Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 339 of 356
Found at i:108482882 original size:14 final size:14
Alignment explanation
Indices: 108482863--108482920 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
108482853 AAGGTAATAA
*
108482863 AATAATATAATAGT
1 AATAATACAATAGT
108482877 AATAATAACAATA-T
1 AATAAT-ACAATAGT
108482891 AATAAT--AATAGT
1 AATAATACAATAGT
*
108482903 CATAATACAATAGT
1 AATAATACAATAGT
108482917 AATA
1 AATA
108482921 GTAATTACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.11
12 6 0.16
14 22 0.59
15 5 0.14
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (14 bp):
AATAATACAATAGT
Found at i:108482891 original size:20 final size:20
Alignment explanation
Indices: 108482856--108482925 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
108482846 ATAGGTAAAG
108482856 GTAATAA-AATAATATAATA
1 GTAATAATAATAATATAATA
*
108482875 GTAATAATAACAATATAATA
1 GTAATAATAATAATATAATA
* * * *
108482895 ATAATAGTCATAATACAATA
1 GTAATAATAATAATATAATA
*
108482915 GTAATAGTAAT
1 GTAATAATAAT
108482926 TACAAAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 7 0.17
20 35 0.83
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (20 bp):
GTAATAATAATAATATAATA
Found at i:108482987 original size:17 final size:18
Alignment explanation
Indices: 108482965--108483006 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
108482955 AGTAAAGTAA
108482965 ATAATA-ATACTATA-TAT
1 ATAATATATA-TATACTAT
108482982 ATAATATATATATACGTAT
1 ATAATATATATATAC-TAT
108483001 ATAATA
1 ATAATA
108483007 GAAATACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.45
18 3 0.14
19 9 0.41
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATATATATATACTAT
Found at i:108483037 original size:3 final size:3
Alignment explanation
Indices: 108483024--108483054 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
108483014 ACACTACTAT
*
108483024 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108483055 ATATAGAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:108483247 original size:12 final size:12
Alignment explanation
Indices: 108483207--108483248 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
108483197 AATATTAGTA
108483207 AATAGTAAAGTAAT
1 AATAGT-AA-TAAT
*
108483221 AACAGTAATAAT
1 AATAGTAATAAT
108483233 AATAGTAATAAT
1 AATAGTAATAAT
108483245 AATA
1 AATA
108483249 ATTAATAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 19 0.73
13 2 0.08
14 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:108483280 original size:15 final size:15
Alignment explanation
Indices: 108483224--108483281 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
108483214 AAGTAATAAC
108483224 AGTAAT-AA-TAA-T
1 AGTAATAAAGTAATT
*
108483236 AGTAATAATAATAATT
1 AGTAATAA-AGTAATT
* *
108483252 AATAAGTTAAGTAATT
1 AGTAA-TAAAGTAATT
108483268 AGTAATAAAGTAAT
1 AGTAATAAAGTAAT
108483282 AAGCGAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
12 6 0.17
13 1 0.03
14 1 0.03
15 11 0.31
16 15 0.42
17 2 0.06
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (15 bp):
AGTAATAAAGTAATT
Found at i:108483448 original size:23 final size:23
Alignment explanation
Indices: 108483416--108483465 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
108483406 TAGATCAACA
*
108483416 AATAATAATACATTAATAAAAAT
1 AATAAGAATACATTAATAAAAAT
* * *
108483439 AATAAGAATATATTAGTAATAAT
1 AATAAGAATACATTAATAAAAAT
108483462 AATA
1 AATA
108483466 TAATGGATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (23 bp):
AATAAGAATACATTAATAAAAAT
Found at i:108483480 original size:3 final size:3
Alignment explanation
Indices: 108483342--108483469 Score: 64
Period size: 3 Copynumber: 41.3 Consensus size: 3
108483332 TTAATTAGTT
* * *
108483342 TAA TAA TAA TAG TAA TAA TAG TAA TAA TAA TAA TAA -ATA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
* * * * *
108483387 TGA TAA TAG CAA TAA AAA GTAGA TCAA CAAA TAA TAA TACA TTAA TAA
1 TAA TAA TAA TAA TAA TAA -TA-A T-AA -TAA TAA TAA TA-A -TAA TAA
* * * *
108483435 AAA TAA TAA GAA T-A TAT TAG TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
108483470 GGATTAATAA
Statistics
Matches: 92, Mismatches: 23, Indels: 20
0.68 0.17 0.15
Matches are distributed among these distances:
2 5 0.05
3 75 0.82
4 8 0.09
5 4 0.04
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:108485327 original size:42 final size:42
Alignment explanation
Indices: 108485100--108485414 Score: 181
Period size: 44 Copynumber: 7.3 Consensus size: 42
108485090 ATCTACTCCA
*
108485100 CTACTGCTTAGGGAGATAAGATCTGTAAATTCGGTCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTG-CAATTCGGTCTGTTACC
* * * ** * * *
108485143 CTACTGCTTAGGG-GTTTAAGACCCTTCGTCTTCGATCTATTTCC
1 CTACTGCTTAGGGAG-ATAAGA-TCTGC-AATTCGGTCTGTTACC
* * * * *
108485187 CTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCT-GCAATTCGGTCTGTTACC
* * * ** * ** * *
108485230 CTATTTCTTAGGG-GTTTAAGGCCCTTCGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGAG-ATAA-GATCTGC-AATTCGGTCTGTTACC
108485273 ACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACC
* * * * ** * *
108485316 CTACCGCTTAGGG-GTTTAAGACCCTTCGTCTTCGATCTGCT-CC
1 CTACTGCTTAGGGAG-ATAAGA-TCTGC-AATTCGGTCTGTTACC
108485359 ACTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACC
*
108485402 CTACTGTTTAGGG
1 CTACTGCTTAGGG
108485415 GTTTAAGACC
Statistics
Matches: 197, Mismatches: 58, Indels: 35
0.68 0.20 0.12
Matches are distributed among these distances:
41 1 0.01
42 49 0.25
43 62 0.31
44 82 0.42
45 3 0.02
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.34
Consensus pattern (42 bp):
CTACTGCTTAGGGAGATAAGATCTGCAATTCGGTCTGTTACC
Found at i:108485508 original size:259 final size:261
Alignment explanation
Indices: 108485089--108485588 Score: 817
Period size: 259 Copynumber: 1.9 Consensus size: 261
108485079 CATTGTTTTT
108485089 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAATTCGGTCTGTTACCCTACTGCTTAG
1 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAATTCGGTCTGTTACCCTACTGCTTAG
108485154 GGGTTTAAGACCCTTCGTCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTC
66 GGGTTTAAGACCCTTCGTCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTC
* * *
108485219 AGCCTGTTACCCTATTTCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTG-CTCCACTACTGCTT
131 AGCCTGTTACCCTATTGCTTAGAGGTTTAAGGCCCTTCGTCTTCGATCTGTCTCC-CTACTACTT
* * *
108485283 AGGGAGATAAGATCT-GCAATTCGGTCTGTTACCCTACCGCTTAGGGGTTTAAGACCCTTCGTCT
195 AGGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACCGCTTAGGGGTTTAAGACCCTTCGTCT
108485347 TC
260 TC
* * *
108485349 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-CAATTCGGTCTGTTACCCTACTGTTTAG
1 GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAATTCGGTCTGTTACCCTACTGCTTAG
*
108485413 GGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTC
66 GGGTTTAAGACCCTTCGTCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTC
* * *
108485478 AGCTTGTTACCTTATTGCTTAGAGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTACTTA
131 AGCCTGTTACCCTATTGCTTAGAGGTTTAAGGCCCTTCGTCTTCGATCTGTCTCCCTACTACTTA
* * * *
108485543 GGGGGTTAAGATTTGGAAATTCAGCCTGTTACCCTACTGCTTAGGG
196 GGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACCGCTTAGGG
108485589 AGATAAGGCT
Statistics
Matches: 221, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
259 156 0.71
260 65 0.29
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (261 bp):
GATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAATTCGGTCTGTTACCCTACTGCTTAG
GGGTTTAAGACCCTTCGTCTTCGATCTATTTCCCTACTGCTTAGGGGGTTAAGATCTGGAAATTC
AGCCTGTTACCCTATTGCTTAGAGGTTTAAGGCCCTTCGTCTTCGATCTGTCTCCCTACTACTTA
GGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACCGCTTAGGGGTTTAAGACCCTTCGTCTT
C
Found at i:108485597 original size:87 final size:87
Alignment explanation
Indices: 108485100--108485588 Score: 662
Period size: 87 Copynumber: 5.6 Consensus size: 87
108485090 ATCTACTCCA
* * *
108485100 CTACTGCTTAGGGAGATAAGATCTGTAAATTCGGTCTGTTACCCTACTGCTTAGGGGTTTAAGAC
1 CTACTGCTTAGGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGAC
*
108485165 CCTTCGTCTTCGATCTATTTCC
66 CCTTCGTCTTCGATCTGTTTCC
* * * * *
108485187 CTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCCTGTTACCCTATTTCTTAGGGGTTTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGAC
*
108485252 CCTTCGTCTTCGATCTG-CTCC
66 CCTTCGTCTTCGATCTGTTTCC
* * * *
108485273 ACTACTGCTTAGGGAGATAAGATCT-GCAATTCGGTCTGTTACCCTACCGCTTAGGGGTTTAAGA
1 -CTACTGCTTAGGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGA
*
108485337 CCCTTCGTCTTCGATCTG-CTCC
65 CCCTTCGTCTTCGATCTGTTTCC
* * * *
108485359 ACTACTGCTTAGGGAGATAAGATCT-GCAATTCGGTCTGTTACCCTACTGTTTAGGGGTTTAAGA
1 -CTACTGCTTAGGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGA
108485423 CCCTTCGTCTTCGATCTGTTTCC
65 CCCTTCGTCTTCGATCTGTTTCC
* * * * * * *
108485446 CTACTGCTTAGGGGGTTAAGATCTGGAAATTCAGCTTGTTACCTTATTGCTTAGAGGTTTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGAC
108485511 CCTTCGTCTTCGATCTGTTTCC
66 CCTTCGTCTTCGATCTGTTTCC
* * * *
108485533 CTACTACTTAGGGGGTTAAGATTTGGAAATTCAGCCTGTTACCCTACTGCTTAGGG
1 CTACTGCTTAGGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGG
108485589 AGATAAGGCT
Statistics
Matches: 360, Mismatches: 39, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
86 159 0.44
87 201 0.56
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (87 bp):
CTACTGCTTAGGGAGATAAGATCTGGAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGAC
CCTTCGTCTTCGATCTGTTTCC
Found at i:108485607 original size:43 final size:43
Alignment explanation
Indices: 108485525--108485608 Score: 98
Period size: 43 Copynumber: 2.0 Consensus size: 43
108485515 CGTCTTCGAT
* * * *
108485525 CTGTTTCCCTACTACTTAGGGGGTTAAGATTTGGAAATTCAGC
