCTAACA
4246892 A
1 A
4246893 TCCTCATTCA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
117 105 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.40
Consensus pattern (117 bp):
AAAATCATTTTGAGCAAGGTTTTAGAGTACTTTTAAGTGAATAAAACTTATTACGATCTTTCAAA
GTATTCTCCGATTTTATTCATACTTTGTTATATCAAAACCAAGATCCTAACA
Found at i:4248079 original size:19 final size:20
Alignment explanation
Indices: 4248055--4248111 Score: 82
Period size: 19 Copynumber: 2.9 Consensus size: 20
4248045 CCGTTTGAAG
4248055 CATGTATCGATACAAACAT-
1 CATGTATCGATACAAACATC
*
4248074 CATGTATCGATA-AAATATGC
1 CATGTATCGATACAAACAT-C
4248094 CATGTATCGATACAAACA
1 CATGTATCGATACAAACA
4248112 GTGGTAGGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.15
19 12 0.36
20 12 0.36
21 4 0.12
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.26
Consensus pattern (20 bp):
CATGTATCGATACAAACATC
Found at i:4248181 original size:19 final size:20
Alignment explanation
Indices: 4248137--4248207 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
4248127 CTACCAGTTT
* * *
4248137 CATGAATCGATACAATTATC
1 CATGTATCGATACAATGATA
4248157 CATGTATCGATACAATGA-A
1 CATGTATCGATACAATGATA
*
4248176 CATGTATCGAT-CAAAGCATA
1 CATGTATCGATACAATG-ATA
4248196 -AT-TATCGATACA
1 CATGTATCGATACA
4248208 TCTGGCTGTG
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
18 11 0.25
19 16 0.36
20 17 0.39
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:4248822 original size:19 final size:19
Alignment explanation
Indices: 4248798--4248841 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4248788 TCTCCCCCTT
4248798 GATTTTAAACGGTTAAAAA
1 GATTTTAAACGGTTAAAAA
** * *
4248817 GATTTTCTATGGTTAAAAG
1 GATTTTAAACGGTTAAAAA
4248836 GATTTT
1 GATTTT
4248842 CTCCCCCTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (19 bp):
GATTTTAAACGGTTAAAAA
Found at i:4250590 original size:22 final size:20
Alignment explanation
Indices: 4250545--4250618 Score: 51
Period size: 21 Copynumber: 3.6 Consensus size: 20
4250535 TTTGTCGATG
*
4250545 ATTTTGATGAAAAATGAAGT
1 ATTTTGATGAAAAATGAAGA
4250565 ATTTTGAAGTGAAAAAT-AAGA
1 ATTTTG-A-TGAAAAATGAAGA
* * * ** *
4250586 AATTTAAAGAAGATTTGATGA
1 ATTTTGATGAA-AAATGAAGA
4250607 ATTTTGATGAAA
1 ATTTTGATGAAA
4250619 GGCTGTTAGG
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
19 3 0.08
20 10 0.25
21 19 0.47
22 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAATGAAGA
Found at i:4256788 original size:13 final size:13
Alignment explanation
Indices: 4256770--4256794 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4256760 ACAATGAAAA
4256770 TGTATCGATACAT
1 TGTATCGATACAT
4256783 TGTATCGATACA
1 TGTATCGATACA
4256795 AAGTATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4256810 original size:33 final size:32
Alignment explanation
Indices: 4256751--4256815 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 32
4256741 GCCAGTTTCA
*
4256751 TGTATCGATACAATGAAAATGTATCGATACAT
1 TGTATCGATACAAAGAAAATGTATCGATACAT
*
4256783 TGTATCGATACAAAGTATAATGTATCGATACAT
1 TGTATCGATACAAAG-AAAATGTATCGATACAT
4256816 CTAGGTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (32 bp):
TGTATCGATACAAAGAAAATGTATCGATACAT
Found at i:4259155 original size:152 final size:152
Alignment explanation
Indices: 4258984--4259383 Score: 411
Period size: 153 Copynumber: 2.6 Consensus size: 152
4258974 ATTATATGAA
* *
4258984 AAAAATAC-AAAACTTATAAAATAAATTGAATTTTCACAAAATGATTT-ATAGGAATTTAATAAA
1 AAAAATTCTAAAACTCATAAAATAAATTGAATTTTCA-AAAATGATTTAATAGGAA-TTAA-AAA
* * *
4259047 A-ATATTTGATGAGTTTTAAAAATTTTAAACTGAAAAAAAT-CTAAAAGGAGAAATTTACAGAGT
63 ATA-ATTTGAAGAATTTTAAAAATTATAAACTGAAAAAAATCCT-AAAGGAGAAATTTACAGAGT
* * *
4259110 AG-ACAACTCTCTATCTTAGTAGCA-G
126 AGCAAAACTCTCTATCTCAGTAACAGG
* * * *
4259135 AAAAATTCTAAAACTCATAAAATAAATCGAATTTTTCAAAATTGATTTAATATGAATTAAACAAT
1 AAAAATTCTAAAACTCATAAAATAAATTGAA-TTTTCAAAAATGATTTAATAGGAATTAAAAAAT
* * ** *
4259200 AATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAATCCTACCGGAGATATTTACAGAGTAGCA
65 AATTTGAAGAATTTTAAAAATTATAAACTGAAAAAAATCCTAAAGGAGAAATTTACAGAGTAGCA
* * *
4259265 AAACTCTGTATCTCGGTAATAGG
130 AAACTCTCTATCTCAGTAACAGG
* * * **
4259288 AAAAATTCTAAAACTCATAAAATAAATT-AATTTTTTTAAAACTAATTTAATATAAATTAAACTA
1 AAAAATTCTAAAACTCATAAAATAAATTGAA--TTTTCAAAAATGATTTAATAGGAATTAAA--A
*
4259352 TAAT-ATTTAAAGAATTTTAAAAATTATAAACT
62 -AATAATTTGAAGAATTTTAAAAATTATAAACT
4259384 TTTAAAAAAA
Statistics
Matches: 211, Mismatches: 27, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
151 61 0.29
152 54 0.26
153 66 0.31
155 27 0.13
156 3 0.01
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (152 bp):
AAAAATTCTAAAACTCATAAAATAAATTGAATTTTCAAAAATGATTTAATAGGAATTAAAAAATA
ATTTGAAGAATTTTAAAAATTATAAACTGAAAAAAATCCTAAAGGAGAAATTTACAGAGTAGCAA
AACTCTCTATCTCAGTAACAGG
Found at i:4259336 original size:153 final size:151
Alignment explanation
Indices: 4259043--4259393 Score: 413
