Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 87 of 410
Found at i:25358515 original size:53 final size:55
Alignment explanation
Indices: 25358431--25358533 Score: 126
Period size: 53 Copynumber: 1.9 Consensus size: 55
25358421 AATGTACTAT
25358431 AAAATTAATATGATAATAATAATAGTGATAATACA-AT-GA-TAATAATAAAATGG
1 AAAATTAATATGATAATAATAATAGTGATAATA-ATATAGACTAATAATAAAATGG
* *
25358484 AAAA-TAATAGTGATGATATTAATAG-GAATAATAATATAGACTAATAATAA
1 AAAATTAATA-TGATAATAATAATAGTG-ATAATAATATAGACTAATAATAA
25358534 CAATAACAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
52 7 0.16
53 25 0.58
54 2 0.05
55 9 0.21
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.30
Consensus pattern (55 bp):
AAAATTAATATGATAATAATAATAGTGATAATAATATAGACTAATAATAAAATGG
Found at i:25358663 original size:19 final size:18
Alignment explanation
Indices: 25358641--25358705 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 18
25358631 ATAGCAACGA
*
25358641 TAATAATAAATAATAAGAG
1 TAATAAT-AATAATAATAG
* *
25358660 TAATAGTAATAATAATAA
1 TAATAATAATAATAATAG
25358678 TAAATAATAATAATAATATG
1 T-AATAATAATAATAATA-G
25358698 TAATAATA
1 TAATAATA
25358706 CTCTAAACGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
18 10 0.26
19 28 0.72
20 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
TAATAATAATAATAATAG
Found at i:25358826 original size:5 final size:5
Alignment explanation
Indices: 25358811--25358840 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
25358801 ATACGTGAAG
25358811 AAATAA AAATA AAATA AAATA AAATA AAAT
1 AAAT-A AAATA AAATA AAATA AAATA AAAT
25358841 GCTGAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:25361907 original size:46 final size:46
Alignment explanation
Indices: 25361745--25361916 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
25361735 AACCCGCCCC
* *
25361745 TAAGTGAACTCGGACTCAACTCAACGAGCTCAG-CATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
25361790 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
25361838 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
25361883 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
25361917 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 32 0.30
46 29 0.28
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:25361912 original size:93 final size:92
Alignment explanation
Indices: 25361750--25361919 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
25361740 GCCCCTAAGT
*
25361750 GAACTCGGACTCAACTCAACGAGCTCAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAT
1 GAACTCGGACTCAACTCAACGAGCTCAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
25361815 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
* *
25361842 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
25361907 CGAGTTCGGATGC
65 CGAGTTCGGATGC
25361920 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 26 0.35
93 48 0.65
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:25361935 original size:46 final size:43
Alignment explanation
Indices: 25361747--25361927 Score: 150
Period size: 46 Copynumber: 4.0 Consensus size: 43
25361737 CCCGCCCCTA
* * * * *
25361747 AGTGAACTCGGACTCAACTCAACGAGCTCAGCATTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGC-CAACCATT
*
25361792 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTA-CATTT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCA-TT
* * * *
25361839 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATT
25361885 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT
25361928 CCTAGTGACA
Statistics
Matches: 110, Mismatches: 15, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
43 1 0.01
44 14 0.13
45 28 0.25
46 31 0.28
47 30 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATT
Found at i:25363326 original size:44 final size:44
Alignment explanation
Indices: 25363273--25363502 Score: 223
Period size: 44 Copynumber: 5.2 Consensus size: 44
25363263 CCATTATAAT
*
25363273 TTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * * * * * *** ** *
25363317 TTCAAGGAGATGTGAGTTGTGGCTTCGAGCCACTCTAATGCCAT
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
*
25363361 TTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
* * * * ** *
25363405 TTCAAGGAGATACGA-A-TTGTGGCTTCTAGCTGCTCCAAT-GACAT
1 TTCAAGGAGA-A-GAGATTTGTAGCTTCGATCTACTCCGCTGGA-AC
25363449 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
1 TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
25363493 TTCAAGGAGA
1 TTCAAGGAGA
25363503 TAAGAATTGT
Statistics
Matches: 139, Mismatches: 41, Indels: 12
0.72 0.21 0.06
Matches are distributed among these distances:
42 2 0.01
43 4 0.03
44 127 0.91
45 4 0.03
46 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (44 bp):
TTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAAC
Found at i:25363375 original size:88 final size:88
Alignment explanation
Indices: 25363271--25363512 Score: 394
Period size: 88 Copynumber: 2.8 Consensus size: 88
25363261 TTCCATTATA
** *
25363271 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATGTGAGTTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
* *
25363336 TGGCTTCGAGCCACTCTAATGCC
66 TGGCTTCGAGCCACTCCAATGAC
25363359 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
* **
25363424 TGGCTTCTAGCTGCTCCAATGAC
66 TGGCTTCGAGCCACTCCAATGAC
* *
25363447 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
1 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
25363512 T
66 T
25363513 TGATTTTGAC
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 144 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (88 bp):
ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATACGAATTG
TGGCTTCGAGCCACTCCAATGAC
Found at i:25363620 original size:44 final size:43
Alignment explanation
Indices: 25363563--25364253 Score: 148
Period size: 44 Copynumber: 15.8 Consensus size: 43
25363553 GGTGGGTTAA
* * * *
25363563 ATCTGCTCCACTACTGCTTAGAGAGATAAGATTTGCCATCTTC
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* *
25363606 GATCTGCTCAACTACTGCTTAGGGAGACAAGATCTACAATCTTC
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* * * ** ** *
25363650 AGCCTACTCCACTACTGCTTAGGGAGATAGGA--TGGAGGCTTAA
1 A-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT-C
* *
25363693 ATCTG--CC-CTACTGTAACTTCAGGGAGATAAAAT-TCACTATCTTC
1 ATCTGCTCCACTACTG---CTT-AGGGAGATAAGATCT-ACAATCTTC
** *
25363737 AGTCTGCTCCACTACAACTTCAGGGAGATAAGA-CTTGCAA-CTTC
1 A-TCTGCTCCACTACTGCTT-AGGGAGATAAGATC-TACAATCTTC
* * ** * * *
25363781 AACCTGCTCCACTGCAACTTTAGGGAGATAAGGT-TAGC--T-ATG
1 -ATCTGCTCCACTACTGC-TTAGGGAGATAAGATCTA-CAATCTTC
* * * ** ** * ***
25363823 ATCTCCTCTACTGCAACTTCAGAAAGATAAGATTTGTTATCTTC
1 ATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTC
* * * *
25363867 GATCTGCTTCACTACTTCTTAGAGAGATAAGATCTACATTCTTC
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* ** * * * *
25363911 AGCTTATTACC-CTACTTGCTTAGGGGGTTAAG-GCTCACCATCTTC
1 ATC-TGCT-CCACTAC-TGCTTAGGGAGATAAGATCT-ACAATCTTC
* * ** ** *
25363956 GGTCTGCTCCACTACTGCTTAAGGAGATGGGATCTGTAATTTTC
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* * * * *
25364000 AGCCTGTTACC-CTACTGCTTAGGG-GTTAAG-GCT-CATCGTCTTC
1 A-TCTGCT-CCACTACTGCTTAGGGAGATAAGATCTACA--ATCTTC
* * * * *
25364043 GATCTACTCCACTACTGCTTAGGGAGATGAGATCTATAATTTTT
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* * * * * * **
25364087 AGCCTGTTACC-CTGCTGCTTAGGGGGTTAAG-GCTCACCGTCTTC
1 A-TCTGCT-CCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTC
* ** * *
25364131 GATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTT
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
* * * * **
25364175 AGTCTGTTACC-CTACTGCTTAGGGGGTTAAG-GCTCACCGTCTTC
1 A-TCTGCT-CCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTC
**
25364219 GATCTATTCCACTACTGCTTAGGGAGATAAGATCT
1 -ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
25364254 GTAATTTTCA
Statistics
Matches: 448, Mismatches: 146, Indels: 105
0.64 0.21 0.15
Matches are distributed among these distances:
39 6 0.01
