Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 118 of 332
Found at i:38134024 original size:15 final size:16
Alignment explanation
Indices: 38134004--38134033 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38133994 TATTTGGCAA
38134004 TATAAAT-TATAATTT
1 TATAAATATATAATTT
38134019 TATAAATATATAATT
1 TATAAATATATAATT
38134034 ATAATTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATAAATATATAATTT
Found at i:38134035 original size:22 final size:21
Alignment explanation
Indices: 38134002--38134057 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 21
38133992 TATATTTGGC
38134002 AATATA-AATTATAATTTTATA
1 AATATATAATTATAATTTTA-A
38134023 AATATATAATTATAATTTTAA
1 AATATATAATTATAATTTTAA
38134044 AATATAGTAATTAT
1 AATATA-TAATTAT
38134058 TATAAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.39
22 20 0.61
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
AATATATAATTATAATTTTAA
Found at i:38134063 original size:19 final size:19
Alignment explanation
Indices: 38134012--38134064 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
38134002 AATATAAATT
38134012 ATAATT-TTATAAATATATA
1 ATAATTATTATAAA-ATATA
* * *
38134031 ATTATAATTTTAAAATATA
1 ATAATTATTATAAAATATA
*
38134050 GTAATTATTATAAAA
1 ATAATTATTATAAAA
38134065 ATTATTAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATTATTATAAAATATA
Found at i:38134067 original size:12 final size:12
Alignment explanation
Indices: 38134052--38134092 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
38134042 AAAATATAGT
38134052 AATTATTATAAA
1 AATTATTATAAA
*
38134064 AATTATTAAAAA
1 AATTATTATAAA
38134076 AATTATT-TAAA
1 AATTATTATAAA
38134087 CAATTA
1 -AATTA
38134093 ATAAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 3 0.12
12 23 0.88
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
AATTATTATAAA
Found at i:38134082 original size:24 final size:24
Alignment explanation
Indices: 38134052--38134098 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
38134042 AAAATATAGT
*
38134052 AATTATTATAAA-AATTATTAAAAA
1 AATTATT-TAAACAATTAATAAAAA
38134076 AATTATTTAAACAATTAATAAAA
1 AATTATTTAAACAATTAATAAAA
38134099 TTTAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTATTTAAACAATTAATAAAAA
Found at i:38134239 original size:22 final size:22
Alignment explanation
Indices: 38134214--38134261 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 22
38134204 AGGAGATTAA
38134214 TAAAAGAACATATAAT-TATAT-T
1 TAAAA-AA-ATATAATATATATCT
38134236 T-AAAAAATATAATATATATCT
1 TAAAAAAATATAATATATATCT
38134257 TAAAA
1 TAAAA
38134262 TTAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
19 7 0.30
20 7 0.30
21 5 0.22
22 4 0.17
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAAAAATATAATATATATCT
Found at i:38134245 original size:19 final size:21
Alignment explanation
Indices: 38134223--38134261 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
38134213 ATAAAAGAAC
38134223 ATATAAT-TATAT-TTAAAAA
1 ATATAATATATATCTTAAAAA
38134242 ATATAATATATATCTTAAAA
1 ATATAATATATATCTTAAAA
38134262 TTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAATATATATCTTAAAAA
Found at i:38155676 original size:27 final size:28
Alignment explanation
Indices: 38155641--38155702 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
38155631 TATACATCAC
38155641 ATAGAGGCAAAACAATCATCTTACCATAT
1 ATAG-GGCAAAACAATCATCTTACCATAT
* * * *
38155670 A-AGGGCAAAATAGTCATTTTATCATAT
1 ATAGGGCAAAACAATCATCTTACCATAT
38155697 ATAGGG
1 ATAGGG
38155703 GGTCTAGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 21 0.75
28 6 0.21
29 1 0.04
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (28 bp):
ATAGGGCAAAACAATCATCTTACCATAT
Found at i:38162018 original size:49 final size:49
Alignment explanation
Indices: 38161844--38162465 Score: 1052
Period size: 49 Copynumber: 12.9 Consensus size: 49
38161834 CCCTTCGGGA
* * * * *
38161844 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38161891 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38161938 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38161985 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162034 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38162083 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38162130 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162177 CTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162226 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38162275 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38162322 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162371 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38162420 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
38162466 TGCCATACTA
Statistics
Matches: 549, Mismatches: 18, Indels: 14
0.94 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 229 0.42
49 319 0.58
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38162116 original size:145 final size:146
Alignment explanation
Indices: 38161844--38162465 Score: 1048
Period size: 145 Copynumber: 4.3 Consensus size: 146
38161834 CCCTTCGGGA
* * * * * * *
38161844 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
38161905 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATC
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
38161969 ACATCGGCCATTAGGC
131 ACATCGGCCATTAGGC
38161985 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
38162050 ACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATC
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
38162114 ACATCGGCCATTAGGC
131 ACATCGGCCATTAGGC
38162130 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
38162193 ACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCAT
*
38162258 CACATCGGCTATTAGGC
130 CACATCGGCCATTAGGC
38162275 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
38162338 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCAT
*
38162403 CACATCGGCTATTAGGC
130 CACATCGGCCATTAGGC
*
38162420 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
38162466 TGCCATACTA
Statistics
Matches: 460, Mismatches: 13, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
141 10 0.02
142 1 0.00
143 131 0.28
145 283 0.62
147 35 0.08
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (146 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATC
ACATCGGCCATTAGGC
Found at i:38162182 original size:192 final size:192
Alignment explanation
Indices: 38161844--38162465 Score: 1104
Period size: 192 Copynumber: 3.2 Consensus size: 192
38161834 CCCTTCGGGA
* * ** * * * *
38161844 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
38161907 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
38161972 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38162034 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
38162099 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
38162164 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38162226 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
38162291 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
38162356 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
129 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38162420 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
38162466 TGCCATACTA
Statistics
Matches: 413, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
190 10 0.02
191 1 0.00
192 272 0.66
194 130 0.31
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (192 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38166185 original size:27 final size:28
Alignment explanation
Indices: 38166155--38166208 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
38166145 ACATAGGGGC
38166155 AAAATAGTCATCTTACCATATA-AGGGT
1 AAAATAGTCATCTTACCATATATAGGGT
* *
38166182 AAAATAGTCATTTTATCATATATAGGG
1 AAAATAGTCATCTTACCATATATAGGG
38166209 GGTTTAGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (28 bp):
AAAATAGTCATCTTACCATATATAGGGT
Found at i:38168961 original size:41 final size:41
Alignment explanation
Indices: 38168868--38168978 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 41
38168858 AGATTAATGA
* * *
38168868 TGAATTGCACACACGTGCCCCTGTTTGTGCTTCGGTACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
* * * *
38168909 TTACTTACACATATGTGCCCCTGTTTGTACTTCGATACCCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
* * *
38168950 TGAATTGCACATACATGCCCTTGATTGTA
1 TGAATTGCACATACGTGCCCCTGTTTGTA
38168979 TTACGGTACC
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCT
Found at i:38175542 original size:17 final size:17
Alignment explanation
Indices: 38175520--38175554 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38175510 GTAAGTGATT
38175520 TTTTATTCCATTTTTAA
1 TTTTATTCCATTTTTAA
38175537 TTTTATTCCATTTTTAA
1 TTTTATTCCATTTTTAA
38175554 T
1 T
38175555 GATTTTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTCCATTTTTAA
Found at i:38175942 original size:22 final size:23
Alignment explanation
Indices: 38175914--38175977 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
38175904 GGGGCAAAAT
*
38175914 AGACTAAATTGAATGCTAAGTTG
1 AGACTAAATTGAATGCTAAATTG
38175937 -GACTAAATTGAATGCTAAATTG
1 AGACTAAATTGAATGCTAAATTG
*
38175959 AAAGCTAAATTGAATGCTA
1 AGA-CTAAATTGAATGCTA
38175978 GGGTTATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 21 0.57
23 1 0.03
24 15 0.41
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (23 bp):
AGACTAAATTGAATGCTAAATTG
Found at i:38175956 original size:12 final size:12
Alignment explanation
Indices: 38175917--38175977 Score: 81
Period size: 12 Copynumber: 5.2 Consensus size: 12
38175907 GCAAAATAGA
38175917 CTAAATTGAATG
1 CTAAATTGAATG
* *
38175929 CTAAGTTGGA--
1 CTAAATTGAATG
38175939 CTAAATTGAATG
1 CTAAATTGAATG
*
38175951 CTAAATTGAAAG
1 CTAAATTGAATG
38175963 CTAAATTGAATG
1 CTAAATTGAATG
38175975 CTA
1 CTA
38175978 GGGTTATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
10 8 0.20
12 33 0.80
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (12 bp):
CTAAATTGAATG
Found at i:38176291 original size:41 final size:41
Alignment explanation
Indices: 38176191--38176436 Score: 226
Period size: 41 Copynumber: 6.0 Consensus size: 41
38176181 ATTAATGATG
* * * * *
38176191 AATTGCACATATGTGCCCCCT-TTTATACTTCAATACCCCTG
1 AATTGCACATACGTG-CCCTTGTTTGTACTTCGATACCCCTA
* * * * *
38176232 AATTGCACATACATGCCCTTATTTGTACTTTGGTACCCTTA
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCCTA
* *
38176273 AATTGCACATACATGCCCTTGTTTGTACTTTGATACCCCTA
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCCTA
* * *
38176314 AAGTT-CACATGCGTGGCCATGTTTGTACTTCGATACCCCTA
1 AA-TTGCACATACGTGCCCTTGTTTGTACTTCGATACCCCTA
** * * * * *
38176355 AATTTTACATGCGTGCCCCTGTTTGTACTTCGGTAACCCTG