Period size: 153 Copynumber: 2.3 Consensus size: 151
4259033 AGGAATTTAA
* * * *
4259043 TAAA-AAT-ATTTGATGAGTTTTAAAAATTTTAAACTGAAAAAAATCTAAAAGGAGAAATTTACA
1 TAAACAATAATTTGAAGAATTTTAAAAATTATAAACTTAAAAAAATCTAAAAGGAGAAATTTACA
* * *
4259106 GAGTAGACAACTCTCTATCTTAGTAGCAGAAAAATTCTAAAACTCATAAAATAAATCGAATTTTT
66 GAGTAGAAAACTCTCTATCTCAGTAACAGAAAAATTCTAAAACTCATAAAATAAATCGAATTTTT
* * *
4259171 CAAAATTGATTTAATATGAAT
131 CAAAACTAATTTAATATAAAT
* ** *
4259192 TAAACAATAATTTGAAGAATTTTAAAAATTATAAACTTAGAAAAATCCT-ACCGGAGATATTTAC
1 TAAACAATAATTTGAAGAATTTTAAAAATTATAAACTTAAAAAAAT-CTAAAAGGAGAAATTTAC
* * * *
4259256 AGAGTAGCAAAACTCTGTATCTCGGTAATAGGAAAAATTCTAAAACTCATAAAATAAAT-TAATT
65 AGAGTAG-AAAACTCTCTATCTCAGTAACA-GAAAAATTCTAAAACTCATAAAATAAATCGAA-T
*
4259320 TTTTTAAAACTAATTTAATATAAAT
127 TTTTCAAAACTAATTTAATATAAAT
* *
4259345 TAAACTATAATATTTAAAGAATTTTAAAAATTATAAACTTTTAAAAAAA
1 TAAACAAT-A-ATTTGAAGAATTTTAAAAATTATAAAC--TTAAAAAAA
4259394 ATCTTGTCAG
Statistics
Matches: 170, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
149 4 0.02
150 3 0.02
151 51 0.30
152 20 0.12
153 57 0.34
154 1 0.01
155 26 0.15
157 8 0.05
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (151 bp):
TAAACAATAATTTGAAGAATTTTAAAAATTATAAACTTAAAAAAATCTAAAAGGAGAAATTTACA
GAGTAGAAAACTCTCTATCTCAGTAACAGAAAAATTCTAAAACTCATAAAATAAATCGAATTTTT
CAAAACTAATTTAATATAAAT
Found at i:4261437 original size:20 final size:20
Alignment explanation
Indices: 4261409--4261453 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4261399 ACATAAAGAT
* *
4261409 ATATCTCAAAATCTATATTA
1 ATATATCAAAATCTATATAA
*
4261429 ATATATCAAAATTTATATAA
1 ATATATCAAAATCTATATAA
4261449 ATATA
1 ATATA
4261454 AGATACTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATATCAAAATCTATATAA
Found at i:4263424 original size:19 final size:19
Alignment explanation
Indices: 4263400--4263474 Score: 80
Period size: 19 Copynumber: 3.9 Consensus size: 19
4263390 TTTTAACCAG
4263400 ATGTATCGATACATTTTCA
1 ATGTATCGATACATTTTCA
* *
4263419 ATGTATCGATACATGTATGA
1 ATGTATCGATACAT-TTTCA
* *
4263439 ATATATCGA-ACATTCTTTA
1 ATGTATCGATACATT-TTCA
*
4263458 ATGTATCAATACATTTT
1 ATGTATCGATACATTTT
4263475 GTCTTTTTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
18 1 0.02
19 29 0.63
20 16 0.35
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTTCA
Found at i:4264380 original size:44 final size:44
Alignment explanation
Indices: 4264331--4264421 Score: 182
Period size: 44 Copynumber: 2.1 Consensus size: 44
4264321 TCCATCATCC
4264331 TAATAGCCTTTGGTCATGCATTTTTACTATGTTCCATGCATTTT
1 TAATAGCCTTTGGTCATGCATTTTTACTATGTTCCATGCATTTT
4264375 TAATAGCCTTTGGTCATGCATTTTTACTATGTTCCATGCATTTT
1 TAATAGCCTTTGGTCATGCATTTTTACTATGTTCCATGCATTTT
4264419 TAA
1 TAA
4264422 CATGTCCAGC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (44 bp):
TAATAGCCTTTGGTCATGCATTTTTACTATGTTCCATGCATTTT
Found at i:4264392 original size:24 final size:24
Alignment explanation
Indices: 4264331--4264400 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
4264321 TCCATCATCC
4264331 TAATAGCCTTTGGTCATGCATTTT
1 TAATAGCCTTTGGTCATGCATTTT
* *
4264355 TACTA---TGTT--CCATGCATTTT
1 TAATAGCCT-TTGGTCATGCATTTT
4264375 TAATAGCCTTTGGTCATGCATTTT
1 TAATAGCCTTTGGTCATGCATTTT
4264399 TA
1 TA
4264401 CTATGTTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
20 14 0.39
21 1 0.03
22 4 0.11
23 1 0.03
24 16 0.44
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.47
Consensus pattern (24 bp):
TAATAGCCTTTGGTCATGCATTTT
Found at i:4264429 original size:19 final size:20
Alignment explanation
Indices: 4264345--4264420 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 20
4264335 AGCCTTTGGT
4264345 CATGCATTTTTACTATGTTC
1 CATGCATTTTTACTATGTTC
* *
4264365 CATGCATTTTTAATA-GCCTTTGGT
1 CATGCATTTTTACTATG---TT--C
4264389 CATGCATTTTTACTATGTTC
1 CATGCATTTTTACTATGTTC
4264409 CATGCATTTTTA
1 CATGCATTTTTA
4264421 ACATGTCCAG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
19 1 0.02
20 26 0.57
22 4 0.09
24 14 0.30
25 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (20 bp):
CATGCATTTTTACTATGTTC
Found at i:4271461 original size:15 final size:15
Alignment explanation
Indices: 4271441--4271484 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4271431 ATTCTGCCAA
4271441 ATCCACCACAAAATC
1 ATCCACCACAAAATC
** *
4271456 ATCCACCACCTAATT
1 ATCCACCACAAAATC
*
4271471 ACCCACCACAAAAT
1 ATCCACCACAAAAT
4271485 GGTCGATACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (15 bp):
ATCCACCACAAAATC
Found at i:4275287 original size:20 final size:19
Alignment explanation
Indices: 4275241--4275297 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
4275231 TTGTATCGAT
* *
4275241 ACATTGTAACGATACATGT
1 ACATTGTATCGATACATGG
*
4275260 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
4275279 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
4275298 AAACTGGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:4276946 original size:3 final size:3