40 4 0.01
41 25 0.06
42 16 0.04
43 49 0.11
44 257 0.57
45 82 0.18
46 3 0.01
47 2 0.00
48 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (43 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
Found at i:25363793 original size:131 final size:129
Alignment explanation
Indices: 25363521--25363793 Score: 295
Period size: 131 Copynumber: 2.1 Consensus size: 129
25363511 GTTGATTTTG
* * *
25363521 ACCTACTCCACTATTGCTTAGGGAGATAGGACGGTGGGTTAAATCTGCTCCACTACTGCTTAGAG
1 ACCTACTCCACTACTGCTTAGGGAGATAGGACGGAGGCTTAAATCTGC-CCACTACTGCTTAGAG
* ** **
25363586 AGATAAGATTTGCCATCTTCGATCTGCTCAACTACTGCTTAGGGAGACAAGATCTACAATCTTCA
65 AGATAAAATTCACCATCTTCGATCTGCTCAACTACAACTTAGGGAGACAAGATCTACAATCTTCA
* *
25363651 GCCTACTCCACTACTGCTTAGGGAGATAGGATGGAGGCTTAAATCTG-CC-CTACTGTAACTTCA
1 ACCTACTCCACTACTGCTTAGGGAGATAGGACGGAGGCTTAAATCTGCCCACTACTG---CTT-A
* * * * *
25363714 GGGAGATAAAATTCACTATCTTC-AGTCTGCTCCACTACAACTTCAGGGAGATAAGA-CTTGCAA
62 GAGAGATAAAATTCACCATCTTCGA-TCTGCTCAACTACAACTT-AGGGAGACAAGATC-TACAA
25363777 -CTTCA
124 TCTTCA
*
25363782 ACCTGCTCCACT
1 ACCTACTCCACT
25363794 GCAACTTTAG
Statistics
Matches: 119, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
127 6 0.05
128 2 0.02
130 46 0.39
131 50 0.42
132 15 0.13
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (129 bp):
ACCTACTCCACTACTGCTTAGGGAGATAGGACGGAGGCTTAAATCTGCCCACTACTGCTTAGAGA
GATAAAATTCACCATCTTCGATCTGCTCAACTACAACTTAGGGAGACAAGATCTACAATCTTCA
Found at i:25364153 original size:88 final size:88
Alignment explanation
Indices: 25363862--25364286 Score: 604
Period size: 88 Copynumber: 4.8 Consensus size: 88
25363852 AGATTTGTTA
* * * * * *
25363862 TCTTCGATCTGCTTCACTACTTCTTAGAGAGATAAGATC--TACATTCTTCAGCTTATTACCCTA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTA-ATT-TTCAGCCTGTTACCCTA
*
25363925 CTTGCTTAGGGGGTTAAGGCTCACCA
64 C-TGCTTAGGGGGTTAAGGCTCACCG
* * *
25363951 TCTTCGGTCTGCTCCACTACTGCTTAAGGAGATGGGATCTGTAATTTTCAGCCTGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTACT
*
25364016 GCTTA-GGGGTTAAGGCTCATCG
66 GCTTAGGGGGTTAAGGCTCACCG
* * * *
25364038 TCTTCGATCTACTCCACTACTGCTTAGGGAGATGAGATCTATAATTTTTAGCCTGTTACCCTGCT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTACT
25364103 GCTTAGGGGGTTAAGGCTCACCG
66 GCTTAGGGGGTTAAGGCTCACCG
* *
25364126 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTTAGTCTGTTACCCTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTACT
25364191 GCTTAGGGGGTTAAGGCTCACCG
66 GCTTAGGGGGTTAAGGCTCACCG
** * * *
25364214 TCTTCGATCTATTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTACCCTACA
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTACT
25364279 GCTTAGGG
66 GCTTAGGG
25364287 CGTTGGGATG
Statistics
Matches: 303, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
87 78 0.26
88 172 0.57
89 48 0.16
90 3 0.01
91 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (88 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATGAGATCTGTAATTTTCAGCCTGTTACCCTACT
GCTTAGGGGGTTAAGGCTCACCG
Found at i:25364270 original size:44 final size:44
Alignment explanation
Indices: 25364142--25364286 Score: 127
Period size: 44 Copynumber: 3.3 Consensus size: 44
25364132 ATCTGCTCCA
* * *
25364142 CTACTGCTTAGGGAGATGAGATCTGTAATTTTTAGTCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTATTACC
* * * * * *
25364186 CTACTGCTTAGGGGGTTAAG-GCT-CACCGTCTTC-GATCTATT-CC
1 CTACTGCTTAGGGAGATAAGATCTGTA--ATTTTCAG-TCTATTACC
*
25364229 ACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTATTACC
*
25364274 CTACAGCTTAGGG
1 CTACTGCTTAGGG
25364287 CGTTGGGATG
Statistics
Matches: 76, Mismatches: 17, Indels: 16
0.70 0.16 0.15
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
44 64 0.84
45 5 0.07
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGTCTATTACC
Found at i:25364433 original size:131 final size:130
Alignment explanation
Indices: 25364208--25364711 Score: 660
Period size: 131 Copynumber: 3.9 Consensus size: 130
25364198 GGGTTAAGGC
* * * ** * ** *
25364208 TCACCGTCTTCGATCTATTCCACTACTGCTT-AGGGAGATAAGATCTGTAAT-TTTCAGCCTATT
1 TCACCGTCTTCGAACTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTT-AGCCTACT
* ** * *
25364271 ACC-CTACAGCTTAGGGCGTTGGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGAGAGACAA
65 -CCACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAG-GAGACAA
25364335 GAT
128 GAT
* * * *
25364338 TCGCCGTATTCGAACTGTTCCACTGCAACTTCTGGGAGACAAGATCTACAATCTTTAGCTTACTC
1 TCACCGTCTTCGAACTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTC
* *
25364403 CACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATCTACTCCGCTACTGGTTAGGGAGACAAGA
66 CACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTA-GGAGACAAGA
25364468 T
130 T
25364469 TCACCGTCTTCGATA-TGTTCCACTGCAACTTCAGGGAGACAAGATCTACAAT-TTTCAGCCTAC
1 TCACCGTCTTCGA-ACTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTT-AGCCTAC
25364532 TCCACTACTGCTTAGGGAA-ATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAAGACA
64 TCCACTACTGCTTA-GGAAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGG-AGACA
25364596 AGAT
127 AGAT
* *
25364600 TCACCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTC
1 TCACCGTCTTCGAACTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTC
* * * *
25364665 CACTACTACTTAGGGAGAAAGGATGGTGGCTTAAATCTGTTCCACTA
66 CACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATCTGCTCCACTA
25364712 GGGAGACAAG
Statistics
Matches: 331, Mismatches: 32, Indels: 21
0.86 0.08 0.05
Matches are distributed among these distances:
130 34 0.10
131 286 0.86
132 11 0.03
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (130 bp):
TCACCGTCTTCGAACTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTTAGCCTACTC
CACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAGACAAGAT
Found at i:25364530 original size:262 final size:261
Alignment explanation
Indices: 25364208--25364702 Score: 742
Period size: 262 Copynumber: 1.9 Consensus size: 261
25364198 GGGTTAAGGC
* ** * ** *
25364208 TCACCGTCTTCGATCTATTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTATTAC
1 TCACCGTCTTCGATATATTCCACTACAACTTAGGGAGACAAGATCTACAATTTTCAGCCTACT-C
*** *
25364273 C-CTACAGCTTAGGGCGTTGGGATGGTGGCTTAAATCTGCTCCACTACTGGTTA-GAGAGACAAG
65 CACTACAGCTTAGGGAAATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGA-AGACAAG
* * * *
25364336 ATTCGCCGTATTCGAACTGTTCCACTGCAACTTCTGGGAGACAAGATCTACAATCTTTAGCTTAC
129 ATTCACCGTATTCGAACTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTAC
* *
25364401 TCCACTACTGCTTAGGAAGATAGGATGGTGGCTTAAATCTACTCCGCTACTGGTTAGGGAGACAA
194 TCCACTACTACTTAGGAAGAAAGGATGGTGGCTTAAATCTACTCCGCTACTGGTTAGGGAGACAA
25364466 GAT
259 GAT
* *
25364469 TCACCGTCTTCGATATGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATTTTCAGCCTACTC
1 TCACCGTCTTCGATATATTCCACTACAACTT-AGGGAGACAAGATCTACAATTTTCAGCCTACTC
*
25364534 CACTACTGCTTAGGGAAATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAAGACAAGA
65 CACTACAGCTTAGGGAAATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAAGACAAGA
* *
25364599 TTCACCGTCTTCGATCTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACT
130 TTCACCGTATTCGAACTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACT
*
25364664 CCACTACTACTTAGGGAGAAAGGATGGTGGCTTAAATCT
195 CCACTACTACTTAGGAAGAAAGGATGGTGGCTTAAATCT
25364703 GTTCCACTAG
Statistics
Matches: 208, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
261 28 0.13
262 178 0.86
263 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (261 bp):
TCACCGTCTTCGATATATTCCACTACAACTTAGGGAGACAAGATCTACAATTTTCAGCCTACTCC
ACTACAGCTTAGGGAAATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGAAGACAAGAT
TCACCGTATTCGAACTGTTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTC
CACTACTACTTAGGAAGAAAGGATGGTGGCTTAAATCTACTCCGCTACTGGTTAGGGAGACAAGA
T
Found at i:25371305 original size:3 final size:3
Alignment explanation
Indices: 25371297--25371377 Score: 162
Period size: 3 Copynumber: 27.0 Consensus size: 3
25371287 GAATATTAAC