1 CTGTTACCCTACTACTTAGGGAGATAAGACTTGGAAATTCAGC
* *
108485568 CTGTTACCCTACTGCTTAGGGAGATAAGGCTTGTG-AATTCA
1 CTGTTACCCTACTACTTAGGGAGATAAGACTTG-GAAATTCA
108485609 CCGATTCCAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 33 0.97
44 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
CTGTTACCCTACTACTTAGGGAGATAAGACTTGGAAATTCAGC
Found at i:108490389 original size:26 final size:26
Alignment explanation
Indices: 108490343--108490395 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
108490333 TCAAACATGC
*
108490343 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
108490369 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
108490395 A
1 A
108490396 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:108491912 original size:26 final size:26
Alignment explanation
Indices: 108491881--108491988 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
108491871 TGAAATGCCC
*
108491881 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
108491907 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
108491933 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
108491959 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
108491985 ATCA
1 ATCA
108491989 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:108496185 original size:26 final size:26
Alignment explanation
Indices: 108496134--108496186 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
108496124 TCAAACATGC
*
108496134 ATTTAGGTCAATTTAACTCTAGGGGT
1 ATTTAGGTCAATTTAACTCTAAGGGT
* *
108496160 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAACT-CTAAGGGT
108496186 A
1 A
108496187 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCTAAGGGT
Found at i:108497696 original size:26 final size:26
Alignment explanation
Indices: 108497665--108497823 Score: 248
Period size: 26 Copynumber: 6.2 Consensus size: 26
108497655 CATGAAATCC
108497665 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
108497691 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
108497717 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
108497743 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
108497769 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
108497795 GTCATGGAACATTTACCT-AACCATT
1 ATCATGGAACATTTACCTAAACCATT
108497820 ATCA
1 ATCA
108497824 ATTTGTACCA
Statistics
Matches: 122, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 9 0.07
26 113 0.93
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:108497731 original size:52 final size:52
Alignment explanation
Indices: 108497665--108497823 Score: 284
Period size: 52 Copynumber: 3.1 Consensus size: 52
108497655 CATGAAATCC
* *
108497665 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
108497717 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
*
108497769 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAA-CCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
108497820 ATCA
1 ATCA
108497824 ATTTGTACCA
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 9 0.09
52 95 0.91
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:108511203 original size:26 final size:26
Alignment explanation
Indices: 108511152--108511204 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
108511142 TCAAACATGC
*
108511152 ATTTAGGTCAATTTAACTCTAGGGGT
1 ATTTAGGTCAATTTAACTCTAAGGGT
* *
108511178 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAACT-CTAAGGGT
108511204 A
1 A
108511205 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACTCTAAGGGT
Found at i:108512720 original size:26 final size:26
Alignment explanation
Indices: 108512689--108512848 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
108512679 TGAAATGCCC
*
108512689 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
108512715 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
108512741 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
108512767 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
108512793 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
108512819 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
108512845 ATCA
1 ATCA
108512849 ATTTGTACCA
Statistics
Matches: 123, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 123 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:108512766 original size:52 final size:52
Alignment explanation
Indices: 108512689--108512848 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
108512679 TGAAATGCCC
* *
108512689 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
108512741 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
*
108512793 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
108512845 ATCA
1 ATCA
108512849 ATTTGTACCA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 105 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
Found at i:108520502 original size:3 final size:3
Alignment explanation
Indices: 108520477--108520676 Score: 58
Period size: 3 Copynumber: 66.0 Consensus size: 3
108520467 TAGGTAAAGG
* * *
108520477 TAA TAA -AA TAA T-A TAA TAG TAA TAA TAA CAA T-A TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * * *
108520522 TCA TAA T-A CAA TAG TAA TAG TAA TTA CAA AAA TAA TGA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
108520569 T-A TCAA -AG TAA -AG TAAA TAA TAA TAC T-A TATA TAA TATA TATA
1 TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TA-A TA-A
* * * * *
108520612 TATA TACG TATA TAA TAGA -AA TACA CAC TAC TATA TAA TAG TAA TAA
1 TA-A TA-A TA-A TAA TA-A TAA TA-A TAA TAA TA-A TAA TAA TAA TAA
108520659 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
108520677 ATATAGAAAT
Statistics
Matches: 144, Mismatches: 37, Indels: 32
0.68 0.17 0.15
Matches are distributed among these distances:
2 13 0.09
3 105 0.73
4 26 0.18
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:108520502 original size:14 final size:14
Alignment explanation
Indices: 108520483--108520540 Score: 68
Period size: 14 Copynumber: 4.3 Consensus size: 14
108520473 AAGGTAATAA
*
108520483 AATAATATAATAGT
1 AATAATACAATAGT
108520497 AATAATAACAATA-T
1 AATAAT-ACAATAGT
108520511 AATAAT--AATAGT
1 AATAATACAATAGT
*
108520523 CATAATACAATAGT
1 AATAATACAATAGT
108520537 AATA
1 AATA
108520541 GTAATTACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 4 0.11
12 6 0.16
14 22 0.59
15 5 0.14
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (14 bp):
AATAATACAATAGT
Found at i:108520511 original size:20 final size:20
Alignment explanation
Indices: 108520476--108520545 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
108520466 ATAGGTAAAG
108520476 GTAATAA-AATAATATAATA
1 GTAATAATAATAATATAATA
*
108520495 GTAATAATAACAATATAATA
1 GTAATAATAATAATATAATA
* * * *
108520515 ATAATAGTCATAATACAATA
1 GTAATAATAATAATATAATA
*
108520535 GTAATAGTAAT
1 GTAATAATAAT
108520546 TACAAAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 7 0.17
20 35 0.83
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (20 bp):
GTAATAATAATAATATAATA
Found at i:108520869 original size:12 final size:12
Alignment explanation
Indices: 108520829--108520869 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
108520819 AATATTAGTA
108520829 AATAGTAAAGTAAT
1 AATAGT-AA-TAAT
*
108520843 AACAGTAATAAT
1 AATAGTAATAAT
108520855 AATAGTAATAAT
1 AATAGTAATAAT
108520867 AAT
1 AAT
108520870 TAATAAGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 18 0.72
13 2 0.08
14 5 0.20
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:108520969 original size:3 final size:3
Alignment explanation
Indices: 108520961--108521165 Score: 57
Period size: 3 Copynumber: 67.0 Consensus size: 3
108520951 TTAATTAGTT
* * * *
108520961 TAA TAA TAA TAG TAA TAA TAG TAA TAA TAA TAA -ATA TAG TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * *
108521006 TAA TAG CAA TAA AAA GTAGA GCAA CAAA TAA TAA TACA TTAA TAA AAA
1 TAA TAA TAA TAA TAA -TA-A -TAA -TAA TAA TAA TA-A -TAA TAA TAA
* * * * *
108521054 TAA TAA GAA T-A TAT TAG TAA TAA TAA T-A TAA TGGAC TAA TAA TGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--AA TAA TAA TAA
* * * * *
108521099 -AA TGAA TAAA TAGA TAA -AA T-A TAG T-G TAA TTA TAA TAA TAT TAT
1 TAA T-AA T-AA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
108521143 TAA CAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
108521166 CCAAAGCAAT
Statistics
Matches: 148, Mismatches: 37, Indels: 34
0.68 0.17 0.16
Matches are distributed among these distances:
2 14 0.09
3 111 0.75
4 16 0.11
5 7 0.05
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:108520987 original size:18 final size:18
Alignment explanation
Indices: 108520961--108521010 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 18
108520951 TTAATTAGTT
108520961 TAATAATAATAGTAATAATAG
1 TAATAATAATA--AAT-ATAG
108520982 TAATAATAATAAATATAG
1 TAATAATAATAAATATAG
*
108521000 TAATGATAATA
1 TAATAATAATA
108521011 GCAATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.50
19 3 0.11
21 11 0.39
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (18 bp):
TAATAATAATAAATATAG
Found at i:108521064 original size:23 final size:23
Alignment explanation
Indices: 108521032--108521081 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
108521022 TAGAGCAACA
*
108521032 AATAATAATACATTAATAAAAAT
1 AATAAGAATACATTAATAAAAAT
* * *
108521055 AATAAGAATATATTAGTAATAAT
1 AATAAGAATACATTAATAAAAAT
108521078 AATA
1 AATA
108521082 TAATGGACTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (23 bp):
AATAAGAATACATTAATAAAAAT
Found at i:108525198 original size:3 final size:3
Alignment explanation
Indices: 108525179--108525717 Score: 133
Period size: 3 Copynumber: 182.3 Consensus size: 3
108525169 TTAGTTAATT
* * * * * *