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCCTA
* * * *
38176396 AATTGCACATACGTGCCCCTGATTGTACTACGGTACCCCTA
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCCTA
38176437 GATATACTTA
Statistics
Matches: 172, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
40 6 0.03
41 164 0.95
42 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (41 bp):
AATTGCACATACGTGCCCTTGTTTGTACTTCGATACCCCTA
Found at i:38176434 original size:20 final size:20
Alignment explanation
Indices: 38176370--38176435 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
38176360 TACATGCGTG
* *
38176370 CCCCTGTTTGTACTTCGGTA
1 CCCCTGATTGTACTACGGTA
* * *
38176390 ACCCTGAATTGCACATAC-GTG
1 CCCCTG-ATTGTAC-TACGGTA
38176411 CCCCTGATTGTACTACGGTA
1 CCCCTGATTGTACTACGGTA
38176431 CCCCT
1 CCCCT
38176436 AGATATACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 3 0.09
20 18 0.51
21 12 0.34
22 2 0.06
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.30
Consensus pattern (20 bp):
CCCCTGATTGTACTACGGTA
Found at i:38179974 original size:40 final size:40
Alignment explanation
Indices: 38179900--38180084 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
38179890 GCTACTCGTT
* *
38179900 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-GAGTAACTCGCA
*
38179939 CAAATGCCTTCGGGACTTAACCCGGATTGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTGAGTAACTCGCA
* * *
38179979 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTGAGTAACTCGCA
* * *
38180019 CAAATGCCTTC-GGATCTTAGTCCGGATATG-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TGAGTAAC-TCGCA
38180060 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38180085 CATCATTCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
39 14 0.11
40 100 0.78
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTGAGTAACTCGCA
Found at i:38183309 original size:37 final size:37
Alignment explanation
Indices: 38183232--38183310 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
38183222 TTATTACGAA
* * * *
38183232 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
* *
38183269 GTCTTACCCGGACAAAATCCCCACACGTAGTCCTCAG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
38183306 GTCTT
1 GTCTT
38183311 TAGAGCTCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCAG
Found at i:38183506 original size:47 final size:47
Alignment explanation
Indices: 38183428--38184765 Score: 2214
Period size: 47 Copynumber: 28.0 Consensus size: 47
38183418 CCCTTCGGGA
* * * * * *
38183428 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38183475 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38183522 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38183569 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38183616 CTTATAACATATATATACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38183665 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38183712 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38183761 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38183809 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38183856 CTTATAACATATATATACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38183905 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38183952 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38184001 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38184049 CTTATCACATATATACAATTTCAGATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38184096 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38184143 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38184190 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184237 CTTATCACATATATATACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184286 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38184333 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184382 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184431 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184480 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184527 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184574 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38184623 CCTAACACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184672 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38184719 CTTATCACATATATA-ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38184765 C
1 C
38184766 ATACTATCAT
Statistics
Matches: 1233, Mismatches: 42, Indels: 33
0.94 0.03 0.03
Matches are distributed among these distances:
46 31 0.03
47 647 0.52
48 96 0.08
49 459 0.37
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38184774 original size:96 final size:94
Alignment explanation
Indices: 38183428--38184765 Score: 2214
Period size: 96 Copynumber: 14.0 Consensus size: 94
38183418 CCCTTCGGGA
* * * * * * * *
38183428 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38183493 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
38183522 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38183587 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
38183616 CTTATAACATATATATACACTTTCTCATTCATCACATCGGCCATTAGGCCTTATTACATATATAC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
38183681 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
38183712 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
38183776 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
38183809 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATAACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATATAC
*
38183874 ACTTTCTCATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
38183905 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
38183970 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
38184001 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
38184065 AATTTCAGATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
38184096 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38184161 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
38184190 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
38184255 ACTTTCTCATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38184286 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
38184351 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
38184382 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
38184447 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38184480 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38184545 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
38184574 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCCTAACACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
38184639 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
38184672 CTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATA-AC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
38184736 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
38184765 C
1 C
38184766 ATACTATCAT
Statistics
Matches: 1181, Mismatches: 41, Indels: 45
0.93 0.03 0.04
Matches are distributed among these distances:
93 32 0.03
94 287 0.24
95 89 0.08
96 537 0.45
97 94 0.08
98 142 0.12
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:38188874 original size:27 final size:26
Alignment explanation
Indices: 38188822--38188881 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
38188812 CCACATATAT
*
38188822 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
38188848 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
38188875 ATATCTG
1 ATATCTG
38188882 GAAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:38194484 original size:36 final size:37
Alignment explanation
Indices: 38194427--38194496 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 37
38194417 TGTTGTGCCG
38194427 GTTGCAGAGATCGAGGTCCAAACAGACTTGACTTCAT
1 GTTGCAGAGATCGAGGTCCAAACAGACTTGACTTCAT
*
38194464 GTTG-AGAGGTCGAGGTCCAAACAGACTTGACTT
1 GTTGCAGAGATCGAGGTCCAAACAGACTTGACTT
38194497 TTGAGAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 28 0.88
37 4 0.12
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (37 bp):
GTTGCAGAGATCGAGGTCCAAACAGACTTGACTTCAT
Found at i:38211689 original size:50 final size:49
Alignment explanation
Indices: 38211558--38211795 Score: 216
Period size: 50 Copynumber: 4.8 Consensus size: 49
38211548 AGCCGAAGCT
* * *
38211558 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-TCAAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
* * *
38211606 AATC-CAGTACACGTAGTA-CCTTGCACTTAGTACTACACACGTGACCTCATC
1 -ATCTGA-TACACGTAGTAGCC-TGCACTTAGTACTACACACGCGA-CTCAAC
* * *
38211657 ATCTGATACTCGTAGTAGCCTACACTTAGTACTACACACGTGA-TCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTC-AA--C
* * * * *
38211708 AT-TGAGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACTTAAC
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
* *
38211757 AGTATGATACACGTAGTAGCCTACACTTAGTACTACACA
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
38211796 GGTCTATTCA
Statistics
Matches: 155, Mismatches: 21, Indels: 25
0.77 0.10 0.12
Matches are distributed among these distances:
48 5 0.03
49 36 0.23
50 67 0.43
51 46 0.30
52 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (49 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACTCAAC
Found at i:38211765 original size:101 final size:99
Alignment explanation
Indices: 38211561--38211795 Score: 260
Period size: 101 Copynumber: 2.4 Consensus size: 99
38211551 CGAAGCTATC
* * * * *
38211561 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCAACAATCCAGTACACGTAGTACC
1 TGATACACGTAGTAGCCTACACTTAGTACTACACACGCGATCAACAATCCAGTACACATAGTACC
* * * *
38211626 TTGCACTTAGTACTACACACGTGACCTCATCATC
66 TTGCACTTAATACTACACACGCGACCTCAACATA
* * ** *
38211660 TGATACTCGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTC-ATTGAGTACGCATAGT
1 TGATACACGTAGTAGCCTACACTTAGTACTACACACGCGATC-AA--CAATCCAGTACACATAGT
* *
38211724 AGCC-TGCACTTAATACTACACATGCGA-CTTAACAGTA
63 A-CCTTGCACTTAATACTACACACGCGACCTCAACA-TA
38211761 TGATACACGTAGTAGCCTACACTTAGTACTACACA
1 TGATACACGTAGTAGCCTACACTTAGTACTACACA
38211796 GGTCTATTCA
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
99 37 0.32
100 7 0.06
101 68 0.59
102 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTACACTTAGTACTACACACGCGATCAACAATCCAGTACACATAGTACC
TTGCACTTAATACTACACACGCGACCTCAACATA
Found at i:38214848 original size:46 final size:44
Alignment explanation
Indices: 38214795--38214962 Score: 178
Period size: 46 Copynumber: 3.6 Consensus size: 44
38214785 ACTTATAGTC
*
38214795 GATGCATGTCCCAGACATGTCCTACACTGGCTTACATCTCAAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-C-TCTCAAGGCT
* * * * *
38214841 GATGCATGTCCTAGACATGTATTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-TC-TCTCAAGGCT