25371297 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25371345 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25371378 CGTGAGAAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25371503 original size:3 final size:3
Alignment explanation
Indices: 25371497--25371695 Score: 85
Period size: 3 Copynumber: 66.3 Consensus size: 3
25371487 CATTAATAGG
* *
25371497 AAT AAT AAT -AT AGACT AAT AAT AAC AAT AAC AGA- AA- AAT AAT AAT
1 AAT AAT AAT AAT A-A-T AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * * *
25371542 AA- AAT GAT AA- AA- AAT AAT AAT -AT AAT GAAT AAT GAC AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
* * * * * *
25371584 AAT -AT AAAT AGT AAT AGA- AAA AAC AAT AAT AGA- AAT AAC AAC GAT
1 AAT AAT -AAT AAT AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
25371629 AAT AAT AAAT AAT AAG AGT AAT AGT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* *
25371676 AAT AGT AAT ATGT AAT AAT A
1 AAT AAT AAT A-AT AAT AAT A
25371696 CTCTAAACGT
Statistics
Matches: 151, Mismatches: 27, Indels: 36
0.71 0.13 0.17
Matches are distributed among these distances:
2 17 0.11
3 114 0.75
4 18 0.12
5 2 0.01
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:25371670 original size:34 final size:35
Alignment explanation
Indices: 25371627--25371695 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
25371617 AATAACAACG
25371627 ATAATAATAAATAATAAGAGTAATA-GTAATAATA
1 ATAATAATAAATAATAAGAGTAATATGTAATAATA
*
25371661 ATAATAATAAATAATAATAGTAATATGTAATAATA
1 ATAATAATAAATAATAAGAGTAATATGTAATAATA
25371696 CTCTAAACGT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 24 0.73
35 9 0.27
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (35 bp):
ATAATAATAAATAATAAGAGTAATATGTAATAATA
Found at i:25371816 original size:5 final size:5
Alignment explanation
Indices: 25371801--25371835 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
25371791 ATACTTGAAG
25371801 AAATAA AAATA AAATA AAATA AAATA AAATA AAAT
1 AAAT-A AAATA AAATA AAATA AAATA AAATA AAAT
25371836 GCTGAATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:25375795 original size:26 final size:26
Alignment explanation
Indices: 25375766--25375829 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
25375756 TTTAAACCAA
*
25375766 ACTTTTCAAAAGCATTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
* * *
25375792 ACTTTTCCACAGCACTTCTCAAAATT
1 ACTTTTCAAAAGCACTTCTCAAAAGT
25375818 ACTTTTCAAAAG
1 ACTTTTCAAAAG
25375830 TATTGCCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAGT
Found at i:25378603 original size:94 final size:94
Alignment explanation
Indices: 25378455--25378627 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 94
25378445 GCCACAGCAT
** **
25378455 GAGAACCAGTGTAAGACATGCCTGGGACATGTATCGACCTCGAGATATTTAAGCTAGTGTAAGAC
1 GAGAACCAGTGTAAGACATGCCTGGGACATACATCGACCTCGAGATATACAAGCTAGTGTAAGAC
*
25378520 ATGTCTGGGACATGCATCGGCATTGAGAC
66 ATATCTGGGACATGCATCGGCATTGAGAC
* * * * * * *
25378549 GAGAGCCAGTGTAAGACATGTCTGGGACATACATCGGCTTCGCGATGTACAAGCTAGTGTGAGAC
1 GAGAACCAGTGTAAGACATGCCTGGGACATACATCGACCTCGAGATATACAAGCTAGTGTAAGAC
* *
25378614 CTATTTGGGACATG
66 ATATCTGGGACATG
25378628 GCGTCAGCTT
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
94 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (94 bp):
GAGAACCAGTGTAAGACATGCCTGGGACATACATCGACCTCGAGATATACAAGCTAGTGTAAGAC
ATATCTGGGACATGCATCGGCATTGAGAC
Found at i:25388791 original size:49 final size:49
Alignment explanation
Indices: 25388725--25388851 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
25388715 GTTGTGTGTG
* ** *
25388725 AGTGTAAAACCTATCTGGGATGTGGCATC-GACATCGATAGATGAGAGCC
1 AGTGTAAAACCTGTCTGGGACATGGCATCAG-CATCGATAGATGAAAGCC
* * * *
25388774 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTC
1 AGTGTAAAACCTGTCTGGGACATGGCATCAGCATCGATAGATGAAAGCC
*
25388823 AGTGTAAAACCTGTCTGGGACACGGCATC
1 AGTGTAAAACCTGTCTGGGACATGGCATC
25388852 GACTTTAATA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
49 66 0.99
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
AGTGTAAAACCTGTCTGGGACATGGCATCAGCATCGATAGATGAAAGCC
Found at i:25397224 original size:27 final size:27
Alignment explanation
Indices: 25397170--25397429 Score: 369
Period size: 27 Copynumber: 9.7 Consensus size: 27
25397160 CATTAATCGA
25397170 TAAAATGACTGTTTTG-CCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
*
25397196 TAAAATGACTGTTTTACCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
*
25397223 TAAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
* * *
25397250 TAAAATGACTATTTTGCCATTATGGGA
1 TAAAATGACTGTTTTGCCCTTATGGGG
* *
25397277 TAAAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
25397304 TAAAATGACTGTTTTGCCCTTATGGGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
* * *
25397331 TAAAATGATTGTTTTGCCTTTATGGAG
1 TAAAATGACTGTTTTGCCCTTATGGGG
* **
25397358 TAAAATGACTGTTTTGCCATTATAAGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
* *
25397385 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGGGG
*
25397412 TAAAATGTCTGTTTTGCC
1 TAAAATGACTGTTTTGCC
25397430 TTTTTATGGT
Statistics
Matches: 207, Mismatches: 26, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
26 15 0.07
27 192 0.93
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGGGG
Found at i:25397447 original size:81 final size:80
Alignment explanation
Indices: 25397170--25397462 Score: 383
Period size: 81 Copynumber: 3.6 Consensus size: 80
25397160 CATTAATCGA
* * *
25397170 TAAAATGACTGTTTTGCC-TTATGGGGTAAAATGACTGTTTTACCCTTATGGGGTAAAATGACTG
1 TAAAATGACTGTTTTGCCTTTAT-GGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTG
25397234 TTTTGCCCTTATGAGG
65 TTTTGCCCTTATGAGG
* *
25397250 TAAAATGACTATTTTGCCATTATGGGATAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTG
1 TAAAATGACTGTTTTGCCTTTATGGG-TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTG
*
25397315 TTTTGCCCTTATGGGG
65 TTTTGCCCTTATGAGG
* * * * *
25397331 TAAAATGATTGTTTTGCCTTTATGGAGTAAAATGACTGTTTTGCCATTATAAGGTAAAATGACTA
1 TAAAATGACTGTTTTGCCTTTATGG-GTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTG
*
25397396 TTTTGCCCTTATGTGG
65 TTTTGCCCTTATGAGG
* * * *
25397412 TAAAATGTCTGTTTTGCCTTTTTAT-GGTAAGATGACTATTTTACCCCTATG
1 TAAAATGACTGTTTTGCC--TTTATGGGTAAAATGACTATTTTGCCCTTATG
25397463 TGATGTATGT
Statistics
Matches: 187, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
80 20 0.11
81 160 0.86
82 2 0.01
83 5 0.03
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (80 bp):
TAAAATGACTGTTTTGCCTTTATGGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGT
TTTGCCCTTATGAGG
Found at i:25397464 original size:54 final size:54
Alignment explanation
Indices: 25397170--25397462 Score: 358
Period size: 54 Copynumber: 5.4 Consensus size: 54
25397160 CATTAATCGA
* * * *
25397170 TAAAATGACTGTTTTG-CCTTATGGGGTAAAATGACTGTTTTACCCTTATGGGG
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATAGGG
* * *
25397223 TAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTATTTTGCCATTAT-GGG
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATAGGG
*
25397276 ATAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGGGG
1 -TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATAGGG
* * * * *
25397331 TAAAATGATTGTTTTGCCTTTATG-GAGTAAAATGACTGTTTTGCCATTATAAGG
1 TAAAATGACTATTTTGCCCTTATGAG-GTAAAATGACTGTTTTGCCCTTATAGGG
* * * * *
25397385 TAAAATGACTATTTTGCCCTTATGTGGTAAAATGTCTGTTTTGCCTTTTTATGG
1 TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATAGGG
* * *
25397439 TAAGATGACTATTTTACCCCTATG
1 TAAAATGACTATTTTGCCCTTATG
25397463 TGATGTATGT
Statistics
Matches: 212, Mismatches: 23, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
53 20 0.09
54 188 0.89
55 4 0.02
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (54 bp):
TAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATAGGG
Found at i:25410139 original size:54 final size:54
Alignment explanation
Indices: 25410048--25410188 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
25410038 GGAGGAAGCG
* *
25410048 TGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCC
1 TGGTGGCTATGCCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCTATCC
*
25410103 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCC
*
25410157 TGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTG
25410189 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
53 6 0.07
54 58 0.72
55 17 0.21
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTATCC
Found at i:25410185 original size:27 final size:27
Alignment explanation
Indices: 25410048--25410206 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
25410038 GGAGGAAGCG
* *
25410048 TGGTGGCTATGCCACAATTTATCT-AATC
1 TGGTGGCTCTGCCACAA--TATCTGTATC
*
25410076 TGGTGGCTCTGCCACATATATCTGT-CC
1 TGGTGGCTCTGCCACA-ATATCTGTATC
*
25410103 TGGTGGCTATGCCACAATTATCTG-ATC
1 TGGTGGCTCTGCCACAA-TATCTGTATC
*
25410130 TGGTGGCTCTGCCACATATATCTAT-TC
1 TGGTGGCTCTGCCACA-ATATCTGTATC
25410157 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGGCTCTGCCACAATATCTGTATC
* *
25410184 TGGTGACT-TCGTCACAATATCTG
1 TGGTGGCTCT-GCCACAATATCTG
25410207 GTAGCCTCGC
Statistics
Matches: 113, Mismatches: 10, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.08
27 87 0.77
28 16 0.14
29 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTGTATC
Found at i:25410200 original size:81 final size:81
Alignment explanation
Indices: 25410048--25410206 Score: 216
Period size: 81 Copynumber: 2.0 Consensus size: 81
25410038 GGAGGAAGCG
* *
25410048 TGGTGGCTATGCCACAATTTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 TGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
25410113 GCCACAATTATCTGATC
66 GCCACAA-TATCTGATC
* * *
25410130 TGGTGGCTCTGCCAC-ATATATCTATTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT-
1 TGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACTA
*
25410192 TCGTCACAATATCTG
65 T-GCCACAATATCTG
25410207 GTAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
80 15 0.22
81 40 0.58
82 14 0.20
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (81 bp):
TGGTGGCTATGCCACAATATATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGATC
Found at i:25416975 original size:32 final size:32
Alignment explanation
Indices: 25416934--25416995 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
25416924 GAGCATGCAT
25416934 GTGCCTTAGATGCTAAAGGGAAAAATCGGCAC
1 GTGCCTTAGATGCTAAAGGGAAAAATCGGCAC
25416966 GTGCCTTAGATGCTAAAGGGAAAAATCGGC
1 GTGCCTTAGATGCTAAAGGGAAAAATCGGC
25416996 TAACATGTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (32 bp):
GTGCCTTAGATGCTAAAGGGAAAAATCGGCAC
Found at i:25418298 original size:27 final size:28
Alignment explanation
Indices: 25418163--25418301 Score: 137
Period size: 27 Copynumber: 5.1 Consensus size: 28
25418153 AAGCGTTCTA
* * * *
25418163 GTGGCTATGCCACAATTTATCT-AATCTA
1 GTGGCTCTGCCAC-ATATATCTGTATCTG
*
25418191 GTGGCTCTGCCACATATATCTGT-CCTG
1 GTGGCTCTGCCACATATATCTGTATCTG
* * *
25418218 GTGGCTATGCCATA-ATTATTTG-ATCTG
1 GTGGCTCTGCCACATA-TATCTGTATCTG
25418245 GTGGCTCTGCCACATATATCTGT-TCTG
1 GTGGCTCTGCCACATATATCTGTATCTG
*
25418272 GTGGCTCTACCACA-ATATCTGTATCTG
1 GTGGCTCTGCCACATATATCTGTATCTG
25418299 GTG
1 GTG
25418302 ACTTCGTCAA
Statistics
Matches: 92, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.10
27 70 0.76
28 13 0.14
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (28 bp):
GTGGCTCTGCCACATATATCTGTATCTG
Found at i:25418298 original size:54 final size:54
Alignment explanation
Indices: 25418163--25418301 Score: 181
Period size: 54 Copynumber: 2.6 Consensus size: 54
25418153 AAGCGTTCTA
* * *
25418163 GTGGCTATGCCACAATTTATCTAATCTAGTGGCTCTGCCACATATATCTGTCCTG
1 GTGGCTATACCACAA-TTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTG
* * * *
25418218 GTGGCTATGCCATAATTATTTGATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTG
*
25418272 GTGGCTCTACCACAA-TATCTGTATCTGGTG
1 GTGGCTATACCACAATTATCTG-ATCTGGTG
25418302 ACTTCGTCAA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
53 5 0.07
54 55 0.74
55 14 0.19
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (54 bp):
GTGGCTATACCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTG
Found at i:25419799 original size:16 final size:16
Alignment explanation
Indices: 25419743--25419813 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
25419733 ATTTAATAAG
25419743 ATTTAATATTAAATTTA
1 ATTTAATATTAAA-TTA
* * *
25419760 ATCTAATATTTATATTG
1 ATTTAATA-TTAAATTA
* *
25419777 A-TAAATATTATATTA
1 ATTTAATATTAAATTA
* *
25419792 ATTTAATAATAAAATA
1 ATTTAATATTAAATTA
25419808 ATTTAA
1 ATTTAA
25419814 GTTTAATTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
15 8 0.19
16 20 0.48
17 10 0.24
18 4 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (16 bp):
ATTTAATATTAAATTA
Found at i:25419803 original size:62 final size:62
Alignment explanation
Indices: 25419683--25419800 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
25419673 AGTGATTATC
* * *
25419683 TTAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATCATGTAGATAAATATTATATTAATTTAATAAGAT
25419745 TTAATATTAAATTTAATCTAATATTTAT-AT-T-GATAAATATTATATTAATTTAATAA
1 TTAATATTAAATTTAATCTAATATTTATCATGTAGATAAATATTATATTAATTTAATAA
25419801 TAAAATAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 24 0.45
60 1 0.02
61 1 0.02
62 27 0.51
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (62 bp):
TTAATATTAAATTTAATCTAATATTTATCATGTAGATAAATATTATATTAATTTAATAAGAT
Found at i:25419819 original size:59 final size:62
Alignment explanation
Indices: 25419684--25419820 Score: 174
Period size: 59 Copynumber: 2.3 Consensus size: 62
25419674 GTGATTATCT
* * * * **
25419684 TAATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATT
1 TAATATTAAATTTAATCTAATATTTATCATGTAGATAAATATTATATTAATTTAATAAAAAA
25419746 TAATATTAAATTTAATCTAATATTTAT-AT-T-GATAAATATTATATTAATTTAATAATAAAA
1 TAATATTAAATTTAATCTAATATTTATCATGTAGATAAATATTATATTAATTTAATAA-AAAA
*
25419806 TAAT-TTAAGTTTAAT
1 TAATATTAAATTTAAT
25419821 TATAGTTGAA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
59 34 0.51
60 6 0.09
61 1 0.01
62 26 0.39
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (62 bp):
TAATATTAAATTTAATCTAATATTTATCATGTAGATAAATATTATATTAATTTAATAAAAAA
Found at i:25420732 original size:13 final size:12
Alignment explanation
Indices: 25420701--25420734 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
25420691 ACCTATCTCC
25420701 TTATATATTTGT
1 TTATATATTTGT
25420713 TT-TATATTTGT
1 TTATATATTTGT
25420724 TTATGATATTT
1 TTAT-ATATTT
25420735 ATATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 3 0.15
13 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.68
Consensus pattern (12 bp):
TTATATATTTGT
Found at i:25426016 original size:48 final size:48
Alignment explanation
Indices: 25425962--25426077 Score: 171
Period size: 48 Copynumber: 2.4 Consensus size: 48
25425952 CACCATGATT
*
25425962 TATGAGAGCCAGTGTAAGACCATGTCCGGGACATGACATCGGCGA-GGA
1 TATGAGAGCCAGTGTAAGACCATGTCCGGGACATGACATCGAC-ATGGA
* * *
25426010 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGA
1 TATGAGAGCCAGTGTAAGACCATGTCCGGGACATGACATCGACATGGA
*
25426058 TATGAGTGCCAGTGTAAGAC
1 TATGAGAGCCAGTGTAAGAC
25426078 TATATCTAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 1 0.02
48 61 0.98
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTCCGGGACATGACATCGACATGGA
Found at i:25429314 original size:12 final size:12
Alignment explanation
Indices: 25429289--25429321 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
25429279 GGACCTAAGA
25429289 TGAATTAA-TTT
1 TGAATTAATTTT
25429300 TGAATTAATTTT
1 TGAATTAATTTT
25429312 TGAATTAATT
1 TGAATTAATT
25429322 CACTTGTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (12 bp):
TGAATTAATTTT
Found at i:25429819 original size:27 final size:27
Alignment explanation
Indices: 25429789--25429845 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
25429779 TTTGTAAAGA
*
25429789 GTATACAATAAGGAGTTTTTAATCATG
1 GTATACAATAAGGAGTTTTCAATCATG
25429816 GTATACAATAAGGAGTTTTCAATCATG
1 GTATACAATAAGGAGTTTTCAATCATG
25429843 GTA
1 GTA