108525179 TTA TTA TTT TTA CTA TTA TTG TTA TTA TAA ATA -TA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
108525226 TTG TTA TTA TTA TTTA CATG TTA TTA TTTC TTT TTC TT- TTA TTA TGGTA
1 TTA TTA TTA TTA -TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA T--TA
* ** * * * *
108525275 TTA TTA TTA TTG CCA TCA TTA CTA TTT TTA TT- TT- TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
108525321 TTA TCA -TC TTA TT- TTA TTG TCA TT- TT- TGTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * *
108525363 TTT TTA -TA TT- TT- TTA TT- TTT TTA CTA CTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * **
108525407 TTG TTA TCTA TTA TCA ATA TAA TTA TTA CTA TTA TT- TT- TTA CAA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
108525451 TTA TTA TT- TCA CATA CTA TTA TTA CTA TTT TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * *
108525496 TT- TT- TTA CCA -TA TTA TTA TT- TCCTA TTT TTA TATG TTA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA T-TA TTA TTA TTA
** *
108525540 TTA TTA ACA TATA TTA TTA TTA TTA CTGTA CTA TTA TT- TCCTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA -T-TA TTA TTA TTA T--TA TTA
* * * * ** * *
108525586 TTA TTA TTA TTA TTA CTA ATA TCA CTA TTA CCA TT- TT- TTA TTA CTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
108525632 TTA TTT TTT TTA CTA TCTA ATA -TA TTA TTA -TA CCTT- TT- TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA TTA
* * *
108525676 TTA TTA CTA TT- GTA TTA TTA CTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
108525718 ATTTTCTTTT
Statistics
Matches: 383, Mismatches: 115, Indels: 76
0.67 0.20 0.13
Matches are distributed among these distances:
2 46 0.12
3 310 0.81
4 19 0.05
5 8 0.02
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:108525919 original size:14 final size:15
Alignment explanation
Indices: 108525889--108525921 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
108525879 TTATTATTTG
108525889 TATTATTGTTGTTAC
1 TATTATTGTTGTTAC
*
108525904 TATTATT-TTTTTAC
1 TATTATTGTTGTTAC
108525918 TATT
1 TATT
108525922 TGACATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.21, C:0.06, G:0.06, T:0.67
Consensus pattern (15 bp):
TATTATTGTTGTTAC
Found at i:108530942 original size:17 final size:17
Alignment explanation
Indices: 108530904--108530942 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
108530894 TAAGTAGTCA
108530904 TAATTTGTCAAATATTT
1 TAATTTGTCAAATATTT
* * *
108530921 AAATTTGTTAAATTTTT
1 TAATTTGTCAAATATTT
108530938 TAATT
1 TAATT
108530943 ATATTTTAGG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (17 bp):
TAATTTGTCAAATATTT
Found at i:108535620 original size:21 final size:22
Alignment explanation
Indices: 108535594--108535652 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
108535584 TTGTGCCACA
108535594 TTATTAAAAATTAAAA-ATATT
1 TTATTAAAAATTAAAATATATT
*
108535615 TTATTAAAATAGTAAAATATATT
1 TTATTAAAA-ATTAAAATATATT
* *
108535638 TAATATATAAATTAA
1 TTAT-TAAAAATTAA
108535653 TTTATGAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 9 0.29
22 6 0.19
23 12 0.39
24 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTATTAAAAATTAAAATATATT
Found at i:108535639 original size:22 final size:21
Alignment explanation
Indices: 108535594--108535638 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
108535584 TTGTGCCACA
*
108535594 TTATTAAAAATTAAAAATATT
1 TTATTAAAAAGTAAAAATATT
108535615 TTATTAAAATAGTAAAATATATT
1 TTATTAAAA-AGTAAAA-ATATT
108535638 T
1 T
108535639 AATATATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 6 0.29
23 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
TTATTAAAAAGTAAAAATATT
Found at i:108535913 original size:19 final size:19
Alignment explanation
Indices: 108535872--108535913 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
108535862 AAAAAAACCT
*
108535872 TAAAATTTTGAAAGAAATT
1 TAAAATTTTGAAAGAAATA
*
108535891 TAAAATTTGTTAAA-AAATA
1 TAAAATTT-TGAAAGAAATA
108535910 TAAA
1 TAAA
108535914 TATATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
TAAAATTTTGAAAGAAATA
Found at i:108536039 original size:29 final size:28
Alignment explanation
Indices: 108535990--108536049 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
108535980 TTAAAAATTC
* *
108535990 AAAAAATTCCAAAAAATTAAATATGTTT
1 AAAAAATTCCAAAAAAATAAATATGGTT
*
108536018 AAAAAA-TCCAGAAATAAATAAATTTGGTT
1 AAAAAATTCCA-AAA-AAATAAATATGGTT
108536047 AAA
1 AAA
108536050 TTTTTAGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 4 0.15
28 9 0.33
29 14 0.52
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (28 bp):
AAAAAATTCCAAAAAAATAAATATGGTT
Found at i:108543378 original size:72 final size:72
Alignment explanation
Indices: 108543206--108543370 Score: 251
Period size: 72 Copynumber: 2.3 Consensus size: 72
108543196 GAGGAAAAGT
* * **
108543206 ACCGTTTAATTGATTTTCTGAAACATCAAAATATTTCAAAGATGATAACTCCCCTATCGATGATG
1 ACCGTTTAATTGATTTTCTGAAACATCAAAATACTTCAAAGATGATAACTCCCCTATAGACAATG
108543271 GAATTTG
66 GAATTTG
* * *
108543278 ACCATTTAATTGATTTTCTAAAACATCAAACA-ACTTCAAAGATGATAACTTCCCTATAGACAAT
1 ACCGTTTAATTGATTTTCTGAAACATCAAA-ATACTTCAAAGATGATAACTCCCCTATAGACAAT
108543342 GGAATTTG
65 GGAATTTG
108543350 ACCGTTTAATTGATTTTCTGA
1 ACCGTTTAATTGATTTTCTGA
108543371 GAGATCAAGG
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
72 82 0.99
73 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (72 bp):
ACCGTTTAATTGATTTTCTGAAACATCAAAATACTTCAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:108552553 original size:22 final size:21
Alignment explanation
Indices: 108552525--108552571 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
108552515 TCAATAATTA
108552525 TTTTAAGACTGCATTACTCAC
1 TTTTAAGACTGCATTACTCAC
* *
108552546 GTTTTAAGAGTGCATTATTCAC
1 -TTTTAAGACTGCATTACTCAC
108552568 TTTT
1 TTTT
108552572 GGGCCGAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.45
Consensus pattern (21 bp):
TTTTAAGACTGCATTACTCAC
Found at i:108554154 original size:18 final size:18
Alignment explanation
Indices: 108554131--108554168 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
108554121 ACAAGAAAAC
*
108554131 AAAGAGGGAAAAAACAAA
1 AAAGAGGCAAAAAACAAA
*
108554149 AAAGAGGCAGAAAACAAA
1 AAAGAGGCAAAAAACAAA
108554167 AA
1 AA
108554169 CAAAAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.71, C:0.08, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGAGGCAAAAAACAAA
Found at i:108555383 original size:13 final size:12
Alignment explanation
Indices: 108555361--108555395 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
108555351 TAAGTAATCA
108555361 AAAAGCAAAAAG
1 AAAAGCAAAAAG
108555373 AAAAGCAAAAAG
1 AAAAGCAAAAAG
* *
108555385 AGAAGTAAAAA
1 AAAAGCAAAAA
108555396 AGGTTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAGCAAAAAG
Found at i:108556487 original size:12 final size:12
Alignment explanation
Indices: 108556470--108556504 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
108556460 TAAGTAATCA
108556470 AAAAGCAAAAAG
1 AAAAGCAAAAAG
108556482 AAAAGCAAAAAG
1 AAAAGCAAAAAG
* *
108556494 AGAAGTAAAAA
1 AAAAGCAAAAA
108556505 AAATTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAGCAAAAAG
Found at i:108557466 original size:18 final size:16
Alignment explanation
Indices: 108557425--108557470 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
108557415 TCAAGATACA
*
108557425 AGAAAACAAAGAAGGG
1 AGAAAACAAAAAAGGG
*
108557441 AAAAAACAAAAAAGAGG
1 AGAAAACAAAAAAG-GG
108557458 CAGAAAACAAAAA
1 -AGAAAACAAAAA
108557471 CAAAAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.48
17 2 0.08
18 11 0.44
ACGTcount: A:0.72, C:0.09, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAACAAAAAAGGG
Found at i:108557604 original size:13 final size:12
Alignment explanation
Indices: 108557582--108557616 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
108557572 TAAGTAATCA
108557582 AAAAGCAAAAAG
1 AAAAGCAAAAAG
108557594 AAAAGCAAAAAG
1 AAAAGCAAAAAG
* *
108557606 AGAAGTAAAAA
1 AAAAGCAAAAA
108557617 AGGTTGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAGCAAAAAG
Found at i:108558553 original size:25 final size:24
Alignment explanation
Indices: 108558501--108558554 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
108558491 GTTATATATT
* * * *
108558501 TATTTTTAATTATTTTATATTGTT
1 TATTTTTAATTATTGTACATTATA
108558525 TATTTTTAAGTTATTGTACATTATA
1 TATTTTTAA-TTATTGTACATTATA
108558550 TATTT
1 TATTT
108558555 CAAACAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
TATTTTTAATTATTGTACATTATA
Found at i:108558664 original size:29 final size:32
Alignment explanation
Indices: 108558598--108558664 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 32
108558588 TTATTATAAA
*
108558598 ATATATTTATATTGTCTTTTTTTAATTCTTTT
1 ATATATTTATATTGTCTTTTTTTAATACTTTT
*
108558630 ACATATTT-TA-TGT-TTTTTTTAA-ACTTGTT
1 ATATATTTATATTGTCTTTTTTTAATACTT-TT
108558659 ATATAT
1 ATATAT
108558665 CATTTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 16 0.52
30 3 0.10
31 2 0.06
32 7 0.23
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.64
Consensus pattern (32 bp):
ATATATTTATATTGTCTTTTTTTAATACTTTT
Found at i:108558712 original size:25 final size:25
Alignment explanation
Indices: 108558679--108558726 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
108558669 TTAAATTAAC
108558679 TATTATATATTA-CTTATTTTAAAAT
1 TATTATATA-TACCTTATTTTAAAAT
*
108558704 TATTTTATATACCTTATTTTAAA
1 TATTATATATACCTTATTTTAAA
108558727 CCCATTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATATACCTTATTTTAAAAT
Found at i:108570891 original size:24 final size:24
Alignment explanation
Indices: 108570864--108570911 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
108570854 AAAGAAAGAA
* *
