Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 64
Found at i:2165049 original size:20 final size:20
Alignment explanation
Indices: 2165022--2165194 Score: 186
Period size: 20 Copynumber: 8.6 Consensus size: 20
2165012 CTTTAAAAAT
2165022 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2165042 CACGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
2165062 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
* * * *
2165083 CGCATTGCGATTTATGTATT
1 CGCGTTGCGATTTACGGATA
*
2165103 CGCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * *
2165123 CGCGTTGCGATTTATGTATT
1 CGCGTTGCGATTTACGGATA
*
2165143 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2165163 CGCGTTGCGATTTTATGGATA
1 CGCGTTGCGA-TTTACGGATA
*
2165184 CTCGTTGCGAT
1 CGCGTTGCGAT
2165195 AGTCAGAATC
Statistics
Matches: 123, Mismatches: 26, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
20 88 0.72
21 35 0.28
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2165113 original size:40 final size:40
Alignment explanation
Indices: 2165021--2165236 Score: 258
Period size: 40 Copynumber: 5.3 Consensus size: 40
2165011 GCTTTAAAAA
* *
2165021 TCGCGTTGCGATTTACGGATACACGTTGCGATTTTACGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTAT
*
2165062 T-GTCGTTGCGATTTACGGATACGCATTGCGATTTATGTAT
1 TCG-CGTTGCGATTTACGGATACGCGTTGCGATTTATGTAT
*
2165102 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTAT
* *
2165142 TCTCGTTGCGATTTACGGATACGCGTTGCGATTTTATGGAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTAT
* * * * * *
2165183 ACTCGTTGCGATAGT-CAGA-ATCGTGTTGCGATTTATGTGT
1 TCGCGTTGCGAT-TTACGGATA-CGCGTTGCGATTTATGTAT
2165223 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
2165237 TCATATTTGC
Statistics
Matches: 153, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 92 0.60
41 59 0.39
42 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTAT
Found at i:2165178 original size:81 final size:80
Alignment explanation
Indices: 2165021--2165236 Score: 274
Period size: 81 Copynumber: 2.7 Consensus size: 80
2165011 GCTTTAAAAA
* * * *
2165021 TCGCGTTGCGATTTACGGATACACGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACAGATACGCGTTGCGA-TTTATGTATTCTCGTTGCGATTTACGGATACGC
*
2165086 ATTGCGATTTATGTAT
65 ATTGCGATTTATGGAT
*
2165102 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATGTATTCTCGTTGCGATTTACGGATACGCG
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATGTATTCTCGTTGCGATTTACGGATACGCA
2165167 TTGCGATTTTATGGAT
66 TTGCGA-TTTATGGAT
* * * * * *
2165183 ACTCGTTGCGATAGT-CAGA-ATCGTGTTGCGATTTATGTGTTCGCGTTGCGATTT
1 TCGCGTTGCGAT-TTACAGATA-CGCGTTGCGATTTATGTATTCTCGTTGCGATTT
2165237 TCATATTTGC
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
80 38 0.32
81 81 0.68
82 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (80 bp):
TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATGTATTCTCGTTGCGATTTACGGATACGCA
TTGCGATTTATGGAT
Found at i:2165249 original size:121 final size:121
Alignment explanation
Indices: 2165024--2165255 Score: 306
Period size: 121 Copynumber: 1.9 Consensus size: 121
2165014 TTAAAAATCG
* ** * *
2165024 CGTTGCGATTTACGGATACACGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCATT
1 CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACGCATT
2165089 GCGATTTATGTATTCGCGTTGCGATTTACAGATACGCGTTGCGATTTATGTATTCT
66 GCGATTTATGTATTCGCGTTGCGATTTACAGATACGCGTTGCGATTTATGTATTCT
* * **
2165145 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGGATACTCGTTGCGATAGTCA-GAAT-CGTG
1 CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATACTCGTTGCGAT--TCACGAATACGCA
* * * **
2165208 TTGCGATTTATGTGTTCGCGTTGCGATTTTCATATTTGCGTTGCGATT
64 TTGCGATTTATGTATTCGCGTTGCGATTTACAGATACGCGTTGCGATT
2165256 CTGGAAAATC
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 90 0.95
122 3 0.03
123 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (121 bp):
CGTTGCGATTTACGGATACACGTTGCGATTTTACGGATACTCGTTGCGATTCACGAATACGCATT
GCGATTTATGTATTCGCGTTGCGATTTACAGATACGCGTTGCGATTTATGTATTCT
Found at i:2165354 original size:20 final size:19
Alignment explanation
Indices: 2165305--2165358 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
2165295 ATTCTTCATA
2165305 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
2165324 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
2165345 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
2165359 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:2165925 original size:20 final size:20
Alignment explanation
Indices: 2165902--2165952 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
2165892 CACGGAATGT
*
2165902 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGAGAATAA
2165922 AAGATTACCAGTGAGAATAA
1 AAGATTACCAGTGAGAATAA
2165942 AAGATTACCAG
1 AAGATTACCAG
2165953 GGAATAGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (20 bp):
AAGATTACCAGTGAGAATAA
Found at i:2169920 original size:23 final size:22
Alignment explanation
Indices: 2169894--2169962 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
2169884 CACTACAGAT
2169894 CGTATAAATGCACCGAAGTGCCA
1 CGTA-AAATGCACCGAAGTGCCA
*
2169917 CGTAAAATTGCACCGAAGTGCCG
1 CGTAAAA-TGCACCGAAGTGCCA
* * *
2169940 CTTAGAATTGCACCGTAGTGCCA
1 CGTA-AAATGCACCGAAGTGCCA
2169963 TATAAGATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
22 3 0.08
23 34 0.87
24 2 0.05
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.20
Consensus pattern (22 bp):
CGTAAAATGCACCGAAGTGCCA
Found at i:2169972 original size:23 final size:22
Alignment explanation
Indices: 2169902--2169972 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
2169892 ATCGTATAAA
* *
2169902 TGCACCGAAGTGCCACGTAAAAT
1 TGCACCGAAGTGCCA-TTAAGAT
*
2169925 TGCACCGAAGTGCCGCTT-AGAAT
1 TGCACCGAAGTGCC-ATTAAG-AT
*
2169948 TGCACCGTAGTGCCATATAAGAT
1 TGCACCGAAGTGCCAT-TAAGAT
2169971 TG
1 TG
2169973 TCCCTAAGGA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
22 2 0.05
23 35 0.90
24 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (22 bp):
TGCACCGAAGTGCCATTAAGAT
Found at i:2170229 original size:31 final size:30
Alignment explanation
Indices: 2170185--2170244 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
2170175 TATTGTATAG
2170185 ACATATAATTTCCAT-ACCTTTATCACATAA
1 ACATATAATTTCCATCA-CTTTATCACATAA
*
2170215 ACATATCATGTTCCATCACTTTATCACATA
1 ACATATAAT-TTCCATCACTTTATCACATA
2170245 GCTTATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.30
31 18 0.67
32 1 0.04
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (30 bp):
ACATATAATTTCCATCACTTTATCACATAA
Found at i:2176825 original size:23 final size:23
Alignment explanation
Indices: 2176807--2176867 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
2176797 CTCGTATAAA
2176807 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
2176830 TGCACCAAAGTACCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
2176853 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
2176868 TATAAGATTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:2177120 original size:30 final size:31
Alignment explanation
Indices: 2177086--2177149 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
2177076 TTTATATTGT
2177086 ATAAACATATAAT-TTCCAT-ACCTTTATCAC
1 ATAAACATATAATGTTCCATCA-CTTTATCAC
*
2177116 ATAAACATATCATGTTCCATCACTTTATCAC
1 ATAAACATATAATGTTCCATCACTTTATCAC
2177147 ATA
1 ATA
2177150 GCTTATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 12 0.39
31 18 0.58
32 1 0.03
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (31 bp):
ATAAACATATAATGTTCCATCACTTTATCAC
Found at i:2178179 original size:13 final size:13
Alignment explanation
Indices: 2178161--2178186 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2178151 TCTTCATGGT
2178161 GAAGAAGAAGAAA
1 GAAGAAGAAGAAA
2178174 GAAGAAGAAGAAA
1 GAAGAAGAAGAAA
2178187 AATCTGGAAA
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:0.31, T:0.00
Consensus pattern (13 bp):
GAAGAAGAAGAAA
Found at i:2181525 original size:3 final size:3
Alignment explanation
Indices: 2181517--2181602 Score: 61
Period size: 3 Copynumber: 29.7 Consensus size: 3
2181507 TAAATGATAT
* * * ** * *
2181517 TAA TAA TAA TAC TAA TAA TTA TTA TAA T-A TAA TTG TTA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
2181564 CAA TAA TAA TAA T-A TAA TAG TAA TAA TTA TAA T-A TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2181603 TTTATAACCC
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
2 6 0.09
3 60 0.91
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2181587 original size:14 final size:14
Alignment explanation
Indices: 2181569--2181609 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
2181559 AACAACAATA
2181569 ATAATAA-TATAAT
1 ATAATAATTATAAT
2181582 AGTAATAATTATAAT
1 A-TAATAATTATAAT
*
2181597 ATAATATTTATAA
1 ATAATAATTATAA
2181610 CCCGGACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 1 0.04
14 17 0.68
15 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (14 bp):
ATAATAATTATAAT
Found at i:2181609 original size:20 final size:20
Alignment explanation
Indices: 2181565--2181602 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2181555 TAATAACAAC
2181565 AATAATAATAATATAATAGT
1 AATAATAATAATATAATAGT
*
2181585 AATAATTATAATATAATA
1 AATAATAATAATATAATA
2181603 TTTATAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (20 bp):
AATAATAATAATATAATAGT
Found at i:2182531 original size:138 final size:138
Alignment explanation
Indices: 2182250--2182639 Score: 453
Period size: 138 Copynumber: 2.8 Consensus size: 138
2182240 TTCTCTTCAG
* * * * *
2182250 ATTTAGTCCTTTAATGTAGGAGAATTTTTAATTTGGTCATCGTTTTTGCTTGAGGTTCTATTCTA
1 ATTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCGATTTTGCTCGAGGTTCCATTTTA
* * * * * *
2182315 ATTATTCGAATCAAATAACCGATTAAAATTAATTAGGATTAATATTAGAGCCTTCACTTTAGGCT
66 ATTATTTGAATC-AATAATCGATTAAAATTGACTATGATTAATATTAGAGCCCTCACTTTAGGCT
2182380 TAATTTAAA
130 TAATTTAAA
* * * * * *
2182389 ATTTATTTCTTTAATTTAGGAGAGTTTTTAATTTGGTCCTCGATTTTACTCGAGGTACCATTTTA
1 ATTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCGATTTTGCTCGAGGTTCCATTTTA
*
2182454 ATTATTTGATTCAATAATCGATTAAAATTGACTATG-TTAATTATTAGAGCCCTCACTTTAGGCT
66 ATTATTTGAATCAATAATCGATTAAAATTGACTATGATTAA-TATTAGAGCCCTCACTTTAGGCT
* *
2182518 TAATTTCAT
130 TAATTTAAA
* * * * *
2182527 ATTTAGTCCTTTAATTTAAGAGAATTCTTAATTCGGTCATTGCA-TATGCTCGAGGTTCCATTTT
1 ATTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCG-ATTTTGCTCGAGGTTCCATTTT
* * * ** *
2182591 GACTATTTGACTCAATAATTTATTAAATTTGACT-TGATTAATATTAGAG
65 AATTATTTGAATCAATAATCGATTAAAATTGACTATGATTAATATTAGAG
2182640 AGGTTCAATC
Statistics
Matches: 211, Mismatches: 37, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
137 14 0.07
138 132 0.63
139 65 0.31
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (138 bp):
ATTTAGTCCTTTAATTTAGGAGAATTTTTAATTTGGTCATCGATTTTGCTCGAGGTTCCATTTTA
ATTATTTGAATCAATAATCGATTAAAATTGACTATGATTAATATTAGAGCCCTCACTTTAGGCTT
AATTTAAA
Found at i:2185409 original size:131 final size:131
Alignment explanation
Indices: 2185042--2185409 Score: 481
Period size: 131 Copynumber: 2.8 Consensus size: 131
2185032 TAATTTTAAA
* *
2185042 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATACATGACCTCTCATGCCTTAGAGA-A
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTA-AAACA
* * * *
2185106 GTCATTTATTGCTCCAACCGAAATGAAAAGATATCACTATTTCATCTTAAAATTCAATATTGATT
65 GTCATTTATTACTCCATCCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTGATT
*
2185171 TG
130 AG
* *
2185173 AGTGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAG
* * *
2185238 TCATTTATTACTCCAAT-CGAGATGAAGAGATATCAATATTTCGTCTTAAAAATCAATGA-TGAT
66 TCATTTATTACTCC-ATCCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAAT-ATTGAT
2185301 TAG
129 TAG
* * ** * * * *
2185304 AGAGAAAATGGTAATATCTAATTATTTCCGTTCAAGAATAAAAGACCTTTCATGCCTTAAAACAA
1 AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAG
* * *
2185369 TAATTTATTACTCCATCCGAAATGAAGATATATTACTATTT
66 TCATTTATTACTCCATCCGAAATGAAGAGATATCACTATTT
2185410 TTAATATCGA
Statistics
Matches: 206, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
130 3 0.01
131 201 0.98
132 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (131 bp):
AGAGAAAACGATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAACAG
TCATTTATTACTCCATCCGAAATGAAGAGATATCACTATTTCATCTTAAAAATCAATATTGATTA
G
Found at i:2187634 original size:22 final size:22
Alignment explanation
Indices: 2187607--2187649 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2187597 GCTTCAGGTC
*
2187607 TGGATGTAACTGGGCTCGGGTT
1 TGGATGTAACTCGGCTCGGGTT
*
2187629 TGGATGTAATTCGGCTCGGGT
1 TGGATGTAACTCGGCTCGGGT
2187650 GTGTTGTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.40, T:0.33
Consensus pattern (22 bp):
TGGATGTAACTCGGCTCGGGTT
Found at i:2188194 original size:42 final size:41
Alignment explanation
Indices: 2188140--2188231 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
2188130 ATGGACCCAA
* * * *
2188140 AAGGACTTATCATCTTGCTCGAAGGGCTTACAGATGACCCG
1 AAGGACTTATCATCATGCTCGAAAGACTTACAGATGACACG
* * *
2188181 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACG
1 AAGGACTT-ATCATCATGCTCGAAAGACTTACAGATGACACG
2188223 AAGGACTTA
1 AAGGACTTA
2188232 CCAATTTTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 8 0.19
42 34 0.81
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.25
Consensus pattern (41 bp):
AAGGACTTATCATCATGCTCGAAAGACTTACAGATGACACG
Found at i:2188639 original size:245 final size:242
Alignment explanation
Indices: 2187893--2188961 Score: 1452
Period size: 242 Copynumber: 4.4 Consensus size: 242
2187883 AAGACTTACT
* * * * * ** * *
2187893 GATGGTCTGAAGAACTTATCATCTTTCTCAAAAGACTTACGGATGACCCGAATGATTTAATCCTC
1 GATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATC
* * * *
2187958 ATGCTCGAAAGATTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAA-
66 ATGCTCGAGAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGCTTACTAGGTAAG
** * *
2188022 AAAAATTGGAAATCGTTTTCTTCCTTTTCAAAAATTTCAATTCAGATTTAAATGAGAAACTTTTC
131 AAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCAATTCAGATTTAAATGAGAAACTTTTC
* * * * *
2188087 TCATATTTTG-AAAACATGTGAAAACAACCTGCCTGAAGGTCTTATG
196 TCATTTTTTGAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTG
* ** * *
2188133 GA--CCCAAAAGGACTTATCATCTTGCTCGAAGGGCTTACAGATGACCCGAAGGATTTAATCATC
1 GATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATC
* * **
2188196 ATGCTCGAAAGACTTACTGATGGCACGAAGGACTTACCAATTTTGGAAATATATTACTAGGTAAG
66 ATGCTCGAGAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGCTTACTAGGTAAG
* *
2188261 -AACTTTGGAAATCATTTT-TTACTTTTC-AAAATTTCAAATTTCATATTTAAATGAGAAACGTT
131 AAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTC-AA-TTCAGATTTAAATGAGAAACTTT
*
2188323 TCTCATTTTTTCAAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTG
194 TCTCATTTTTT-GAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTG
* * * * * * *
2188373 GATGGCCTGAAGGACTTATCATCTTACTAGAAATGCTTATATATGACCCAAAAGATTTAATCGTC
1 GATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATC
* * *
2188438 ATGCTCGAGAGACTTACTGATGTCCCGAAGTACTTACCAATTTTGGAAATAGCTTACTAGATAAG
66 ATGCTCGAGAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGCTTACTAGGTAAG
2188503 AAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCAATTCAGATTTAAATGAGAAACTTTTC
131 AAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCAATTCAGATTTAAATGAGAAACTTTTC
*
2188568 TCATTTTTTTTTGAAAAACATGTGAAAACATCCTGCCCGAAGTTATTGTG
196 TCA---TTTTTTGAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTG
* *
2188618 AATGGCCTGAAGGACTTATCATCTTTCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATC
1 GATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATC
* * *
2188683 ATGCTTGAGAGACTTACTGATGGCTCGAAGGACGTACCAATTTTGGAAATAGCTTACTAGGTAAG
66 ATGCTCGAGAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGCTTACTAGGTAAG
* *
2188748 AAACTTCGGAAATCATTTTCTTACTTTTTAAAAATTTCAATTCAGATTTAAAT-ATGAAACTTTT
131 AAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCAATTCAGATTTAAATGA-GAAACTTTT
** * *
2188812 CTCATTTTTTGAAAAACATGTGAAATTATCCTACCCGAAGGTCTTGTG
195 CTCATTTTTTGAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTG
* * *
2188860 GATGGCCCGAATGACTTATCATCTTGCTCGAAAGGCATATAGATGACCCGAAGGATTTAATCATC
1 GATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATC
* * * *
2188925 ATGCTTGAGAGATTTACTGATGGCCTGAAAGACTTAC
66 ATGCTCGAGAGACTTACTGATGGCCCGAAGGACTTAC
2188962 TAAGTAAGAA
Statistics
Matches: 732, Mismatches: 83, Indels: 26
0.87 0.10 0.03
Matches are distributed among these distances:
236 8 0.01
237 10 0.01
238 154 0.21
240 36 0.05
242 238 0.33
243 44 0.06
244 12 0.02
245 224 0.31
246 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (242 bp):
GATGGCCTGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCGAAGGATTTAATCATC
ATGCTCGAGAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGCTTACTAGGTAAG
AAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCAATTCAGATTTAAATGAGAAACTTTTC
TCATTTTTTGAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTG
Found at i:2188829 original size:487 final size:480
Alignment explanation
Indices: 2187934--2188949 Score: 1437
Period size: 487 Copynumber: 2.1 Consensus size: 480
2187924 AAGACTTACG
* * *
2187934 GATGACCCGAATGATTTAATCCTCATGCTCGAAAGATTTACTGATGGCCCAAAGGACTTACCAAT
1 GATGACCCGAAAGATTTAATCATCATGCTCGAGAGATTTACTGATGGCCCAAAGGACTTACCAAT
* * * *
2187999 TTTGGAAATAGTTTACTAGGTAAAAAAATTGGAAATCGTTTTCTTCCTTTTCAAAAATTTCAATT
66 TTTGGAAATAGCTTACTAGATAAAAAAATTGGAAATCATTTTCTTACTTTTCAAAAATTTCAATT
* *
2188064 CAGATTTAAATGAGAAACTTTTCTCATATTTTGAAAACATGTGAAAACAACCTGCCTGAAGGTCT
131 CAGATTTAAATGAGAAACTTTTCTCATATTTTGAAAACATGTGAAAACAACCTGCCCGAAGGTAT
* *
2188129 TATGGACCCAAAAGGACTTATCATCTTGCTCGAAGGGCTTACAGATGACCCGAAGGATTTAATCA
196 TATGAACCCAAAAGGACTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAATCA
* *
2188194 TCATGCTCGAAAGACTTACTGATGGCACGAAGGACTTACCAATTTTGGAAATATATTACTAGGTA
261 TCATGCTCGAAAGACTTACTGATGGCACGAAGGACGTACCAATTTTGGAAATAGATTACTAGGTA
* * *
2188259 AGAACTTTGGAAATCATTTTTTACTTTTCAAAATTTCAAATTTCATATTTAAATGAGAAACGTTT
326 AGAACTTCGGAAATCATTTTTTACTTTTAAAAATTTCAAATTTCAGATTTAAATGAGAAACGTTT
* *
2188324 CTCATTTTTTCAAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTGGATGGCCTGAAGGACT
391 CTCATTTTTTCAAAAAACATGTGAAAACATCCTACCCGAAGGTATTGTGGATGGCCCGAAGGACT
* *
2188389 TATCATCTTACTAGAAATGCTTATA
456 TATCATCTTACTAGAAAGGCATATA
* * * * * * *
2188414 TATGACCCAAAAGATTTAATCGTCATGCTCGAGAGACTTACTGATGTCCCGAAGTACTTACCAAT
1 GATGACCCGAAAGATTTAATCATCATGCTCGAGAGATTTACTGATGGCCCAAAGGACTTACCAAT
**
2188479 TTTGGAAATAGCTTACTAGATAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCAAT
66 TTTGGAAATAGCTTACTAGATAA-AAAAATTGGAAATCATTTTCTTACTTTTCAAAAATTTCAAT
* *
2188544 TCAGATTTAAATGAGAAACTTTTCTCATTTTTTTTTGAAAAACATGTGAAAACATCCTGCCCGAA
130 TCAGATTTAAATGAGAAACTTTTCTCA---TATTTTG-AAAACATGTGAAAACAACCTGCCCGAA
* * * ** * *
2188609 GTTATTGTGAATGGCCTGAAGGACTTATCATCTTTCTCGAAAGGCTTATAGATGACCCGAAGGAT
191 GGTATTATGAA--CCCAAAAGGACTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGAT
* * * *
2188674 TTAATCATCATGCTTGAGAGACTTACTGATGGCTCGAAGGACGTACCAATTTTGGAAATAGCTTA
254 TTAATCATCATGCTCGAAAGACTTACTGATGGCACGAAGGACGTACCAATTTTGGAAATAGATTA
2188739 CTAGGTAAGAAACTTCGGAAATCATTTTCTTACTTTTTAAAAATTTC-AA-TTCAGATTTAAAT-
319 CTAGGTAAG-AACTTCGGAAATCATTTT-TTAC-TTTTAAAAATTTCAAATTTCAGATTTAAATG
* * ** *
2188801 ATGAAACTTTTCTCATTTTTT-GAAAAACATGTGAAATTATCCTACCCGAAGGTCTTGTGGATGG
381 A-GAAACGTTTCTCATTTTTTCAAAAAACATGTGAAAACATCCTACCCGAAGGTATTGTGGATGG
* * *
2188865 CCCGAATGACTTATCATCTTGCTCGAAAGGCATATA
445 CCCGAAGGACTTATCATCTTACTAGAAAGGCATATA
* *
2188901 GATGACCCGAAGGATTTAATCATCATGCTTGAGAGATTTACTGATGGCC
1 GATGACCCGAAAGATTTAATCATCATGCTCGAGAGATTTACTGATGGCC
2188950 TGAAAGACTT
Statistics
Matches: 469, Mismatches: 56, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
480 77 0.16
481 64 0.14
484 6 0.01
485 32 0.07
487 225 0.48
488 47 0.10
489 6 0.01
490 12 0.03
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (480 bp):
GATGACCCGAAAGATTTAATCATCATGCTCGAGAGATTTACTGATGGCCCAAAGGACTTACCAAT
TTTGGAAATAGCTTACTAGATAAAAAAATTGGAAATCATTTTCTTACTTTTCAAAAATTTCAATT
CAGATTTAAATGAGAAACTTTTCTCATATTTTGAAAACATGTGAAAACAACCTGCCCGAAGGTAT
TATGAACCCAAAAGGACTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTAATCA
TCATGCTCGAAAGACTTACTGATGGCACGAAGGACGTACCAATTTTGGAAATAGATTACTAGGTA
AGAACTTCGGAAATCATTTTTTACTTTTAAAAATTTCAAATTTCAGATTTAAATGAGAAACGTTT
CTCATTTTTTCAAAAAACATGTGAAAACATCCTACCCGAAGGTATTGTGGATGGCCCGAAGGACT
TATCATCTTACTAGAAAGGCATATA
Found at i:2196286 original size:130 final size:129
Alignment explanation
Indices: 2196042--2196405 Score: 355
Period size: 130 Copynumber: 2.8 Consensus size: 129
2196032 TAATTTTAAG
* * * *
2196042 AGAGAAAACGATAATATCTAATTATTTCCAATTGATAATAAATGACCTCT-ATG-CCTAAGAG-A
1 AGAGAAAATGACAATATCTAATTATTT-CAATTGAGAATAAATGACCTCTCATGTCTTAA-AGCA
* * * * * * *
2196104 AGTAACTTATTACTCTAA-CTAAAATGAAAAGATATCACTATTTCATCTTAAAATTCAAT-ATTG
64 A-TCATTTATTACTCTAATC-GAAATGAAGAGATATTACTATTCCATCTTAAAAATCAATGA-TG
2196167 ATT-
126 ATTC
* * * *
2196170 TGAGTGAAATGACAATATATAATGATTTCAAATTGAGAATAAATGACCTCTCATGTCTTAAAGCA
1 AGAG-AAAATGACAATATCTAATTATTTC-AATTGAGAATAAATGACCTCTCATGTCTTAAAGCA
* * * *
2196235 TTCATTTATTACTCTAATCGAGATGAAGAGATATTTCTATTCCGTCTTAAAAATCAATGATGATT
64 ATCATTTATTACTCTAATCGAAATGAAGAGATATTACTATTCCATCTTAAAAATCAATGATGATT
2196300 C
129 C
* * ** * *
2196301 AGAGAAAATGATAATATCTAATTATTTTCGATCAAGAATAAATGACCTTTCAT-TCCTTAAAACA
1 AGAGAAAATGACAATATCTAATTA-TTTCAATTGAGAATAAATGACCTCTCATGT-CTTAAAGCA
* *
2196365 ATCATTTATTACTCCAATAGAAATGAAGAGATATTACTATT
64 ATCATTTATTACTCTAATCGAAATGAAGAGATATTACTATT
2196406 TTTAATATTG
Statistics
Matches: 192, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
128 4 0.02
129 39 0.20
130 135 0.70
131 14 0.07
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (129 bp):
AGAGAAAATGACAATATCTAATTATTTCAATTGAGAATAAATGACCTCTCATGTCTTAAAGCAAT
CATTTATTACTCTAATCGAAATGAAGAGATATTACTATTCCATCTTAAAAATCAATGATGATTC
Found at i:2198674 original size:3 final size:3
Alignment explanation
Indices: 2198668--2198714 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
2198658 ACAACAATAC
2198668 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2198715 CAAGACTAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:2199735 original size:246 final size:243
Alignment explanation
Indices: 2199274--2199875 Score: 655
Period size: 244 Copynumber: 2.5 Consensus size: 243
2199264 AAATCATGCT
* * * * *
2199274 TGAAGGTCTTGTAAATGGTCTGAATGACTTATCATCTTGCTCGAAAGGC-TTAGATAACCCGAGG
1 TGAAGGTCTTGTGAATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTTAGATAACCCAAGG
* * * *
2199338 GATTTAATCATCATGCTCGAGAGACTTACTGATGACCCGAATGACTTACTAATTTTGGAAAAAGC
66 CATTTAATCAGCATGCTCGAGAGACTTACTGATGACCCGAAGGACTTACCAATTTTGGAAAAAGC
* ** *
2199403 TTACAAGGTAAGAAACTTTGGAATTTGTTTTCTTACTTTTCAAAAATTTCAAGCCATATTTATAA
131 TTACAAGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCAAGCCAGATTTATAA
** *
2199468 GAGAAACGTTTCTCAATTTTTTTCCTGAAAAACATCTGAAAACATTGT-GC
196 GAGAAACGTTTCTCAA-TTTTTT-C-GAAAAACATCTGAAAACATCCTACC
*
2199518 TGAAGGTCTTATGAATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTGTAGATAACCCAAT
1 TGAAGGTCTTGTGAATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTT-TAGATAACCCAA-
* * *
2199583 GGCA-TTAATCAGCATGCTCGATAGACTTACTGAT-AGCCGGAAGGACTTACCAATTTTGGAAAT
64 GGCATTTAATCAGCATGCTCGAGAGACTTACTGATGA-CCCGAAGGACTTACCAATTTTGGAAAA
* * * **
2199646 AGCTTTCTAGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAAATTTTAATTCAGATTT
128 AGCTTACAAGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTC-AAAAATTTCAAGCCAGATTT
** *
2199711 A-AATTGA-AAATTTTTCTC-ATTTTTTCGAAAAACATGTGAAAACATCCTACC
192 ATAA--GAGAAACGTTTCTCAATTTTTTCGAAAAACATCTGAAAACATCCTACC
** * * * * * *
2199762 CAAAGGTATTGTGGATGGCCCGAAGGACTTATCATCATGCTAGAAAGGCTTATAGATGACCTGAA
1 TGAAGGTCTTGTGAATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTT-TAGATAACC-CAA
* * * * * * *
2199827 GG-ATTTAATCATCATTCTCAAAAAACTTACTAATGA-CCGAATGACTTAC
64 GGCATTTAATCAGCATGCTCGAGAGACTTACTGATGACCCGAAGGACTTAC
2199876 TAAGTAAGAA
Statistics
Matches: 301, Mismatches: 46, Indels: 23
0.81 0.12 0.06
Matches are distributed among these distances:
243 31 0.10
244 124 0.41
245 11 0.04
246 104 0.35
247 29 0.10
248 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (243 bp):
TGAAGGTCTTGTGAATGGCCCGAAGGACTTATCATCTTGCTCGAAAGGCTTTAGATAACCCAAGG
CATTTAATCAGCATGCTCGAGAGACTTACTGATGACCCGAAGGACTTACCAATTTTGGAAAAAGC
TTACAAGGTAAGAAACTTTGGAAATCATTTTCTTACTTTTCAAAAATTTCAAGCCAGATTTATAA