25429846 CTTCTTGTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (27 bp):
GTATACAATAAGGAGTTTTCAATCATG
Found at i:25430752 original size:21 final size:20
Alignment explanation
Indices: 25430703--25430752 Score: 77
Period size: 18 Copynumber: 2.5 Consensus size: 20
25430693 TAAATATTAT
25430703 ATTAATTTAATATTAAAGTG
1 ATTAATTTAATATTAAAGTG
25430723 A--AATTTAATATTAAAGTG
1 ATTAATTTAATATTAAAGTG
25430741 ATTAAGTTTAAT
1 ATTAA-TTTAAT
25430753 TATAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 18 0.67
20 3 0.11
21 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
ATTAATTTAATATTAAAGTG
Found at i:25432687 original size:50 final size:49
Alignment explanation
Indices: 25432499--25432826 Score: 321
Period size: 50 Copynumber: 6.7 Consensus size: 49
25432489 ATTCATTATG
*
25432499 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT
* * * * *
25432548 AGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTT
1 AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--T
* * * * *
25432598 TGATCACGTGTGTAGTACTAA--G-A-GC--CTACGTGTATCAGATGGTT
1 AG-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT
* * *
25432642 AAGTCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTAACAGATTGAT
1 -AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT
* * * *
25432692 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATC-GGTTAACTT
1 A-GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--T
* * * *
25432743 CGATCACATGCGTAGTACTAAATGCAGGCTATTACGTGTACCAGATTGAT
1 AG-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT
25432793 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 A-GTCACATGTGTAGTACTAAGTGCAGGCTACTA
25432827 TGCGTACTAG
Statistics
Matches: 223, Mismatches: 39, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
44 18 0.08
45 10 0.04
46 2 0.01
47 3 0.01
48 6 0.03
49 44 0.20
50 84 0.38
51 52 0.23
52 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
AGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGAT
Found at i:25432761 original size:145 final size:149
Alignment explanation
Indices: 25432499--25432826 Score: 468
Period size: 145 Copynumber: 2.2 Consensus size: 149
25432489 ATTCATTATG
* *
25432499 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGTCGCATGTGTAGTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATTGATAGTCACATGTGTAGTA
* * *
25432564 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTTGATCACGTGTGTAGTACT-AA-G-A-GC-C
66 CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGCGTAGTACTAAATGCAGGCAC
* *
25432624 TACGTGTATCAGATGGTTA
131 TACGTGTACCAGATGGATA
*
25432643 AGTCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTAACAGATTGATAGGTCACATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATTGATA-GTCACATGTGTAGT
* * *
25432708 ACTAAGTGCAGGCTACTATGTGTATCGGTTAACTTCGATCACATGCGTAGTACTAAATGCAGGCT
65 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGCGTAGTACTAAATGCAGGC-
* *
25432773 ATTACGTGTACCAGATTGATA
129 ACTACGTGTACCAGATGGATA
* *
25432794 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
25432827 TGCGTACTAG
Statistics
Matches: 161, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
144 48 0.30
145 61 0.38
146 2 0.01
147 1 0.01
148 1 0.01
149 2 0.01
151 46 0.29
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (149 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACAGATTGATAGTCACATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCACATGCGTAGTACTAAATGCAGGCAC
TACGTGTACCAGATGGATA
Found at i:25451408 original size:17 final size:19
Alignment explanation
Indices: 25451366--25451409 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
25451356 ATAAAATTTT
*
25451366 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
25451385 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
25451403 AA-TATTA
1 AATTATTA
25451410 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:25453258 original size:28 final size:28
Alignment explanation
Indices: 25453226--25453294 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
25453216 GCGTAGATCA
25453226 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
25453254 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
25453282 CGATA-TACCCCTA
1 CGAAATTACCCCTA
25453295 GGGTTTTAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:25454737 original size:20 final size:18
Alignment explanation
Indices: 25454703--25454749 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
25454693 GATACGTGGG
25454703 GTATGATATACATGAT-T
1 GTATGATATACATGATAT
25454720 GATATGATATACACATGATAT
1 G-TATGATAT--ACATGATAT
25454741 GTATGATAT
1 GTATGATAT
25454750 GCAGATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 8 0.31
20 15 0.58
21 2 0.08
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (18 bp):
GTATGATATACATGATAT
Found at i:25454740 original size:16 final size:18
Alignment explanation
Indices: 25454704--25454741 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
25454694 ATACGTGGGG
*
25454704 TATGATATACATGATTGA
1 TATGATATACATCATTGA
25454722 TATGATATACA-CA-TGA
1 TATGATATACATCATTGA
25454738 TATG
1 TATG
25454742 TATGATATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.37
Consensus pattern (18 bp):
TATGATATACATCATTGA
Found at i:25454760 original size:20 final size:20
Alignment explanation
Indices: 25454722--25454775 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
25454712 ACATGATTGA
* *
25454722 TATGATATACACATGATATG
1 TATGATATGCACATAATATG
*
25454742 TATGATATGCAGATAATATG
1 TATGATATGCACATAATATG
*
25454762 TATGAAATGCACAT
1 TATGATATGCACAT
25454776 GATGAATTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATAATATG
Found at i:25454857 original size:26 final size:26
Alignment explanation
Indices: 25454828--25455057 Score: 302
Period size: 26 Copynumber: 8.8 Consensus size: 26
25454818 GAGGAAGTAC
* **
25454828 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
25454854 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
25454880 AAATGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
25454906 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
25454932 AAAAGGGCTTATGCCCCAGTTTATTGATG
1 AAAAGGGCTTATGCCCCAGTTTA---CCG
25454961 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
25454987 AAAAGGGCTTTTGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
25455013 AAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
25455038 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
25455058 ATTAAAGAGG
Statistics
Matches: 181, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
25 32 0.18
26 125 0.69
29 24 0.13
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:25454910 original size:52 final size:52
Alignment explanation
Indices: 25454828--25455057 Score: 374
Period size: 52 Copynumber: 4.4 Consensus size: 52
25454818 GAGGAAGTAC
*
25454828 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
25454880 AAATGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
25454932 AAAAGGGCTTATGCCCCAGTTTATTGATGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTA-T--TGAAAAGGGCTTATGCCCCAGTTTACCG
* *
25454987 AAAAGGGCTTTTGCCCCAGTTTATTGAAAAGGG-TTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
25455038 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCCAGTT
25455058 ATTAAAGAGG
Statistics
Matches: 169, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
50 9 0.05
51 27 0.16
52 81 0.48
53 1 0.01
54 1 0.01
55 50 0.30
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:25455011 original size:107 final size:103
Alignment explanation
Indices: 25454828--25455057 Score: 381
Period size: 107 Copynumber: 2.2 Consensus size: 103
25454818 GAGGAAGTAC
*
25454828 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAATGGGCTTATG
1 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
25454893 CCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
66 CCCCAGTTTATTGAAAAGGG-TTATGCCCCAGTTTACCG
*
25454932 AAAAGGGCTTATGCCCCAGTTTATTGATGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT
1 AAAAGGGCTTATGCCCTAGTTTA-T--TGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT
* *
25454997 TTGCCCCAGTTTATTGAAAAGGGTTTTGCCCCAGTTTACCG
63 ATGCCCCAGTTTATTGAAAAGGGTTATGCCCCAGTTTACCG
25455038 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCTAGTT
25455058 ATTAAAGAGG
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
104 22 0.19
105 10 0.08
106 27 0.23
107 59 0.50
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (103 bp):
AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
CCCCAGTTTATTGAAAAGGGTTATGCCCCAGTTTACCG
Found at i:25455310 original size:31 final size:31
Alignment explanation
Indices: 25455275--25455353 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
25455265 CGTTTACAAT
25455275 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
25455306 AAAGGCTTCGACCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
25455337 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
25455354 AATCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:25456720 original size:16 final size:16
Alignment explanation
Indices: 25456699--25456733 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
25456689 TAGTAATTTT
25456699 AATGTTAAAG-GACTAA
1 AATGTTAAAGTGA-TAA
25456715 AATGTTAAAGTGATAA
1 AATGTTAAAGTGATAA
25456731 AAT
1 AAT
25456734 TACAAGGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGTGATAA
Found at i:25457418 original size:45 final size:45
Alignment explanation
Indices: 25457365--25457460 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 45
25457355 CAAAATATAT
25457365 GTAA-ACCATAGCCAAAAGACATTATGGCATCACAATTTTAACGA
1 GTAAGACCATAGCCAAAAGACATTATGGCATCACAATTTTAACGA
** * * *
25457409 GTAAGACCATAGCTTAAAGACGTTATGGCATCACGATTTTAATGA
1 GTAAGACCATAGCCAAAAGACATTATGGCATCACAATTTTAACGA
25457454 GTAAGAC
1 GTAAGAC
25457461 GTTATGGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 4 0.09
45 42 0.91
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (45 bp):
GTAAGACCATAGCCAAAAGACATTATGGCATCACAATTTTAACGA
Found at i:25457463 original size:31 final size:31
Alignment explanation
Indices: 25457425--25457491 Score: 125
Period size: 31 Copynumber: 2.2 Consensus size: 31
25457415 CCATAGCTTA
25457425 AAGACGTTATGGCATCACGATTTTAATGAGT
1 AAGACGTTATGGCATCACGATTTTAATGAGT
25457456 AAGACGTTATGGCATCACGATTTTAATGAGT
1 AAGACGTTATGGCATCACGATTTTAATGAGT
*
25457487 GAGAC
1 AAGAC
25457492 CATAGCTAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (31 bp):
AAGACGTTATGGCATCACGATTTTAATGAGT
Found at i:25457516 original size:76 final size:76
Alignment explanation
Indices: 25457380--25457533 Score: 238
Period size: 76 Copynumber: 2.0 Consensus size: 76
25457370 CCATAGCCAA
* *
25457380 AAGACATTATGGCATCACAATTTTAACGAGTAAGACCATAGCTTAAAGACGTTATGGCATCACGA
1 AAGACATTATGGCATCACAATTTTAACGAGTAAGACCATAGCTTAAAGACATTATCGCATCACGA
25457445 TTTTAATGAGT
66 TTTTAATGAGT
* * * *
25457456 AAGACGTTATGGCATCACGATTTTAATGAGTGAGACCATAGC-TAAGAGACATTATCGCATCACG
1 AAGACATTATGGCATCACAATTTTAACGAGTAAGACCATAGCTTAA-AGACATTATCGCATCACG
25457520 ATTTTAATGAGT
65 ATTTTAATGAGT
25457532 AA
1 AA
25457534 AACTATAGAT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
75 3 0.04
76 68 0.96
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (76 bp):
AAGACATTATGGCATCACAATTTTAACGAGTAAGACCATAGCTTAAAGACATTATCGCATCACGA
TTTTAATGAGT
Found at i:25457518 original size:45 final size:45
Alignment explanation
Indices: 25457456--25457607 Score: 207
Period size: 45 Copynumber: 3.4 Consensus size: 45
25457446 TTTAATGAGT
* * *
25457456 AAGACGTTATGGCATCACGATTTTAATGAGTGAGACCATAGCT-A
1 AAGACATTATGGCATCACGATTTTAATGAGTAAGACTATAGCTGA
* * *
25457500 AGAGACATTATCGCATCACGATTTTAATGAGTAAAACTATAGATGA
1 A-AGACATTATGGCATCACGATTTTAATGAGTAAGACTATAGCTGA
* *
25457546 AAAACATTATGGCATCACGATTCTAATGAGTAAGACTATAGCTGA
1 AAGACATTATGGCATCACGATTTTAATGAGTAAGACTATAGCTGA
*
25457591 AAGACGTTATGGCATCA
1 AAGACATTATGGCATCA
25457608 TGAATCAAGG
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.01
45 90 0.97
46 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (45 bp):
AAGACATTATGGCATCACGATTTTAATGAGTAAGACTATAGCTGA
Found at i:25457625 original size:45 final size:45
Alignment explanation
Indices: 25457504--25457651 Score: 120
Period size: 45 Copynumber: 3.3 Consensus size: 45
25457494 TAGCTAAGAG
* * * * * *
25457504 ACATTATCGCATCACGATTTTAATGAGTAAAACTATAGATGAAAA
1 ACATTATGGCATCACGAATCTAAGGAATAAGACTATAGATGAAAA
* * * * *
25457549 ACATTATGGCATCACGATTCTAATGAGTAAGACTATAGCTGAAAG
1 ACATTATGGCATCACGAATCTAAGGAATAAGACTATAGATGAAAA
* * * *
25457594 ACGTTATGGCATCATGAATC-AAGGGAATAAGACCAT-GATTGAAAG
1 ACATTATGGCATCACGAATCTAA-GGAATAAGACTATAGA-TGAAAA
*
25457639 ACACTATGGCATC
1 ACATTATGGCATC
25457652 CTTCAACCAT
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
44 3 0.03
45 84 0.97
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.26
Consensus pattern (45 bp):
ACATTATGGCATCACGAATCTAAGGAATAAGACTATAGATGAAAA
Found at i:25457637 original size:90 final size:90
Alignment explanation
Indices: 25457462--25457651 Score: 206
Period size: 90 Copynumber: 2.1 Consensus size: 90
25457452 GAGTAAGACG
* * * *
25457462 TTATGGCATCACGATTTTAATGAGTGAGACCATAGCTAAGAGACATTATCGCATCACGATTTTAA
1 TTATGGCATCACGATTCTAATGAGTAAGACCATAGCTAAGAGACATTATCGCATCACGATATCAA
* * *
25457527 TGAGTAAAACTATAGATGAAAAACA
66 GGAATAAAACCATAGATGAAAAACA
* * * *
25457552 TTATGGCATCACGATTCTAATGAGTAAGACTATAGCTGAA-AGACGTTATGGCATCATGA-ATCA
1 TTATGGCATCACGATTCTAATGAGTAAGACCATAGCT-AAGAGACATTATCGCATCACGATATCA
* *
25457615 AGGGAATAAGACCAT-GATTGAAAGACA
65 A-GGAATAAAACCATAGA-TGAAAAACA
*
25457642 CTATGGCATC
1 TTATGGCATC
25457652 CTTCAACCAT
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
89 5 0.06
90 76 0.92
91 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.26
Consensus pattern (90 bp):
TTATGGCATCACGATTCTAATGAGTAAGACCATAGCTAAGAGACATTATCGCATCACGATATCAA
GGAATAAAACCATAGATGAAAAACA
Found at i:25458104 original size:32 final size:32
Alignment explanation
Indices: 25458063--25458129 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
25458053 AGCTTACTCG
25458063 TGTTATTTGTCTTATTTCTTGTAGATACATTT
1 TGTTATTTGTCTTATTTCTTGTAGATACATTT
25458095 TGTTATTTGTCTTATTTCTTGTAGATACATTT
1 TGTTATTTGTCTTATTTCTTGTAGATACATTT
25458127 TGT
1 TGT
25458130 GGATCGGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.18, C:0.09, G:0.13, T:0.60
Consensus pattern (32 bp):
TGTTATTTGTCTTATTTCTTGTAGATACATTT
Found at i:25461617 original size:22 final size:22
Alignment explanation
Indices: 25461592--25461642 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
25461582 AAGTAAAGGA
*
25461592 TTCCGAAAGGACCTAATATGGT
1 TTCCAAAAGGACCTAATATGGT
25461614 TTCCAAAAGGACCTAATATGGT
1 TTCCAAAAGGACCTAATATGGT
25461636 TTCCAAA
1 TTCCAAA
25461643 CTCATGAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (22 bp):
TTCCAAAAGGACCTAATATGGT
Found at i:25466015 original size:8 final size:8
Alignment explanation
Indices: 25466002--25466031 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
25465992 AGATCGGCAC
25466002 AAGCCGAA
1 AAGCCGAA
25466010 AAGCCGAA
1 AAGCCGAA
*
25466018 ATGCCGAA
1 AAGCCGAA
25466026 AAGCCG
1 AAGCCG
25466032 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:25466462 original size:27 final size:27
Alignment explanation
Indices: 25466424--25466561 Score: 167
Period size: 27 Copynumber: 5.1 Consensus size: 27
25466414 AAGCGTTCTC
*
25466424 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
*
25466451 GTGGCTCTGCCAC-ATATATCTG-TCCTA
1 GTGGCTCTGCCACAAT-TATCTGAT-CTG
*
25466478 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
* *
25466505 GTGGCTCTGCCA-TATATATCTGTTCTG
1 GTGGCTCTGCCACAAT-TATCTGATCTG
25466532 GTGGCTCTGCCACAA-TATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
25466559 GTG
1 GTG
25466562 ACTTCGTCAC
Statistics
Matches: 95, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
26 11 0.12
27 80 0.84
28 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:25466506 original size:54 final size:54
Alignment explanation