108570864 CAAAGATTTTATGCTAATAAATAC
1 CAAAGATATTATACTAATAAATAC
* *
108570888 CAAATATATTGTACTAATAAATAC
1 CAAAGATATTATACTAATAAATAC
108570912 TAAATCTCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (24 bp):
CAAAGATATTATACTAATAAATAC
Found at i:108579419 original size:29 final size:29
Alignment explanation
Indices: 108579374--108579437 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 29
108579364 TAAATAAAGG
108579374 AATATT-ATAATAATAATGACATAATTATAAT
1 AATATTAATAATAATAAT--CAT-ATTATAAT
* *
108579405 AATATTAATATTAATAATCATATTATAGT
1 AATATTAATAATAATAATCATATTATAAT
108579434 AATA
1 AATA
108579438 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 11 0.37
30 3 0.10
31 6 0.20
32 10 0.33
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (29 bp):
AATATTAATAATAATAATCATATTATAAT
Found at i:108579656 original size:15 final size:15
Alignment explanation
Indices: 108579636--108579667 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
108579626 AAGGATGTAT
108579636 AAAAATAAAGAGATA
1 AAAAATAAAGAGATA
*
108579651 AAAAATAAATAGATA
1 AAAAATAAAGAGATA
108579666 AA
1 AA
108579668 TGGATAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (15 bp):
AAAAATAAAGAGATA
Found at i:108579782 original size:4 final size:4
Alignment explanation
Indices: 108579773--108579933 Score: 60
Period size: 4 Copynumber: 39.5 Consensus size: 4
108579763 ATGAAGGAAT
* ** * * *
108579773 AATA AATA AATG AATA CAAGG ATTA AAATA AA-A AATA AATA AATA AGTG
1 AATA AATA AATA AATA -AATA AATA AA-TA AATA AATA AATA AATA AATA
* * * * * * *
108579822 AAT- AATA TATA AATA GATA AGTA TATG AGTA AATA AATG AATA ACATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A-ATA
* * * * *
108579870 AA-A GGAAT- AATG AATA AATA AATA AGTG AATA AGTA AATA AATG AATAA
1 AATA --AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A
*
108579919 AATA ATTAA AATA AA
1 AATA AAT-A AATA AA
108579934 AAGGACTTAA
Statistics
Matches: 110, Mismatches: 36, Indels: 22
0.65 0.21 0.13
Matches are distributed among these distances:
3 10 0.09
4 82 0.75
5 18 0.16
ACGTcount: A:0.63, C:0.01, G:0.11, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:108579887 original size:53 final size:53
Alignment explanation
Indices: 108579821--108579923 Score: 147
Period size: 53 Copynumber: 1.9 Consensus size: 53
108579811 ATAAATAAGT
* * *
108579821 GAATAATATATAAATAGATAAGT-ATATGAGTAAATAAATGAATAACATAAAAG
1 GAATAATATATAAATAAATAAGTGA-ATAAGTAAATAAATGAATAAAATAAAAG
108579874 GAATAATGA-ATAAATAAATAAGTGAATAAGTAAATAAATGAATAAAATAA
1 GAATAAT-ATATAAATAAATAAGTGAATAAGTAAATAAATGAATAAAATAA
108579924 TTAAAATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
53 43 0.96
54 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.13, T:0.25
Consensus pattern (53 bp):
GAATAATATATAAATAAATAAGTGAATAAGTAAATAAATGAATAAAATAAAAG
Found at i:108579899 original size:16 final size:15
Alignment explanation
Indices: 108579806--108579919 Score: 67
Period size: 16 Copynumber: 7.4 Consensus size: 15
108579796 TAAAATAAAA
108579806 AATAAATAAATAAGTG
1 AATAAATAAATAA-TG
*
108579822 AAT-AAT--AT-ATA
1 AATAAATAAATAATG
* *
108579833 AATAGATAAGTATATG
1 AATAAATAAATA-ATG
* *
108579849 AGTAAATAAATGAATA
1 AATAAATAAAT-AATG
108579865 ACATAAA-AGGAATAATG
1 A-ATAAATA--AATAATG
108579882 AATAAATAAATAAGTG
1 AATAAATAAATAA-TG
*
108579898 AATAAGTAAATAAATG
1 AATAAATAAAT-AATG
108579914 AATAAA
1 AATAAA
108579920 ATAATTAAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 24
0.67 0.11 0.22
Matches are distributed among these distances:
11 4 0.05
12 3 0.04
13 2 0.03
14 1 0.01
15 8 0.11
16 41 0.55
17 12 0.16
18 3 0.04
ACGTcount: A:0.61, C:0.01, G:0.12, T:0.25
Consensus pattern (15 bp):
AATAAATAAATAATG
Found at i:108580693 original size:16 final size:16
Alignment explanation
Indices: 108580672--108580723 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
108580662 TTTGGTTCGC
108580672 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
108580688 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
108580704 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
108580720 TGTA
1 TGTA
108580724 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:108580770 original size:45 final size:44
Alignment explanation
Indices: 108580704--108580798 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
108580694 GGATTAGAGG
* * *
108580704 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
108580749 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
108580793 TGTAAT
1 TGTAAT
108580799 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:108580981 original size:18 final size:17
Alignment explanation
Indices: 108580960--108580994 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108580950 TTATTATTTA
*
108580960 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
108580978 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
108580995 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:108580988 original size:28 final size:27
Alignment explanation
Indices: 108580918--108580990 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
108580908 TTTATTATCA
*
108580918 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
108580946 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
108580973 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
108580991 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:108581128 original size:18 final size:17
Alignment explanation
Indices: 108581107--108581141 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108581097 TTATTATTAA
*
108581107 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
108581125 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
108581142 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:108581153 original size:147 final size:149
Alignment explanation
Indices: 108580879--108581153 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
108580869 ATGATTATTG
*
108580879 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
108580944 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
108581009 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
*
108581028 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
108581091 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
108581154 ATATTCTTAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 95 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:108581187 original size:61 final size:61
Alignment explanation
Indices: 108581122--108581309 Score: 185
Period size: 61 Copynumber: 3.1 Consensus size: 61
108581112 TTTTAATTAA
108581122 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * ** * * *
108581183 AATATATGATACTGTAA-AATATAAATTAA-AA-TAATAATTATTAAAT--ATATTA-T--AATT
1 AATATAT-A-A-TTTAATAAAAT-TCTTAATAATTAAT-ATTCTTATATGAAT-TTACTCAAATC
*
108581240 AA
60 AT
*
108581242 AATATATAATTTAATAAAATTCTTAATAATTAATAGTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
108581303 AATATAT
1 AATATAT
108581310 GATACTATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 8 0.08
57 14 0.15
58 8 0.08
59 14 0.15
61 21 0.22
62 8 0.08
63 15 0.16
64 8 0.08
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:108581229 original size:120 final size:120
Alignment explanation
Indices: 108581085--108581382 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
108581075 ATTTAATCAT
*
108581085 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
108581150 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
65 ATTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
*
108581207 A-TTAAAATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
108581271 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * *
108581326 ATTTGAAATAATTAA-TATTAAGTATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
108581383 TAAAATAATT
Statistics
Matches: 165, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 3 0.02
120 153 0.93
121 8 0.05
122 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATAGTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:108581246 original size:16 final size:16
Alignment explanation
Indices: 108581206--108581251 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
108581196 GTAAAATATA
108581206 AATTAAAATA-ATAAT
1 AATTAAAATATATAAT
* *
108581221 TATT-AAATATATTAT
1 AATTAAAATATATAAT
108581236 AATTAAAATATATAAT
1 AATTAAAATATATAAT
108581252 TTAATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 10 0.40
16 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAAAATATATAAT
Found at i:108582119 original size:16 final size:16
Alignment explanation
Indices: 108582098--108582134 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
108582088 GTAAGAAATC
108582098 ACAGCCATGTACTCCT
1 ACAGCCATGTACTCCT
108582114 ACAGCCATGTACTCCT
1 ACAGCCATGTACTCCT
*
108582130 GCAGC
1 ACAGC
108582135 TCCTGAGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.22
Consensus pattern (16 bp):
ACAGCCATGTACTCCT
Found at i:108586429 original size:3 final size:3
Alignment explanation
Indices: 108586421--108586463 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
108586411 TAATGTGAAC
*
108586421 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
108586464 CGAAAGCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:108586511 original size:18 final size:18
Alignment explanation
Indices: 108586490--108586530 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
108586480 AAAAGGTATG
108586490 AATAAATAAATAATTAAT
1 AATAAATAAATAATTAAT
108586508 AAT--A-AAATAATTAAT
1 AATAAATAAATAATTAAT
108586523 AA-AAATAA
1 AATAAATAA
108586531 TGATGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
15 13 0.65
16 2 0.10
17 2 0.10
18 3 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAAATAAATAATTAAT
Found at i:108587103 original size:32 final size:32
Alignment explanation
Indices: 108587034--108587116 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 32
108587024 AAAAGAAAAT
* * *
108587034 ATAATAATACTGATAACAATAGTAATACAATA
1 ATAATAATAATGATAACAAAAGTAAAACAATA
* *
108587066 GTAATAATAATGATAACAAAAGTAGAAATAA-A
1 ATAATAATAATGATAACAAAAGTA-AAACAATA
*
108587098 ATAATAATAAATAATAACA
1 ATAATAAT-AATGATAACA
108587117 TCAATAGTGA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 29 0.69
33 13 0.31
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.25
Consensus pattern (32 bp):
ATAATAATAATGATAACAAAAGTAAAACAATA
Found at i:108588967 original size:76 final size:76
Alignment explanation
Indices: 108588841--108588992 Score: 295
Period size: 76 Copynumber: 2.0 Consensus size: 76
108588831 TTGTCTTAGT
*
108588841 GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATGAAGCAAGATATAATAGTTATC
1 GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATAAAGCAAGATATAATAGTTATC
108588906 ATTAGATAAAA
66 ATTAGATAAAA
108588917 GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATAAAGCAAGATATAATAGTTATC
1 GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATAAAGCAAGATATAATAGTTATC
108588982 ATTAGATAAAA
66 ATTAGATAAAA
108588993 TAAGATCGAA
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (76 bp):
GATAAATGGCTTAATTACCATTTGTTAGTAATTGTCTTTTCATAAAGCAAGATATAATAGTTATC
ATTAGATAAAA
Found at i:108606085 original size:132 final size:133
Alignment explanation
Indices: 108605841--108606462 Score: 875
Period size: 132 Copynumber: 4.7 Consensus size: 133
108605831 TGAAGTCATT
* * * *
108605841 AAAGCAGATCTTCTCTTCATGTATTGGCATGAAGTAGATCGAGGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* *
108605906 TATTGGTAGAAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
66 TATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
108605970 AAG
131 AAG
* * * * * *
108605973 AAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTGGATCAAAGAT-GCAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* *** ***
108606037 TATTGGTGGCGAAGTGGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGG-CATGAAGTAGATC
66 TATTGGTAG-GAAGTGGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
108606100 GAAG
130 GAAG
* *
108606104 -ATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* *
108606168 TATTGGTAGGAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATCGGTGGCGAAGTAGATCG
66 TATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
108606232 CAG
131 AAG
*
108606235 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
* * * * *
108606300 TATTGATAGGAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG
66 TATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
108606364 AAG
131 AAG
**
108606367 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGCCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
*
108606432 TATTGGTAGGAAGTGGATTGAA-AAA-CAGATC
66 TATTGGTAGGAAGTGGATCGAAGAAAGCAGATC
108606463 CTATCTCCCT
Statistics
Matches: 428, Mismatches: 55, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
129 13 0.03
130 61 0.14
131 80 0.19
132 261 0.61
133 13 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (133 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
AAG
Found at i:108606315 original size:262 final size:264
Alignment explanation
Indices: 108605841--108606449 Score: 913
Period size: 262 Copynumber: 2.3 Consensus size: 264
108605831 TGAAGTCATT
* * *
108605841 AAAGCAGATCTTCTCTTCATGTATTGGCATGAAGTAGATCG-AGGATAGCAGGTCCTATCTTCCT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGG-TAGCAGATCCTATCTTCCT
* *
108605905 ATATTGGTAGAAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
65 ATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATCGGTGGCGAAGTAGATCG
* * *
108605970 AAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTGGATCAAAGATGCAGATCTTGTCTTCC
130 AAGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATGCAGATCCTATCTTCC
* * * ** *
108606035 CATATTGGTGGCGAAGTGGATCGAAGAAAGCAGATCTTGTC-TCATGTATTGG-CATGAAGTAGA
195 CATATTGATAGCGAAGTGGATCCAAGAAA-CAGATCTTGTCTTCACATACTGGTCATGAAGTAGA
108606098 TCGAAG
259 TCGAAG
*
108606104 -ATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
*
108606168 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATCGGTGGCGAAGTAGATCGC
66 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATCGGTGGCGAAGTAGATCGA
* * *
108606233 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCC
131 AGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT-GCAGATCCTATCTTCC
* * * **
108606298 TATATTGATAG-GAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGAT
195 CATATTGATAGCGAAGTGGATCCAAGAAACAGATCTTGTCTTCACATACTGGTCATGAAGTAGAT
108606362 CGAAG
260 CGAAG
* **
108606367 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGCCTTCCTA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
108606432 TATTGGTAGGAAGTGGAT
66 TATTGGTAGGAAGTGGAT
108606450 TGAAAAACAG
Statistics
Matches: 313, Mismatches: 28, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
261 11 0.04
262 185 0.59
263 39 0.12
264 78 0.25
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (264 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTA
TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATCGGTGGCGAAGTAGATCGA
AGAAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATGCAGATCCTATCTTCCC
ATATTGATAGCGAAGTGGATCCAAGAAACAGATCTTGTCTTCACATACTGGTCATGAAGTAGATC
GAAG
Found at i:108606445 original size:44 final size:45
Alignment explanation
Indices: 108605843--108606445 Score: 563
Period size: 44 Copynumber: 13.8 Consensus size: 45
108605833 AAGTCATTAA
* * * * *
108605843 AGCAGATCTTCTCTTCATGTATTGGCA-TGAAGTAGATCGAGGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * *
108605887 AGCAGGTCCTATCTTCCTATATTGGTAG-AAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * *
108605931 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * *
108605975 AGCAAATCTTGTCTTCATGTATTGG-CGTGAAGTGGATCAAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * *
108606019 -GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTGGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
108606063 AGCAGATCTTGTC-TCATGTATTGGCA-TGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * *
108606106 -GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGGT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
108606149 AGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * *
108606193 -GCAGATCTTGTCTTCCCATATCGGTGGCGAAGTAGATCGCAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
108606237 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * * * *
108606281 AGCAGGTCCTATCTTCCTATATTGATAG-GAAGTGGATCCAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * * *
108606325 A-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* * *
108606369 AGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
* *
108606413 AGCAGATCCTGCCTTCCTATATTGGTAG-GAAGT
1 AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
108606446 GGATTGAAAA
Statistics
Matches: 447, Mismatches: 97, Indels: 30
0.78 0.17 0.05
Matches are distributed among these distances:
42 12 0.03
43 124 0.28
44 237 0.53
45 74 0.17
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
AGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT
Found at i:108608045 original size:22 final size:22
Alignment explanation
Indices: 108608020--108608076 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 22
108608010 TTAACACTAT
108608020 TTTTGTATATTTTTAA-ACTGTC
1 TTTT-TATATTTTTAAGACTGTC
*
108608042 TTTTT-TATTATTTAAGACTTTC
1 TTTTTATATT-TTTAAGACTGTC
108608064 TTTTATATATTTT
1 TTTT-TATATTTT
108608077 ATTTTAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 13 0.43
23 3 0.10
24 4 0.13
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (22 bp):
TTTTTATATTTTTAAGACTGTC
Found at i:108608074 original size:21 final size:20
Alignment explanation
Indices: 108608025--108608075 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
108608015 ACTATTTTTG
*
108608025 TATATTTTTAAACTGTCTTT
1 TATATATTTAAACTGTCTTT
* *
108608045 TTTATTATTTAAGACTTTCTTT
1 TATA-TATTTAA-ACTGTCTTT
108608067 TATATATTT
1 TATATATTT
108608076 TATTTTAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 11 0.44
22 11 0.44
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.63
Consensus pattern (20 bp):
TATATATTTAAACTGTCTTT
Found at i:108613075 original size:14 final size:14
Alignment explanation
Indices: 108613056--108613083 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
108613046 AATAATGCAC
108613056 TCATTATTTAATTA
1 TCATTATTTAATTA
108613070 TCATTATTTAATTA
1 TCATTATTTAATTA
108613084 GATCAACAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TCATTATTTAATTA
Found at i:108616010 original size:72 final size:72
Alignment explanation
Indices: 108615863--108616010 Score: 190
Period size: 72 Copynumber: 2.1 Consensus size: 72
108615853 GAGGAAAAGT
* *
108615863 ACCATTTAATTGATTTTCTGAAACATCAAATAACTTCAAAGATGACAGCTCCCCTAGAGACCATG
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGAAAGCTCCCCTAGAGACCATG
**
108615928 GAATTTG
66 GAATGGG
* * ** **
108615935 ACCATTTAATTGATTTTCTGAAATATCAAAGAATTTCAAAGATGATAAG-TCCCCTATCGATGAT
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGA-AAGCTCCCCTAGAGACCAT
108615999 GGAATGGG
65 GGAATGGG
108616007 ACCA
1 ACCA
108616011 GAAATTTTGT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
72 63 0.97
73 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAAGAACTTCAAAGATGAAAGCTCCCCTAGAGACCATG
GAATGGG
Found at i:108622639 original size:20 final size:20
Alignment explanation
Indices: 108622614--108622652 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