Alignment explanation
Indices: 4276938--4276970 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
4276928 TTAACCATCA
*
4276938 ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
4276971 GTGACTCAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:4280661 original size:20 final size:21
Alignment explanation
Indices: 4280623--4280662 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
4280613 TTACAAATTT
* *
4280623 CTTCATTTTTACTTTAAAATA
1 CTTCATTTTTACATCAAAATA
4280644 CTTCATTTTT-CATCAAAAT
1 CTTCATTTTTACATCAAAAT
4280663 CACCAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (21 bp):
CTTCATTTTTACATCAAAATA
Found at i:4285176 original size:10 final size:10
Alignment explanation
Indices: 4285149--4285234 Score: 66
Period size: 10 Copynumber: 8.1 Consensus size: 10
4285139 AAGTAAACAC
*
4285149 AAACAAAAGTA
1 AAACAAAA-AA
4285160 AAA-AAAAAA
1 AAACAAAAAA
*
4285169 AAACAAAACA
1 AAACAAAAAA
* *
4285179 AAACAACACA
1 AAACAAAAAA
4285189 AAACAAAATAA
1 AAACAAAA-AA
*
4285200 AAATAAAAAACA
1 AAA-CAAAAA-A
4285212 AAACAAAAAA
1 AAACAAAAAA
4285222 AACACACAAAAA
1 AA-ACA-AAAAA
4285234 A
1 A
4285235 GTGCAAAGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
9 4 0.06
10 28 0.45
11 16 0.26
12 14 0.23
ACGTcount: A:0.81, C:0.14, G:0.01, T:0.03
Consensus pattern (10 bp):
AAACAAAAAA
Found at i:4285201 original size:39 final size:38
Alignment explanation
Indices: 4285144--4285232 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 38
4285134 GTCAAAAGTA
4285144 AACACAAACAAAAGTAAAAAAAAAAAAACAAAACAAAAC
1 AACACAAACAAAAGT-AAAAAAAAAAAACAAAACAAAAC
*
4285183 AACACAAAACAAAA-TAAAAATAAAAAACAAAACAAAA-
1 AACAC-AAACAAAAGTAAAAAAAAAAAACAAAACAAAAC
* *
4285220 AAAACACACAAAA
1 AACACAAACAAAA
4285233 AAGTGCAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
36 7 0.15
37 4 0.09
38 21 0.46
39 6 0.13
40 8 0.17
ACGTcount: A:0.80, C:0.16, G:0.01, T:0.03
Consensus pattern (38 bp):
AACACAAACAAAAGTAAAAAAAAAAAACAAAACAAAAC
Found at i:4285492 original size:16 final size:15
Alignment explanation
Indices: 4285471--4285522 Score: 72
Period size: 14 Copynumber: 3.5 Consensus size: 15
4285461 TGTTCTTTTC
4285471 CAAAAAAGAAACAAAA
1 CAAAAAAGAAA-AAAA
4285487 CAAAAAAGAAAAAAA
1 CAAAAAAGAAAAAAA
4285502 -AACAAAA-AAAAAAA
1 CAA-AAAAGAAAAAAA
4285516 CAAAAAA
1 CAAAAAA
4285523 AAGGGGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.38
15 10 0.29
16 11 0.32
ACGTcount: A:0.87, C:0.10, G:0.04, T:0.00
Consensus pattern (15 bp):
CAAAAAAGAAAAAAA
Found at i:4285503 original size:12 final size:12
Alignment explanation
Indices: 4285472--4285524 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
4285462 GTTCTTTTCC
*
4285472 AAAAAAGAAAC-
1 AAAAAAAAAACA
*
4285483 AAAACAAAAA-A
1 AAAAAAAAAACA
*
4285494 GAAAAAAAAACA
1 AAAAAAAAAACA
4285506 AAAAAAAAAACA
1 AAAAAAAAAACA
4285518 AAAAAAA
1 AAAAAAA
4285525 GGGGAAAAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
11 16 0.46
12 19 0.54
ACGTcount: A:0.89, C:0.08, G:0.04, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:4285504 original size:22 final size:22
Alignment explanation
Indices: 4285471--4285524 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
4285461 TGTTCTTTTC
*
4285471 CAAAAAAGAAACAAAACAAAAAA
1 CAAAAAA-AAACAAAAAAAAAAA
*
4285494 GAAAAAAAAACAAAAAAAAAAA
1 CAAAAAAAAACAAAAAAAAAAA
4285516 CAAAAAAAA
1 CAAAAAAAA
4285525 GGGGAAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 22 0.79
23 6 0.21
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (22 bp):
CAAAAAAAAACAAAAAAAAAAA
Found at i:4285524 original size:16 final size:16
Alignment explanation
Indices: 4285471--4285524 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 16
4285461 TGTTCTTTTC
* *
4285471 CAAAAAAGAAACAAAA
1 CAAAAAAAAAAAAAAA
4285487 CAAAAAAGAAAAAAAAA
1 CAAAAAA-AAAAAAAAA
4285504 CAAAAAAAAAAACAAAA
1 CAAAAAAAAAAA-AAAA
4285521 -AAAA
1 CAAAA
4285525 GGGGAAAAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 16 0.47
17 18 0.53
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAAAAAAA
Found at i:4285533 original size:1 final size:1
Alignment explanation
Indices: 4285472--4285524 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
4285462 GTTCTTTTCC
* * * * * *
4285472 AAAAAAGAAACAAAACAAAAAAGAAAAAAAAACAAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4285525 GGGGAAAAAC
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.08, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:4286522 original size:33 final size:33
Alignment explanation
Indices: 4286485--4286590 Score: 110
Period size: 33 Copynumber: 3.3 Consensus size: 33
4286475 CCCACGGCTC
4286485 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
* * * * *** *
4286518 AGTGGCGTC--TCTTTC-CAAAGCCCACGGCTC
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
4286548 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