Indices: 25466424--25466561 Score: 224
Period size: 54 Copynumber: 2.6 Consensus size: 54
25466414 AAGCGTTCTC
25466424 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTA
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTA
* * *
25466478 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTTCTG
1 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTA
*
25466532 GTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTGGCTATGCCACAATTATCTG-ATCTGGTG
25466562 ACTTCGTCAC
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 6 0.08
54 73 0.92
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTA
Found at i:25466572 original size:27 final size:26
Alignment explanation
Indices: 25466431--25466579 Score: 138
Period size: 27 Copynumber: 5.5 Consensus size: 26
25466421 CTCGTGGCTA
* *
25466431 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGTTCTGGTGACTC
* * * *
25466458 TGCCACATATATCTGTCCTAGTGGCTA
1 TGCCACA-ATATCTGTTCTGGTGACTC
* *
25466485 TGCCACAATTATCTGATCTGGTGGCTC
1 TGCCACAA-TATCTGTTCTGGTGACTC
* *
25466512 TGCCATATATATCTGTTCTGGTGGCTC
1 TGCCACA-ATATCTGTTCTGGTGACTC
25466539 TGCCACAATATCTGTATCTGGTGACT-
1 TGCCACAATATCTGT-TCTGGTGACTC
*
25466565 TCGTCACAATATCTG
1 T-GCCACAATATCTG
25466580 GCAGCCTCGC
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
26 10 0.10
27 92 0.88
28 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:25468705 original size:13 final size:13
Alignment explanation
Indices: 25468687--25468712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25468677 TCTTGACAGG
25468687 GACACGCCTGTGT
1 GACACGCCTGTGT
25468700 GACACGCCTGTGT
1 GACACGCCTGTGT
25468713 AAGATGGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACACGCCTGTGT
Found at i:25470704 original size:16 final size:16
Alignment explanation
Indices: 25470680--25470710 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25470670 AGGATGAAAT
*
25470680 AAAATTAAAATAAAAG
1 AAAAATAAAATAAAAG
25470696 AAAAATAAAATAAAA
1 AAAAATAAAATAAAA
25470711 AGTAGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:25470711 original size:11 final size:11
Alignment explanation
Indices: 25470676--25470711 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
25470666 CCTAAGGATG
*
25470676 AAATAAAATTA
1 AAATAAAATAA
*
25470687 AAATAAAAGAA
1 AAATAAAATAA
25470698 AAATAAAATAA
1 AAATAAAATAA
25470709 AAA
1 AAA
25470712 GTAGTTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:25470742 original size:20 final size:21
Alignment explanation
Indices: 25470719--25470764 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
25470709 AAAGTAGTTT
*
25470719 TAAAAAGATAAAAATAA-AAA
1 TAAAAACATAAAAATAATAAA
25470739 TAAAAACATAAAAATAATAAA
1 TAAAAACATAAAAATAATAAA
25470760 TAAAA
1 TAAAA
25470765 GTCTTTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
TAAAAACATAAAAATAATAAA
Found at i:25470743 original size:5 final size:6
Alignment explanation
Indices: 25470721--25470764 Score: 52
Period size: 7 Copynumber: 6.7 Consensus size: 6
25470711 AGTAGTTTTA
25470721 AAAAGAT AAAAAT AAAAAT AAAAACAT AAAAAT AATAAAT AAAA
1 AAAA-AT AAAAAT AAAAAT -AAAA-AT AAAAAT AA-AAAT AAAA
25470765 GTCTTTAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
6 14 0.41
7 18 0.53
8 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:25472690 original size:13 final size:13
Alignment explanation
Indices: 25472672--25472696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25472662 TGTTGGTGGA
25472672 CACGACCGTGTCG
1 CACGACCGTGTCG
25472685 CACGACCGTGTC
1 CACGACCGTGTC
25472697 CTACTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGACCGTGTCG
Found at i:25482236 original size:21 final size:22
Alignment explanation
Indices: 25482195--25482237 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
25482185 GAAAATAATC
*
25482195 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTAATTAT
*
25482217 AAAATTAAT-TAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
25482238 GTTAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:25489946 original size:42 final size:41
Alignment explanation
Indices: 25489852--25489958 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 41
25489842 TCGGGGTTTA
* * * *
25489852 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCAGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTAAG
* *
25489893 AATCCGAGCTTGGTCTCGAAGGGCTTTTTGAGTCAGCGCTAAG
1 AATCAGAGCTTGGTCTCGAAGGGC-TTTTGAGCCAGCG-TAAG
25489936 AATCAG-GCTTGG-CTCCGAAGGGC
1 AATCAGAGCTTGGTCT-CGAAGGGC
25489959 GTCTGTGACG
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 26 0.45
42 25 0.43
43 7 0.12
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (41 bp):
AATCAGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGCGTAAG
Found at i:25497882 original size:41 final size:41
Alignment explanation
Indices: 25497825--25497974 Score: 212
Period size: 41 Copynumber: 3.7 Consensus size: 41
25497815 ATCGGGTTTA
25497825 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
25497866 AATCCGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
25497907 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
25497947 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
25497975 TGAGTCAGCG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 31 0.34
41 61 0.66
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:25502651 original size:40 final size:40
Alignment explanation
Indices: 25502543--25502753 Score: 298
Period size: 40 Copynumber: 5.2 Consensus size: 40
25502533 CGGGATTTAA
* * * * *
25502543 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25502583 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25502623 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25502663 CCGGATATATCAACTTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAAC-TCGCACGAATGCCTTCGGGTCTTAGC
25502704 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25502744 CCGGATATAT
1 CCGGATATAT
25502754 TTCAATGTTC
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 112 0.73
41 40 0.26
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25502716 original size:81 final size:79
Alignment explanation
Indices: 25502543--25502753 Score: 305
Period size: 81 Copynumber: 2.6 Consensus size: 79
25502533 CGGGATTTAA
* * * * * * * *
25502543 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAACCCGGATTTGGTGACTTGCACAAAGG
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATAT-ATAACTTGCACAAAGG
25502608 CCTTCGGGTCTTAGC
65 CCTTCGGGTCTTAGC
* *
25502623 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTCGCACGAAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT-AACTT-GCACAAAG
25502688 GCCTTCGGGTCTTAGC
64 GCCTTCGGGTCTTAGC
25502704 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAT
25502754 TTCAATGTTC
Statistics
Matches: 119, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 1 0.01
80 46 0.39
81 72 0.61
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (79 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATATAACTTGCACAAAGGC
CTTCGGGTCTTAGC
Found at i:25510782 original size:40 final size:40
Alignment explanation
Indices: 25510674--25510883 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25510664 CGGGATTTAA
* * * * *
25510674 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
25510714 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25510754 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25510794 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25510834 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
25510874 CCGGATATAT
1 CCGGATATAT
25510884 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:25517469 original size:42 final size:43
Alignment explanation
Indices: 25517378--25517472 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 43
25517368 GTCTCAGACG
* *
25517378 TGGTCTTACATGTAATCAAACATCGATGCCACTGTCCCAAACA
1 TGGTCTTACATGAAATCAAACATCGATGCCACTGCCCCAAACA
* * * * *
25517421 GGGTCTTACATGAAATCAGATA-CGATGACGA-TGCCCCATACA