GAGAAACGTTTCTCAATTTTTTCGAAAAACATCTGAAAACATCCTACC
Found at i:2205058 original size:31 final size:31
Alignment explanation
Indices: 2205023--2205122 Score: 164
Period size: 31 Copynumber: 3.2 Consensus size: 31
2205013 TTGGATTGAA
* *
2205023 TTGGAGTTTTTATATTTACTTCTCCTGGTAT
1 TTGGAGTTTTCATAATTACTTCTCCTGGTAT
2205054 TTGGAGTTTTCATAATTACTTCTCCTGGTAT
1 TTGGAGTTTTCATAATTACTTCTCCTGGTAT
**
2205085 TTGGAGTTTTCATAATTACTTCTCCTGGCGT
1 TTGGAGTTTTCATAATTACTTCTCCTGGTAT
2205116 TTGGAGT
1 TTGGAGT
2205123 ATACTCTCAA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.17, C:0.15, G:0.19, T:0.49
Consensus pattern (31 bp):
TTGGAGTTTTCATAATTACTTCTCCTGGTAT
Found at i:2206331 original size:25 final size:25
Alignment explanation
Indices: 2206297--2206354 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
2206287 TGTGTTAGAT
*
2206297 TAGGGTTTTAGAAACCCTAATTATG
1 TAGGGTTTTACAAACCCTAATTATG
2206322 TAGGGTTTTACAAACCCTAATTATG
1 TAGGGTTTTACAAACCCTAATTATG
2206347 TAGGGTTT
1 TAGGGTTT
2206355 ATGCATTGGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (25 bp):
TAGGGTTTTACAAACCCTAATTATG
Found at i:2207722 original size:241 final size:242
Alignment explanation
Indices: 2206707--2207771 Score: 1153
Period size: 243 Copynumber: 4.4 Consensus size: 242
2206697 CAACCCAAAA
* * * * ** * *
2206707 GACTTATAATTTTGCTCGAAAGACTTACGGATGACCCGAAGGATTTAATTC-TCATACTCGAA-A
1 GACTTATCATCTTACTCGAAAGGCTTATAGATGACCCAAAGGATTTAA-TCATCATGCTC-AAGA
* * * * *
2206770 GACTTACTGATTGCCCACACGACTTACCAATTTTGGAAATAGTTTACTAGGTAACAATA-TTTGG
64 GACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACAAGGTAAGAA-ACTTTGG
* * * *
2206834 AAATCGTTTTCTTACTTATAAAAAATTTCAATTTTCAGAAAATATTTAAATGAGAAACTTTTCTC
128 AAATCGTTTTCTTACTTTTCAAAAATTACAA--TTCAG-----ATTTAAATTAGAAACTTTTCTC
* * * *
2206899 ATCTTTT-G-AAAACATGTGAAAACATCCTACCCGAAGGTATTATGGATGACCCGAAA
186 AT-TTTTCGAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTGGATGGCCCGAAG
* **
2206955 GACTTATCATCTTGA-TCGAAATGCTTATAGATGACCTGAAGGATTTAATCATCATGCTCAAGAG
1 GACTTATCATCTT-ACTCGAAAGGCTTATAGATGACCCAAAGGATTTAATCATCATGCTCAAGAG
* * * * *
2207019 ACTTTCTAATGGCCCAAAGGAATTACCAAATTTGG-AATAGGTTA-ATAGGTAAGAAACTTTGGA
65 ACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACA-AGGTAAGAAACTTTGGA
* * * * * * * * *
2207082 AAACGTTTTCTTCCTTTTCAAAATTTATATTTTTAAATTTAAATAAGAAACTTTTCTTATTTTCT
129 AATCGTTTTCTTACTTTTCAAAAATTACA-ATTCAGATTTAAATTAGAAACTTTTCTCATTTT-T
**
2207147 CGAAAAACATGTGAAAACATCCTGCCCGAAGGCCTTGTGGATGGCCC-AGAG
192 CGAAAAACATGTGAAAACATCCTGCCCGAAGGTATTGTGGATGGCCCGA-AG
* * * * *
2207198 GACTTATCATCTTACTCTAAAGGCTTAAATATGACGCAAAGGATTTAATCATCATGCTCGAGAGA
1 GACTTATCATCTTACTCGAAAGGCTTATAGATGACCCAAAGGATTTAATCATCATGCTCAAGAGA
** * ** ** *
2207263 CAAAATGATGGCCTGAAGGACTTACCAATTTTGGAAATAACTTACTAGGTAAGAAACTTTGGAAA
66 CTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACAAGGTAAGAAACTTTGGAAA
* *
2207328 TCGTTTTCTTACTTTTCCAAAATTTCAATTCAGATTTAAATTAGAAACTTTTCTCATTTTTTCGA
131 TCGTTTTCTTACTTTTCAAAAATTACAATTCAGATTTAAATTAGAAACTTTTCTCA-TTTTTCGA
*
2207393 AAAACATGTGAAAACATCCTGCCCGAAGGTATAGTGGATGGCCCGAAG
195 AAAACATGTGAAAACATCCTGCCCGAAGGTATTGTGGATGGCCCGAAG
*
2207441 GACTTATCATCTTGCTCGAAAGGCTTATAGAT-AGCCCAAAGGATTTAATCATCATGCTCAAGAG
1 GACTTATCATCTTACTCGAAAGGCTTATAGATGA-CCCAAAGGATTTAATCATCATGCTCAAGAG
* * * *
2207505 AGTTACTGATGACCCAAAGGACTTACCAATTTTGTAAATAGTTTACAAAGTAAGAAACTTTGGAA
65 ACTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACAAGGTAAGAAACTTTGGAA
* * * *
2207570 ATCATTTT-TTAATTTTCAAAAATTAGAATTCAGATTTAGATTAGAAACTTTTCTCATTTTTCGA
130 ATCGTTTTCTTACTTTTCAAAAATTACAATTCAGATTTAAATTAGAAACTTTTCTCATTTTTCGA
* * * * * *
2207634 AAAACATGTTAAAACATCATGCCCAAAGGTCTTGTGGATGGGCCGAAT
195 AAAACATGTGAAAACATCCTGCCCGAAGGTATTGTGGATGGCCCGAAG
* * * * * * * *
2207682 GAGTTGTCATCTTACTTGAAAGGCTTATAGATGTCCCAAAGGATTTAATCATCTTGGTAAAAAGA
1 GACTTATCATCTTACTCGAAAGGCTTATAGATGACCCAAAGGATTTAATCATCATGCTCAAGAGA
* * *
2207747 CTTATTGATGGCTCGAAGGACTTAC
66 CTTACTGATGGCCCAAAGGACTTAC
2207772 TAAGAAACTT
Statistics
Matches: 684, Mismatches: 116, Indels: 41
0.81 0.14 0.05
Matches are distributed among these distances:
240 3 0.00
241 147 0.21
242 47 0.07
243 307 0.45
244 52 0.08
246 4 0.01
247 48 0.07
248 76 0.11
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (242 bp):
GACTTATCATCTTACTCGAAAGGCTTATAGATGACCCAAAGGATTTAATCATCATGCTCAAGAGA
CTTACTGATGGCCCAAAGGACTTACCAATTTTGGAAATAGTTTACAAGGTAAGAAACTTTGGAAA
TCGTTTTCTTACTTTTCAAAAATTACAATTCAGATTTAAATTAGAAACTTTTCTCATTTTTCGAA
AAACATGTGAAAACATCCTGCCCGAAGGTATTGTGGATGGCCCGAAG
Found at i:2212532 original size:37 final size:37
Alignment explanation
Indices: 2212482--2212556 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
2212472 TGAACATGAT
2212482 CTTCGTACTTTAGTAAACAATCTTCTTCTTGGATGCC
1 CTTCGTACTTTAGTAAACAATCTTCTTCTTGGATGCC
2212519 CTTCGTACTTTAGTAAACAATCTTCTTCTTGGATGCC
1 CTTCGTACTTTAGTAAACAATCTTCTTCTTGGATGCC
2212556 C
1 C
2212557 CCACTAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.40
Consensus pattern (37 bp):
CTTCGTACTTTAGTAAACAATCTTCTTCTTGGATGCC
Found at i:2213990 original size:17 final size:18
Alignment explanation
Indices: 2213950--2213992 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
2213940 CAATAAGTGT
*
2213950 TCTTGAAAGCAAAATGAA
1 TCTTGAAAGAAAAATGAA
* *
2213968 TATTGAATGAAAAAT-AA
1 TCTTGAAAGAAAAATGAA
2213985 TCTTGAAA
1 TCTTGAAA
2213993 TGCTCAAACT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (18 bp):
TCTTGAAAGAAAAATGAA
Found at i:2223788 original size:15 final size:15
Alignment explanation
Indices: 2223766--2223801 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
2223756 CTTTTCTATC
2223766 TTTATTT-CATTACT
1 TTTATTTCCATTACT
2223780 TTCTATTTCCATTACT
1 TT-TATTTCCATTACT
2223796 TTTATT
1 TTTATT
2223802 ATTATCCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 2 0.10
15 9 0.45
16 9 0.45
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTATTTCCATTACT
Found at i:2225540 original size:24 final size:24
Alignment explanation
Indices: 2225513--2225572 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
2225503 GTTATGCTAT
2225513 TTGAAGTTCCAAAATAAGCATCAC
1 TTGAAGTTCCAAAATAAGCATCAC
2225537 TTGAAGTTCCAAAATAAGCATCAC
1 TTGAAGTTCCAAAATAAGCATCAC
2225561 TTGAAGTTCCAA
1 TTGAAGTTCCAA
2225573 GAGTTGTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (24 bp):
TTGAAGTTCCAAAATAAGCATCAC
Found at i:2231740 original size:19 final size:19
Alignment explanation
Indices: 2231716--2231756 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2231706 TCGAATAATG
* *
2231716 AAATCGAATATATAATTTT
1 AAATCGAATATAAAATCTT
2231735 AAATCGAATATAAAATCTT
1 AAATCGAATATAAAATCTT
2231754 AAA
1 AAA
2231757 ATTTATTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.07, G:0.05, T:0.34
Consensus pattern (19 bp):
AAATCGAATATAAAATCTT
Found at i:2232291 original size:131 final size:130
Alignment explanation
Indices: 2232022--2232388 Score: 404
Period size: 131 Copynumber: 2.8 Consensus size: 130
2232012 ATAATTTTAA
* * *
2232022 GAGAGAAAACGATAATAT-ATAATTATTTTCAATTGAGAATAAATGACCTCTCAAGCCTTAGAGC
1 GAGAGAAAACGATAATATCA-AATTA-TTTCAATCGAGAATAAATGACCTCTCATGCCTTAAAGC
* * *
2232086 AGTCA-TTATTACTCCAACTGAAATGAAAAGATATCACTATTTCATCTTAAAATTCAATATTGAT
64 AGTCATTTATTACTCCAACTCAAATGAAAAGATATCACTATTCCATCTTAAAAGTCAATATTGAT
*
2232150 TT
129 TC
* * * *
2232152 GAGTGAAAATGATAATATCAAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTA
1 GAGAGAAAACGATAATATCAAATTATTT-CAATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * * *
2232217 GTCATTTATTACTCCAA-TCAAGATGAAGAGATATGACTGTTCCGTTTTAAAAGTCAATGA-TGA
65 GTCATTTATTACTCCAACTCAA-ATGAAAAGATATCACTATTCCATCTTAAAAGTCAAT-ATTGA
2232280 TTC
128 TTC
* * * * *
2232283 GAGAGAAAACGATAATATCTAATTATTTAATATCAAGAATAAATGACCTTTCATGCCTTAAAACA
1 GAGAGAAAACGATAATATCAAATTATTTCA-ATCGAGAATAAATGACCTCTCATGCCTTAAAGCA
* * *
2232348 ATCATTTATTGCTCCAAC-CGAAATGAATAGATAAT-ACTATT
65 GTCATTTATTACTCCAACTC-AAATGAAAAGAT-ATCACTATT
2232389 TTTAATATCG
Statistics
Matches: 199, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
129 3 0.02
130 60 0.30
131 131 0.66
132 5 0.03
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (130 bp):
GAGAGAAAACGATAATATCAAATTATTTCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAG
TCATTTATTACTCCAACTCAAATGAAAAGATATCACTATTCCATCTTAAAAGTCAATATTGATTC
Found at i:2232818 original size:14 final size:14
Alignment explanation
Indices: 2232778--2232818 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
2232768 TTCAAACACA
2232778 CAAATATCCAAAATC
1 CAAATATCC-AAATC
**
2232793 CAAATAAACAAATC
1 CAAATATCCAAATC
2232807 CAAATATCCAAA
1 CAAATATCCAAA
2232819 ATGTTTTAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 15 0.68
15 7 0.32
ACGTcount: A:0.59, C:0.24, G:0.00, T:0.17
Consensus pattern (14 bp):
CAAATATCCAAATC
Found at i:2234037 original size:12 final size:12
Alignment explanation
Indices: 2234020--2234068 Score: 80
Period size: 12 Copynumber: 4.1 Consensus size: 12
2234010 ATTAGGATTA
2234020 GGAGGTGGGTTT
1 GGAGGTGGGTTT
2234032 GGAGGTGGGTTT
1 GGAGGTGGGTTT
*
2234044 GGAGGTGAGTTT
1 GGAGGTGGGTTT
*
2234056 GGAGGTCGGTTT
1 GGAGGTGGGTTT
2234068 G
1 G
2234069 ATCAACTCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.10, C:0.02, G:0.55, T:0.33
Consensus pattern (12 bp):
GGAGGTGGGTTT
Found at i:2240958 original size:19 final size:19
Alignment explanation
Indices: 2240934--2240973 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2240924 CGAATAATGG
* *
2240934 AATCGAATATATAATTTTA
1 AATCGAATATAAAATCTTA
2240953 AATCGAATATAAAATCTTA
1 AATCGAATATAAAATCTTA
2240972 AA
1 AA
2240974 ATTCAATCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.35
Consensus pattern (19 bp):
AATCGAATATAAAATCTTA
Found at i:2240983 original size:13 final size:13
Alignment explanation
Indices: 2240965--2240991 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2240955 TCGAATATAA
2240965 AATCTTAAAATTC
1 AATCTTAAAATTC
2240978 AATCTTAAAATTC
1 AATCTTAAAATTC
2240991 A
1 A
2240992 TTTACATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
AATCTTAAAATTC
Found at i:2241504 original size:131 final size:131
Alignment explanation
Indices: 2241235--2241601 Score: 427
Period size: 131 Copynumber: 2.8 Consensus size: 131
2241225 ATAATTTTAA
* * *
2241235 GAGAGAATATGATAATATATAATTATTTTCAATCAAGAATAAATGACCTCTCCA-GCCTTAGAGC
1 GAGAGAAAATGATAATATCTAATTATTTTCAATCAAGAATAAATGACCTCT-CATGCCTTAAAGC
* *
2241299 AGTCA-TTATTACTCCAACTGAAATGAAAAGATATCACTATTTCATCTTAAAATTCAATATTGAT
65 AGTCATTTATTACTCCAACTGAAATGAAAAGATATCACTATTCCATCTTAAAAGTCAATATTGAT
*
2241363 TT
130 TC
* * * * *
2241365 GAGTGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGTA
1 GAGAGAAAATGATAATATCTAATTATTTTCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCA
* * * * * *
2241430 GTCATTTATTAATCCAA-TCGAGATGAAGAGATATCACTGTTCCGTTTTAAAAGTCAATGA-TGA
66 GTCATTTATTACTCCAACT-GAAATGAAAAGATATCACTATTCCATCTTAAAAGTCAAT-ATTGA
2241493 TTC
129 TTC
* * * * *
2241496 GAGAGAAAACGATAATATCTAATTATTTTCGATCAAGAATAAATGACCTTTCATACCTTAAAACA
1 GAGAGAAAATGATAATATCTAATTATTTTCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCA
* ** * * *
2241561 TTCATTTATTACTCCAACCAAAACGAATAGATATTACTATT
66 GTCATTTATTACTCCAACTGAAATGAAAAGATATCACTATT
2241602 TTTAATATCG
Statistics
Matches: 196, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
129 2 0.01
130 59 0.30
131 134 0.68
132 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (131 bp):
GAGAGAAAATGATAATATCTAATTATTTTCAATCAAGAATAAATGACCTCTCATGCCTTAAAGCA
GTCATTTATTACTCCAACTGAAATGAAAAGATATCACTATTCCATCTTAAAAGTCAATATTGATT
C
Found at i:2243857 original size:15 final size:16
Alignment explanation
Indices: 2243827--2243859 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2243817 TTAATATATG
2243827 AAATTTATCCATGATAA
1 AAATTTAT-CATGATAA
2243844 AAATTTAT-ATGATAA
1 AAATTTATCATGATAA
2243859 A
1 A
2243860 CATATATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (16 bp):
AAATTTATCATGATAA
Found at i:2244380 original size:42 final size:42
Alignment explanation
Indices: 2244289--2244452 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 42
2244279 CTGTACAACG
* * * * * *
2244289 GTAAGGCTTAACCTGTGCACAAAGCATACGATCCTAGGAAAACT
1 GTAAGGCTTACCCT-TGCACACAGCAAAGGAACCT-GGGAAACT
* * * * *