108622604 TCGTCCGTTA
108622614 TATTTCCTATTAGGTGATTC
1 TATTTCCTATTAGGTGATTC
108622634 TATTTCCTATTAGGTGATT
1 TATTTCCTATTAGGTGATT
108622653 TCTTGATTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.13, G:0.15, T:0.51
Consensus pattern (20 bp):
TATTTCCTATTAGGTGATTC
Found at i:108624961 original size:39 final size:38
Alignment explanation
Indices: 108624899--108624999 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 38
108624889 ATCGTGATCT
* * *
108624899 GAAGCCCGAAATCTAGCTAAAGCACATAAGTGCTAAACG
1 GAAGCCCG-AAGCTAACTGAAGCACATAAGTGCTAAACG
108624938 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAA-GCTAACTGAAGCACATAAGTGCTAAACG
108624977 GAAGCCCGGAAGCTAACTGAAGC
1 GAAGCCC-GAAGCTAACTGAAGC
108625000 TCATCAGAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.04
39 52 0.91
40 3 0.05
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.13
Consensus pattern (38 bp):
GAAGCCCGAAGCTAACTGAAGCACATAAGTGCTAAACG
Found at i:108624981 original size:21 final size:21
Alignment explanation
Indices: 108624918--108624981 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
108624908 AATCTAGCTA
108624918 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACGG
** *
108624939 AAGC-CCGAAG-GCT-AACTG
1 AAGCACATAAGTGCTAAACGG
108624957 AAGCACATAAGTGCTAAACGG
1 AAGCACATAAGTGCTAAACGG
108624978 AAGC
1 AAGC
108624982 CCGGAAGCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.24
19 7 0.21
20 7 0.21
21 12 0.35
ACGTcount: A:0.41, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
AAGCACATAAGTGCTAAACGG
Found at i:108632456 original size:13 final size:14
Alignment explanation
Indices: 108632416--108632458 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
108632406 ACTAATGACA
108632416 AATTAAACCATTAT
1 AATTAAACCATTAT
108632430 AATTAAACCATTAT
1 AATTAAACCATTAT
108632444 AATTAAA-CATTAT
1 AATTAAACCATTAT
108632457 AA
1 AA
108632459 ATATTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:108634278 original size:27 final size:27
Alignment explanation
Indices: 108634248--108634305 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
108634238 GTTTTGTAAG
* *
108634248 TTATAAAAGTTATGGTATGATATATAT
1 TTATAAAAGTTATGATATAATATATAT
**
108634275 TTATGTAAGTTATGATATAATATATAT
1 TTATAAAAGTTATGATATAATATATAT
108634302 TTAT
1 TTAT
108634306 GTATTATGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (27 bp):
TTATAAAAGTTATGATATAATATATAT
Found at i:108634306 original size:27 final size:27
Alignment explanation
Indices: 108634254--108634308 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
108634244 TAAGTTATAA
* *
108634254 AAGTTATGGTATGATATATATTTATGT
1 AAGTTATGATATAATATATATTTATGT
108634281 AAGTTATGATATAATATATATTTATGT
1 AAGTTATGATATAATATATATTTATGT
108634308 A
1 A
108634309 TTATGTAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (27 bp):
AAGTTATGATATAATATATATTTATGT
Found at i:108635035 original size:12 final size:14
Alignment explanation
Indices: 108635000--108635036 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
108634990 GTCTTGACTT
108635000 AATATTTTTAAGTA
1 AATATTTTTAAGTA
108635014 AATTATTTTTAA-TA
1 AA-TATTTTTAAGTA
108635028 AA-ATTTTTA
1 AATATTTTTA
108635037 TTATTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
14 6 0.27
15 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (14 bp):
AATATTTTTAAGTA
Found at i:108636394 original size:14 final size:13
Alignment explanation
Indices: 108636368--108636393 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108636358 AGAAGCAGTT
108636368 TGGGAAAAAAAAA
1 TGGGAAAAAAAAA
108636381 TGGGAAAAAAAAA
1 TGGGAAAAAAAAA
108636394 AGAGATTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (13 bp):
TGGGAAAAAAAAA
Found at i:108637945 original size:40 final size:40
Alignment explanation
Indices: 108637901--108638042 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
108637891 TTTTGACGGT
* * * * *
108637901 GTTTTTGAAAAAGTGTCGCTAATTCTTGATTTTTAGCAGC
1 GTTTTTCAAAAAGCGCCGCTAATACTTGATCTTTAGCAGC
* **
108637941 GTTTTTCCAAAAGCGCCGCTAATACTTGATCTTTAGTGGC
1 GTTTTTCAAAAAGCGCCGCTAATACTTGATCTTTAGCAGC
* * * * *
108637981 ATTTTTAAAAAAGCGCTGCT-A-ACTTTCGATCTTTAGCGGT
1 GTTTTTCAAAAAGCGCCGCTAATAC-TT-GATCTTTAGCAGC
108638021 GTTTTTCAAAAAGCGCCGCTAA
1 GTTTTTCAAAAAGCGCCGCTAA
108638043 GCCACTAGAT
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
38 2 0.02
39 3 0.04
40 76 0.93
41 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (40 bp):
GTTTTTCAAAAAGCGCCGCTAATACTTGATCTTTAGCAGC
Found at i:108638421 original size:22 final size:21
Alignment explanation
Indices: 108638394--108638440 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
108638384 TTAACCCTTA
*
108638394 AAACCATAAACACTAAGATCCT
1 AAACCATAAACACTAA-ACCCT
*
108638416 AAACCATAAATACTAAACCCT
1 AAACCATAAACACTAAACCCT
108638437 AAAC
1 AAAC
108638441 AACAAACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.17
Consensus pattern (21 bp):
AAACCATAAACACTAAACCCT
Found at i:108638549 original size:14 final size:14
Alignment explanation
Indices: 108638515--108638562 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
108638505 CATATAAATA
*
108638515 TTAAACCATAAACC
1 TTAAACCCTAAACC
* * *
108638529 ATAAAACTCTAAATC
1 -TTAAACCCTAAACC
108638544 TTAAACCCTAAACC
1 TTAAACCCTAAACC
108638558 TTAAA
1 TTAAA
108638563 TATTAAACCC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (14 bp):
TTAAACCCTAAACC
Found at i:108638562 original size:21 final size:22
Alignment explanation
Indices: 108638523--108638578 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
108638513 TATTAAACCA
* * *
108638523 TAAACCATAAAACTCTAAATCT
1 TAAACCCTAAACCTCTAAATAT
108638545 TAAACCCTAAACCT-TAAATAT
1 TAAACCCTAAACCTCTAAATAT
108638566 TAAACCCTAAACC
1 TAAACCCTAAACC
108638579 AAAATATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (22 bp):
TAAACCCTAAACCTCTAAATAT
Found at i:108638997 original size:41 final size:41
Alignment explanation
Indices: 108638952--108639069 Score: 130
Period size: 41 Copynumber: 2.9 Consensus size: 41
108638942 CTTTATGTAC
*
108638952 CGTTTGGATTAAAAACGCCGCTATTGAT-AGGTTTTTAGTGG
1 CGTTTGGATAAAAAACGCCGCTATTGATCA-GTTTTTAGTGG
* ** * *
108638993 CGTTTGTACCAAAAACGGCGCTATTGCTCAGTTTTTAGTGG
1 CGTTTGGATAAAAAACGCCGCTATTGATCAGTTTTTAGTGG
* * * *
108639034 TGTTTGGATAAAAAAGGCCGCTATTGCTTAGTTTTT
1 CGTTTGGATAAAAAACGCCGCTATTGATCAGTTTTT
108639070 TTGTAAATGC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 63 0.98
42 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (41 bp):
CGTTTGGATAAAAAACGCCGCTATTGATCAGTTTTTAGTGG
Found at i:108639499 original size:72 final size:72
Alignment explanation
Indices: 108639382--108639620 Score: 385
Period size: 72 Copynumber: 3.3 Consensus size: 72
108639372 AGGGGAAAGT
*
108639382 ACCATTCAATTGATTTTCTGAAACATCAAAGAACT-TCAAAGATGATAACTCCCCTATAGACAAT
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAA-TATCAAAGATGATAACTCCCCTATAGACAAT
108639446 GGAATTTG
65 GGAATTTG
*
108639454 ACCATTTAAATT-ATTTTCTGAAACATCAAAGAATATCAAAGATGATAACTTCCCTATAGACAAT
1 ACCATTT-AATTGATTTTCTGAAACATCAAAGAATATCAAAGATGATAACTCCCCTATAGACAAT
108639518 GGAATTTG
65 GGAATTTG
* * *
108639526 ACCATATACTTGATTTTCTGAAACATCAAACAA-ATTCAAAGATGATAACTCCCCTATAGACAAT
1 ACCATTTAATTGATTTTCTGAAACATCAAAGAATA-TCAAAGATGATAACTCCCCTATAGACAAT
108639590 GGAATTTG
65 GGAATTTG
108639598 ACCATTTAATTGATTTTCTGAAA
1 ACCATTTAATTGATTTTCTGAAA
108639621 GTTCAAGGTG
Statistics
Matches: 155, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
71 5 0.03
72 146 0.94
73 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (72 bp):
ACCATTTAATTGATTTTCTGAAACATCAAAGAATATCAAAGATGATAACTCCCCTATAGACAATG
GAATTTG
Found at i:108647559 original size:18 final size:18
Alignment explanation
Indices: 108647501--108647593 Score: 78
Period size: 18 Copynumber: 5.2 Consensus size: 18
108647491 CCCAACTACT
* *
108647501 GTATACGTGAACAGTACC
1 GTATACGTAAATAGTACC
* *
108647519 GTATATGTAAATAGTGCC
1 GTATACGTAAATAGTACC
* * *
108647537 ATATATGTAAATAGTATC
1 GTATACGTAAATAGTACC
* * **
108647555 GTATACATGAATAGTGTC
1 GTATACGTAAATAGTACC
*
108647573 GTATACGTGAATAGTACC
1 GTATACGTAAATAGTACC
108647591 GTA
1 GTA
108647594 AACGGTCGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (18 bp):
GTATACGTAAATAGTACC
Found at i:108649752 original size:9 final size:9
Alignment explanation
Indices: 108649728--108649762 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
108649718 AAATTGTCAT
108649728 ATTAAAAAA
1 ATTAAAAAA
108649737 ATGTAAAAAA
1 AT-TAAAAAA
*
108649747 ATTAAATAA
1 ATTAAAAAA
108649756 ATTAAAA
1 ATTAAAA
108649763 GACTGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:108649864 original size:19 final size:20
Alignment explanation
Indices: 108649829--108649872 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
108649819 TAAAAATTCG
*
108649829 AAAAATTTATAAGAAATTTA
1 AAAAATTTATAAGAAATATA
108649849 AAAAATTT-TGAA-AAATATA
1 AAAAATTTAT-AAGAAATATA
108649868 AAAAA
1 AAAAA
108649873 AAACTATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (20 bp):
AAAAATTTATAAGAAATATA
Found at i:108657601 original size:6 final size:6
Alignment explanation
Indices: 108657590--108657615 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
108657580 GGGAAATCAT
108657590 GGGGTG GGGGTG GGGGTG GGGGTG GG
1 GGGGTG GGGGTG GGGGTG GGGGTG GG
108657616 TACCTTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.85, T:0.15
Consensus pattern (6 bp):
GGGGTG
Found at i:108664859 original size:8 final size:9
Alignment explanation
Indices: 108664825--108664858 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
108664815 CTTCAAAAAA
108664825 AAAAGAAATT
1 AAAA-AAATT
108664835 AAAAAAATT
1 AAAAAAATT
108664844 AAAAAAATT