38214887 GATGCCATGTCCCAGACATAGTCTTACACTGGC-TCTCGT-AATGTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCTC-TCAA---GGCT
38214935 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
38214963 TGCTCAAAAT
Statistics
Matches: 103, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
45 4 0.04
46 54 0.52
47 28 0.27
48 17 0.17
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCTCTCAAGGCT
Found at i:38219902 original size:25 final size:25
Alignment explanation
Indices: 38219856--38219903 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
38219846 GCACTCTCTC
* *
38219856 GAGCCATATAATAGGATCCTCATGT
1 GAGCCATATAACAGGAACCTCATGT
* *
38219881 GAGCCATGTAACAGGAAGCTCAT
1 GAGCCATATAACAGGAACCTCAT
38219904 CTGGGCTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
GAGCCATATAACAGGAACCTCATGT
Found at i:38219969 original size:45 final size:47
Alignment explanation
Indices: 38219890--38219978 Score: 112
Period size: 45 Copynumber: 1.9 Consensus size: 47
38219880 TGAGCCATGT
* *
38219890 AACAGGAAGCTCATCTGGGCTGTGATAGGAAACT-CATAAGAGTTCAG
1 AACAGGAAGCTCATCTGAGCTGTAATAGGAAACTCCA-AAGAGTTCAG
* *
38219937 AACAGGAAGTTCAT-TGAGCT-TAATAGGTAACTCCAAAGAGTT
1 AACAGGAAGCTCATCTGAGCTGTAATAGGAAACTCCAAAGAGTT
38219979 ATTATCAGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
45 17 0.46
46 7 0.19
47 13 0.35
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.24
Consensus pattern (47 bp):
AACAGGAAGCTCATCTGAGCTGTAATAGGAAACTCCAAAGAGTTCAG
Found at i:38221924 original size:25 final size:25
Alignment explanation
Indices: 38221896--38221947 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
38221886 ACTTTCAAGA
38221896 ATACCTTATCACAACTTGAAATTCT
1 ATACCTTATCACAACTTGAAATTCT
38221921 ATACCTTATCACAACTTGAAATTCT
1 ATACCTTATCACAACTTGAAATTCT
38221946 AT
1 AT
38221948 CTCTTTTCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.37
Consensus pattern (25 bp):
ATACCTTATCACAACTTGAAATTCT
Found at i:38225310 original size:22 final size:22
Alignment explanation
Indices: 38225284--38225344 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
38225274 GTTGAAATGT
38225284 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
38225306 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
38225328 CACACGGGCGTG-TGCCC
1 CACACGGGCGTGTTGCCC
38225345 TGTGTTAAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
21 5 0.13
22 34 0.87
ACGTcount: A:0.10, C:0.44, G:0.30, T:0.16
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:38226116 original size:24 final size:24
Alignment explanation
Indices: 38226083--38226131 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
38226073 CTATGCAAAT
*
38226083 AATAGGCAACATAAACACACTCTA
1 AATAGACAACATAAACACACTCTA
38226107 AATAGACAACATAAACACACTCTA
1 AATAGACAACATAAACACACTCTA
38226131 A
1 A
38226132 CATATATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.16
Consensus pattern (24 bp):
AATAGACAACATAAACACACTCTA
Found at i:38226483 original size:42 final size:42
Alignment explanation
Indices: 38226436--38226557 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
38226426 TACCATACCA
* **
38226436 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
* *
38226478 ATGCCAATAGACC-AGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATA-TCCTAGATATGGTCTTACACGAAATCTCATATCG
* * *
38226521 ATGCCATATCCTAGATATGATCTTACAAGTAATCTCA
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCA
38226558 ACTAACCCTA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 29 0.43
43 34 0.51
44 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATATCG
Found at i:38230533 original size:26 final size:27
Alignment explanation
Indices: 38230498--38230678 Score: 157
Period size: 27 Copynumber: 6.7 Consensus size: 27
38230488 TACTGAAATG
* * *
38230498 CCCTCAATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* **
38230525 -CCTCGATTTATGGAATTACTTTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
38230551 CCCTCGACTTACAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
38230578 CCCTCGATTTACAGAAGTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
38230605 CCCTTGATTTATAGAATTACTATTGTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * ***
38230632 CCCTTGATTTACAGAATTATTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
38230659 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
38230679 TAAAAAACCC
Statistics
Matches: 127, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 20 0.16
27 107 0.84
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:38230567 original size:27 final size:27
Alignment explanation
Indices: 38230520--38230679 Score: 187
Period size: 27 Copynumber: 6.0 Consensus size: 27
38230510 AAAATTACCA
** *
38230520 TTTTA-CCTCGATTTATGGAATTACTT
1 TTTTACCCTCGATTTACAGAATTACTG
* *
38230546 TTTTACCCTCGACTTACAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACTG
* *
38230573 TTTTACCCTCGATTTACAGAAGTACCG
1 TTTTACCCTCGATTTACAGAATTACTG
* * *
38230600 TTTTACCCTTGATTTATAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACTG
* * *
38230627 TTGTACCCTTGATTTACAGAATTATTG
1 TTTTACCCTCGATTTACAGAATTACTG
*
38230654 TTTTACCCTCGATTTACAAAATTACT
1 TTTTACCCTCGATTTACAGAATTACT
38230680 AAAAAACCCT
Statistics
Matches: 113, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 5 0.04
27 108 0.96
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.42
Consensus pattern (27 bp):
TTTTACCCTCGATTTACAGAATTACTG
Found at i:38230634 original size:81 final size:80
Alignment explanation
Indices: 38230515--38230671 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 80
38230505 TTTGTAAAAT
* * *
38230515 TACCATTTTACCTCGATTTATGGAATTACTTTTTTACCCTCGACTTACAGAATTACCGTTTTACC
1 TACCATTTTACCTCGATTTATAGAATTACTATTGTACCCTCGACTTACAGAATTACCGTTTTACC
38230580 CTCGATTTACAGAAG
66 CTCGATTTACAGAAG
* * * * **
38230595 TACCGTTTTACCCTTGATTTATAGAATTACTATTGTACCCTTGATTTACAGAATTATTGTTTTAC
1 TACCATTTTA-CCTCGATTTATAGAATTACTATTGTACCCTCGACTTACAGAATTACCGTTTTAC
38230660 CCTCGATTTACA
65 CCTCGATTTACA
38230672 AAATTACTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 9 0.13
81 58 0.87
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (80 bp):
TACCATTTTACCTCGATTTATAGAATTACTATTGTACCCTCGACTTACAGAATTACCGTTTTACC
CTCGATTTACAGAAG
Found at i:38230707 original size:26 final size:26
Alignment explanation
Indices: 38230671--38230849 Score: 153
Period size: 27 Copynumber: 6.7 Consensus size: 26
38230661 CTCGATTTAC
*
38230671 AAAATTACTAAAAAACCCTAGTCTGT
1 AAAATTACTAAAAAACCCTAGTTTGT
* * *
38230697 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACTAAAAAACCC-TAGTTTGT
*
38230724 AAAATTAC-AAAAATACCCTCAATTTGT
1 AAAATTACTAAAAA-ACCCT-AGTTTGT
* *
38230751 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTAAAA-AACCCTAGTTTGT
* *
38230778 AAAATTACTAAAATACCACTGGTTTGT
1 AAAATTACTAAAAAACC-CTAGTTTGT
* ** * *
38230805 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTAAAAAACCCT-AGTTTGT
* *
38230832 AAAATTACCAAAACACCC
1 AAAATTACTAAAAAACCC
38230850 CTGATTTACA
Statistics
Matches: 124, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
26 25 0.20
27 90 0.73
28 8 0.06
29 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (26 bp):
AAAATTACTAAAAAACCCTAGTTTGT
Found at i:38230768 original size:54 final size:53
Alignment explanation
Indices: 38230671--38230849 Score: 198
Period size: 54 Copynumber: 3.3 Consensus size: 53
38230661 CTCGATTTAC
* * * *
38230671 AAAATTACTAAAAA-ACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTAC-AAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* *
38230724 AAAATTACAAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACAAAAATACCCT-AGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* * * * * *
38230778 AAAATTACTAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACAAAAATACC-CTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
* *
38230832 AAAATTACCAAAACACCC
1 AAAATTACAAAAATACCC
38230850 CTGATTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
52 5 0.05
53 14 0.13
54 86 0.80
55 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (53 bp):
AAAATTACAAAAATACCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGT
Found at i:38230801 original size:81 final size:80
Alignment explanation
Indices: 38230657--38230851 Score: 266
Period size: 81 Copynumber: 2.4 Consensus size: 80
38230647 ATTATTGTTT
* ** * * *
38230657 TACCCTCGATTTACAAAATTACTAAAAAACCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTTT
1 TACCCTCAATTTGTAAAATTACCAAAAACCCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTT
38230722 GTAAAATTACAAAAA
66 GTAAAATTACAAAAA
*
38230737 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAA-ACCCCTAGTCTGTAAAATTACTAAAATACC-CTTGGT
* **
38230801 TTGTGAAATTACCGAAA
64 TTGTAAAATTACAAAAA
38230818 TACCCTCAATTTGTAAAATTACCAAAACACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAA-ACCCCT
38230852 GATTTACAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 23 0.23
81 78 0.76
82 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (80 bp):
TACCCTCAATTTGTAAAATTACCAAAAACCCCTAGTCTGTAAAATTACTAAAATACCCTTGGTTT
GTAAAATTACAAAAA
Found at i:38230856 original size:27 final size:27
Alignment explanation
Indices: 38230694--38230856 Score: 161
Period size: 27 Copynumber: 6.0 Consensus size: 27
38230684 AACCCTAGTC
* * * *
38230694 TGTAAAATTGCTAAAATACCCTTGGTT
1 TGTAAAATTACCAAAATACCCCTGATT
* *
38230721 TGTAAAATTACAAAAATA-CCCTCAATT
1 TGTAAAATTACCAAAATACCCCT-GATT
38230748 TGTAAAATTACCAAAATACCCCT-AGTT
1 TGTAAAATTACCAAAATACCCCTGA-TT
* * *
38230775 TGTAAAATTACTAAAATACCACTGGTT
1 TGTAAAATTACCAAAATACCCCTGATT
* * *
38230802 TGTGAAATTACCGAAATA-CCCTCAATT
1 TGTAAAATTACCAAAATACCCCT-GATT
*
38230829 TGTAAAATTACCAAAACACCCCTGATT
1 TGTAAAATTACCAAAATACCCCTGATT
38230856 T
1 T
38230857 ACAAAGTTAC
Statistics
Matches: 111, Mismatches: 19, Indels: 12
0.78 0.13 0.08
Matches are distributed among these distances:
26 7 0.06
27 96 0.86
28 8 0.07
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACCAAAATACCCCTGATT
Found at i:38230872 original size:54 final size:54
Alignment explanation
Indices: 38230719--38230877 Score: 139
Period size: 54 Copynumber: 2.9 Consensus size: 54
38230709 ATACCCTTGG
* * * *
38230719 TTTGTAAAATTACAAAAATACC-CTCAATTTGTA-AAATTACCA-AAATACCC-CTAG
1 TTTGTAAAATTACCAAAACACCACT-GATTTG-ACAAATTA-CAGAAATACCCTC-AA
* * * ** *
38230773 TTTGTAAAATTACTAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCAAAACACCACTGATTTGACAAATTACAGAAATACCCTCAA
*
38230827 TTTGTAAAATTACCAAAACACCCCTGATTT-ACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAACACCACTGATTTGACAAA-TTACAGAAATACCCT
38230878 TGACTTTCTA
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
53 4 0.05
54 80 0.92
55 3 0.03