2244333 ATAAGGTTTACCCTTTCACATAGCAAAGGAACCTGGGAAATT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGAAACT
* *
2244375 GTAAGGCTTACCCTTGCACACAACAAAGGAACCTGAGAAACT
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGAAACT
*
2244417 GTAAGGCTTACCCTTGCACACAGCAAAGGAGCCTGG
1 GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGG
2244453 AATACTTCCT
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 74 0.74
43 15 0.15
44 11 0.11
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (42 bp):
GTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGAAACT
Found at i:2251660 original size:42 final size:42
Alignment explanation
Indices: 2251604--2251725 Score: 210
Period size: 42 Copynumber: 2.9 Consensus size: 42
2251594 GAGCCTAGGA
*
2251604 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGGG
1 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGAG
*
2251646 AAATTGTAAGGCTTACCCTTGCACACAGA-AAAGGAACCTGAG
1 AAACTGTAAGGCTTACCCTTGCACACA-ACAAAGGAACCTGAG
2251688 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
1 AAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
2251726 CGGAATACTT
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
41 1 0.01
42 73 0.97
43 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.17
Consensus pattern (42 bp):
AAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACCTGAG
Found at i:2253938 original size:2 final size:2
Alignment explanation
Indices: 2253931--2253962 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2253921 TTTCTAATGC
2253931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2253963 TAGACATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2254045 original size:26 final size:29
Alignment explanation
Indices: 2253991--2254046 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 29
2253981 TTTCGATTAA
*
2253991 AAATTTATTTTCATCCTCTAAAATTTTAT
1 AAATTTATTCTCATCCTCTAAAATTTTAT
*
2254020 AAATTTA-TCTCAT-CT-TAAATTTTTAT
1 AAATTTATTCTCATCCTCTAAAATTTTAT
2254046 A
1 A
2254047 TGTTCACCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 2 0.08
28 5 0.20
29 7 0.28
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (29 bp):
AAATTTATTCTCATCCTCTAAAATTTTAT
Found at i:2257657 original size:15 final size:15
Alignment explanation
Indices: 2257637--2257667 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2257627 TGGATATTTA
*
2257637 GTTGGGCGGGCGGAT
1 GTTGGGCGGCCGGAT
2257652 GTTGGGCGGCCGGAT
1 GTTGGGCGGCCGGAT
2257667 G
1 G
2257668 CGGGGCGGGT
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:0.06, C:0.16, G:0.58, T:0.19
Consensus pattern (15 bp):
GTTGGGCGGCCGGAT
Found at i:2258939 original size:15 final size:15
Alignment explanation
Indices: 2258902--2258940 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
2258892 GTTTTTCTTA
2258902 ATTAATTTAAGTCAG
1 ATTAATTTAAGTCAG
*
2258917 ATTAAATTTGAGTCAG
1 ATT-AATTTAAGTCAG
2258933 ATTAATTT
1 ATTAATTT
2258941 TTTTCTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.38, C:0.05, G:0.13, T:0.44
Consensus pattern (15 bp):
ATTAATTTAAGTCAG
Found at i:2260812 original size:22 final size:23
Alignment explanation
Indices: 2260781--2260837 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
2260771 CTGTTCATTT
*
2260781 ATTTATTGTTCGCG-ACATGTTC
1 ATTTAATGTTCGCGAACATGTTC
* * *
2260803 GTTTAATGTTTGCGAACATTTTC
1 ATTTAATGTTCGCGAACATGTTC
2260826 ATTTATATGTTC
1 ATTTA-ATGTTC
2260838 ATTTAGCATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 11 0.41
23 11 0.41
24 5 0.19
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.49
Consensus pattern (23 bp):
ATTTAATGTTCGCGAACATGTTC
Found at i:2263371 original size:29 final size:29
Alignment explanation
Indices: 2263329--2263406 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 29
2263319 TAAATTGATA
2263329 TCATTGCTTACATCATTTAAGTAAAGATG
1 TCATTGCTTACATCATTTAAGTAAAGATG
*
2263358 TCATTGCTTACATCATTTAAGTAATGATG
1 TCATTGCTTACATCATTTAAGTAAAGATG
*
2263387 TCATTGCTTATATCAATTTA
1 TCATTGCTTACATC-ATTTA
2263407 GTTAGGTGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 41 0.89
30 5 0.11
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (29 bp):
TCATTGCTTACATCATTTAAGTAAAGATG
Found at i:2268135 original size:29 final size:29
Alignment explanation
Indices: 2268093--2268174 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
2268083 AAACTAAATT
2268093 GATGTCATTGCTTACATCATTTAAGTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
2268122 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
2268151 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
2268175 GTTAGGTGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 46 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:2269502 original size:173 final size:171
Alignment explanation
Indices: 2269209--2269532 Score: 567
Period size: 173 Copynumber: 1.9 Consensus size: 171
2269199 ATTGGTTGAC
*
2269209 GTGAAAATTGTTGGCGTCCACATATGCAGAATACTAACGTTTCTATTAGTCAAAACATTCAATGG
1 GTGAAAATTGTTGGCGTCCACATATGCAGAATACTAACATTTCTATTAGTCAAAACATTCAATGG
* *
2269274 TATATGATGATGCAATTAAATAACTTCAATGGCTATATTATTGTGAAAATATCATAAGGATGAAA
66 TATATGATGATGCAATTAAATAACTTCAAGGGCTATACTATTGTGAAAATATCATAAGGATG-AA
*
2269339 ATGATAAATTGAGTCTACTACAGAAGTAAAAATAACCTTTAA
130 ATGATAAATTAAGTCTACTACAGAAGTAAAAATAACCTTTAA
* *
2269381 GTGATAAATTGTTGGCGTCCACATATGCAGAATACTAACATTTCTATTAGTCAAAGCGTTCAATG
1 GTGA-AAATTGTTGGCGTCCACATATGCAGAATACTAACATTTCTATTAGTCAAAACATTCAATG
*
2269446 GTATATGATGATGCAATTAAATAACTTCAAGGGCTATACTATTGTGAAAATATCATAGGGATGAA
65 GTATATGATGATGCAATTAAATAACTTCAAGGGCTATACTATTGTGAAAATATCATAAGGATGAA
2269511 ATGATAAATTAAGTCTACTACA
130 ATGATAAATTAAGTCTACTACA
2269533 AGGAAAAAAA
Statistics
Matches: 144, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
172 27 0.19
173 117 0.81
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (171 bp):
GTGAAAATTGTTGGCGTCCACATATGCAGAATACTAACATTTCTATTAGTCAAAACATTCAATGG
TATATGATGATGCAATTAAATAACTTCAAGGGCTATACTATTGTGAAAATATCATAAGGATGAAA
TGATAAATTAAGTCTACTACAGAAGTAAAAATAACCTTTAA
Found at i:2273857 original size:114 final size:114
Alignment explanation
Indices: 2273657--2273884 Score: 447
Period size: 114 Copynumber: 2.0 Consensus size: 114
2273647 GATGATCTCT
2273657 GCCTACTACTTCTGTGAATAAAATAACAACAGAAAAGAAAAGGGAAATTGCTTTGTGTTTTGGCT
1 GCCTACTACTTCTGTGAATAAAATAACAACAGAAAAGAAAAGGGAAATTGCTTTGTGTTTTGGCT
2273722 ATGGAGGATAATGGGAGATAGAGAAGATTCCTCTGCTCCCAATTTATAG
66 ATGGAGGATAATGGGAGATAGAGAAGATTCCTCTGCTCCCAATTTATAG
*
2273771 GCCTACTACTTCTGTGAATAAAATAACAACAGAAAAGAAAAGGGATATTGCTTTGTGTTTTGGCT
1 GCCTACTACTTCTGTGAATAAAATAACAACAGAAAAGAAAAGGGAAATTGCTTTGTGTTTTGGCT
2273836 ATGGAGGATAATGGGAGATAGAGAAGATTCCTCTGCTCCCAATTTATAG
66 ATGGAGGATAATGGGAGATAGAGAAGATTCCTCTGCTCCCAATTTATAG
2273885 TCGCTATTTA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (114 bp):
GCCTACTACTTCTGTGAATAAAATAACAACAGAAAAGAAAAGGGAAATTGCTTTGTGTTTTGGCT
ATGGAGGATAATGGGAGATAGAGAAGATTCCTCTGCTCCCAATTTATAG
Found at i:2273898 original size:4 final size:4
Alignment explanation
Indices: 2273889--2273914 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2273879 TTATAGTCGC
2273889 TATT TATT TATT TATT TATT TATT TA
1 TATT TATT TATT TATT TATT TATT TA
2273915 ATTTCAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:2275503 original size:2 final size:2
Alignment explanation
Indices: 2275496--2275524 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2275486 TTCTATAACC
2275496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2275525 GACTTGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2276665 original size:24 final size:24
Alignment explanation
Indices: 2276594--2276667 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
2276584 AAACATAATT
* * *
2276594 CAGGTCAAGTAGCATATCAGAATA
1 CAGGTCAAGTATCATATCAAAATC
*
2276618 CATGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
2276642 CAGGTCAAGTATCATATCAAAATC
1 CAGGTCAAGTATCATATCAAAATC
2276666 CA
1 CA
2276668 AATCGAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAAAATC
Found at i:2276679 original size:24 final size:24
Alignment explanation
Indices: 2276622--2276679 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
2276612 AGAATACATG
* **
2276622 TCAAGTATCATATCAAAATCCAGG
1 TCAAGAATCATATCAAAATCCAAA
*
2276646 TCAAGTATCATATCAAAATCCAAA
1 TCAAGAATCATATCAAAATCCAAA
2276670 TCGAA-AATCA
1 TC-AAGAATCA
2276680 GATAAACTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.24
Consensus pattern (24 bp):
TCAAGAATCATATCAAAATCCAAA
Found at i:2278974 original size:16 final size:17
Alignment explanation
Indices: 2278953--2278984 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2278943 CGAAAAACAT
2278953 AAAA-TTTGACTTTTCA
1 AAAATTTTGACTTTTCA
2278969 AAAATTTTGACTTTTC
1 AAAATTTTGACTTTTC
2278985 TGTCAAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
AAAATTTTGACTTTTCA
Found at i:2279232 original size:30 final size:29
Alignment explanation
Indices: 2279198--2279261 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
2279188 ATACAATTAT
*
2279198 CACCCTAATAGAAATTAATTACAAAACTAA
1 CACCCTAATA-AAAATAATTACAAAACTAA
** * *
2279228 CACCCTTTTAAAAATATTTACGAAACTAA
1 CACCCTAATAAAAATAATTACAAAACTAA
2279257 CACCC
1 CACCC
2279262 GAGTTTTACA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (29 bp):
CACCCTAATAAAAATAATTACAAAACTAA
Found at i:2280054 original size:2 final size:2
Alignment explanation
Indices: 2280049--2280083 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2280039 GATTTTTTTA
2280049 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2280084 AAGTACAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2280660 original size:107 final size:106
Alignment explanation
Indices: 2280419--2280771 Score: 388
Period size: 107 Copynumber: 3.3 Consensus size: 106
2280409 AAACGGTAAG
* * * * * *
2280419 AAAATAATTTAATTACTTATGATGTTATTAATATTATCAACATATGAGGTTGCGCCTAATATGTT
1 AAAATAAGTTAATTACTTATAATGTTATAAATATTATTAACATATTAGGTTGCGCCTAAAATGTT
* * *
2280484 ACAAGAATTTAAGTTGATGGAGCC-TCAGAAATATCACGATAAC
66 ACAA-AGTTT-AGATGATGGGGCCAT-AGAAATATCACGATAAC
* *
2280527 AAAATAGGTTAATTACTTATAGTGTTATAAATATTATTAACATATTAGGTTGCGCCTAAAATGTT
1 AAAATAAGTTAATTACTTATAATGTTATAAATATTATTAACATATTAGGTTGCGCCTAAAATGTT
*
2280592 ATTAAAGTTTAGATGATGGGGCCATAGAAATATCACGATAAC
66 A-CAAAGTTTAGATGATGGGGCCATAGAAATATCACGATAAC
* ** * * ** *
2280634 AAAATAAGATAATTACTTATTTTGTTATAAGTATTATTAACATATTAGGTAGCATCTAAAATAAT
1 AAAATAAGTTAATTACTTATAATGTTATAAATATTATTAACATATTAGGTTGCGCCTAAAAT-GT
* * *
2280699 TACCAAAGTTTA-ATCTGATGAGG-CATTAGACAATCTCATGATAAC
65 TA-CAAAGTTTAGA--TGATGGGGCCA-TAGA-AATATCACGATAAC
2280744 AAAATAAGTTAATTACTTATAATGTTAT
1 AAAATAAGTTAATTACTTATAATGTTAT
2280772 GAGTTCTTAC
Statistics
Matches: 209, Mismatches: 29, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
107 83 0.40
108 76 0.36
109 13 0.06
110 37 0.18
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (106 bp):
AAAATAAGTTAATTACTTATAATGTTATAAATATTATTAACATATTAGGTTGCGCCTAAAATGTT
ACAAAGTTTAGATGATGGGGCCATAGAAATATCACGATAAC
Found at i:2281624 original size:62 final size:63
Alignment explanation
Indices: 2281552--2281682 Score: 149
Period size: 62 Copynumber: 2.1 Consensus size: 63
2281542 ATTGTAAATG
* * * * *
2281552 TATCGATACTTTCA-TAACCAGTATCGATACTTAAGCATTTG-AAAATTTTATGATTGTTTAAA
1 TATCGATACTTACAGT-ACCAGTATCGATACTTAAGCATTTGAAAAAGTATATGAATGTTAAAA
* *** *
2281614 TATCGATACTTAGAGTAGGTGTATCGATACTTTAGCATTTGAAAAAGTATATGAATGTTAAAA
1 TATCGATACTTACAGTACCAGTATCGATACTTAAGCATTTGAAAAAGTATATGAATGTTAAAA
2281677 TATCGA
1 TATCGA
2281683 CTTTTTCTCT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
62 33 0.58
63 24 0.42
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (63 bp):
TATCGATACTTACAGTACCAGTATCGATACTTAAGCATTTGAAAAAGTATATGAATGTTAAAA
Found at i:2282249 original size:56 final size:54
Alignment explanation
Indices: 2282091--2282298 Score: 165
Period size: 56 Copynumber: 3.9 Consensus size: 54
2282081 TTACCATTGG
* ** * *
2282091 TAACTTTACTCCTACTTATAAGGTAATCAATAAAATACAAAACAAGGCGCAATCAG
1 TAACGTTACTCCTACTTATAAGGTAATCGGTAAAA-A-AAAACAAGGCGCAACCAA
* * * * * *
2282147 TAACATTACTCCTACTTAT-A---AACCGGTTAAAAATAACAAGGTGCAACCAT
1 TAACGTTACTCCTACTTATAAGGTAATCGGTAAAAAAAAACAAGGCGCAACCAA
* * *
2282197 TAACGTTACTCTTACTTATAAGGTAATCGGTAAAAGGAAAAACAAGACGCAACTGAA