1 AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
*
4286581 AGTAGCATCT
1 AGTGGCATCT
4286591 CTTTCCAAAG
Statistics
Matches: 53, Mismatches: 17, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
30 17 0.32
31 5 0.09
32 5 0.09
33 26 0.49
ACGTcount: A:0.23, C:0.27, G:0.16, T:0.34
Consensus pattern (33 bp):
AGTGGCATCTTTCCTTCTTAAAGTCCACAATTT
Found at i:4286561 original size:63 final size:63
Alignment explanation
Indices: 4286461--4286622 Score: 256
Period size: 63 Copynumber: 2.6 Consensus size: 63
4286451 AATTCTTTAA
*
4286461 ATCTC-TTCTCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTC-CAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTAGC
*
4286524 GTCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTAGC
1 ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTAGC
* *
4286587 ATCTCTTTCCAAAGTCCC-CGACTCATTGGCATCTTT
1 ATCTCTTTCCAAAG-CCCACGGCTCAGTGGCATCTTT
4286623 TTATTTAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
63 86 0.93
64 6 0.07
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.33
Consensus pattern (63 bp):
ATCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTAGC
Found at i:4286602 original size:30 final size:30
Alignment explanation
Indices: 4286504--4286603 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
4286494 TTTCCTTCTT
*
4286504 AAAGTCCACAATTTAGTGGCGTCTCTTTCC
1 AAAGTCCACAATTTAGTGGCATCTCTTTCC
* *** * * *
4286534 AAAGCCCACGGCTCAGTGGCATCTTTCCTTCTT
1 AAAGTCCACAATTTAGTGGCATC--TCTTTC-C
*
4286567 AAAGTCCACAATTTAGTAGCATCTCTTTCC
1 AAAGTCCACAATTTAGTGGCATCTCTTTCC
4286597 AAAGTCC
1 AAAGTCC
4286604 CCGACTCATT
Statistics
Matches: 51, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
30 24 0.47
31 5 0.10
32 5 0.10
33 17 0.33
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (30 bp):
AAAGTCCACAATTTAGTGGCATCTCTTTCC
Found at i:4286634 original size:63 final size:62
Alignment explanation
Indices: 4286461--4286749 Score: 232
Period size: 63 Copynumber: 4.6 Consensus size: 62
4286451 AATTCTTTAA
* *
4286461 ATCTC-TTCTCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTGGC
1 ATCTCTTTC-CAAAGCCCACGACTCAGTGGCATCTTT-CTTCTTAAAGTCCACAATTTAGTAGC
* *
4286524 GTCTCTTTCCAAAGCCCACGGCTCAGTGGCATCTTTCCTTCTTAAAGTCCACAATTTAGTAGC
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCATCTTT-CTTCTTAAAGTCCACAATTTAGTAGC
* * * * * *
4286587 ATCTCTTTCCAAAGTCCC-CGACTCATTGGCATCTTT-TTATTTAAAAGTCCACGACTCAGTGGC
1 ATCTCTTTCCAAAG-CCCACGACTCAGTGGCATCTTTCTT-CTT-AAAGTCCACAATTTAGTAGC
* * * * * * *
4286650 AT-T-TTGTCTTAAAGTCCACGACTCCGTGGCACCTTT-TTCTTTTCAAAGTCCACAACTTCGTG
1 ATCTCTT-TC-CAAAGCCCACGACTCAGTGGCATCTTTCTTC--TT-AAAGTCCACAATTTAGTA
4286712 GC
61 GC
** * *
4286714 A-CTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 ATCTCTTTCCAAAGCCCACGACTCAGTGGCA-TCTTT
4286750 TTCCTTCTAA
Statistics
Matches: 189, Mismatches: 25, Indels: 23
0.80 0.11 0.10
Matches are distributed among these distances:
61 4 0.02
62 7 0.04
63 144 0.76
64 32 0.17
65 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (62 bp):
ATCTCTTTCCAAAGCCCACGACTCAGTGGCATCTTTCTTCTTAAAGTCCACAATTTAGTAGC
Found at i:4286666 original size:30 final size:33
Alignment explanation
Indices: 4286597--4286685 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 33
4286587 ATCTCTTTCC
* * * *
4286597 AAAGTCCCCGACTCATTGGCATCTTTTTATTTA
1 AAAGTCCACGACTCAGTGGCATCTTTGTACTTA
4286630 AAAGTCCACGACTCAGTGGCAT-TTTGT-CTT-
1 AAAGTCCACGACTCAGTGGCATCTTTGTACTTA
* *
4286660 AAAGTCCACGACTCCGTGGCACCTTT
1 AAAGTCCACGACTCAGTGGCATCTTT
4286686 TTCTTTTCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
30 20 0.41
31 5 0.10
32 4 0.08
33 20 0.41
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (33 bp):
AAAGTCCACGACTCAGTGGCATCTTTGTACTTA
Found at i:4286712 original size:34 final size:35
Alignment explanation
Indices: 4286660--4286987 Score: 341
Period size: 34 Copynumber: 9.8 Consensus size: 35
4286650 ATTTTGTCTT
* *
4286660 AAAGTCCACGACTCCGTGGCAC-CTTTTTCTTTTC
1 AAAGTCCACAACTTCGTGGCACTCTTTTTCTTTTC
4286694 AAAGTCCACAACTTCGTGGCACTC----T-TTTT-
1 AAAGTCCACAACTTCGTGGCACTCTTTTTCTTTTC
* *
4286723 AAAGCCCACAAC-TCTGTGGCACTCTTTTTC-CTTC
1 AAAGTCCACAACTTC-GTGGCACTCTTTTTCTTTTC
* * * *
4286757 TAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTC
1 AAAGTCCACAACTTCGTGGCACTCTTTTTCTTTTC
* * *
4286791 TAAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTT
1 AAAGTCCACAACTTCGTGGCACTCTTTTTCTTTTC
* * *
4286825 AAAGCCCACAACTCCGTGGCACTCTTTTTC-CTTC
1 AAAGTCCACAACTTCGTGGCACTCTTTTTCTTTTC
*
4286859 TAAGTCCACAACTTCGTGGCACTCTTTTTCCTTTT-
1 AAAGTCCACAACTTCGTGGCACTCTTTTT-CTTTTC
4286894 -AAGTCCACAACTTCGTGGCACTCTTTTTCCCTTTT-
1 AAAGTCCACAACTTCGTGGCACTCTTTTT--CTTTTC
* *
4286929 AAAGTCCACAACTTCGTGGCAC-CTTGTTCTTTTT
1 AAAGTCCACAACTTCGTGGCACTCTTTTTCTTTTC
4286963 AAA-TCCACAACTTCGTGGCA-TCTTT
1 AAAGTCCACAACTTCGTGGCACTCTTT
4286988 CACCCTTTTT
Statistics