1 AAAAAAATT
108664853 AAAAAA
1 AAAAAA
108664859 TATGTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (9 bp):
AAAAAAATT
Found at i:108666233 original size:27 final size:27
Alignment explanation
Indices: 108666202--108666255 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
108666192 ACAAATTAGT
108666202 ACTGGTACTCGACCACTGAAACATATA
1 ACTGGTACTCGACCACTGAAACATATA
108666229 ACTGGTACTCGACCACTGAAACATATA
1 ACTGGTACTCGACCACTGAAACATATA
108666256 GCTATTTTGG
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:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (27 bp):
ACTGGTACTCGACCACTGAAACATATA
Found at i:108670533 original size:16 final size:16
Alignment explanation
Indices: 108670507--108670553 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
108670497 TTGCAAGACT
108670507 GAAGC-AAGAAAAATC
1 GAAGCAAAGAAAAATC
* *
108670522 GAAGCAAAGAAAGAGC
1 GAAGCAAAGAAAAATC
*
108670538 AAAGCAAAGCAAAAAT
1 GAAGCAAAG-AAAAAT
108670554 TGATCAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 5 0.20
16 16 0.64
17 4 0.16
ACGTcount: A:0.62, C:0.13, G:0.21, T:0.04
Consensus pattern (16 bp):
GAAGCAAAGAAAAATC
Found at i:108675095 original size:16 final size:16
Alignment explanation
Indices: 108675069--108675115 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
108675059 TTGCAAGACT
108675069 GAAGC-AAGAAAAATC
1 GAAGCAAAGAAAAATC
* *
108675084 GAAGCAAAGAAAGAGC
1 GAAGCAAAGAAAAATC
*
108675100 AAAGCAAAGCAAAAAT
1 GAAGCAAAG-AAAAAT
108675116 TGATCAAAAG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 5 0.20
16 16 0.64
17 4 0.16
ACGTcount: A:0.62, C:0.13, G:0.21, T:0.04
Consensus pattern (16 bp):
GAAGCAAAGAAAAATC
Found at i:108679453 original size:35 final size:35
Alignment explanation
Indices: 108679373--108679453 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
108679363 TACTTTACAC
*
108679373 ATCTATATCTGTATCTGATATGGGCTTAGGCCCGA
1 ATCTATATCTGTATCTGATATGGGCTTAGGCCCAA
* ** *
108679408 ATATGCATCTGTGTCTG-TAATGGGCTTAGGCCCAA
1 ATCTATATCTGTATCTGAT-ATGGGCTTAGGCCCAA
108679443 ATCTATATCTG
1 ATCTATATCTG
108679454 ACTGATTCTG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
34 1 0.03
35 36 0.97
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (35 bp):
ATCTATATCTGTATCTGATATGGGCTTAGGCCCAA
Found at i:108683222 original size:17 final size:18
Alignment explanation
Indices: 108683193--108683228 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
108683183 TAAATTTAAT
108683193 TTTTATATTTAAAAATGA
1 TTTTATATTTAAAAATGA
*
108683211 TTTTAT-TTTAAATATGA
1 TTTTATATTTAAAAATGA
108683228 T
1 T
108683229 AATAACTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTTATATTTAAAAATGA
Found at i:108686264 original size:17 final size:17
Alignment explanation
Indices: 108686242--108686274 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
108686232 GAAATACCTA
108686242 TAAATAATAATT-TTATT
1 TAAAT-ATAATTATTATT
108686259 TAAATATAATTATTAT
1 TAAATATAATTATTAT
108686275 AAATAAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAATATAATTATTATT
Found at i:108694722 original size:22 final size:21
Alignment explanation
Indices: 108694697--108694745 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
108694687 TTTTTTATGA
108694697 TTTTTATAAAATTTTACAATTT
1 TTTTTAT-AAATTTTACAATTT
***
108694719 TTTTTATGGTTTTTACAATTT
1 TTTTTATAAATTTTACAATTT
108694740 TTTTTA
1 TTTTTA
108694746 ATTTTTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTTATAAATTTTACAATTT
Found at i:108695115 original size:14 final size:14
Alignment explanation
Indices: 108695090--108695130 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
108695080 CTTACCTAAT
108695090 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* * *
108695104 TTTGCAAATTGTAA
1 TGTGCAAGTTGTGA
108695118 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
108695131 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.39
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:108697819 original size:14 final size:14
Alignment explanation
Indices: 108697798--108697838 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
108697788 CTTACCTAAT
108697798 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
108697812 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
108697826 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
108697839 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:108698577 original size:281 final size:281
Alignment explanation
Indices: 108698074--108698642 Score: 1075
Period size: 281 Copynumber: 2.0 Consensus size: 281
108698064 ATCTGGATTT
108698074 ATTACGTTGTTGCTCAGGTTTTACACTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
1 ATTACGTTGTTGCTCAGGTTTTACACTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
*
108698139 TAACAAGATTTCTAGACTTGCTTTCTTACATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
66 CAACAAGATTTCTAGACTTGCTTTCTTACATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
108698204 CAATGAACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
131 CAATGAACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
108698269 AGTTTGGAAGATGATCCATCCCCTGTCAATGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
196 AGTTTGGAAGATGATCCATCCCCTGTCAATGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
108698334 TTCTAGGAACCAATTATCTTC
261 TTCTAGGAACCAATTATCTTC
*
108698355 ATTACGTTGTTGCTCAGGTTTTACATTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
1 ATTACGTTGTTGCTCAGGTTTTACACTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
* *
108698420 CAACAAGATTTCTAGATTTGCTTTCTTGCATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
66 CAACAAGATTTCTAGACTTGCTTTCTTACATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
* *
108698485 TAATGGACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
131 CAATGAACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
*
108698550 AGTTTGGAAGATGATCCATCCCCTGTCAGTGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
196 AGTTTGGAAGATGATCCATCCCCTGTCAATGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
108698615 TTCTAGGAACCAATTATCTTC
261 TTCTAGGAACCAATTATCTTC
108698636 ATTACGT
1 ATTACGT
108698643 AAGTCGATAT
Statistics
Matches: 281, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
281 281 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (281 bp):
ATTACGTTGTTGCTCAGGTTTTACACTAAGCTTCATACTTCCTCCGAATAAATAGTTCAAAAACC
CAACAAGATTTCTAGACTTGCTTTCTTACATTACCTTGATTTGATTTATGCAGATCTTTGTAAAG
CAATGAACTGGCTGCAGGTAACATACAAACATCCTTCATTTTTAGAGTTGCACTTGTTAGCTTGC
AGTTTGGAAGATGATCCATCCCCTGTCAATGTTAATTCTACTAAATCACTAGTTGTTCTTGATCT
TTCTAGGAACCAATTATCTTC
Found at i:108702686 original size:132 final size:132
Alignment explanation
Indices: 108702446--108702732 Score: 418
Period size: 132 Copynumber: 2.2 Consensus size: 132
108702436 TAATTATTCA
* * *
108702446 TTTAAAAATTCTTTGAAACGAAGGCGAGATTTGATATTTGGCAATTCGCGGAAATGTGCCCTAAT
1 TTTAAAAATTCTTTAAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAAATGTGCCCTAAC
* *
108702511 GTGCTGGGTTGCAATTTCGTGTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTAATGT
66 GTGCTGGGTTGCAATTTCGTGTTTACTCAAAATAATCGAATATCCCTTCAAAATTTCACTAAGGT
108702576 CT
131 CT
*
108702578 TTTAAAAATTCTTTAAAACGAAGATGAGATTTGATATTTGGCAATTCGCGG-AATCGTGCCCTAA
1 TTTAAAAATTCTTTAAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAAAT-GTGCCCTAA
* * *
108702642 CGTGTTGGGTTGCAATTTC-TCGTTTACTCAAAATAATC-AGATATCCCTTCGAAATTTCACTCA
65 CGTGCTGGGTTGCAATTTCGT-GTTTACTCAAAATAATCGA-ATATCCCTTCAAAATTTCACTAA
108702705 GGTCT
128 GGTCT
* * *
108702710 TCTAAAAATCCTTCAAAACGAAG
1 TTTAAAAATTCTTTAAAACGAAG
108702733 GCGATACTCA
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
131 5 0.04
132 135 0.96
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (132 bp):
TTTAAAAATTCTTTAAAACGAAGACGAGATTTGATATTTGGCAATTCGCGGAAATGTGCCCTAAC
GTGCTGGGTTGCAATTTCGTGTTTACTCAAAATAATCGAATATCCCTTCAAAATTTCACTAAGGT
CT
Found at i:108702755 original size:132 final size:131
Alignment explanation
Indices: 108702461--108702821 Score: 390
Period size: 132 Copynumber: 2.7 Consensus size: 131
108702451 AAATTCTTTG
* * *
108702461 AAACGAAGGCGAGATTTGATATTTGGCAATTCGCGGAAAT-GTGCCCTAATGTGCTGGGTTGCAA
1 AAACGAA-GAGAGATCTCATATTTGGCAATTCGCGG-AATCGTGCCCTAATGTGCTGGGTTGCAA
* * * *
108702525 TTTCGT-GTTTGCTCAAAATAATCGAATATCCCTTCAAAATTTCACTAATGTCTTTTAAAAATTC
64 TTTC-TCGTTTACTCAAAATAATCGAATATCCCTTCAAAATTTCACTAAGGTCTTCTAAAAATCC
*
108702589 TTTA
128 TTCA
* * * *
108702593 AAACGAAGATGAGATTTGATATTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAAT
1 AAACGAAGA-GAGATCTCATATTTGGCAATTCGCGGAATCGTGCCCTAATGTGCTGGGTTGCAAT
* *
108702658 TTCTCGTTTACTCAAAATAATC-AGATATCCCTTCGAAATTTCACTCAGGTCTTCTAAAAATCCT
65 TTCTCGTTTACTCAAAATAATCGA-ATATCCCTTCAAAATTTCACTAAGGTCTTCTAAAAATCCT
108702722 TCA
129 TCA
* * * * * **
108702725 AAACGAAG-GCGATACTCAGTGTTTGACAATTCG-GGAATCATGCCCTATTGTGCTGGGTTGTGA
1 AAACGAAGAGAGAT-CTCA-TATTTGGCAATTCGCGGAATCGTGCCCTAATGTGCTGGGTTGCAA
** ** *
108702788 TTTCTCGTTTGTTCAAAACGATCGAATATTCCTT
64 TTTCTCGTTTACTCAAAATAATCGAATATCCCTT
108702822 TAGGTTTTCA
Statistics
Matches: 196, Mismatches: 26, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
130 4 0.02
131 59 0.30
132 133 0.68
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (131 bp):
AAACGAAGAGAGATCTCATATTTGGCAATTCGCGGAATCGTGCCCTAATGTGCTGGGTTGCAATT
TCTCGTTTACTCAAAATAATCGAATATCCCTTCAAAATTTCACTAAGGTCTTCTAAAAATCCTTC
A
Found at i:108704734 original size:36 final size:36
Alignment explanation
Indices: 108704694--108704804 Score: 121
Period size: 36 Copynumber: 3.3 Consensus size: 36
108704684 GGGTTACGAG
108704694 TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
1 TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
* * *