1 TAACGTTACTCCTACTTATAAGGTAATCGGTAAAA--AAAAACAAGGCGCAAC-CAA
* * * * *
2282254 T-ACGTTACTCCTACATATAAGGTAACCAGTTAAAAATAACAAGGC
1 TAACGTTACTCCTACTTATAAGGTAATCGGTAAAAAAAAACAAGGC
2282299 ATAACCTATA
Statistics
Matches: 120, Mismatches: 25, Indels: 16
0.75 0.16 0.10
Matches are distributed among these distances:
50 31 0.26
51 2 0.02
52 7 0.06
54 18 0.15
55 1 0.01
56 59 0.49
57 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.25
Consensus pattern (54 bp):
TAACGTTACTCCTACTTATAAGGTAATCGGTAAAAAAAAACAAGGCGCAACCAA
Found at i:2282785 original size:23 final size:23
Alignment explanation
Indices: 2282754--2282797 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2282744 TGCCCCATCA
* *
2282754 AAATGGAATCTTTACTGTGTATG
1 AAATAGAATATTTACTGTGTATG
2282777 AAATAGAATATTTACTGTGTA
1 AAATAGAATATTTACTGTGTA
2282798 AGTCACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (23 bp):
AAATAGAATATTTACTGTGTATG
Found at i:2284210 original size:6 final size:6
Alignment explanation
Indices: 2284147--2284213 Score: 53
Period size: 6 Copynumber: 11.2 Consensus size: 6
2284137 ATAGTTGACC
* * * * * * * *
2284147 TCAAAT TCATAT TGAAAT TAAAAA TAAAAT TGAAAT TCACAT TCACAT
1 TCAAAT TCAAAT TCAAAT TCAAAT TCAAAT TCAAAT TCAAAT TCAAAT
*
2284195 TCACAT TCAAAT TCAAAT T
1 TCAAAT TCAAAT TCAAAT T
2284214 TAAGTACTGT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.48, C:0.15, G:0.03, T:0.34
Consensus pattern (6 bp):
TCAAAT
Found at i:2286299 original size:2 final size:2
Alignment explanation
Indices: 2286292--2286342 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
2286282 TAGAATATGG
2286292 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2286334 AT AT AT AT A
1 AT AT AT AT A
2286343 ACCTTCCCCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2286666 original size:18 final size:18
Alignment explanation
Indices: 2286643--2286682 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
2286633 ACATGACCTC
*
2286643 AGAAGATCTTACTTGAGA
1 AGAAGACCTTACTTGAGA
2286661 AGAAGACCTTACTTGAGA
1 AGAAGACCTTACTTGAGA
2286679 AGAA
1 AGAA
2286683 TTGCATCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (18 bp):
AGAAGACCTTACTTGAGA
Found at i:2287172 original size:102 final size:102
Alignment explanation
Indices: 2287065--2287536 Score: 484
Period size: 102 Copynumber: 4.6 Consensus size: 102
2287055 AAATAAGACA
* *** *
2287065 CAACCTATTACGTTAAACTAGTAGTTGGTTTGTTTATAGGTATAATAATAATGTAAACCA-TAAA
1 CAACCTATTACGTTAAACTAGCAACCGGTTTGTTTATAGATATAATAATAATGTAAA-CAGTAAA
**
2287129 ATAATTACAACTTAACCAATTAAAATAAAAATTAGGTA
65 ATAATTACAACTTAACCAATTAAAATAAAAATTAGGCG
** * * *
2287167 CAACCTATTTTGTTAAACTTGCTATCGGTTTGTTTATAGATATAATAATAATAATGTAAACAGTA
1 CAACCTATTACGTTAAACTAGCAACCGGTTTGTTTATAG--AT-ATAATAATAATGTAAACAGTA
* * * *
2287232 AAATATTTATAACTTAA-CAGGTTAAAATAAAATTTAGGCG
63 AAATAATTACAACTTAACCA-ATTAAAATAAAAATTAGGCG
* * ** * * *
2287272 CAACTTATTACGTTAAACTAACAACCAATTTATTTATAGATATAACAATAATGTAAATAGTAAAA
1 CAACCTATTACGTTAAACTAGCAACCGGTTTGTTTATAGATATAATAATAATGTAAACAGTAAAA
* * *
2287337 TATTTACAACTTAACCGATTAAAATAAAATTTAGGCG
66 TAATTACAACTTAACCAATTAAAATAAAAATTAGGCG
* * * * *
2287374 CAACTTATTACGTTAAACTAGCAACTGGTTTGTTTATAGGTATAATAATAATGTAAACGGCAAAA
1 CAACCTATTACGTTAAACTAGCAACCGGTTTGTTTATAGATATAATAATAATGTAAACAGTAAAA
*** *
2287439 TAATTACAACTTAACTGGTTAAAATAAAAACTAGGCG
66 TAATTACAACTTAACCAATTAAAATAAAAATTAGGCG
** * * * * * *
2287476 CAACCTATTATATTAAACTTGCTACCGATTTGTTTATAGGTCT--TAATAATGTAAACGGTAA
1 CAACCTATTACGTTAAACTAGCAACCGGTTTGTTTATAGATATAATAATAATGTAAACAGTAA
2287537 TAGAATTATA
Statistics
Matches: 311, Mismatches: 53, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
100 17 0.05
102 208 0.67
103 3 0.01
104 5 0.02
105 78 0.25
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.34
Consensus pattern (102 bp):
CAACCTATTACGTTAAACTAGCAACCGGTTTGTTTATAGATATAATAATAATGTAAACAGTAAAA
TAATTACAACTTAACCAATTAAAATAAAAATTAGGCG
Found at i:2287425 original size:207 final size:204
Alignment explanation
Indices: 2287097--2287494 Score: 521
Period size: 207 Copynumber: 1.9 Consensus size: 204
2287087 AGTTGGTTTG
* *
2287097 TTTATAGGTATAATAATAATGTAAACCATAAAATAATTACAACTTAACCAATTAAAATAAAAATT
1 TTTATAGATATAACAATAATGTAAACCATAAAATAATTACAACTTAACCAATTAAAATAAAAATT
* ** * *
2287162 AGGTACAACCTATTTTGTTAAACTTGCTATCGGTTTGTTTATAGATATAATAATAATAATGTAAA
66 AGGCACAACCTATTACGTTAAACTAGCAATCGGTTTGTTTATAG--AT-ATAATAATAATGTAAA
* * * ** * *
2287227 CAGTAAAATATTTATAACTTAACAGGTTAAAATAAAATTTAGGCGCAACTTATTACGTTAAACTA
128 CAGCAAAATAATTACAACTTAACAGGTTAAAATAAAAACTAGGCGCAACCTATTACATTAAACTA
2287292 ACAACCAATTTA
193 ACAACCAATTTA
* * * *
2287304 TTTATAGATATAACAATAATGTAAA-TAGTAAAATATTTACAACTTAACCGATTAAAATAAAATT
1 TTTATAGATATAACAATAATGTAAACCA-TAAAATAATTACAACTTAACCAATTAAAATAAAAAT
* * *
2287368 TAGGCGCAACTTATTACGTTAAACTAGCAA-CTGGTTTGTTTATAGGTATAATAATAATGTAAAC
65 TAGGCACAACCTATTACGTTAAACTAGCAATC-GGTTTGTTTATAGATATAATAATAATGTAAAC
* * *
2287432 GGCAAAATAATTACAACTTAACTGGTTAAAATAAAAACTAGGCGCAACCTATTATATTAAACT
129 AGCAAAATAATTACAACTTAACAGGTTAAAATAAAAACTAGGCGCAACCTATTACATTAAACT
2287495 TGCTACCGAT
Statistics
Matches: 165, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
204 70 0.42
205 1 0.01
206 2 0.01
207 92 0.56
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (204 bp):
TTTATAGATATAACAATAATGTAAACCATAAAATAATTACAACTTAACCAATTAAAATAAAAATT
AGGCACAACCTATTACGTTAAACTAGCAATCGGTTTGTTTATAGATATAATAATAATGTAAACAG
CAAAATAATTACAACTTAACAGGTTAAAATAAAAACTAGGCGCAACCTATTACATTAAACTAACA
ACCAATTTA
Found at i:2288450 original size:145 final size:145
Alignment explanation
Indices: 2288167--2288799 Score: 561
Period size: 145 Copynumber: 4.4 Consensus size: 145
2288157 ATTGAATAAC
* * * * * * * * * *
2288167 GTTTCCAAAGTATTAATATCAATACTTACACTATGTGTATTGATACTTTGTTAAGACAA-TTTGT
1 GTTTCAAAATTATAAATATCGATACTTACAATATGTGTATCGATACTTTGTCAGGAAAATTTTCT
* * * * * ** * * *
2288231 TGGAGAGCATATTGTCAAAAAAGTATCGAAACTTTCACAAAAAGTATCGATACTTCAACATTGAA
66 TAGATACCATTTTGTCAAAAAAGTATCGAGACTTTCATTAAAAGTATCAATACTTCAACCTTCAA
*
2288296 TAAATTGCATAT-TGT
131 CAAATTGCAT-TGTGT
* * *
2288311 GTTTCGAAATTATAAACATTGATACTTACAATA-GTTGTATCGATACTTTGTCAGGAAAATTTTC
1 GTTTCAAAATTATAAATATCGATACTTACAATATG-TGTATCGATACTTTGTCAGGAAAATTTTC
* * * * * *
2288375 TTAGATACCATTTTGTGAAAAAAGTATCTATACTTTCATTACAAGTATCGACACTTCAACCTTCA
65 TTAGATACCATTTTGTCAAAAAAGTATCGAGACTTTCATTAAAAGTATCAATACTTCAACCTTCA
2288440 ACAGAA-TGCATTGTGT
130 ACA-AATTGCATTGTGT
* * * * * * *
2288456 GTTTCAAAATTATAAATATCGATGCTTTCACTATGTATATTGATACTTTTTCATGG-TAATTTT-
1 GTTTCAAAATTATAAATATCGATACTTACAATATGTGTATCGATACTTTGTCA-GGAAAATTTTC
* * *
2288519 TTGAGAGAGCATATTT-TCAAAAAAAGTATCGAGACTTTCA-TAAATAGTATCAATA-TGTCTAC
65 TT-AGATACCAT-TTTGTC-AAAAAAGTATCGAGACTTTCATTAAA-AGTATCAATACT-TCAAC
* * *
2288581 CTTGAACAAATTTCATATAT-T
125 CTTCAACAAATTGCAT-TGTGT
* *
2288602 GTTTCAAAAATATAAATATCGATACTTACAATA-GTTGTATCGATACTTTGTCAGGACAATTTTC
1 GTTTCAAAATTATAAATATCGATACTTACAATATG-TGTATCGATACTTTGTCAGGAAAATTTTC
* * ** ** * * * *
2288666 TTAGATATCATTCTACCTCAAAAGTATCAAGACTTTTATGACAAGTATCAATACTTCAACCTTCA
65 TTAGATACCATTTTGTCAAAAAAGTATCGAGACTTTCATTAAAAGTATCAATACTTCAACCTTCA
*
2288731 ACAAAATGCATTGTGT
130 ACAAATTGCATTGTGT
*
2288747 GTTTCAAAATTATAAATATCGATACTTGA-ACTATGTGTATCGATACTTTGTCA
1 GTTTCAAAATTATAAATATCGATACTT-ACAATATGTGTATCGATACTTTGTCA
2288800 TGACATTTTT
Statistics
Matches: 394, Mismatches: 73, Indels: 43
0.77 0.14 0.08
Matches are distributed among these distances:
143 1 0.00
144 51 0.13
145 224 0.57
146 114 0.29
147 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (145 bp):
GTTTCAAAATTATAAATATCGATACTTACAATATGTGTATCGATACTTTGTCAGGAAAATTTTCT
TAGATACCATTTTGTCAAAAAAGTATCGAGACTTTCATTAAAAGTATCAATACTTCAACCTTCAA
CAAATTGCATTGTGT
Found at i:2288630 original size:291 final size:284
Alignment explanation
Indices: 2288167--2289010 Score: 941
Period size: 291 Copynumber: 3.0 Consensus size: 284
2288157 ATTGAATAAC
* * * * * *
2288167 GTTTCCAAAGTATTAATATCAATACTTACACTATGTGTATTGATACTTTGTT-AAGACAATTTGT
1 GTTTCAAAATTATAAATATCGATACTTACACTATGTGTATTGATACTTT-TTCATGACAATTTTT
* * * *
2288231 TG-GAGAGCATATTGTCAAAAAAGTATCGAAACTTTCACAAAAAGTATCGATACTTCAACATTGA
65 TGAGAGAGCATATTTTCAAAAAAGTATCGAGACTTT--CAAAAAGTATC-ATA-TTCTACCTTGA
* * * *
2288295 ATAAATTGCATATTGTGTTTCGAAATTATAAACATTGATACTTACAATAGTTGTATCGATACTTT
126 ACAAATTGCATATT-TGTTTC-AAAATATAAATATCGATACTTACAATAGTTGTATCGATACTTT
* * **** * * * *
2288360 GTCAGGAAAATTTTCTTAGATACCATTTTGTGAAAAAAGTATCTATACTTTCATTACAAGTATCG
189 GTCAGGAAAATTTTCTTAGATATCATTATGCCTCAAAAGTATCAAGACTTTTATTACAAGTATCA
* *
2288425 ACACTTCAACCTTCAACAGAATGCATTGTGT
254 ATACTTCAACCTTCAACAAAATGCATTGTGT
* * * **
2288456 GTTTCAAAATTATAAATATCGATGCTTTCACTATGTATATTGATACTTTTTCATGGTAATTTTTT
1 GTTTCAAAATTATAAATATCGATACTTACACTATGTGTATTGATACTTTTTCATGACAATTTTTT
2288521 GAGAGAGCATATTTTCAAAAAAAGTATCGAGACTTTCATAAATAGTATCAATATGTCTACCTTGA
66 GAGAGAGCATATTTTC-AAAAAAGTATCGAGACTTTCA-AAA-AGTATC-ATAT-TCTACCTTGA
*
2288586 ACAAATTTCATATATTGTTTCAAAAATATAAATATCGATACTTACAATAGTTGTATCGATACTTT
126 ACAAATTGCATAT-TTGTTTC-AAAATATAAATATCGATACTTACAATAGTTGTATCGATACTTT
* * * *
2288651 GTCAGGACAATTTTCTTAGATATCATTCTACCTCAAAAGTATCAAGACTTTTATGACAAGTATCA
189 GTCAGGAAAATTTTCTTAGATATCATTATGCCTCAAAAGTATCAAGACTTTTATTACAAGTATCA
2288716 ATACTTCAACCTTCAACAAAATGCATTGTGT
254 ATACTTCAACCTTCAACAAAATGCATTGTGT
* * *
2288747 GTTTCAAAATTATAAATATCGATACTTGA-ACTATGTGTATCGATACTTTGTCATGACATTTTTT
1 GTTTCAAAATTATAAATATCGATACTT-ACACTATGTGTATTGATACTTTTTCATGACA-ATTTT
* * * * *
2288811 TTGAGAGAGTACACTGTT-GAAAACGTATCGAGACTTTC----A-TA-C--A-TCTACCTTGAAC
64 TTGAGAGAGCATA-TTTTCAAAAAAGTATCGAGACTTTCAAAAAGTATCATATTCTACCTTGAAC
*
2288866 AAATTGCATATTTTGTTTC-AAA-A-AAATA-CTGATAGTTACAATAGTTGTATCGATACTTTGT
128 AAATTGCATA-TTTGTTTCAAAATATAAATATC-GATACTTACAATAGTTGTATCGATACTTTGT
* * * *
2288927 TA-GAATAATTTTCTTAGATATCATTATGCCTCAGAAGTATCGAGACTTTTATTACAAGTATTAA
191 CAGGAA-AATTTTCTTAGATATCATTATGCCTCAAAAGTATCAAGACTTTTATTACAAGTATCAA
2288991 TACTTCAACCTTCAACAAAA
255 TACTTCAACCTTCAACAAAA
2289011 ACATTTGTTG
Statistics
Matches: 482, Mismatches: 60, Indels: 41
0.83 0.10 0.07
Matches are distributed among these distances:
273 3 0.01
274 108 0.22
275 1 0.00
276 3 0.01
278 28 0.06
279 1 0.00
280 1 0.00
283 1 0.00
284 2 0.00
285 1 0.00
288 2 0.00
289 54 0.11
290 17 0.04
291 241 0.50
292 16 0.03
293 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (284 bp):
GTTTCAAAATTATAAATATCGATACTTACACTATGTGTATTGATACTTTTTCATGACAATTTTTT
GAGAGAGCATATTTTCAAAAAAGTATCGAGACTTTCAAAAAGTATCATATTCTACCTTGAACAAA
TTGCATATTTGTTTCAAAATATAAATATCGATACTTACAATAGTTGTATCGATACTTTGTCAGGA
AAATTTTCTTAGATATCATTATGCCTCAAAAGTATCAAGACTTTTATTACAAGTATCAATACTTC
AACCTTCAACAAAATGCATTGTGT
Found at i:2302259 original size:34 final size:34
Alignment explanation
Indices: 2302216--2302283 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
2302206 TAGATGCATG
2302216 ACGTGATACATGACCTCGTCCGCCAAGCATAATC
1 ACGTGATACATGACCTCGTCCGCCAAGCATAATC
2302250 ACGTGATACATGACCTCGTCCGCCAAGCATAATC
1 ACGTGATACATGACCTCGTCCGCCAAGCATAATC
2302284 GTATGGTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (34 bp):
ACGTGATACATGACCTCGTCCGCCAAGCATAATC
Found at i:2306433 original size:3 final size:3
Alignment explanation
Indices: 2306425--2306472 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
2306415 ATATTCGAAC
2306425 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2306473 GTTTCCCTCG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2307935 original size:102 final size:102
Alignment explanation
Indices: 2307809--2308012 Score: 408
Period size: 102 Copynumber: 2.0 Consensus size: 102
2307799 TTTTAATTTT
2307809 GACATAATTAAATAGGTTAAATAGAACCTCCCTTTAGTTAGATTTCAATATAATCCTCTTAATTT
1 GACATAATTAAATAGGTTAAATAGAACCTCCCTTTAGTTAGATTTCAATATAATCCTCTTAATTT
2307874 AGAGAATAATCCGAGTCGGCCTTCGCGTAAATGCTCG
66 AGAGAATAATCCGAGTCGGCCTTCGCGTAAATGCTCG
2307911 GACATAATTAAATAGGTTAAATAGAACCTCCCTTTAGTTAGATTTCAATATAATCCTCTTAATTT
1 GACATAATTAAATAGGTTAAATAGAACCTCCCTTTAGTTAGATTTCAATATAATCCTCTTAATTT
2307976 AGAGAATAATCCGAGTCGGCCTTCGCGTAAATGCTCG
66 AGAGAATAATCCGAGTCGGCCTTCGCGTAAATGCTCG
2308013 AGGGACATCT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (102 bp):
GACATAATTAAATAGGTTAAATAGAACCTCCCTTTAGTTAGATTTCAATATAATCCTCTTAATTT