Matches: 258, Mismatches: 19, Indels: 35
0.83 0.06 0.11
Matches are distributed among these distances:
28 2 0.01
29 20 0.08
30 4 0.02
31 1 0.00
33 35 0.14
34 152 0.59
35 21 0.08
36 23 0.09
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (35 bp):
AAAGTCCACAACTTCGTGGCACTCTTTTTCTTTTC
Found at i:4286832 original size:68 final size:68
Alignment explanation
Indices: 4286661--4286987 Score: 411
Period size: 68 Copynumber: 4.9 Consensus size: 68
4286651 TTTTGTCTTA
* *
4286661 AAGTCCACGACTCCGTGGCACCTTTTTCTTTTCAAAGTCCACAACTTCGTGGCACTC--TTT--T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTTCGTGGCACTCTTTTTCCT
*
4286722 T-A
66 TCT
* * * * * *
4286724 AAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT-AAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGTCCACAACTTCGTGGCACTCTTTTTCC
4286788 TTCT
65 TTCT
* *
4286792 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTTCGTGGCACTCTTTTTCCT
4286857 TCT
66 TCT
* *
4286860 AAGTCCACAACTTCGTGGCACTCTTTTTCCTTTT-AAGTCCACAACTTCGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGTCCACAACTTCGTGGCACTCTTTTT-C
*
4286924 CTTTT
64 CTTCT
* *
4286929 AAAGTCCACAACTTCGTGGCACCTTGTTCTTTTTAAA-TCCACAACTTCGTGGCA-TCTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTTCGTGGCACTCTTT
4286988 CACCCTTTTT
Statistics
Matches: 233, Mismatches: 20, Indels: 17
0.86 0.07 0.06
Matches are distributed among these distances:
63 39 0.17
64 9 0.04
65 3 0.01
67 12 0.05
68 104 0.45
69 43 0.18
70 23 0.10
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (68 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGTCCACAACTTCGTGGCACTCTTTTTCCT
TCT
Found at i:4286850 original size:102 final size:102
Alignment explanation
Indices: 4286661--4286987 Score: 427
Period size: 102 Copynumber: 3.3 Consensus size: 102
4286651 TTTTGTCTTA
* * *
4286661 AAGTCCACGACTCCGTGGCAC-CTTTTTCTTTTCAAAGTCCACAACTTCGTGGCA-C----TCTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTC-CTTCTAAGTCCACAACTTCGTGGCACCTTTTTCTT
*
4286720 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT
65 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
4286758 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCTTTTTCTTT
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTCGTGGCACCTTTTTCTTT
4286823 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
66 TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* * *
4286860 AAGTCCACAACTTCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTTCGTGGCACTCTTTTTCCC
1 AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTCGTGGCAC-CTTTTT-CT
* * * * *
4286925 TTTTAAAGTCCACAACTTCGTGGCAC-CTTGTTCTTTTT
64 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
4286963 AAATCCACAACTTCGTGGCA-TCTTT
1 AAGTCCACAACTCCGTGGCACTCTTT
4286988 CACCCTTTTT
Statistics
Matches: 205, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
97 41 0.20
98 8 0.04
102 97 0.47
103 34 0.17
104 25 0.12
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.36
Consensus pattern (102 bp):
AAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTCGTGGCACCTTTTTCTTT
TTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
Found at i:4287040 original size:69 final size:68
Alignment explanation
Indices: 4286817--4287040 Score: 172
Period size: 69 Copynumber: 3.3 Consensus size: 68
4286807 TGGCACCTTT
* * ** * * **
4286817 TTCTT-TTTAAAGCCCACAACTCCGTGGCACTCTTT-TTCCTTCT-AAGTCCACAACTTCGTGGC
1 TTCTTCTTTAAAGTCCACAACTTCGTGGCACTCTTTCACCCTTTTAAAGCCCACAAAGTCGTGGC
*
4286879 ACTC
66 A-AC
* * ** * **
4286883 TTTTTCCTTTTAAGTCCACAACTTCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACTTCGTGG
1 TTCTT-CTTTAAAGTCCACAACTTCGTGGCACTCTTTCACCCTTTTAAAGCCCACAAAGTCGTGG
*
4286948 CACC
65 CAAC
*
4286952 TTGTTCTTTTTAAA-TCCACAACTTCGTGGCA-TCTTTCACCCTTTTTAAAGCCCACACAAGTCA
1 TTCTTC--TTTAAAGTCCACAACTTCGTGGCACTCTTTCACCC-TTTTAAAGCCCACA-AAGTC-
4287015 GTGGCAAC
61 GTGGCAAC
*
4287023 -TCTTCTTTAAAGCCCACA
1 TTCTTCTTTAAAGTCCACA
4287041 CAAGTCGGTG
Statistics
Matches: 131, Mismatches: 17, Indels: 17
0.79 0.10 0.10
Matches are distributed among these distances:
66 4 0.03
68 42 0.32
69 46 0.35
70 32 0.24
71 7 0.05
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (68 bp):
TTCTTCTTTAAAGTCCACAACTTCGTGGCACTCTTTCACCCTTTTAAAGCCCACAAAGTCGTGGC
AAC
Found at i:4287072 original size:32 final size:31
Alignment explanation
Indices: 4286998--4287294 Score: 391
Period size: 32 Copynumber: 9.3 Consensus size: 31
4286988 CACCCTTTTT
* *
4286998 AAAGCCCACACAAGTCAGTGGCAACTCTTCTTT
1 AAAGCCCACACAAGTCGGTGGCAAC-CTTC-TC
4287031 AAAGCCCACACAAGTCGGTGGCAACTCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAAC-CTTCTC
* *
4287063 AAAGCCCACACAAGTCGATGGCAACCCTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCTTCTC
* *
4287094 TAAAGCCCACACAAGTTGGTGGCAAACATTCTC
1 -AAAGCCCACACAAGTCGGTGGC-AACCTTCTC
4287127 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