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAACACCACTGATTTGACAAATTACAGAAATACCCTCAA
Found at i:38230873 original size:81 final size:81
Alignment explanation
Indices: 38230657--38230879 Score: 260
Period size: 81 Copynumber: 2.8 Consensus size: 81
38230647 ATTATTGTTT
* ** * * *
38230657 TACCCTCGATTTACAAAATTACTAAAA-AACCCTAG-TCTGTAAAATTGCTAAAATACCCTTGGT
1 TACCCTCAATTTGTAAAATTACCAAAACACCCCTAGAT-TGTAAAATTACTAAAATACCCTTGGT
38230720 TTGTAAAATTACAAAAA
65 TTGTAAAATTACAAAAA
* *
38230737 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAACACCCCTAGATTGTAAAATTACTAAAATACC-CTTGGT
* **
38230801 TTGTGAAATTACCGAAA
65 TTGTAAAATTACAAAAA
38230818 TACCCTCAATTTGTAAAATTACCAAAACACCCCT-GATT-TACAAAGTTAC-AGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAACACCCCTAGATTGTA-AAA-TTACTA-AAATACCCTTG
38230880 ACTTTCTAAA
Statistics
Matches: 125, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
79 2 0.02
80 31 0.25
81 90 0.72
82 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAACACCCCTAGATTGTAAAATTACTAAAATACCCTTGGTT
TGTAAAATTACAAAAA
Found at i:38230876 original size:27 final size:27
Alignment explanation
Indices: 38230806--38230931 Score: 94
Period size: 27 Copynumber: 4.6 Consensus size: 27
38230796 CTGGTTTGTG
* ** **
38230806 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTACAGAAATACCCTTGATTTACA
* *
38230833 AAATTACCA-AAACACCCCTGATTTACA
1 AAATTA-CAGAAATACCCTTGATTTACA
*
38230860 AAGTTACAGAAATACCCTTGACTTT-CTAA
1 AAATTACAGAAATACCCTTGA-TTTAC--A
* * *
38230889 AAATTATAGAAATACCATTGGTTTACA
1 AAATTACAGAAATACCCTTGATTTACA
*
38230916 AAATTACTGAAATACC
1 AAATTACAGAAATACC
38230932 TTTGGTTTGT
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
26 2 0.03
27 49 0.64
28 7 0.09
29 19 0.25
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATTACAGAAATACCCTTGATTTACA
Found at i:38230936 original size:27 final size:27
Alignment explanation
Indices: 38230888--38230939 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
38230878 TGACTTTCTA
38230888 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
38230915 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
38230940 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:38231030 original size:26 final size:27
Alignment explanation
Indices: 38231001--38231078 Score: 115
Period size: 26 Copynumber: 2.9 Consensus size: 27
38230991 TAGGTAAAAA
38231001 GACCGTAAAGCCCCTGTAGGGTAAA-T
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
38231027 GACCGTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
* *
38231054 GATCGTAATA-CCCCTGTATGGTAAA
1 GACCGTAA-AGCCCCTGTAGGGTAAA
38231079 ATGATGAATA
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
26 25 0.52
27 22 0.46
28 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:38231083 original size:27 final size:27
Alignment explanation
Indices: 38230993--38231082 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
38230983 ACCCCTATTA
*
38230993 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
38231020 GGT-AAATGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
38231046 GGTAAAGTGATCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
38231073 GGTAAAATGA
1 GGTAAAATGA
38231083 TGAATATGCC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
26 25 0.45
27 30 0.54
28 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:38232356 original size:20 final size:20
Alignment explanation
Indices: 38232333--38232391 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
38232323 TAAACATGGT
*
38232333 ATGTATGATATGCTCATGAC
1 ATGTATGATATGCACATGAC
* *
38232353 ATGTATGATATGCACAAGAT
1 ATGTATGATATGCACATGAC
* *
38232373 ATGTTTGATATGCCCATGA
1 ATGTATGATATGCACATGA
38232392 TGTAATCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:38232473 original size:23 final size:23
Alignment explanation
Indices: 38232443--38232632 Score: 335
Period size: 23 Copynumber: 8.1 Consensus size: 23
38232433 AGGAAGTGCA
38232443 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38232466 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38232489 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
38232513 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38232536 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
38232560 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38232583 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
38232606 AAAAGGGCTTTTGCCCCAGTTACT
1 -AAAGGGCTTATGCCCCAGTTATT
38232630 AAA
1 AAA
38232633 AGAGGCTAGG
Statistics
Matches: 162, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
23 95 0.59
24 67 0.41
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:38232511 original size:47 final size:47
Alignment explanation
Indices: 38232442--38232653 Score: 356
Period size: 47 Copynumber: 4.5 Consensus size: 47
38232432 GAGGAAGTGC
38232442 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
38232489 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
38232536 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
* *
38232583 -AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
*
38232630 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
38232654 ATGATAAAGC
Statistics
Matches: 158, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
46 23 0.15
47 115 0.73
48 9 0.06
49 11 0.07
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:38232564 original size:70 final size:70
Alignment explanation
Indices: 38232443--38232632 Score: 346
Period size: 70 Copynumber: 2.7 Consensus size: 70
38232433 AGGAAGTGCA
38232443 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCA
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCA
38232507 GTTATT
65 GTTATT
38232513 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
38232578 TTATT
66 TTATT
* *
38232583 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTACTAAA
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAA
38232633 AGAGGCTAGG
Statistics
Matches: 117, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
70 94 0.80
71 23 0.20
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (70 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
TTATT
Found at i:38232882 original size:31 final size:31
Alignment explanation
Indices: 38232847--38232910 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
38232837 CGTTTACAGT
*
38232847 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
38232878 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
38232909 AA
1 AA
38232911 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:38237776 original size:40 final size:40
Alignment explanation
Indices: 38237641--38237864 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
38237631 TTGAATGCTG
* * *
38237641 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
38237681 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
38237720 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * * *
38237760 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* * *
38237800 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
38237839 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38237865 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 65 0.41
40 81 0.52
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:38237777 original size:79 final size:79
Alignment explanation
Indices: 38237694--38237864 Score: 227
Period size: 79 Copynumber: 2.2 Consensus size: 79
38237684 GGACTAAGAT
* *
38237694 CCGAAGGCATTTGTGCGAGATA-CAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTA
* *
38237758 AATCCGGGTTAAGTC
65 AAACCGGGCTAAGTC
* * * * * *
38237773 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
38237838 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
38237852 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38237865 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
79 58 0.73
80 21 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:38237882 original size:79 final size:80
Alignment explanation
Indices: 38237720--38237897 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
38237710 GAGATACAAT
* * * *
38237720 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
38237785 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
38237800 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
38237864 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
38237879 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38237898 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:38245633 original size:40 final size:39
Alignment explanation
Indices: 38245596--38245773 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
38245586 ATATCCGGAC
38245596 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAA-TCCGGGT
* *
38245636 TAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * *
38245676 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
38245716 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
38245755 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
38245774 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 33 0.27
40 85 0.70
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:38245686 original size:80 final size:79
Alignment explanation
Indices: 38245602--38245773 Score: 229
Period size: 80 Copynumber: 2.2 Consensus size: 79
38245592 GGACTAAGAT
*
38245602 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
38245666 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * *
38245682 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
38245747 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
38245761 CCGAAGGCATTTG
1 CCGAAGGCATTTG
38245774 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 38 0.47
80 39 0.49
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:38245791 original size:79 final size:80
Alignment explanation
Indices: 38245629--38245806 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
38245619 AGATACAAAT
* * * *
38245629 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
38245694 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
38245709 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
38245773 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
38245788 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38245807 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:38247488 original size:31 final size:31
Alignment explanation
Indices: 38247450--38247514 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
38247440 ATAATTGAAC
* *
38247450 TATCATCAGACAAAGATAA-TCGAGTATTTAT
1 TATCATCAGACAAAGACAACT-GAGTATTCAT
38247481 TATCATCAGACAAAGACAACTGAGTATTCAT
1 TATCATCAGACAAAGACAACTGAGTATTCAT
38247512 TAT
1 TAT
38247515 TCGTAAGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (31 bp):