AGAGAATAATCCGAGTCGGCCTTCGCGTAAATGCTCG
Found at i:2311210 original size:107 final size:107
Alignment explanation
Indices: 2311099--2311313 Score: 430
Period size: 107 Copynumber: 2.0 Consensus size: 107
2311089 GAAAAACTTT
2311099 TGAAAAATATGGTTTTGAGAAACAATATATATATAGTTTTCATAACAACAACATAATTTAATCAA
1 TGAAAAATATGGTTTTGAGAAACAATATATATATAGTTTTCATAACAACAACATAATTTAATCAA
2311164 AACACGATAATTTGAAAATTAACATTTTTTTAAAATCGAAAA
66 AACACGATAATTTGAAAATTAACATTTTTTTAAAATCGAAAA
2311206 TGAAAAATATGGTTTTGAGAAACAATATATATATAGTTTTCATAACAACAACATAATTTAATCAA
1 TGAAAAATATGGTTTTGAGAAACAATATATATATAGTTTTCATAACAACAACATAATTTAATCAA
2311271 AACACGATAATTTGAAAATTAACATTTTTTTAAAATCGAAAA
66 AACACGATAATTTGAAAATTAACATTTTTTTAAAATCGAAAA
2311313 T
1 T
2311314 TTTAAAAAAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.34
Consensus pattern (107 bp):
TGAAAAATATGGTTTTGAGAAACAATATATATATAGTTTTCATAACAACAACATAATTTAATCAA
AACACGATAATTTGAAAATTAACATTTTTTTAAAATCGAAAA
Found at i:2311535 original size:20 final size:20
Alignment explanation
Indices: 2311498--2311536 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2311488 AGATTGAGTG
* * *
2311498 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
2311518 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
2311537 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:2311752 original size:22 final size:23
Alignment explanation
Indices: 2311713--2311760 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
2311703 TTCCCCTGTG
**
2311713 GGGGGAATGGGTTCCCCTTCAA-A
1 GGGGGAATCAGTTCCCC-TCAAGA
2311736 GGGGGAATCAGTT-CCCTCAAGA
1 GGGGGAATCAGTTCCCCTCAAGA
2311758 GGG
1 GGG
2311761 ATCGATTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 4 0.18
22 7 0.32
23 11 0.50
ACGTcount: A:0.23, C:0.21, G:0.38, T:0.19
Consensus pattern (23 bp):
GGGGGAATCAGTTCCCCTCAAGA
Found at i:2315309 original size:20 final size:21
Alignment explanation
Indices: 2315265--2315309 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2315255 GTTTGTTTTC
* *
2315265 ATTTTTAAATTTTGAAACATC
1 ATTTTTAAATTTTGAAAAATA
*
2315286 ATTTTTATATTTT-AAAAATA
1 ATTTTTAAATTTTGAAAAATA
2315306 ATTT
1 ATTT
2315310 CTCATAATCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTTTTAAATTTTGAAAAATA
Found at i:2319448 original size:21 final size:21
Alignment explanation
Indices: 2319424--2319463 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2319414 TGCATCTTAT
2319424 CATTAGCAT-ATATACATTGTA
1 CATTA-CATGATATACATTGTA
*
2319445 CATTACATGGTATACATTG
1 CATTACATGATATACATTG
2319464 CATCTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (21 bp):
CATTACATGATATACATTGTA
Found at i:2321822 original size:110 final size:110
Alignment explanation
Indices: 2321626--2321828 Score: 291
Period size: 110 Copynumber: 1.8 Consensus size: 110
2321616 AATTAAAAAA
* * * *
2321626 AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGGTTATTTTCAATGAATTTTCAAAAGAAACT
1 AGAAACTAAGCATGATTTTCAGGGGTTTCTTGATGATTATTTCCAAAGAATTTTCAAAAGAAACT
* *
2321691 AAGCCTAATTTTTGGGAGTTTCTTGATGTTTTCAAATGAGTTTTT
66 AAGCCTAATTTTTAGGAGTTTCTAGATGTTTTCAAATGAGTTTTT
* *** *
2321736 AGAAACTAAGCATGATTTTTAGGGGTTTCTTGATGATTATTTCCAAAGAATTTTTTTAAGAAGCT
1 AGAAACTAAGCATGATTTTCAGGGGTTTCTTGATGATTATTTCCAAAGAATTTTCAAAAGAAACT
2321801 AAGCCTAATTTTTAAGG-GTTTCTAGATG
66 AAGCCTAATTTTT-AGGAGTTTCTAGATG
2321829 ATAAATGAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
110 79 0.98
111 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (110 bp):
AGAAACTAAGCATGATTTTCAGGGGTTTCTTGATGATTATTTCCAAAGAATTTTCAAAAGAAACT
AAGCCTAATTTTTAGGAGTTTCTAGATGTTTTCAAATGAGTTTTT
Found at i:2321829 original size:58 final size:57
Alignment explanation
Indices: 2321625--2321830 Score: 210
Period size: 58 Copynumber: 3.7 Consensus size: 57
2321615 AAATTAAAAA
* * * * ***
2321625 AAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGGTTATTTTCAATGAATTTTCAA
1 AAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATTA-TTTCAAAGAATTTTTTT
*
2321683 AAGAAACTAAGCCTAATTTTT-GGGAGTTTCTTGATG--T-TTTCAAATG-A-GTTTTT
1 AAGAAACTAAGCCTAATTTTTAGGG-GTTTCTTGATGATTATTTCAAA-GAATTTTTTT
* *
2321736 -AGAAACTAAGCATGATTTTTAGGGGTTTCTTGATGATTATTTCCAAAGAATTTTTTT
1 AAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATTT-CAAAGAATTTTTTT
* * *
2321793 AAGAAGCTAAGCCTAATTTTTAAGGGTTTCTAGATGAT
1 AAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGAT
2321831 AAATGAAAAC
Statistics
Matches: 123, Mismatches: 15, Indels: 20
0.78 0.09 0.13
Matches are distributed among these distances:
52 29 0.24
53 5 0.04
54 8 0.07
55 5 0.04
56 6 0.05
57 8 0.07
58 62 0.50
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (57 bp):
AAGAAACTAAGCCTAATTTTTAGGGGTTTCTTGATGATTATTTCAAAGAATTTTTTT
Found at i:2322122 original size:39 final size:39
Alignment explanation
Indices: 2322079--2322288 Score: 176
Period size: 39 Copynumber: 5.4 Consensus size: 39
2322069 AGGGATCAAC
* * *
2322079 ATCTCG-TTCGAGATAATTTCACTCGAAATAGAAGATTTT
1 ATCTCGCTT-GAGATAGTTTCACTCGAAACAAAAGATTTT
* * * * * * *
2322118 ATCTCACTTGAGAGAGTTTCACTCAAAATAGAATACTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTT
* * *
2322157 ATAAT-GCTTGAGATAGTTTCGCTCGAAGCAAAAGATTTTT
1 AT-CTCGCTTGAGATAGTTTCACTCGAAACAAAAGA-TTTT
* *
2322197 ATCTCGCTTGAGATGGTTTCACTC-AAAAAAACAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAA-AGA-TTTT
* * *
2322237 ATCTCGCTTGAGATAATTTGACTCGAAACATAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTT
*
2322275 ATCTCACTTGAGAT
1 ATCTCGCTTGAGAT
2322289 TATTTTATTA
Statistics
Matches: 138, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
38 16 0.12
39 60 0.43
40 57 0.41
41 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTT
Found at i:2322441 original size:59 final size:60
Alignment explanation
Indices: 2322307--2322450 Score: 154
Period size: 59 Copynumber: 2.5 Consensus size: 60
2322297 TAAAAGGAAT
* * *
2322307 AACGCCTCACTTGA-GGGATCAACATTTCATTTGCTCGATTCATAACATTTCGAATCAGC
1 AACGCCTCACATGAGGGGATCAACATTTCATTTGCTCGATTCACAACACTTCGAATCAGC
* * * *
2322366 AACGCCCCACCA-GAGGGGAT-GACATTTC-TTGTGCTCGATTTACAACACTTCGAATCATC
1 AACGCCTCA-CATGAGGGGATCAACATTTCATT-TGCTCGATTCACAACACTTCGAATCAGC
* *
2322425 CACGCCTCACATGA-GGGACCAACATT
1 AACGCCTCACATGAGGGGATCAACATT
2322451 CCTAGTAGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
58 8 0.12
59 55 0.80
60 6 0.09
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (60 bp):
AACGCCTCACATGAGGGGATCAACATTTCATTTGCTCGATTCACAACACTTCGAATCAGC
Found at i:2323831 original size:22 final size:21
Alignment explanation
Indices: 2323785--2323855 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 21
2323775 TGCAAAAATG
*
2323785 GTATCGATACCGTA--ATAGA
1 GTATCGATACCATAGTATAGA
*
2323804 GTATCGGTACCATAGTATAGTA
1 GTATCGATACCATAGTATAG-A
* *
2323826 GTATCGATACCATAGTA-GGG
1 GTATCGATACCATAGTATAGA
2323846 GTATCGATAC
1 GTATCGATAC
2323856 TAAAGAGCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.27
20 10 0.23
21 5 0.11
22 17 0.39
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (21 bp):
GTATCGATACCATAGTATAGA
Found at i:2324272 original size:19 final size:20
Alignment explanation
Indices: 2324248--2324289 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
2324238 ACTTTATGTG
2324248 TAAACTTAAGAAATTCAT-C
1 TAAACTTAAGAAATTCATAC
2324267 TAAACTTAAGAAATTCATAC
1 TAAACTTAAGAAATTCATAC
2324287 TAA
1 TAA
2324290 GTGGATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (20 bp):
TAAACTTAAGAAATTCATAC
Found at i:2324283 original size:74 final size:74
Alignment explanation
Indices: 2324194--2324336 Score: 286
Period size: 74 Copynumber: 1.9 Consensus size: 74
2324184 AAGTGTGCAA
2324194 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
2324259 AATTCATCT
66 AATTCATCT
2324268 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
2324333 AATT
66 AATT
2324337 AATACTAAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.35
Consensus pattern (74 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTGTAAACTTAAGA
AATTCATCT
Found at i:2324356 original size:55 final size:55
Alignment explanation
Indices: 2324267--2324561 Score: 355
Period size: 55 Copynumber: 5.3 Consensus size: 55
2324257 GAAATTCATC
*
2324267 TAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTTTATGTG
1 TAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGACACTTTATGTG
* * * * *
2324322 TAAACTTAAGAAATTAATACTAAGTGGATTAATTT-TAGTATGGGCAATTTATATG
1 TAAACTTAAGAAATTCATACTAAGTGGATGAATTTCT-GTATGGACACTTTATGTG
2324377 TAAACTTAAGAAATTCATACTAAGTGGATGAATTT-TCGTATGGACACTTTATGTG
1 TAAACTTAAGAAATTCATACTAAGTGGATGAATTTCT-GTATGGACACTTTATGTG
* * * * *
2324432 TAAACTTAAGAAATTCTTACTAAGTGGATGAATTACCGTACGGACACTTTGTGTG
1 TAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGACACTTTATGTG
* * * * * *
2324487 TAAACTTAAGGAATTCATATTAAGTGGATAAAAATACT-TCATGGCCACTTTATGTG
1 TAAACTTAAGAAATTCATACTAAGTGGAT-GAATTTCTGT-ATGGACACTTTATGTG
*
2324543 TAAAAC-TAGGAAATTCATA
1 T-AAACTTAAGAAATTCATA
2324562 TTAAATGTAT
Statistics
Matches: 209, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
54 1 0.00
55 174 0.83
56 30 0.14
57 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
TAAACTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGACACTTTATGTG
Found at i:2334838 original size:23 final size:23
Alignment explanation
Indices: 2334807--2334852 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
2334797 CGATTCCCCT
2334807 AGGGCGAATCGGTTCCCCTTCAA
1 AGGGCGAATCGGTTCCCCTTCAA
*
2334830 AGGGGGAATCGGTTCCCCTTCAA
1 AGGGCGAATCGGTTCCCCTTCAA
2334853 GTGGGTATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (23 bp):
AGGGCGAATCGGTTCCCCTTCAA
Found at i:2334867 original size:22 final size:21
Alignment explanation
Indices: 2334795--2334868 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 21
2334785 CCCAAAGGGT
2334795 ATCGATTCCCC-T--AGGGCGA
1 ATCGATTCCCCTTCAAGGG-GA
*
2334814 ATCGGTTCCCCTTCAAAGGGGGA
1 ATCGATTCCCCTTC-AA-GGGGA
* *
2334837 ATCGGTTCCCCTTCAAGTGGGT
1 ATCGATTCCCCTTCAAG-GGGA
2334859 ATCGATTCCC
1 ATCGATTCCC
2334869 TCTGCCCTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
19 10 0.22
20 1 0.02
21 1 0.02
22 14 0.30
23 17 0.37
24 3 0.07
ACGTcount: A:0.19, C:0.30, G:0.26, T:0.26
Consensus pattern (21 bp):
ATCGATTCCCCTTCAAGGGGA
Found at i:2341658 original size:21 final size:20
Alignment explanation
Indices: 2341632--2341671 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2341622 ACAGTTGAGT
2341632 AGTATCAATACTGATGCAAGA
1 AGTATCAATACTGA-GCAAGA
* *
2341653 AGTATCGATATTGAGCAAG
1 AGTATCAATACTGAGCAAG
2341672 GGATATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (20 bp):
AGTATCAATACTGAGCAAGA
Found at i:2341808 original size:15 final size:15
Alignment explanation
Indices: 2341788--2341816 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2341778 CCATGGTAGG
2341788 GGTATCGATACTAAT
1 GGTATCGATACTAAT
2341803 GGTATCGATACTAA
1 GGTATCGATACTAA
2341817 GGAGCCAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (15 bp):
GGTATCGATACTAAT
Found at i:2342222 original size:55 final size:54
Alignment explanation
Indices: 2342152--2342466 Score: 427
Period size: 55 Copynumber: 5.7 Consensus size: 54
2342142 AAGTGTGTAA
*
2342152 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATAGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTAT-GGCACTTTATGTGT
2342207 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTAT-GGCACTTTATGTGT
*
2342262 AAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTAT-GGCACTTTATGTGT
* *
2342317 AAACTTAAGAAATTCATACTAGGTGGATGAATTTTCGTATGAGCACTTTGTGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATG-GCACTTTATGTGT
* * * * **
2342372 AAACTTAAGGAATTTATATTAAGTGGATGAATTTAT-GTATGACAAAATTATGTGT
1 AAACTTAAGAAATTCATACTAAGTGGATGAATTT-TCGTATGGC-ACTTTATGTGT
* * * *
2342427 AAAAC-TAGGAAATTCATATTAAGTGTATAAATTTTCGTAT
1 -AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTAT
2342467 TTATAGTGGG
Statistics
Matches: 236, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
54 3 0.01
55 228 0.97
56 5 0.02
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (54 bp):
AAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGCACTTTATGTGT
Found at i:2344845 original size:3 final size:3
Alignment explanation
Indices: 2344837--2344862 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2344827 AGGTTCTAAT