1 -AAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
*
4287160 AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
1 AAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
*
4287192 AAAGCCCACACAAGTCGGTGGCAACCCTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCTTCTC
*
4287223 TAAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 -AAAGCCCACACAAGTCGGTGGCAACC-TTCTC
4287256 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT-
1 -AAAGCCCACACAAGTCGGTGGCAA-CCTTCTC
4287288 -AAGCCCA
1 AAAGCCCA
4287295 ATATCGCTGG
Statistics
Matches: 242, Mismatches: 16, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
30 7 0.03
31 10 0.04
32 127 0.52
33 96 0.40
34 2 0.01
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.18
Consensus pattern (31 bp):
AAAGCCCACACAAGTCGGTGGCAACCTTCTC
Found at i:4287103 original size:97 final size:94
Alignment explanation
Indices: 4286997--4287294 Score: 445
Period size: 97 Copynumber: 3.1 Consensus size: 94
4286987 TCACCCTTTT
* *
4286997 TAAAGCCCACACAAGTCAGTGGCAACTCTTCTTTAAAGCCCACACAAGTCGGTGGCAACTCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAAC-CTTCTCTAAAGCCCACACAAGTCGGTGGCAAC-CTTCT
*
4287062 CAAAGCCCACACAAGTCGATGGCAACCCTCTC
64 CAAAGCCCACACAAGTCGGTGGCAACCCT-TC
* *
4287094 TAAAGCCCACACAAGTTGGTGGCAAACATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 TAAAGCCCACACAAGTCGGTGGC-AACCTTCTCTAAAGCCCACACAAGTCGGTGGCAA-CCTTCT
4287159 CAAAGCCCACACAAGTCGGTGGCAACCCTTCC
64 CAAAGCCCACACAAGTCGGTGGCAACCCTT-C
* * *
4287191 CAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTC
1 TAAAGCCCACACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGCAACC-TTCTC
4287256 TAAAGCCCACACAAGTCGGTGGCAACCCTTC
65 -AAAGCCCACACAAGTCGGTGGCAACCCTTC
4287287 T-AAGCCCA
1 TAAAGCCCA
4287295 ATATCGCTGG
Statistics
Matches: 185, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
95 9 0.05
96 38 0.21
97 134 0.72
98 4 0.02
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.18
Consensus pattern (94 bp):
TAAAGCCCACACAAGTCGGTGGCAACCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTCA
AAGCCCACACAAGTCGGTGGCAACCCTTC
Found at i:4287195 original size:129 final size:128
Alignment explanation
Indices: 4286997--4287294 Score: 508
Period size: 129 Copynumber: 2.3 Consensus size: 128
4286987 TCACCCTTTT
* * * *
4286997 TAAAGCCCACACAAGTCAGTGGCAACTCTTCTTTAAAGCCCACACAAGTCGGTGGCAACTCTTCT
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTC--TAAAGCCCACACAAGTCGGTGGCAACCCTTCC
4287062 CAAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACATTCTC
64 CAAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACATTCTC
4287127 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCCC
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT-AAAGCCCACACAAGTCGGTGGCAACCCTTCCC
* *
4287192 AAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAACCATTCTC
65 AAAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACATTCTC
4287256 TAAAGCCCACACAAGTCGGTGGCAACCCTTCT-AAGCCCA
1 TAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCA
4287295 ATATCGCTGG
Statistics
Matches: 161, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
127 7 0.04
128 1 0.01
129 124 0.77
130 29 0.18
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.18
Consensus pattern (128 bp):
TAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCCCA
AAGCCCACACAAGTCGATGGCAACCCTCTCTAAAGCCCACACAAGTTGGTGGCAAACATTCTC
Found at i:4287454 original size:92 final size:88
Alignment explanation
Indices: 4287333--4288432 Score: 1185
Period size: 92 Copynumber: 12.0 Consensus size: 88
4287323 GCACCTTCTT
* * *
4287333 CTTTAAGTCCAATGTAGCTGGCCTCGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATCGCTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATATCGCTG
*
4287396 GCCTTGAATCAGCATATTGGCATTTTC
66 GCCTTGAATCAGCACATTGGCA----C
* * **
4287423 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATCTT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATATCGC
*
4287486 TGGCCTTGAATCAGCATATTGGCACCTTC
64 TGGCCTTGAATCAGCACATTGGCA----C
* *
4287515 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATCGC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATATCGC
*
4287578 TGGCCTTGAATCAGCATATTGGCACCTTC
64 TGGCCTTGAATCAGCACATTGGCA----C
* *
4287607 TTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATCGC
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATATCGC
4287670 TGGCCTTGAATCAGCACATTGGCAC
64 TGGCCTTGAATCAGCACATTGGCAC
* * * * *
4287695 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTTAAGTCCATTGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C---CTCTTTAAGTCCAATATC
*
4287760 GCTGGCCTTGAATTAGCACATTGGCAC
62 GCTGGCCTTGAATCAGCACATTGGCAC
* *
4287787 CTTTAAGTCCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTAGAGTCCAATATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TC-T-TTA-AGTCCAATATC
4287852 GCTGGCCTTGAATCAGCACATTGGCAC