TATCATCAGACAAAGACAACTGAGTATTCAT
Found at i:38255545 original size:19 final size:20
Alignment explanation
Indices: 38255521--38255558 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38255511 GGTACCACCA
38255521 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
38255540 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
38255559 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:38255947 original size:93 final size:93
Alignment explanation
Indices: 38255788--38255958 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
38255778 GACCCTAAGT
* * *
38255788 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
38255853 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
38255881 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
38255946 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38255959 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38255955 original size:46 final size:46
Alignment explanation
Indices: 38255783--38255955 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
38255773 AACCCGACCC
* * * * *
38255783 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCTA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
38255829 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
38255877 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
38255922 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38255956 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:38263484 original size:20 final size:21
Alignment explanation
Indices: 38263439--38263485 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
38263429 TTCTTTTCTC
* *
38263439 TTTCTTCCTTTCTTCCACTCT
1 TTTCTTCCTTTCTCCCACTAT
*
38263460 TTTCTTCCTTTC-CCCCCTAT
1 TTTCTTCCTTTCTCCCACTAT
38263480 TTTCTT
1 TTTCTT
38263486 TTTCTTTCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.04, C:0.38, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTCTTCCTTTCTCCCACTAT
Found at i:38282117 original size:6 final size:6
Alignment explanation
Indices: 38282106--38282237 Score: 114
Period size: 6 Copynumber: 21.8 Consensus size: 6
38282096 AACCAAAATG
* *
38282106 AGAATC AGAATC AGAATT AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
38282154 AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
* *
38282202 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
38282238 GTGAATGCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
5 9 0.09
6 85 0.83
7 6 0.06
8 3 0.03
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:38282169 original size:36 final size:30
Alignment explanation
Indices: 38282106--38282237 Score: 214
Period size: 30 Copynumber: 4.4 Consensus size: 30
38282096 AACCAAAATG
38282106 AGAATCAGAATCAGA-ATTAGTAACAGAATC
1 AGAATCAGAATCA-ATATTAGTAACAGAATC
38282136 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
38282166 AGAATCAGAATCAATATTAGTAACAGAATC
1 AGAATCAGAATCAATATTAGTAACAGAATC
*
38282196 AGAATCAGAATCAGA-ATTAGGTGACAGAATC
1 AGAATCAGAATCA-ATATTA-GTAACAGAATC
38282227 AGAATCAGAAT
1 AGAATCAGAAT
38282238 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
29 1 0.01
30 75 0.77
31 22 0.22
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAATATTAGTAACAGAATC
Found at i:38282778 original size:27 final size:26
Alignment explanation
Indices: 38282739--38282821 Score: 85
Period size: 27 Copynumber: 3.1 Consensus size: 26
38282729 TCGATCGGTC
* *
38282739 AACAGATATTGTGATAGAGTCACCAG
1 AACAGATATTGTGACAGAGCCACCAG
*
38282765 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAGAGCCACCAG
* * **
38282792 AACAGATCTTTGTGGCATTGCCACCAG
1 AACAGAT-ATTGTGACAGAGCCACCAG
38282819 AAC
1 AAC
38282822 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.14
27 42 0.86
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (26 bp):
AACAGATATTGTGACAGAGCCACCAG
Found at i:38283050 original size:27 final size:27
Alignment explanation
Indices: 38283020--38283215 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
38283010 GGGGCAAAAT
* * * *
38283020 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38283047 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38283074 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
38283101 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38283128 GGTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38283155 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38283182 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38283209 AGTAATT
1 GGTAATT
38283216 TCACAATCAA
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:38283086 original size:54 final size:54
Alignment explanation
Indices: 38283020--38283215 Score: 266
Period size: 54 Copynumber: 3.6 Consensus size: 54
38283010 GGGGCAAAAT
* * * * *
38283020 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
38283074 GGTATTTCTACCCTATAAGGGTATTTCGATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
** *
38283128 GGTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
38283182 GGTAATTCTACCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCTATAAGGGTATTTCGGTAATT
38283216 TCACAATCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 125 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:38283164 original size:81 final size:81
Alignment explanation
Indices: 38283039--38283215 Score: 264
Period size: 81 Copynumber: 2.2 Consensus size: 81
38283029 ACCCCACAAA
* * * *
38283039 GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCGAT
*
38283104 AATTCTACCCTACGGG
66 AATTCTACCCTACAGG
* * * *
38283120 GGTATTTCGGTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCGAT
38283185 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
*
38283201 GGTATTTCAGTAATT
1 GGTATTTCGGTAATT
38283216 TCACAATCAA
Statistics
Matches: 86, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:38283250 original size:27 final size:27
Alignment explanation
Indices: 38283220--38283739 Score: 550
Period size: 27 Copynumber: 19.3 Consensus size: 27
38283210 GTAATTTCAC
*
38283220 AATCAAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38283247 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38283274 AA-CTGAGGGT-AAACTAGTAATTTTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* * **
38283301 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38283328 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38283355 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38283382 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * *
38283409 AATCAAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
38283436 AA-CTGAGGGTAAACCAGTAATTCTGAA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
38283463 AATCAAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38283490 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
***
38283517 AATCGAGGGTAAAATAATAATTCTGT-
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38283543 AAGCTGAGGGTACAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** *
38283571 AA-CTGAGGGTAAAATAGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
38283598 AATTGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38283625 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
38283652 AATCGAGGGTAAAATGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * * *
38283679 AATTGAGGGTAAAATGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38283706 AATCGAGCGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38283733 AATCGAG
1 AATCGAG
38283740 AGTACTTTGG
Statistics
Matches: 412, Mismatches: 68, Indels: 26
0.81 0.13 0.05
Matches are distributed among these distances:
26 10 0.02
27 392 0.95
28 10 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:38285743 original size:6 final size:6
Alignment explanation
Indices: 38285732--38285834 Score: 108
Period size: 6 Copynumber: 17.2 Consensus size: 6
38285722 AACCAAAATG
*
38285732 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
*
38285780 AGTAA-C AGAATC AGAATC AGAATC A-ATATT AGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC AGAATC AGAATC
38285828 AGAATC A
1 AGAATC A
38285835 AAATTAGGTG
Statistics
Matches: 83, Mismatches: 4, Indels: 20
0.78 0.04 0.19
Matches are distributed among these distances:
5 8 0.10
6 69 0.83
7 4 0.05
8 2 0.02
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:38285747 original size:30 final size:29
Alignment explanation
Indices: 38285733--38285863 Score: 192
Period size: 30 Copynumber: 4.3 Consensus size: 29
38285723 ACCAAAATGA
*
38285733 GAATCAGAATCAGAATCAGTAACAGAATCA
1 GAATCAGAATCA-AATTAGTAACAGAATCA
38285763 GAATCAGAATCAATATTAGTAACAGAATCA
1 GAATCAGAATCAA-ATTAGTAACAGAATCA
38285793 GAATCAGAATCAATATTAGTAACAGAATCA
1 GAATCAGAATCAA-ATTAGTAACAGAATCA
38285823 GAATCAGAATCAAAATTAGGTGAA-AGAATCA
1 GAATCAGAATC-AAATTA-GT-AACAGAATCA
38285854 GAATCAGAAT
1 GAATCAGAAT
38285864 GTGAATGCAA
Statistics
Matches: 96, Mismatches: 1, Indels: 7
0.92 0.01 0.07
Matches are distributed among these distances:
29 1 0.01
30 72 0.75
31 21 0.22
32 2 0.02
ACGTcount: A:0.50, C:0.13, G:0.16, T:0.21
Consensus pattern (29 bp):
GAATCAGAATCAAATTAGTAACAGAATCA
Found at i:38286044 original size:27 final size:27
Alignment explanation
Indices: 38285981--38286054 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
38285971 ACCATGACTG
* * *
38285981 CCAGAAT-AGATATCGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
38286007 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
* *
38286034 CCCGAATCAGATAATGTGGCA
1 CCAGAATCAGATATTGTGGCA
38286055 AACCCACCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 4 0.10
27 32 0.80
28 2 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:38286267 original size:22 final size:22
Alignment explanation
Indices: 38286219--38286277 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
38286209 GTAAATACGT
*
38286219 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
38286241 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
38286263 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
38286278 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:38286413 original size:27 final size:26
Alignment explanation
Indices: 38286365--38286420 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
38286355 TCGATCGGTC
38286365 AACAGATATTGTGGCAGAGCCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
* **
38286391 AACAGATATTTGTGGTATTGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
38286418 AAC
1 AAC
38286421 GCTTCCTCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:38286648 original size:27 final size:27
Alignment explanation
Indices: 38286618--38286813 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
38286608 AGGGCAAAAT
* * * *