2344837 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2344863 TATATTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2360950 original size:54 final size:54
Alignment explanation
Indices: 2360705--2361313 Score: 474
Period size: 54 Copynumber: 11.2 Consensus size: 54
2360695 TTTATTAAGA
* * * * *
2360705 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTCCGT-AGGT
1 TGCACACTTAGTGCCGAAACGGTTA-TTCATCAACTAATGATGAATTCCGTGA-AT
* * * * * *
2360759 TGCACACATCGTGCCTATATGGTTATTCATCAACTAATGATGAATTCCGTGGATT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACTAATGATGAATTCCGT-GAAT
* * * *
2360814 TGCACA-TATAGTGCCTG-TACGGTTATTCATCAACTCATGATGAATTTCGTGGATT
1 TGCACACT-TAGTGCC-GAAACGGTTATTCATCAACTAATGATGAATTCCGT-GAAT
***
2360869 TGCACACTTAGTGCCGAAACGGTTATTCATCAACTAATGATGAATTTTATGAAT
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACTAATGATGAATTCCGTGAAT
* * * * *
2360923 TGCACA-TATAGTGCCAAAACAGTTATTCATCTAC-ATATGATGAATTCTGTGAAA
1 TGCACACT-TAGTGCCGAAACGGTTATTCATCAACTA-ATGATGAATTCCGTGAAT
* * * * *
2360977 TGCACACTTAGTGTCGAAATGGTTATTCATCCAC-ATAGGATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACTA-ATGATGAATTCCGTGAAT
* * * *
2361031 TGCACACTTAGTGCCGAAACGGTTATTCATCCAC-ATAGGATGAAGTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACTA-ATGATGAATTCCGTGAAT
* * * *
2361085 TGCACACTTAGTGCCGAAATGGTTATTCATCCACGT-A-GAATGAATTCCATGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAAC-TAATG-ATGAATTCCGTGAAT
* * * * * *
2361139 TGTACACTTAGTGTCGAAATGGTTATTCATCCAC-ATAGGATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACTA-ATGATGAATTCCGTGAAT
* * * * *
2361193 TGCACACTGATTACCGAAACGGTTATTCATCTAC--ATAGAATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACTAAT-G-ATGAATTCCGTGAAT
* * * * *
2361247 TACACACTTAGTGCCAAAATGGTTATTCATCGAC--ATAGAATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCAACTAAT-G-ATGAATTCCGTGAAT
* *
2361301 TGTACATTTAGTG
1 TGCACACTTAGTG
2361314 TCTATTTGGT
Statistics
Matches: 481, Mismatches: 56, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
52 1 0.00
53 4 0.01
54 380 0.79
55 94 0.20
56 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCAACTAATGATGAATTCCGTGAAT
Found at i:2361021 original size:108 final size:108
Alignment explanation
Indices: 2360832--2361313 Score: 567
Period size: 108 Copynumber: 4.5 Consensus size: 108
2360822 TAGTGCCTGT
* * * **
2360832 ACGGTTATTCATCAAC-TCATGATGAATTTCGTGGATTTGCACACTTAGTGCCGAAACGGTTATT
1 ACGGTTATTCATCCACAT-AGGATGAATTCCGT-GAAATGCACACTTAGTGCCGAAACGGTTATT
* ** *
2360896 CATCAAC-TA-ATGATGAATTTTATGAATTGCACA-TATAGTGCCAAA
64 CATCCACATAGA--ATGAATTCCATGAAATGCACACT-TAGTGCCAAA
* * * * * *
2360941 ACAGTTATTCATCTACATATGATGAATTCTGTGAAATGCACACTTAGTGTCGAAATGGTTATTCA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCA
* * *
2361006 TCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAA
66 TCCACATAGAATGAATTCCATGAAATGCACACTTAGTGCCAAA
* *
2361049 ACGGTTATTCATCCACATAGGATGAAGTCCGTGAAATGCACACTTAGTGCCGAAATGGTTATTCA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCA
* * * *
2361114 TCCACGTAGAATGAATTCCATGAAATGTACACTTAGTGTCGAA
66 TCCACATAGAATGAATTCCATGAAATGCACACTTAGTGCCAAA
* * * *
2361157 ATGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTGATTACCGAAACGGTTATTCA
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCA
* * *
2361222 TCTACATAGAATGAATTCCGTGAAATACACACTTAGTGCCAAA
66 TCCACATAGAATGAATTCCATGAAATGCACACTTAGTGCCAAA
* * * * *
2361265 ATGGTTATTCATCGACATAGAATGAATTCCGTGAAATGTACATTTAGTG
1 ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTG
2361314 TCTATTTGGT
Statistics
Matches: 323, Mismatches: 46, Indels: 9
0.85 0.12 0.02
Matches are distributed among these distances:
108 293 0.91
109 29 0.09
110 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (108 bp):
ACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCA
TCCACATAGAATGAATTCCATGAAATGCACACTTAGTGCCAAA
Found at i:2361099 original size:162 final size:162
Alignment explanation
Indices: 2360834--2361315 Score: 639
Period size: 162 Copynumber: 3.0 Consensus size: 162
2360824 GTGCCTGTAC
* * * **
2360834 GGTTATTCATCAAC-TCATGATGAATTTCGTGGATTTGCACACTTAGTGCCGAAACGGTTATTCA
1 GGTTATTCATCCACAT-AGGATGAATTCCGT-GAAATGCACACTTAGTGCCGAAACGGTTATTCA
* *** * ** *
2360898 TCAAC-TAATGATGAATTTTATGAATTGCACA-TATAGTGCCAAAACAGTTATTCATCTACATAT
64 TCAACAT-AGGATGAATTCCGTGAAATGCACACT-TAGTGCCAAAATGGTTATTCATCCACATA-
* *
2360961 G-ATGAATTCTGTGAAATGCACACTTAGTGTCGAAAT
126 GAATGAATTCCGTGAAATGTACACTTAGTGTCGAAAT
2360997 GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATC
1 GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATC
* * * *
2361062 CACATAGGATGAAGTCCGTGAAATGCACACTTAGTGCCGAAATGGTTATTCATCCACGTAGAATG
66 AACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTTATTCATCCACATAGAATG
*
2361127 AATTCCATGAAATGTACACTTAGTGTCGAAAT
131 AATTCCGTGAAATGTACACTTAGTGTCGAAAT
* * *
2361159 GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTGATTACCGAAACGGTTATTCATC
1 GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATC
* * * *
2361224 TACATAGAATGAATTCCGTGAAATACACACTTAGTGCCAAAATGGTTATTCATCGACATAGAATG
66 AACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTTATTCATCCACATAGAATG
*
2361289 AATTCCGTGAAATGTACATTTAGTGTC
131 AATTCCGTGAAATGTACACTTAGTGTC
2361316 TATTTGGTAA
Statistics
Matches: 283, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
161 1 0.00
162 254 0.90
163 27 0.10
164 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (162 bp):
GGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTATTCATC
AACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCAAAATGGTTATTCATCCACATAGAATG
AATTCCGTGAAATGTACACTTAGTGTCGAAAT
Found at i:2361776 original size:20 final size:20
Alignment explanation
Indices: 2361751--2361800 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2361741 TGTTTCAAAT
*
2361751 GGTATCGATAC-CTTCCCTTC
1 GGTATCGATACTC-GCCCTTC
2361771 GGTATCGATACTCGCCCTTC
1 GGTATCGATACTCGCCCTTC
2361791 GGTATCGATA
1 GGTATCGATA
2361801 TTGATTGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.18, C:0.30, G:0.20, T:0.32
Consensus pattern (20 bp):
GGTATCGATACTCGCCCTTC
Found at i:2366605 original size:81 final size:81
Alignment explanation
Indices: 2366463--2366630 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 81
2366453 AGCATTTAGA
* ** ** *
2366463 CTTTTACCCAAAGGCATATAGCCTTTCATCTAACTTTCATGATTACCACCTTCCTGTCAAATGCA
1 CTTTTACCCAAAGGCATATAACCTTTCATCTAACTGGCAAAATTAACACCTTCCTGTCAAATGCA
*
2366528 AATG-TAGGCCATTAAT
66 AA-GCTAGACCATTAAT
* * *
2366544 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCAAAATTAACACTCTT-CT-TCCAAATG
1 CTTTTACCCAAAGGCATATAACCTTTCATCTAACTGGCAAAATTAACAC-CTTCCTGT-CAAATG
*
2366607 CACAGCTAGACCATTAAT
64 CAAAGCTAGACCATTAAT
2366625 CTTTTA
1 CTTTTA
2366631 TTTTGGACTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
80 2 0.03
81 68 0.93
82 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.35
Consensus pattern (81 bp):
CTTTTACCCAAAGGCATATAACCTTTCATCTAACTGGCAAAATTAACACCTTCCTGTCAAATGCA
AAGCTAGACCATTAAT
Found at i:2366844 original size:54 final size:55
Alignment explanation
Indices: 2366769--2366983 Score: 213
Period size: 55 Copynumber: 3.9 Consensus size: 55
2366759 TTTATTAAGA
* * *
2366769 TGCACACGTAGTGCCTATATGG-TAGTTCATCAACTCATCATGAA-TTCTGTGG-GT
1 TGCACACATAGTGCCTGTATGGTTA-TTCATCAACTCATGATGAATTTC-GTGGAGT
* * * * *
2366823 TGCACACATCGTGCTTGTATGGTTATTCATCAACTAAAGATGAATTTCGTGGATT
1 TGCACACATAGTGCCTGTATGGTTATTCATCAACTCATGATGAATTTCGTGGAGT
* * * * *
2366878 TTCATACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTTCATGGACT
1 TGCACACATAGTGCCTGTATGGTTATTCATCAACTCATGATGAATTTCGTGGAGT
* * * * *
2366933 TACACACTTAGTG-CTGACACGGTTATTCATCAACTAATGATGAATTTCGTG
1 TGCACACATAGTGCCTG-TATGGTTATTCATCAACTCATGATGAATTTCGTG
2366984 AATTGCTCAC
Statistics
Matches: 134, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
54 41 0.31
55 93 0.69
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTATGGTTATTCATCAACTCATGATGAATTTCGTGGAGT
Found at i:2367029 original size:54 final size:54
Alignment explanation
Indices: 2366935--2367538 Score: 653
Period size: 54 Copynumber: 11.2 Consensus size: 54
2366925 CATGGACTTA
* * * * *
2366935 CACACTTAGTGCTGACACGGTTATTCATCAAC-TAATGATGAATTTCGTGAATTG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACAT-AGGATGAATTTCGTGAAATG
* * * *
2366989 CTCACTTAGTGTCGAAACAGTTATTCATCCACATAGGATGAA-TTCTGTGAAATA
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTC-GTGAAATG
* * * *
2367043 CACACTTAGTGCCAAAACGATTATTCATCCACATAGGA-GAAATTCCGTAAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATG-AATTTCGTGAAATG
* * * * *
2367097 CTCACTTAGTGCTGAAACGGTTATTTATCTACATAGGATGAGTTTCGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATG
* * * * *
2367151 CACACTTAGTGTCGAAATGGTTATTGATCCACGTAGAATGAA-TTCGGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTC-GTGAAATG
* * * * *
2367205 CACACGTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTCCGTAAAATA
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATG
* * * *
2367259 CACACATAGTACCGAAACGGTTATTCATCTACATAGGATGAATTCCGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATG
* * *
2367313 CACACTTAGTGCCAAAATGGTTATTCATCCACATAGAATGAA-TTCGGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTC-GTGAAATG
* * ** * *
2367367 AACACTTAGTGTCGAAATTGTTATTCATCCACATTGGATGAATTGT-GTGAATTG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATT-TCGTGAAATG
** * * *
2367421 CACACTTAGTGCTAAAACGATTATTCATCCATATAGGATGAATTCCGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATG
* ** * *
2367475 CACACTTAGTGCCAAAACAATTATTCATCCACATAGAATGAATTTTGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATG
2367529 CACACTTAGT
1 CACACTTAGT
2367539 ACCTATTTGG
Statistics
Matches: 457, Mismatches: 82, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
53 9 0.02
54 440 0.96
55 7 0.02
56 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (54 bp):
CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATG
Found at i:2367145 original size:162 final size:161
Alignment explanation
Indices: 2366935--2367538 Score: 737
Period size: 162 Copynumber: 3.7 Consensus size: 161
2366925 CATGGACTTA
* * * * * *
2366935 CACACTTAGTGCTGACACGGTTATTCATCAAC-TAATGATGAATTTCGTGAATTGCTCACTTAGT
1 CACACTTAGTGCTGAAACGGTTATTCATCTACAT-AGGATGAATTCCGTGAAATGCACACTTAGT
* * * *
2366999 GTCGAAACAGTTATTCATCCACATAGGATGAATTCTGTGAAATACACACTTAGTGCCAAAACGAT
65 GCCAAAACAGTTATTCATCCACATAGAATGAATTCGGTGAAATACACACTTAGTGCCAAAACG-T
2367064 TATTCATCCACATAGGA-GAAATTCCGTAAAATG
129 TATTCATCCACATAGGATG-AATTCCGTAAAATG
* * * *
2367097 CTCACTTAGTGCTGAAACGGTTATTTATCTACATAGGATGAGTTTCGTGAAATGCACACTTAGTG
1 CACACTTAGTGCTGAAACGGTTATTCATCTACATAGGATGAATTCCGTGAAATGCACACTTAGTG
* * ** * * * *
2367162 TCGAAATGGTTATTGATCCACGTAGAATGAATTCGGTGAAATGCACACGTAGTGCCAAAACGGTT
66 CCAAAACAGTTATTCATCCACATAGAATGAATTCGGTGAAATACACACTTAGTGCCAAAAC-GTT
*
2367227 ATTCATCCACATAGGATGAATTCCGTAAAATA
130 ATTCATCCACATAGGATGAATTCCGTAAAATG
* * *
2367259 CACACATAGTACCGAAACGGTTATTCATCTACATAGGATGAATTCCGTGAAATGCACACTTAGTG
1 CACACTTAGTGCTGAAACGGTTATTCATCTACATAGGATGAATTCCGTGAAATGCACACTTAGTG
** * **
2367324 CCAAAATGGTTATTCATCCACATAGAATGAATTCGGTGAAATGA-ACACTTAGTGTCGAAATTGT
66 CCAAAACAGTTATTCATCCACATAGAATGAATTCGGTGAAAT-ACACACTTAGTG-CCAAAACGT
* ** * *
2367388 TATTCATCCACATTGGATGAATTGTGTGAATTG
129 TATTCATCCACATAGGATGAATTCCGTAAAATG
* * * *
2367421 CACACTTAGTGCTAAAACGATTATTCATCCATATAGGATGAATTCCGTGAAATGCACACTTAGTG
1 CACACTTAGTGCTGAAACGGTTATTCATCTACATAGGATGAATTCCGTGAAATGCACACTTAGTG
* ** *
2367486 CCAAAACAATTATTCATCCACATAGAATGAATTTTGTGAAATGCACACTTAGT
66 CCAAAACAGTTATTCATCCACATAGAATGAATTCGGTGAAATACACACTTAGT
2367539 ACCTATTTGG
Statistics
Matches: 384, Mismatches: 52, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
162 377 0.98
163 7 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (161 bp):
CACACTTAGTGCTGAAACGGTTATTCATCTACATAGGATGAATTCCGTGAAATGCACACTTAGTG
CCAAAACAGTTATTCATCCACATAGAATGAATTCGGTGAAATACACACTTAGTGCCAAAACGTTA
TTCATCCACATAGGATGAATTCCGTAAAATG
Found at i:2367901 original size:22 final size:21
Alignment explanation
Indices: 2367876--2367952 Score: 99
Period size: 19 Copynumber: 3.8 Consensus size: 21
2367866 TCGATGCCCC
*
2367876 TACTATGGTATTGATACTACTA