62 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
4287879 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAAGTCCAATATC
4287944 GCTGGCCTTGAATCAGCACATTGGCAC
62 GCTGGCCTTGAATCAGCACATTGGCAC
* * * * *
4287971 CTTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAACATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC----TCTTTAAGTCCAATATC
4288036 GCTGGCCTTGAATCAGCACATTGGCAC
62 GCTGGCCTTGAATCAGCACATTGGCAC
*
4288063 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAATATA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAAGTCCAATATC
*
4288128 GCTGGCCTTGAATCAGCACATTAGCAC
62 GCTGGCCTTGAATCAGCACATTGGCAC
* * * *
4288155 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCATCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C-TCTTTAAGTCCAATATC
*
4288220 GCTGGCCTTGAATCAGCACATTGGCAA
62 GCTGGCCTTGAATCAGCACATTGGCAC
** * * * *
4288247 CTCCAAGTCCAATATCA-CTGGCCTTGAGTCAGCATGTTGGCACCCTCATCTTTTAAGCCCAATG
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGCA--C-C-TC-TTTAAGTCCAATA
* *
4288311 TCGCTAGCCTTGAATCAACACATTGGCAC
60 TCGCTGGCCTTGAATCAGCACATTGGCAC
*
4288340 CTTTAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAA
1 CTTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCATATTGGC-AC-----C-TCTTTAAGTCCAA
* * *
4288404 TATTGCTGGCCTTAAATCAGCATATTGGC
58 TATCGCTGGCCTTGAATCAGCACATTGGC
4288433 GTCTCTGTCA
Statistics
Matches: 912, Mismatches: 69, Indels: 51
0.88 0.07 0.05
Matches are distributed among these distances:
86 39 0.04
88 1 0.00
89 3 0.00
90 1 0.00
91 5 0.01
92 739 0.81
93 81 0.09
94 1 0.00
95 37 0.04
96 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (88 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTCTTTAAGTCCAATATCGCTG
GCCTTGAATCAGCACATTGGCAC
Found at i:4287470 original size:21 final size:21
Alignment explanation
Indices: 4287446--4287513 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
4287436 ATGTAGCTGG
4287446 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* ** *
4287467 CCTTTAAGTCCAATATCTTTGG--
1 CCTTGAA-T-CAGCA-CATTGGCA
*
4287489 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCACATTGGCA
4287510 CCTT
1 CCTT
4287514 CTTCTTTAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 11 0.33
22 7 0.21
23 3 0.09
24 5 0.15
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.32
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:4287654 original size:21 final size:21
Alignment explanation
Indices: 4287630--4287697 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
4287620 ATGTAGCTGG
4287630 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
* * *
4287651 CCTTTAAGTC--CA-ATATCGCTGG
1 CCTTGAA-TCAGCACAT-TGGC--A
4287673 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCACATTGGCA
4287694 CCTT
1 CCTT
4287698 TAAGTCCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (21 bp):
CCTTGAATCAGCACATTGGCA
Found at i:4287673 original size:24 final size:24
Alignment explanation
Indices: 4287646--4287716 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
4287636 ATCAGCACAT
4287646 TGGCACCTTTAAGTCCAATATCGC
1 TGGCACCTTTAAGTCCAATATCGC
* ** **
4287670 TGG--CCTTGAA-T-CAGCA-CAT
1 TGGCACCTTTAAGTCCAATATCGC
4287689 TGGCACCTTTAAGTCCAATATCGC
1 TGGCACCTTTAAGTCCAATATCGC
4287713 TGGC
1 TGGC
4287717 CTTGAATCAG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 7 0.22
22 7 0.22
23 3 0.09
24 8 0.25
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (24 bp):
TGGCACCTTTAAGTCCAATATCGC
Found at i:4287676 original size:22 final size:22
Alignment explanation
Indices: 4287651--4287719 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
4287641 CACATTGGCA
4287651 CCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATATCGCTGG
* * *
4287673 CCTTGAA-TCAGCACAT-TGGC--A
1 CCTTTAAGTC--CA-ATATCGCTGG
4287694 CCTTTAAGTCCAATATCGCTGG
1 CCTTTAAGTCCAATATCGCTGG
4287716 CCTT
1 CCTT
4287720 GAATCAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (22 bp):
CCTTTAAGTCCAATATCGCTGG
Found at i:4287785 original size:276 final size:270
Alignment explanation
Indices: 4287275--4288489 Score: 1341
Period size: 276 Copynumber: 4.4 Consensus size: 270
4287265 CACAAGTCGG
*
4287275 TGGCAACCCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAG
1 TGGC-ACCCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTTTAAG
* * *
4287340 TCCAATGTAGCTGGCCTCGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAAT
63 TCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAAT
* * * *
4287405 CAGCATATTGGCATTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-C-
128 CAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
*** *
4287468 ----CTTTAAGTCCAATATCTTTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCAA
187 TTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAA
* *
4287529 TGTAGCTGGCCTTGAATCAGCACAT
246 TATAGCTGGCCTTGAATCAGCATAT
4287554 TGGCA-CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTC
1 TGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCTTTAAGTC
* *
4287618 CAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCA
65 CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCA
*
4287683 GCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTTATCTTT
130 GCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTT
* * * * *
4287748 AAGTCCATTGTAGCTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATATTGTTGGCCTTG
195 AAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTG
4287813 AATCAGCATAT
260 AATCAGCATAT
*
4287824 TGGCACCTTCATCTTAGAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C-CTTTA
1 TGGCACC--C-T-TTA-AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTA
* * *
4287884 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGG
61 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCTGG
* *
4287949 CCTTGAATCAGCACATTGGCACCTTTAAGCCCAATATCGTTGGCCTTGAATCAGCATATTGGCAC
120 CCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
*
4288014 CTTTATCTTTAAGTCCAACATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATA
185 CTTTATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATA
4288079 GCTGGCCTTGAATCAGCATAT
250 GCTGGCCTTGAATCAGCATAT
* * *
4288100 TGGCACCTTCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTAGCA----C-CTTTA
1 TGGCA-C--C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTA
* * * *
4288160 AGTCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCATCATCTTTAAGTCCAATGTAGCTGG
61 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGG---CA-C--CTTTAAGTCCAATATAGCTGG
* ** * * *
4288225 CCTTGAATCAGCACATTGGCAACTCCAAGTCCAATATCACTGGCCTTGAGTCAGCATGTTGGCAC
120 CCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
* * * * * * *
4288290 CCTCATCTTTTAAGCCCAATGTCGCTAGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATAT
185 CTTTATC-TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATAT
4288355 CA-CTGGCCTTGAATCAGCATAT
249 -AGCTGGCCTTGAATCAGCATAT
* * * *
4288377 TGGCGCCTTTGTCATCTTTAAGTCCAATATTGCTGGCCTTAAATCAGCATATTGGCGTCTCTGTC
1 TGGC-AC-----C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-TC
* *
4288442 ATCTTTAAGTGCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT
55 -TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
4288490 CATCTTTAAC
Statistics
Matches: 833, Mismatches: 64, Indels: 74
0.86 0.07 0.08
Matches are distributed among these distances:
270 116 0.14
271 2 0.00
272 3 0.00
273 1 0.00
274 2 0.00
275 3 0.00
276 527 0.63
277 84 0.10
278 3 0.00
279 10 0.01
280 40 0.05
283 3 0.00
285 1 0.00
286 2 0.00
287 1 0.00
289 35 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (270 bp):
TGGCACCCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCTTTAAGTCC
AATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAG
CACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTA
AGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGA
ATCAGCATAT
Found at i:4288422 original size:52 final size:52
Alignment explanation
Indices: 4288340--4288489 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 52
4288330 ACATTGGCAC
*
4288340 CTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * * *
4288392 CTTTAAGTCCAATATTGCTGGCCTTAAATCAGCATATTGGCGTCTCTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
* * * * *
4288444 CTTTAAGTGCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTT
4288490 CATCTTTAAC
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 84 1.00
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
Found at i:4289352 original size:13 final size:13
Alignment explanation
Indices: 4289334--4289358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4289324 GATAAAGTGT
4289334 TGTATCGATACAA
1 TGTATCGATACAA
4289347 TGTATCGATACA
1 TGTATCGATACA
4289359 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4289374 original size:32 final size:31
Alignment explanation
Indices: 4289291--4289382 Score: 117
Period size: 32 Copynumber: 3.1 Consensus size: 31
4289281 TTCAACGATT
4289291 TGTATCGATACATAAG-TTGTATC-AT--AA
1 TGTATCGATACATAAGTTTGTATCGATACAA
4289318 TGTATCGAT--A-AAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGT-TTGTATCGATACAA
4289347 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAG-TTTGTATCGATACAA
4289379 TGTA
1 TGTA
4289383 AGCTACTGCC
Statistics
Matches: 56, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
24 3 0.05
25 1 0.02
26 7 0.12
27 11 0.20
29 11 0.20
31 1 0.02
32 21 0.38
33 1 0.02
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (31 bp):
TGTATCGATACATAAGTTTGTATCGATACAA
Found at i:4289438 original size:13 final size:13
Alignment explanation
Indices: 4289420--4289444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4289410 ATTACTCAAA
4289420 TGTATCGATACAT
1 TGTATCGATACAT
4289433 TGTATCGATACA
1 TGTATCGATACA
4289445 CTAATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Done.