38286618 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38286645 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38286672 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
38286699 GATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
38286726 GGTAATTCTACCCCATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38286753 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
38286780 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
38286807 AGTAATT
1 GGTAATT
38286814 TCACAATCAA
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:38286684 original size:54 final size:54
Alignment explanation
Indices: 38286618--38286813 Score: 266
Period size: 54 Copynumber: 3.6 Consensus size: 54
38286608 AGGGCAAAAT
* * *
38286618 GGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
38286672 GGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACGGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* **
38286726 GGTAATTCTACCCCATAAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
38286780 GGTAATTCTATCCTACAGGGGTATTTCAGTAATT
1 GGTAATTCTACCCCACAAGGGTATTTCGGTAATT
38286814 TCACAATCAA
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:38286848 original size:27 final size:27
Alignment explanation
Indices: 38286818--38287334 Score: 582
Period size: 27 Copynumber: 19.2 Consensus size: 27
38286808 GTAATTTCAC
* *
38286818 AATCAAGGGTAAAACGGTAATTCTTTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38286845 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38286872 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * * **
38286899 AATCAAGGGTAAAACGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38286926 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38286953 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38286980 AA-CTGAGGGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
38287007 AATCGAGGGTAAAACGATAATTTTGTG
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38287034 AA-CTAAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAAC-GGTAATTCTGTA
* **
38287061 AATCGAGGGT-AAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38287087 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38287114 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38287141 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
**
38287168 AA-CTGAGGGTAAAATAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
38287195 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38287222 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* **
38287249 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
38287276 AATTGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38287303 AATCGAGGGTAAAAAGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38287330 AATCG
1 AATCG
38287335 GGAGTACTTT
Statistics
Matches: 415, Mismatches: 63, Indels: 24
0.83 0.13 0.05
Matches are distributed among these distances:
26 27 0.07
27 383 0.92
28 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:38289355 original size:6 final size:6
Alignment explanation
Indices: 38289344--38289445 Score: 95
Period size: 6 Copynumber: 16.8 Consensus size: 6
38289334 AACCAAAATG
* *
38289344 AGAATC AGAATC AGAATC AGTAA-C AGAATC AAAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
38289392 AGTAA-C ATAATC AGAATC AGAATC AGAATT AGGTAA-C AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
38289441 AGAAT
1 AGAAT
38289446 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
5 7 0.09
6 64 0.81
7 5 0.06
8 3 0.04
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:38289359 original size:30 final size:30
Alignment explanation
Indices: 38289323--38289445 Score: 142
Period size: 30 Copynumber: 4.1 Consensus size: 30
38289313 AAGAAACATT
* *
38289323 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* * *
38289353 ATCAGAATCAGTAACAGAATCAAAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* *
38289383 ATCA-ATATTAGTAACATAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
38289413 ATCAGAATTAGGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
38289444 AT
1 AT
38289446 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
29 1 0.01
30 55 0.70
31 23 0.29
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:38289585 original size:27 final size:26
Alignment explanation
Indices: 38289548--38289613 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
38289538 AGCATGGCTG
*
38289548 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
38289574 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
38289601 CCAGAATCAGATA
1 CCAGAA-CAGATA
38289614 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:38289618 original size:27 final size:27
Alignment explanation
Indices: 38289548--38289621 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
38289538 AGCATGGCTG
* *
38289548 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
38289574 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
38289601 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
38289622 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:38289628 original size:27 final size:27
Alignment explanation
Indices: 38289572--38289629 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
38289562 GTGACAGAGT
* * *
38289572 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
38289599 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
38289626 CACC
1 CACC
38289630 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:38289976 original size:27 final size:26
Alignment explanation
Indices: 38289932--38290014 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
38289922 TCGATCAGTT
* *
38289932 AACAGATATTGTGACAGAGTCACCAG
1 AACAGATATTGTGGCAGAGCCACCAG
*
38289958 ATACAGATATTATGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
38289985 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
38290012 AAC
1 AAC
38290015 GCTTCCTCCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 42 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:38290381 original size:27 final size:27
Alignment explanation
Indices: 38290213--38290373 Score: 232
Period size: 27 Copynumber: 6.0 Consensus size: 27
38290203 AGGGCAAAAT
* * ** *
38290213 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38290240 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
38290267 GGTATTTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
38290294 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38290321 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
38290348 GGTAATTCTACCCTACAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
38290374 TAGTAATTTC
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:38290424 original size:27 final size:27
Alignment explanation
Indices: 38290386--38290902 Score: 573
Period size: 27 Copynumber: 19.2 Consensus size: 27
38290376 GTAATTTCAC
* *
38290386 AATCAAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
38290413 ATTCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38290440 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
38290467 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38290494 AATTGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38290521 AATCGAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
38290548 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
38290575 AATCGAGGGTAAAACGATGATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38290602 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
** * **
38290629 AATAAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38290656 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
38290683 AATTGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38290710 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * *
38290737 AA-CTGGGGGTAAAACAGTAATTCTGAA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
38290764 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38290791 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
38290818 AATCGAGGGTAAAACGGTAATT-T-TAA
1 AATCGAGGGTAAAACGGTAATTCTGT-A
* * *
38290844 AATTGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
38290871 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
38290898 AATCG
1 AATCG
38290903 GGAGTACTTT
Statistics
Matches: 415, Mismatches: 62, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 26 0.06
27 383 0.92
28 5 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:38303843 original size:39 final size:40
Alignment explanation
Indices: 38303729--38303910 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
38303719 GCTACTTGTT
* *
38303729 CAAATTCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38303769 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
38303809 CCAATACCTTCGGG-CTTAGCCCGGAATTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38303848 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38303889 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
38303911 AGACATCATT
Statistics
Matches: 120, Mismatches: 17, Indels: 10
0.82 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38303898 original size:79 final size:80
Alignment explanation
Indices: 38303735--38303910 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
38303725 TGTTCAAATT
* * *
38303735 CCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
*
38303800 TAACTCGCACCAATA
66 TAACTAGCACCAATA
* **
38303815 CCTTCGGG-CTTAGCCCGGA-ATTAGTAACTTGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATAT
* *
38303877 GGTCACTTAGCA-CAA-A
64 AGTAAC-TAGCACCAATA
38303893 GCCTTCGGGACTTAGCCC
1 -CCTTCGGGACTTAGCCC
38303911 AGACATCATT
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
78 5 0.06
79 57 0.70
80 20 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTAGCACCAATA
Found at i:38306631 original size:35 final size:35
Alignment explanation
Indices: 38306577--38306673 Score: 124
Period size: 37 Copynumber: 2.7 Consensus size: 35
38306567 TCTCTTCCAA
38306577 GGTGTCACCCTGAAGGACCTATA-AACAGTTTACAC
1 GGTGTCACCCTGAAGGACCTATATAACA-TTTACAC
* * * *
38306612 GGTGTCTCCTTGAAAGACCTCTATATATCATTTACAC
1 GGTGTCACCCTGAAGGA-C-CTATATAACATTTACAC
38306649 GGTGTCACCCTGAAGGACCTATATA
1 GGTGTCACCCTGAAGGACCTATATA
38306674 TAACCGTTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
35 21 0.40
36 2 0.04
37 26 0.50
38 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (35 bp):
GGTGTCACCCTGAAGGACCTATATAACATTTACAC
Found at i:38312993 original size:43 final size:43
Alignment explanation
Indices: 38312943--38313099 Score: 163
Period size: 43 Copynumber: 3.7 Consensus size: 43
38312933 TATCCCAGAT
* * *
38312943 ATGGTCTTACATGTTATCACATATCGATGCCACTGTCCTAGAA
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