1 TACTATGGTATCGATACT-CTA
2367898 TACTATGGTATCGATACTCTA
1 TACTATGGTATCGATACTCTA
2367919 T--TATGGTATCGATAC-C-A
1 TACTATGGTATCGATACTCTA
*
2367936 TAATATGGTATCGATAC
1 TACTATGGTATCGATAC
2367953 CAATTTTGCA
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
17 2 0.04
18 1 0.02
19 28 0.54
21 4 0.08
22 17 0.33
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (21 bp):
TACTATGGTATCGATACTCTA
Found at i:2368001 original size:20 final size:20
Alignment explanation
Indices: 2367976--2368025 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
2367966 TGTTTCAAAT
*
2367976 GGTATCAATAC-CTTCCCTTC
1 GGTATCAATACTC-CCCCTTC
2367996 GGTATCAATACTCCCCCTTC
1 GGTATCAATACTCCCCCTTC
2368016 GGTATCAATA
1 GGTATCAATA
2368026 TTGATTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (20 bp):
GGTATCAATACTCCCCCTTC
Found at i:2370014 original size:174 final size:174
Alignment explanation
Indices: 2369724--2370072 Score: 698
Period size: 174 Copynumber: 2.0 Consensus size: 174
2369714 CTCTAGAGGG
2369724 AACTTCACACCCTTACGCATTATCATAATTCTCAAAATCCCTTTAACAAAAGCTACACTTAAGTC
1 AACTTCACACCCTTACGCATTATCATAATTCTCAAAATCCCTTTAACAAAAGCTACACTTAAGTC
2369789 ACTTTGTGGCGTTCTAGTTCAAAAACATCCTTACTATTGATATCTAGGGATGCCTACTTTATTTT
66 ACTTTGTGGCGTTCTAGTTCAAAAACATCCTTACTATTGATATCTAGGGATGCCTACTTTATTTT
2369854 CTTTTACTTTTTTCAATTAAAAGTTTGTCATGTATTTGCCCAAA
131 CTTTTACTTTTTTCAATTAAAAGTTTGTCATGTATTTGCCCAAA
2369898 AACTTCACACCCTTACGCATTATCATAATTCTCAAAATCCCTTTAACAAAAGCTACACTTAAGTC
1 AACTTCACACCCTTACGCATTATCATAATTCTCAAAATCCCTTTAACAAAAGCTACACTTAAGTC
2369963 ACTTTGTGGCGTTCTAGTTCAAAAACATCCTTACTATTGATATCTAGGGATGCCTACTTTATTTT
66 ACTTTGTGGCGTTCTAGTTCAAAAACATCCTTACTATTGATATCTAGGGATGCCTACTTTATTTT
2370028 CTTTTACTTTTTTCAATTAAAAGTTTGTCATGTATTTGCCCAAA
131 CTTTTACTTTTTTCAATTAAAAGTTTGTCATGTATTTGCCCAAA
2370072 A
1 A
2370073 CTCTTTACAT
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 175 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (174 bp):
AACTTCACACCCTTACGCATTATCATAATTCTCAAAATCCCTTTAACAAAAGCTACACTTAAGTC
ACTTTGTGGCGTTCTAGTTCAAAAACATCCTTACTATTGATATCTAGGGATGCCTACTTTATTTT
CTTTTACTTTTTTCAATTAAAAGTTTGTCATGTATTTGCCCAAA
Found at i:2370801 original size:14 final size:14
Alignment explanation
Indices: 2370782--2370809 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2370772 TGAAATTCAT
2370782 TAGAAATTTCATGA
1 TAGAAATTTCATGA
2370796 TAGAAATTTCATGA
1 TAGAAATTTCATGA
2370810 AAACTTAGCC
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:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
TAGAAATTTCATGA
Found at i:2372114 original size:2 final size:2
Alignment explanation
Indices: 2372107--2372131 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2372097 TTTATGATTA
2372107 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
2372132 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:2372136 original size:2 final size:2
Alignment explanation
Indices: 2372131--2372157 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2372121 TGTGTGTGTG
2372131 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2372158 TATTAGGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2372527 original size:5 final size:5
Alignment explanation
Indices: 2372517--2372550 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
2372507 ATATACTTTA
*
2372517 ATTAT ATTAT ATTAT AATAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTA
2372551 CATATGTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTAT
Found at i:2372889 original size:50 final size:50
Alignment explanation
Indices: 2372814--2372925 Score: 215
Period size: 50 Copynumber: 2.2 Consensus size: 50
2372804 AGGGCTATAG
2372814 CGCGGGGCAGGGGACGCGTTTTTCAATTATCAGACATGCATAATGCAAGA
1 CGCGGGGCAGGGGACGCGTTTTTCAATTATCAGACATGCATAATGCAAGA
2372864 CGCGGGGCAGGGGACGCGTTTTTCAATTATCAGACATGCATAATGCAAGA
1 CGCGGGGCAGGGGACGCGTTTTTCAATTATCAGACATGCATAATGCAAGA
*
2372914 CGCGGTGCAGGG
1 CGCGGGGCAGGG
2372926 ACCGCGCCTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.26, C:0.21, G:0.33, T:0.21
Consensus pattern (50 bp):
CGCGGGGCAGGGGACGCGTTTTTCAATTATCAGACATGCATAATGCAAGA
Found at i:2373686 original size:63 final size:63
Alignment explanation
Indices: 2373587--2373714 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
2373577 TAGAAGAATG
2373587 TCGTCGTTGCAGTACAGATTTCCAACATCATTGTTGCCATTAACTTATACAGCGTTCGAACTA
1 TCGTCGTTGCAGTACAGATTTCCAACATCATTGTTGCCATTAACTTATACAGCGTTCGAACTA
2373650 TCGTCGTTGCAGTACAGATTTCCAACATCATTGTTGCCATTAACTTATACAGCGTTCGAACTA
1 TCGTCGTTGCAGTACAGATTTCCAACATCATTGTTGCCATTAACTTATACAGCGTTCGAACTA
2373713 TC
1 TC
2373715 AAACAATGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (63 bp):
TCGTCGTTGCAGTACAGATTTCCAACATCATTGTTGCCATTAACTTATACAGCGTTCGAACTA
Found at i:2376724 original size:34 final size:33
Alignment explanation
Indices: 2376686--2376760 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 33
2376676 GTAATAAACA
* *
2376686 AAATTAACCAAAATACATTAACAA-AAAGTCCAA-C
1 AAATTAA-CAAAACAAATTAA-AATAAA-TCCAACC
2376720 AAATTTAACAAAACAAATTAAAATAAATCCAACC
1 AAA-TTAACAAAACAAATTAAAATAAATCCAACC
2376754 AAATTAA
1 AAATTAA
2376761 TGAAATAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
33 11 0.31
34 21 0.58
35 4 0.11
ACGTcount: A:0.61, C:0.17, G:0.01, T:0.20
Consensus pattern (33 bp):
AAATTAACAAAACAAATTAAAATAAATCCAACC
Found at i:2377284 original size:33 final size:33
Alignment explanation
Indices: 2377242--2377304 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
2377232 TTCTCCAGAA
*
2377242 GGGGTCATAAAACTC-TGTGACGATGGCGGCAGT
1 GGGGTCATAAAAC-CAGGTGACGATGGCGGCAGT
*
2377275 GGGGTCATAAAACCAGGTGACGGTGGCGGC
1 GGGGTCATAAAACCAGGTGACGATGGCGGC
2377305 GATGGCATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.24, C:0.19, G:0.40, T:0.17
Consensus pattern (33 bp):
GGGGTCATAAAACCAGGTGACGATGGCGGCAGT
Found at i:2378418 original size:24 final size:24
Alignment explanation
Indices: 2378376--2378455 Score: 88
Period size: 24 Copynumber: 3.3 Consensus size: 24
2378366 AAACATAATT
* * *
2378376 CAGGTCAGGTAACAAATAAGAATC
1 CAGGTCAAGTATCATATAAGAATC
* * *
2378400 CATGTCAAGTATCATATAAAAATT
1 CAGGTCAAGTATCATATAAGAATC
**
2378424 CAGGTCAAGTATCATATTTGAATC
1 CAGGTCAAGTATCATATAAGAATC
2378448 CAGGTCAA
1 CAGGTCAA
2378456 CAATCAGGTA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.26
Consensus pattern (24 bp):
CAGGTCAAGTATCATATAAGAATC
Found at i:2379249 original size:29 final size:29
Alignment explanation
Indices: 2379166--2379261 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
2379156 CTTTTTACAT
* *
2379166 AAATAGCACCCCTTTTTAAAATAATAACCA
1 AAATAGCA-CCCTTTTTAAATTAATTACCA
* * *
2379196 AAATAGAACCGTTTTCAAATTAATTACCA
1 AAATAGCACCCTTTTTAAATTAATTACCA
* * *
2379225 AAATAGCACCCTTTTTGAATTAATTCCCG
1 AAATAGCACCCTTTTTAAATTAATTACCA
2379254 AAATAGCA
1 AAATAGCA
2379262 TCATTTCGAA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
29 48 0.87
30 7 0.13
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (29 bp):
AAATAGCACCCTTTTTAAATTAATTACCA
Found at i:2379278 original size:28 final size:29
Alignment explanation
Indices: 2379193--2379291 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 29
2379183 AAAATAATAA
* ** * *
2379193 CCAAAATAGAACCGTTTTCAAATTAATTA
1 CCAAAATAGCACCCATTTCGAATTAATTC
* *
2379222 CCAAAATAGCACCCTTTTTGAATTAATTC
1 CCAAAATAGCACCCATTTCGAATTAATTC
* *
2379251 CCGAAATAGCA-TCATTTCGAATTAATTC
1 CCAAAATAGCACCCATTTCGAATTAATTC
* *
2379279 CCAGAATATCACC
1 CCAAAATAGCACC
2379292 GGTCAACGGT
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 22 0.39
29 34 0.61
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.30
Consensus pattern (29 bp):
CCAAAATAGCACCCATTTCGAATTAATTC
Found at i:2379320 original size:22 final size:22
Alignment explanation
Indices: 2379292--2379353 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
2379282 GAATATCACC
*
2379292 GGTCAACGGTTGGGTCAGG-TCG
1 GGTCAACGGTCGGGTC-GGATCG
2379314 GGTCAACGGTCGGGTCGGATCG
1 GGTCAACGGTCGGGTCGGATCG
*
2379336 GGTCAACGGTCAGGTCGG
1 GGTCAACGGTCGGGTCGG
2379354 GTCAGACCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 2 0.05
22 35 0.95
ACGTcount: A:0.15, C:0.21, G:0.45, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGATCG
Found at i:2379387 original size:10 final size:10
Alignment explanation
Indices: 2379359--2379404 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
2379349 GTCGGGTCAG
*
2379359 ACCGGTTCAG
1 ACCGGTTCAA
2379369 ACCGG-TCAA
1 ACCGGTTCAA
2379378 ACCGGTTCAAA
1 ACCGGTTC-AA
*
2379389 ATCGGTT-AA
1 ACCGGTTCAA
2379398 ACCGGTT
1 ACCGGTT
2379405 TTCCAGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 16 0.52
10 7 0.23
11 8 0.26
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:2385590 original size:30 final size:29
Alignment explanation
Indices: 2385554--2385649 Score: 138
Period size: 29 Copynumber: 3.3 Consensus size: 29
2385544 CATTTTACAT
* *
2385554 AAATAGCACCCCTTTTTAAAATAATAACCA
1 AAATAGCA-CCCTTTTTAAATTAATTACCA
*
2385584 AAATAGCACCATTTTTAAATTAATTACCA
1 AAATAGCACCCTTTTTAAATTAATTACCA
* *
2385613 AAATAGCACCCTTTTTGAATTAATTCCCA
1 AAATAGCACCCTTTTTAAATTAATTACCA
2385642 AAATAGCA
1 AAATAGCA
2385650 TCATTTTGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
29 52 0.87
30 8 0.13
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (29 bp):
AAATAGCACCCTTTTTAAATTAATTACCA
Found at i:2385607 original size:29 final size:29
Alignment explanation
Indices: 2385554--2385679 Score: 137
Period size: 29 Copynumber: 4.3 Consensus size: 29
2385544 CATTTTACAT
* * *
2385554 AAATAGCACCCCTTTTTAAAATAATAACCA
1 AAATAGCA-CCATTTTTAAATTAATTACCA
2385584 AAATAGCACCATTTTTAAATTAATTACCA
1 AAATAGCACCATTTTTAAATTAATTACCA
* * *
2385613 AAATAGCACCCTTTTTGAATTAATTCCCA
1 AAATAGCACCATTTTTAAATTAATTACCA
* * *
2385642 AAATAGCATCA-TTTTGAATTAATTCCCA
1 AAATAGCACCATTTTTAAATTAATTACCA
* *
2385670 GAATATCACC
1 AAATAGCACC
2385680 GGTCAACGGT
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 24 0.28
29 53 0.62
30 8 0.09
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (29 bp):
AAATAGCACCATTTTTAAATTAATTACCA
Found at i:2385645 original size:58 final size:57
Alignment explanation
Indices: 2385554--2385679 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 57
2385544 CATTTTACAT
2385554 AAATAGCACCCCTTTTTAAAATAATAACCAAAATAGCACCATTTTTAAATTAATTACCA
1 AAATAGCA-CCCTTTTTAAAATAATAACCAAAATAGCACCA-TTTTAAATTAATTACCA
* * ** * * *
2385613 AAATAGCACCCTTTTTGAATTAATTCCCAAAATAGCATCATTTTGAATTAATTCCCA
1 AAATAGCACCCTTTTTAAAATAATAACCAAAATAGCACCATTTTAAATTAATTACCA
* *
2385670 GAATATCACC
1 AAATAGCACC
2385680 GGTCAACGGT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 23 0.40
58 27 0.47
59 8 0.14
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (57 bp):
AAATAGCACCCTTTTTAAAATAATAACCAAAATAGCACCATTTTAAATTAATTACCA
Found at i:2387813 original size:20 final size:21
Alignment explanation
Indices: 2387774--2387814 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
2387764 TAAAAATTTT
2387774 AAATACTTAAATAAATTAAAA
1 AAATACTTAAATAAATTAAAA
2387795 AAATAC-TAAATATAA-TAAAA
1 AAATACTTAAATA-AATTAAAA
2387815 TATACCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATACTTAAATAAATTAAAA
Found at i:2397387 original size:31 final size:31
Alignment explanation
Indices: 2397349--2397420 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
2397339 TAAAATAATA
*
2397349 TAACCAAATAAAGATAAATTGCTTAGTCAAC
1 TAACCAAATAAAGATAAATTACTTAGTCAAC
2397380 TAACCAAATAAAGATAAATTACTTAGTCAAC
1 TAACCAAATAAAGATAAATTACTTAGTCAAC
2397411 TAACCAAATA
1 TAACCAAATA
2397421 TACTTATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.51, C:0.17, G:0.07, T:0.25
Consensus pattern (31 bp):
TAACCAAATAAAGATAAATTACTTAGTCAAC
Found at i:2398296 original size:52 final size:52
Alignment explanation
Indices: 2398237--2398340 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
2398227 AGGCTACCGT
2398237 ACATCAAAACTACTCATTCACTTTTCTTCTTGTATCCACAAAAAGTTTGCCA
1 ACATCAAAACTACTCATTCACTTTTCTTCTTGTATCCACAAAAAGTTTGCCA
2398289 ACATCAAAACTACTCATTCACTTTTCTTCTTGTATCCACAAAAAGTTTGCCA
1 ACATCAAAACTACTCATTCACTTTTCTTCTTGTATCCACAAAAAGTTTGCCA
2398341 TTGCTAGATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.35
Consensus pattern (52 bp):
ACATCAAAACTACTCATTCACTTTTCTTCTTGTATCCACAAAAAGTTTGCCA
Done.