108704730 TTTGGGGTTT-AGG-------GTTTGAGATTATATA
1 TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
* *
108704758 TTTAGGGTTTAAGGTTCAATTGTTTGATGTTCTAGA
1 TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
108704794 TTTGGGGTTTA
1 TTTGGGGTTTA
108704805 GAGTTTGAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
28 21 0.36
29 3 0.05
35 3 0.05
36 31 0.53
ACGTcount: A:0.20, C:0.04, G:0.30, T:0.47
Consensus pattern (36 bp):
TTTGGGGTTTAAGGTTCAATTGTTTGAGGTTCTAGA
Found at i:108704747 original size:28 final size:28
Alignment explanation
Indices: 108704715--108704838 Score: 79
Period size: 28 Copynumber: 4.1 Consensus size: 28
108704705 AGGTTCAATT
* * *
108704715 GTTTGAGGTTCTAGATTTGGGGTTTAGG
1 GTTTGAGATTATAGATTTAGGGTTTAGG
*
108704743 GTTTGAGATTATATATTTAGGGTTTAAGG
1 GTTTGAGATTATAGATTTAGGGTTT-AGG
* * *
108704772 TTCAATTGTTTGATG-TTCTAGATTTGGGGTTTAGA
1 -------GTTTGA-GATTATAGATTTAGGGTTTAGG
* *
108704807 GTTTGAAATTATAGATTTAGGGTTTAAG
1 GTTTGAGATTATAGATTTAGGGTTTAGG
108704835 GTTT
1 GTTT
108704839 TGAGTTTGGG
Statistics
Matches: 73, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
28 47 0.64
29 3 0.04
35 2 0.03
36 20 0.27
37 1 0.01
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (28 bp):
GTTTGAGATTATAGATTTAGGGTTTAGG
Found at i:108704799 original size:64 final size:64
Alignment explanation
Indices: 108704698--108704837 Score: 244
Period size: 64 Copynumber: 2.2 Consensus size: 64
108704688 TACGAGTTTG
* * *
108704698 GGGTTTAAGGTTCAATTGTTTGAGGTTCTAGATTTGGGGTTTAGGGTTTGAGATTATATATTTA
1 GGGTTTAAGGTTCAATTGTTTGAGGTTCTAGATTTGGGGTTTAGAGTTTGAAATTATAGATTTA
*
108704762 GGGTTTAAGGTTCAATTGTTTGATGTTCTAGATTTGGGGTTTAGAGTTTGAAATTATAGATTTA
1 GGGTTTAAGGTTCAATTGTTTGAGGTTCTAGATTTGGGGTTTAGAGTTTGAAATTATAGATTTA
108704826 GGGTTTAAGGTT
1 GGGTTTAAGGTT
108704838 TTGAGTTTGG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 72 1.00
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.45
Consensus pattern (64 bp):
GGGTTTAAGGTTCAATTGTTTGAGGTTCTAGATTTGGGGTTTAGAGTTTGAAATTATAGATTTA
Found at i:108706949 original size:13 final size:13
Alignment explanation
Indices: 108706931--108706960 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
108706921 CCTAATGGGA
108706931 TATTATAGGATAT
1 TATTATAGGATAT
*
108706944 TATTATGGGATAT
1 TATTATAGGATAT
108706957 TATT
1 TATT
108706961 TTTTAGCAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (13 bp):
TATTATAGGATAT
Found at i:108709409 original size:13 final size:13
Alignment explanation
Indices: 108709391--108709415 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
108709381 TATTGATGTG
108709391 ATTATTAATTTAC
1 ATTATTAATTTAC
108709404 ATTATTAATTTA
1 ATTATTAATTTA
108709416 TTTAATTGAA
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:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTATTAATTTAC
Found at i:108713434 original size:18 final size:18
Alignment explanation
Indices: 108713411--108713463 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
108713401 GACCATTTAC
108713411 GACACTATTTACGTATAT
1 GACACTATTTACGTATAT
*
108713429 GACACTATTCACGTATAT
1 GACACTATTTACGTATAT
** *
108713447 GGTACTATTTAGGTATA
1 GACACTATTTACGTATA
108713464 CAGTACTGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (18 bp):
GACACTATTTACGTATAT
Found at i:108713469 original size:18 final size:18
Alignment explanation
Indices: 108713432--108713486 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
108713422 CGTATATGAC
**
108713432 ACTATTCACGTATATGGT
1 ACTATTCACGTATACAGT
* *
108713450 ACTATTTAGGTATACAGT
1 ACTATTCACGTATACAGT
*
108713468 ACTGTTCACGTATACAGT
1 ACTATTCACGTATACAGT
108713486 A
1 A
108713487 GTTGGGATTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (18 bp):
ACTATTCACGTATACAGT
Found at i:108717335 original size:12 final size:12
Alignment explanation
Indices: 108717318--108717348 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
108717308 GATCAAGACT
108717318 GCAGATAATCCC
1 GCAGATAATCCC
108717330 GCAGATAATCCC
1 GCAGATAATCCC
108717342 GCAGATA
1 GCAGATA
108717349 TGATGACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.16
Consensus pattern (12 bp):
GCAGATAATCCC
Found at i:108719947 original size:23 final size:23
Alignment explanation
Indices: 108719920--108719963 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
108719910 TTGGTAGCTA
* *
108719920 CATTAATGGAGCTAATTCAAAGG
1 CATTAAAGGAGCTAAATCAAAGG
*
108719943 CATTAAAGGTGCTAAATCAAA
1 CATTAAAGGAGCTAAATCAAA
108719964 AGGAAGTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (23 bp):
CATTAAAGGAGCTAAATCAAAGG
Found at i:108747864 original size:47 final size:47
Alignment explanation
Indices: 108747807--108747900 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
108747797 TGTTAATAAA
108747807 TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
1 TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
108747854 TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
1 TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
108747901 AGGAATTTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (47 bp):
TTTGGAAAGAAAGCCCATTGAGGTCTTTTTTCTTATTGTTATAAATT
Found at i:108761925 original size:39 final size:39
Alignment explanation
Indices: 108761882--108761959 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
108761872 TTCTACGAGT
108761882 TTGTTTATTCTTGATCTTAGTGAAAATCATTTCAATGGG
1 TTGTTTATTCTTGATCTTAGTGAAAATCATTTCAATGGG
108761921 TTGTTTATTCTTGATCTTAGTGAAAATCATTTCAATGGG
1 TTGTTTATTCTTGATCTTAGTGAAAATCATTTCAATGGG
108761960 AGTGTACCAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (39 bp):
TTGTTTATTCTTGATCTTAGTGAAAATCATTTCAATGGG
Found at i:108765538 original size:9 final size:9
Alignment explanation
Indices: 108765526--108765550 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
108765516 TTCTATTTTC
108765526 TCTACTGTT
1 TCTACTGTT
108765535 TCTACTGTT
1 TCTACTGTT
108765544 TCTACTG
1 TCTACTG
108765551 CTTTTGCGCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.12, T:0.52
Consensus pattern (9 bp):
TCTACTGTT
Found at i:108772019 original size:20 final size:21
Alignment explanation
Indices: 108771976--108772021 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
108771966 TACAATTTTT
* * *
108771976 TTTGACACACGATATTTTTCA
1 TTTGAAACACGATATTTATAA
108771997 TTTGAAACAC-ATATTTATAA
1 TTTGAAACACGATATTTATAA
108772017 TTTGA
1 TTTGA
108772022 GAAATTTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (21 bp):
TTTGAAACACGATATTTATAA
Found at i:108790617 original size:21 final size:21
Alignment explanation
Indices: 108790591--108790631 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108790581 ACCTACTCAA
* *
108790591 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
108790612 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
108790632 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:108807154 original size:9 final size:9
Alignment explanation
Indices: 108807140--108807215 Score: 71
Period size: 9 Copynumber: 8.1 Consensus size: 9
108807130 TTTAAGGAAA
*
108807140 TTATGTGAG
1 TTATGTAAG
108807149 TTATGTAAGTTG
1 TTATGTAA---G
*
108807161 TTATGTAAA
1 TTATGTAAG
108807170 TTATGTAAG
1 TTATGTAAG
* *
108807179 TTATATGAG
1 TTATGTAAG
108807188 TTATGTAAG
1 TTATGTAAG
*
108807197 TTATGTAAT
1 TTATGTAAG
*
108807206 TTATTTAAG
1 TTATGTAAG
108807215 T
1 T
108807216 AATGATCAAT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 45 0.83
12 9 0.17
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:108810725 original size:84 final size:84
Alignment explanation
Indices: 108810584--108810778 Score: 293
Period size: 84 Copynumber: 2.3 Consensus size: 84
108810574 CAGTTTTTTT
* **
108810584 GTGGCGTTT-TTAGGATAGCGCCACTAATTCCTAAACCGTGCCACATAAAACGACGTAGTTTTCA
1 GTGGCGTTTATAAGG-TAGCGCCACTAATTCCTAAACCGCACCACATAAAACGACGTAGTTTTCA
*
108810648 TTCGAATTCTCATATTCTTA
65 TTCGAATTCTCATATTATTA
*
108810668 GTGGCGTTTATAAGGTAGCTCCACTAATTCCTAAACCGCACCACATAAAACGACGTAGTTTTCAT
1 GTGGCGTTTATAAGGTAGCGCCACTAATTCCTAAACCGCACCACATAAAACGACGTAGTTTTCAT
* * *
108810733 TCGATTTTTTATATTATTA
66 TCGAATTCTCATATTATTA
*
108810752 GTGGCGTTTATAAGATAGCGCCACTAA
1 GTGGCGTTTATAAGGTAGCGCCACTAA
108810779 ATCCACTACC
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 96 0.96
85 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (84 bp):
GTGGCGTTTATAAGGTAGCGCCACTAATTCCTAAACCGCACCACATAAAACGACGTAGTTTTCAT
TCGAATTCTCATATTATTA
Found at i:108811130 original size:15 final size:15
Alignment explanation
Indices: 108811110--108811154 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
108811100 AATCCCAAAA
108811110 CCAATACACTAAACC
1 CCAATACACTAAACC
*
108811125 CCAATACCCTAAA-C
1 CCAATACACTAAACC
* *
108811139 CCTATAGACTAAACC
1 CCAATACACTAAACC
108811154 C
1 C
108811155 TAAACCAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.42, C:0.40, G:0.02, T:0.16
Consensus pattern (15 bp):
CCAATACACTAAACC
Found at i:108811142 original size:7 final size:7
Alignment explanation
Indices: 108811118--108811210 Score: 64
Period size: 7 Copynumber: 13.1 Consensus size: 7
108811108 AACCAATACA
108811118 CTAAACC
1 CTAAACC
*
108811125 CCAATACC
1 CTAA-ACC
108811133 CTAAACC
1 CTAAACC
* **
108811140 CTATAGA
1 CTAAACC
108811147 CTAAACC
1 CTAAACC
108811154 CTAAA-C
1 CTAAACC
* *
108811160 CAAATACA
1 CTAA-ACC
108811168 C-AATACC
1 CTAA-ACC
108811175 CTAAACC
1 CTAAACC
108811182 CTAAACC
1 CTAAACC
* **
108811189 CTATAGA
1 CTAAACC
108811196 CTAAACC
1 CTAAACC
108811203 CTAAACC
1 CTAAACC
108811210 C
1 C
108811211 AATACCCAGT
Statistics
Matches: 65, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
6 4 0.06
7 52 0.80
8 9 0.14
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.16
Consensus pattern (7 bp):
CTAAACC
Done.