* * * * * * * *
38312986 AGGGTCTTACTTGAAAACATATAACTATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
* * *
38313029 ATGGTCTTACACGTAATCACA-ATACAATGACAATGTCCTAGAC
1 ATGGTCTTACATGTAATCACATAT-CGATGCCAATGTCCTAGAC
*
38313072 ATGGTCTTACATGTAATCACATCTCGAT
1 ATGGTCTTACATGTAATCACATATCGAT
38313100 AACCTAATGT
Statistics
Matches: 88, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
42 1 0.01
43 86 0.98
44 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATATCGATGCCAATGTCCTAGAC
Found at i:38319397 original size:46 final size:46
Alignment explanation
Indices: 38319330--38319458 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
38319320 TGTAACCCGC
* * * *
38319330 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGTCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
38319376 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
38319422 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38319459 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:38319477 original size:46 final size:45
Alignment explanation
Indices: 38319338--38319477 Score: 133
Period size: 46 Copynumber: 3.0 Consensus size: 45
38319328 GCCCATAAGC
* * *
38319338 GAACTCGGACTCAACTCAACGAGCTCGG-TCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGAT-GCTCACCATCC-T-AGT
* *** *
38319384 GAACTCGGACTCAACTCAACGAGTTCAGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
38319430 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
38319476 GA
1 GA
38319478 CATGTCACTT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
46 76 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:38321161 original size:10 final size:10
Alignment explanation
Indices: 38321146--38321171 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
38321136 TCCTTGTGTT
38321146 CATATAAGTC
1 CATATAAGTC
38321156 CATATAAGTC
1 CATATAAGTC
38321166 CATATA
1 CATATA
38321172 TTTCATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (10 bp):
CATATAAGTC
Found at i:38321826 original size:15 final size:16
Alignment explanation
Indices: 38321791--38321828 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
38321781 AAAATTAAAG
38321791 CATAA-AAATTTCACA
1 CATAATAAATTTCACA
38321806 CA-AATAAA-TTCACA
1 CATAATAAATTTCACA
38321820 CATAATAAA
1 CATAATAAA
38321829 CATTCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (16 bp):
CATAATAAATTTCACA
Found at i:38322650 original size:10 final size:10
Alignment explanation
Indices: 38322635--38322659 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
38322625 AGGGTTTAAA
38322635 TAAATGTAAC
1 TAAATGTAAC
38322645 TAAATGTAAC
1 TAAATGTAAC
38322655 TAAAT
1 TAAAT
38322660 ACAATTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (10 bp):
TAAATGTAAC
Found at i:38323469 original size:12 final size:12
Alignment explanation
Indices: 38323452--38323476 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38323442 TGCAAATGAA
38323452 TCATTTCCATTT
1 TCATTTCCATTT
38323464 TCATTTCCATTT
1 TCATTTCCATTT
38323476 T
1 T
38323477 TGAAACCTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:38331028 original size:42 final size:41
Alignment explanation
Indices: 38330901--38331028 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 41
38330891 CTCATAGCAC
* * *
38330901 CATACCAATGCCATATCCCAGATATGGTCTTACATGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGAATCT
* * * * *
38330942 CATATCGATGCCAATAGCCTAGCTATGGTCTTACACAAAGTCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACACGAA-TCT
38330985 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACG-AATCT
38331027 CA
1 CA
38331029 CATAACCCTA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
41 10 0.14
42 45 0.63
43 16 0.23
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (41 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGAATCT
Found at i:38336190 original size:48 final size:48
Alignment explanation
Indices: 38336064--38336193 Score: 170
Period size: 48 Copynumber: 2.7 Consensus size: 48
38336054 AATCAATAAG
* * * *
38336064 TACCTATACCATGGCCCGAAGCCAAATCAAAGTAACTTATCCCCGGAG
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCGAAA
* * * *
38336112 TACCTATACTATGGCCCGTAGCCAAATCAAGGTAACTCATCTCTGAAA
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCGAAA
**
38336160 TACCTATACCATGGCTTGAAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTA
38336194 TAATTCACAC
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (48 bp):
TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCGAAA
Found at i:38339947 original size:27 final size:26
Alignment explanation
Indices: 38339907--38339958 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
38339897 CTCGCTGCAA
*
38339907 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
*
38339934 TCTGGTGACTTCGCCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
38339959 GCAGGCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:38348206 original size:47 final size:47
Alignment explanation
Indices: 38348155--38348332 Score: 275
Period size: 47 Copynumber: 3.7 Consensus size: 47
38348145 TATACACTTC
*
38348155 CACATCCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
38348202 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
* * * *
38348249 CACATTCATCACATTGGCCATTCGGCCTTATCACGCATATATATACTTT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACAT--GTT
* *
38348298 CACATTCATCACATTGGCCACTCGGCCCTATCACA
1 CACATTCATCACATTGGCCATTCGGCCTTATCACA
38348333 TATATATACT
Statistics
Matches: 121, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
47 87 0.72
49 34 0.28
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (47 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTT
Found at i:38348323 original size:49 final size:49
Alignment explanation
Indices: 38348139--38348343 Score: 251
Period size: 47 Copynumber: 4.3 Consensus size: 49
38348129 CGGGACTTAT
* * * *
38348139 CACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCA
1 CACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* * *
38348188 CACATACACAT--GTTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* * *
38348235 CACATACACAT--GTTCACATTCATCACATTGGCCATTCGGCCTTATCA
1 CACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
* * *
38348282 CGCATATATATACTTTCACATTCATCACATTGGCCACTCGGCCCTAT--
1 CACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
38348329 CACATATATATACTT
1 CACATATATATACTT
38348344 GTACATCAAT
Statistics
Matches: 140, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
47 102 0.73
49 38 0.27
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.31
Consensus pattern (49 bp):
CACATATATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCA
Found at i:38362558 original size:15 final size:15
Alignment explanation
Indices: 38362538--38362568 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
38362528 CATTAACTTC
38362538 ATACATTACTCAAAT
1 ATACATTACTCAAAT
38362553 ATACATTACTCAAAT
1 ATACATTACTCAAAT
38362568 A
1 A
38362569 GACCCTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (15 bp):
ATACATTACTCAAAT
Found at i:38375806 original size:46 final size:44
Alignment explanation
Indices: 38375695--38375868 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 44
38375685 CATTATAAGA
*
38375695 GCCACTGTAAGACCATGTCTGGGACATGGCATCGACATTGA-GATGA-GT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC--T-ACGA-GACGT
* * *
38375743 GCTAGTGTAAGACATGTCTGGGACATGCTTCGGCCT-CGAGACGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GACTACGAGACGT
*
38375787 AAGCCAGTGTAAGACATGTCCT-GGACATGCATCGACTACGAGAGGT
1 --GCCAGTGTAAGACATGT-CTGGGACATGCATCGACTACGAGACGT
* *
38375833 GTCAGTGTAAGACCATGTTTGGGACATGGCATCGAC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGAC
38375869 ACAGATATGC
Statistics
Matches: 106, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
43 2 0.02
44 16 0.15
45 15 0.14
46 45 0.42
47 18 0.17
48 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGACGT
Found at i:38378340 original size:40 final size:40
Alignment explanation
Indices: 38378290--38378472 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
38378280 GCTACTCATT
*
38378290 CAAATG-CTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
38378329 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
38378369 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38378408 -AAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38378448 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38378473 CATCATTCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
37 2 0.02
38 10 0.08
39 40 0.33
40 60 0.50
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38378389 original size:79 final size:80
Alignment explanation
Indices: 38378290--38378472 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
38378280 GCTACTCATT
* * * *
38378290 CAAATG-CTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACA-AAATGCCTTC-GGATCTTAACCC
* *
38378352 GGATTTAGTAAC-TCGCA
63 GGATATAGTAACTTAGCA
* **
38378369 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACAAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACAAAATGCCTTCGGATCTTAACCCGGA
* *
38378433 TATGGTCACTTAGCA
66 TATAGTAACTTAGCA
38378448 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38378473 CATCATTCAA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
77 3 0.03
78 33 0.38
79 44 0.50
80 8 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACAAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:38381218 original size:78 final size:78
Alignment explanation
Indices: 38381093--38381314 Score: 258
Period size: 78 Copynumber: 2.8 Consensus size: 78
38381083 GCTCCTCGTT
* * *
38381093 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
38381157 GATTTA-TAACTCGCA
63 GAATTAGTAACTCGCA
38381172 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
38381235 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * *
38381249 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCC
38381312 GGA
62 GGA
38381315 CATCATTTAA
Statistics
Matches: 126, Mismatches: 8, Indels: 17
0.83 0.05 0.11
Matches are distributed among these distances:
76 13 0.10
77 24 0.19
78 49 0.39
79 29 0.23
80 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:38381226 original size:38 final size:40
Alignment explanation
Indices: 38381093--38381314 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
38381083 GCTCCTCGTT
* *
38381093 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
38381133 CAAATGCCTTCGGGACTTAACCCGGATTTA-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
38381172 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
38381211 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
38381249 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
38381290 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38381315 CATCATTTAA
Statistics
Matches: 165, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
38 53 0.32
39 42 0.25
40 54 0.33
41 16 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:38381314 original size:40 final size:40
Alignment explanation
Indices: 38381093--38381314 Score: 225
Period size: 38 Copynumber: 5.7 Consensus size: 40
38381083 GCTCCTCGTT
* * *
38381093 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTGT-ACTTCGCA
* *
38381133 CAAATGCCTTCGGGACTTAACCCGGAT-TTATAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTGT-ACTTCGCA
38381172 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATT-GTACT-TCGCA
38381211 CAAATGCCTTC-GG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATT-GTACT-TCGCA
* *
38381249 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTGT-ACTTCGCA
38381290 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38381315 CATCATTTAA
Statistics
Matches: 162, Mismatches: 10, Indels: 20
0.84 0.05 0.10
Matches are distributed among these distances:
38 53 0.33
39 41 0.25
40 52 0.32
41 15 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTGTACTTCGCA
Found at i:38384869 original size:28 final size:28
Alignment explanation
Indices: 38384837--38384933 Score: 158
Period size: 28 Copynumber: 3.4 Consensus size: 28
38384827 ATAGTAAGTC
38384837 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
*
38384865 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
38384894 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
*
38384922 TGCACACTTAGT
1 CGCACACTTAGT
38384934 CCTATGCAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
28 37 0.58
29 27 0.42
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:38384895 original size:29 final size:29
Alignment explanation
Indices: 38384837--38384964 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
38384827 ATAGTAAGTC
*
38384837 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
38384865 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
38384894 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * * *
38384922 TGCACACTTAGTCCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
38384951 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38384965 CAATCTCATG
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 38 0.44
29 46 0.53
30 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:38384927 original size:57 final size:57
Alignment explanation
Indices: 38384836--38384964 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
38384826 TATAGTAAGT
* *
38384836 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTCCTATACA-AATCAAAC
* * * * *
38384893 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTCCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTCCTATACAAATCAAAC
38384950 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
38384965 CAATCTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTCCTATACAAATCAAAC
Found at i:38384938 original size:28 final size:28
Alignment explanation
Indices: 38384837--38384962 Score: 144
Period size: 28 Copynumber: 4.4 Consensus size: 28
38384827 ATAGTAAGTC
**
38384837 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTCCTATATAATCAAACT
* *
38384865 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGT-CCTATATAATCAAACT
*
38384894 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTCCTATATAATCAAACT
* ** * *
38384922 TGCACACTTAGTCCTATGCAATTTAAACC
1 CGCACACTTAGTCCTATATAA-TCAAACT
38384951 CGCACACTTAGT
1 CGCACACTTAGT
38384963 GCCAATCTCA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 42 0.50
29 42 0.50
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTCCTATATAATCAAACT
Found at i:38390735 original size:33 final size:33
Alignment explanation
Indices: 38390688--38390754 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
38390678 CCGTTTACTT
* *
38390688 AGCTACATACATTGATATGGCCATGCCCCGAGA
1 AGCTAAATAAATTGATATGGCCATGCCCCGAGA
38390721 AGCTAAATAAATTGATATGGCCATGCCCCGAGA
1 AGCTAAATAAATTGATATGGCCATGCCCCGAGA
38390754 A
1 A
38390755 CGCCCCTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (33 bp):
AGCTAAATAAATTGATATGGCCATGCCCCGAGA
Found at i:38390882 original size:30 final size:31
Alignment explanation
Indices: 38390823--38390891 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
38390813 ATCCTAGCCT
*
38390823 ATTGAGCTTGATTCAGCTCGAATTTTAGCTC
1 ATTGAGCTTGATTCAGCTCGAACTTTAGCTC
*
38390854 ATTGAGCTTGA-TCTGACTC-AACTTTAGCTC
1 ATTGAGCTTGATTCAG-CTCGAACTTTAGCTC
38390884 ATTGAGCT
1 ATTGAGCT
38390892 CATTCTATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 21 0.60
31 14 0.40
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (31 bp):
ATTGAGCTTGATTCAGCTCGAACTTTAGCTC
Found at i:38391016 original size:18 final size:19
Alignment explanation
Indices: 38390976--38391017 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
38390966 TAAATTTAGT
* *
38390976 TTAAG-TAATTAATGTTTC
1 TTAAGTTAATTAATATGTC
38390994 TTAAGTTAATTAATATGTC
1 TTAAGTTAATTAATATGTC
38391013 -TAAGT
1 TTAAGT
38391018 ATTTTTTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.48
Consensus pattern (19 bp):
TTAAGTTAATTAATATGTC
Found at i:38397508 original size:53 final size:53
Alignment explanation
Indices: 38397431--38397536 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
38397421 TATTTTTATC
38397431 ATACAAATGTTATATCTAGAATAGTTATTATCTTTCTCATGTTAAAATTCTTT
1 ATACAAATGTTATATCTAGAATAGTTATTATCTTTCTCATGTTAAAATTCTTT
*
38397484 ATACAAATGTTATATGTAGAATAGTTATTATCTTTCTCATGTTAAAATTCTTT
1 ATACAAATGTTATATCTAGAATAGTTATTATCTTTCTCATGTTAAAATTCTTT
38397537 CTCATTATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.47
Consensus pattern (53 bp):
ATACAAATGTTATATCTAGAATAGTTATTATCTTTCTCATGTTAAAATTCTTT
Found at i:38401209 original size:21 final size:21
Alignment explanation
Indices: 38401171--38401210 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
38401161 ATTACTCCAA
*
38401171 GGAAGCCGATTGATCCATCTC
1 GGAAGCCGATTCATCCATCTC
38401192 GGAAGCCGGATTCA-CCATC
1 GGAAGCC-GATTCATCCATC
38401211 AAGATTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (21 bp):
GGAAGCCGATTCATCCATCTC
Found at i:38404209 original size:27 final size:27
Alignment explanation
Indices: 38404179--38404499 Score: 374
Period size: 27 Copynumber: 11.9 Consensus size: 27
38404169 AGTACTCCCG
38404179 ATTTACAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
* *
38404206 ATTTACAGAATTACCGTTTTACTCTCG
1 ATTTACAGAATTACCGTTTTACCCTCA
** * *
38404233 ATTTTTAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCA
*
38404260 ATTTACAGAATTACTGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
* **
38404287 CTTTACAGAATTACTATTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
* *
38404314 GTTTGCAGAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
* * *
38404341 GTTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCA
*
38404368 ATTTACAGAATTACTGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
** * *
38404395 ATTTGTAAAATTACCG-TTTACCCTTA
1 ATTTACAGAATTACCGTTTTACCCTCA
* * *
38404421 ATTTATAGAATTACTGGTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCA
* * * *
38404448 GTTTACAAAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCA
* *
38404475 ATTTATAGAATTACTGTTTTACCCT
1 ATTTACAGAATTACCGTTTTACCCT
38404500 TGATTGTGAA
Statistics
Matches: 250, Mismatches: 43, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
26 22 0.09
27 228 0.91
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCA
Found at i:38404268 original size:81 final size:81
Alignment explanation
Indices: 38404146--38404504 Score: 420
Period size: 81 Copynumber: 4.4 Consensus size: 81
38404136 TACTGAAATG
* **** *
38404146 CCCTCGACTTGTAAAATTACCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTCAATTT
1 CCCTCGATTTGTAAAATTACCGTTTTAC-CCTCGATTTACAGAATTACTGTTTTACCCTCAATTT
38404210 ACAGAATTACCGTTTTA
65 ACAGAATTACCGTTTTA
* * *
38404227 CTCTCGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCACTTTA
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTA
**
38404292 CAGAATTACTATTTTA
66 CAGAATTACCGTTTTA
* * *
38404308 CCCTC-AGTTTGCAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTACCCTCGATT
1 CCCTCGA-TTTGTAAAATTACCGTTTTACCCTCGA-TTTACAGAATTACTGTTTTACCCTCAATT
*
38404371 TACAGAATTACTGTTTTA
64 TACAGAATTACCGTTTTA
* ** * * *
38404389 CCCTCAATTTGTAAAATTACCG-TTTACCCTTAATTTATAGAATTACTGGTTTACCCTCAGTTTA
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTA
* *
38404453 CAAAATTATCGTTTTA
66 CAGAATTACCGTTTTA
* * * *
38404469 CCCTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT
38404505 GTGAAATTAC
Statistics
Matches: 239, Mismatches: 33, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
80 70 0.29
81 168 0.70
82 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTA
CAGAATTACCGTTTTA
Found at i:38404572 original size:54 final size:54
Alignment explanation
Indices: 38404509--38404705 Score: 236
Period size: 54 Copynumber: 3.6 Consensus size: 54
38404499 TTGATTGTGA
* ** *
38404509 AATTACTGAAATACCCCTGTAGGGTAAAATTTTCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * * *
38404563 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCATGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
* * *
38404617 AATTA-TCAAAATACCCTTGAAGGGTAGAAA-TACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTA-AAATTACCAAAATACCCCTGTAGGGTAG
* * *
38404671 AATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACTGAAATACCCTTGTAGGGTAAAATTACCA
38404706 TTTTGCCTCT
Statistics
Matches: 118, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
53 4 0.03
54 112 0.95
55 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAAAATTACCAAAATACCCCTGTAGGGTAG
Found at i:38404626 original size:81 final size:81
Alignment explanation
Indices: 38404517--38404702 Score: 239
Period size: 81 Copynumber: 2.3 Consensus size: 81
38404507 GAAATTACTG
* * * * *
38404517 AAATACCCCTGTAGGGTAAAATTTTCAAAATACCCCT-ATAGGGTAGAATTACTGAAATACCCTT
1 AAATACCCATGTAGGGTAAAATTATCAAAATACCCCTGA-AGGGTAGAAATACCGAAATACCCCT
38404581 ATAGGATAGAATTACCA
65 ATAGGATAGAATTACCA
* * *
38404598 AAATACCCATGTAGGGTAGAATTATCAAAATACCCTTGAAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCATGTAGGGTAAAATTATCAAAATACCCCTGAAGGGTAGAAATACCGAAATACCCCTA
* *
38404663 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
* * *
38404679 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCATGTAGGGTAAAATTA
38404703 CCATTTTGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 89 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (81 bp):
AAATACCCATGTAGGGTAAAATTATCAAAATACCCCTGAAGGGTAGAAATACCGAAATACCCCTA
TAGGATAGAATTACCA
Done.