1 TGGTCTTACATGAAATCAAACATCGATG-CCACTGCCCCAAACA
25517463 TGGTCTTACA
1 TGGTCTTACA
25517473 CATAAAACAG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 23 0.53
43 20 0.47
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
TGGTCTTACATGAAATCAAACATCGATGCCACTGCCCCAAACA
Found at i:25518985 original size:2 final size:2
Alignment explanation
Indices: 25518978--25519002 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25518968 GAACACATAA
25518978 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
25519003 CAACATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25522248 original size:46 final size:46
Alignment explanation
Indices: 25522144--25522360 Score: 196
Period size: 46 Copynumber: 4.7 Consensus size: 46
25522134 GTATATCTAT
*
25522144 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-C--ACATCTTGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACT-ATCTTACGTCTTG-AG
*
25522190 GCTGATGCATGTCCCAGACATGTCTTACACTATCTTACGTCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTATCTTACGTCTTGAG
* * * * *
25522236 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACT-CGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTATC-TTACGTCTTGAG
* * * ** *
25522282 GCCGATGCCGTGTCCCAGACATGTCTTACACTGGCTCTCAC--AATGTG
1 GCCGATG-CATGTCCCAGACATGTCTTACACT--ATCTTACGTCTTGAG
25522329 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
25522361 GCTCACACAT
Statistics
Matches: 141, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 11 0.08
45 15 0.11
46 81 0.57
47 31 0.22
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTATCTTACGTCTTGAG
Found at i:25522304 original size:93 final size:91
Alignment explanation
Indices: 25522144--25522367 Score: 249
Period size: 93 Copynumber: 2.4 Consensus size: 91
25522134 GTATATCTAT
* *
25522144 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTTGTAGCTGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTTATAGCCGATGCATGTCCCAG
* **
25522207 ACATGTCTTACACT-ATCTTACGTCTTGAG
64 ACATGTCTTACACTGATCTCAC--AATGAG
* * * *
25522236 GCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTTA-ATGCCGATGCCGTGTCCCAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTTATA-GCCGATG-CATGTCCCAG
* *
25522300 ACATGTCTTACACTGGCTCTCACAATGTG
64 ACATGTCTTACACT-GATCTCACAATGAG
*
25522329 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACA
25522368 CATGGGACCC
Statistics
Matches: 111, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
90 10 0.09
91 15 0.14
92 20 0.18
93 61 0.55
95 5 0.05
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (91 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATCTTATAGCCGATGCATGTCCCAGAC
ATGTCTTACACTGATCTCACAATGAG
Found at i:25533362 original size:55 final size:55
Alignment explanation
Indices: 25533275--25533383 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 55
25533265 TCAAGCTTAC
* *
25533275 CAAAACAACACGGGCGTGAGACATGCCTGTGTGGAAGAACCGTGGGCGAGCCTGA
1 CAAAACAACACGGGCGTGAGACATGCCTGTGTGGAACAACCGTGGGCGAACCTGA
* *
25533330 CAAAACAACACGGGCGT-ATGACATG-CTCGTGTGGAACACCCGTGGTCGAACCTG
1 CAAAACAACACGGGCGTGA-GACATGCCT-GTGTGGAACAACCGTGGGCGAACCTG
25533384 TTAAAGTAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 3 0.06
55 45 0.94
ACGTcount: A:0.28, C:0.26, G:0.31, T:0.15
Consensus pattern (55 bp):
CAAAACAACACGGGCGTGAGACATGCCTGTGTGGAACAACCGTGGGCGAACCTGA
Found at i:25539721 original size:28 final size:28
Alignment explanation
Indices: 25539685--25539751 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
25539675 CGTGTGCCTG
25539685 GCCCATGTCCTTCACACGGCCATGACAC
1 GCCCATGTCCTTCACACGGCCATGACAC
*
25539713 GCCCGTGTCCTTCACACGGCCATGACAC
1 GCCCATGTCCTTCACACGGCCATGACAC
* *
25539741 ACCTATGTCCT
1 GCCCATGTCCT
25539752 AGTCCATGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.19, C:0.42, G:0.18, T:0.21
Consensus pattern (28 bp):
GCCCATGTCCTTCACACGGCCATGACAC
Found at i:25549171 original size:28 final size:29
Alignment explanation
Indices: 25549140--25549196 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
25549130 ATCCGAAATT
25549140 CTGATAT-CATGGCCCGAAGCCAAATCAG
1 CTGATATGCATGGCCCGAAGCCAAATCAG
25549168 CTGATATGCATGGCCCGAAGCCAAATCAG
1 CTGATATGCATGGCCCGAAGCCAAATCAG
25549197 TTTATCTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.32, C:0.28, G:0.23, T:0.18
Consensus pattern (29 bp):
CTGATATGCATGGCCCGAAGCCAAATCAG
Found at i:25551995 original size:12 final size:12
Alignment explanation
Indices: 25551974--25552007 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25551964 TATATATTTT
*
25551974 AAAATTATATAA
1 AAAATAATATAA
25551986 AAAATAATATAA
1 AAAATAATATAA
*
25551998 AAATTAATAT
1 AAAATAATAT
25552008 GGACGGGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:25553803 original size:19 final size:19
Alignment explanation
Indices: 25553767--25553805 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25553757 TTTTCATCAT
* *
25553767 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
25553786 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
25553805 A
1 A
25553806 ATAATTAAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:25554338 original size:28 final size:28
Alignment explanation
Indices: 25554254--25554351 Score: 105
Period size: 24 Copynumber: 3.6 Consensus size: 28
25554244 ATACAGAAAA
* * *
25554254 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATAATT
*
25554283 TGTGGCAGTGCCACCAGAAC----AATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
*
25554307 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
*
25554335 TGTGGCATAGCCACCAG
1 TGTGGCAGAGCCACCAG
25554352 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
24 22 0.38
28 21 0.36
29 15 0.26
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (28 bp):
TGTGGCAGAGCCACCAGAACAGATAATT
Found at i:25554504 original size:28 final size:28
Alignment explanation
Indices: 25554457--25554521 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
25554447 AAATTAACCC
*
25554457 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
25554485 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
25554513 TAGGGGTAT
1 TAGGGGTAT
25554522 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:25561659 original size:19 final size:19
Alignment explanation
Indices: 25561623--25561661 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25561613 TTTTCATCAT
* *
25561623 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
25561642 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
25561661 A
1 A
25561662 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:25562172 original size:28 final size:28
Alignment explanation
Indices: 25562124--25562214 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
25562114 GTGACAGAGT
*
25562124 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
25562153 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
25562181 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
25562209 CACCAG
1 CACCAG
25562215 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:25562366 original size:27 final size:27
Alignment explanation
Indices: 25562323--25562379 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
25562313 TTAACCCTAG
*
25562323 GGGTATAAAGGTCATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
*
25562350 GGGTATAATGGTAATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
25562377 GGG
1 GGG
25562380 GTATTCTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (27 bp):
GGGTATAAAGGTAATTTTGCATACATA
Found at i:25568762 original size:7 final size:7
Alignment explanation
Indices: 25568711--25568758 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
25568701 TTATAATACG
25568711 AATTACA
1 AATTACA
*
25568718 AATTAGA
1 AATTACA
25568725 AATTACA
1 AATTACA
25568732 AATTACA
1 AATTACA
25568739 AATTACA
1 AATTACA
*
25568746 AATTACG
1 AATTACA
25568753 AATTAC
1 AATTAC
25568759 GAATCACATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.29
Consensus pattern (7 bp):
AATTACA
Found at i:25569914 original size:29 final size:29
Alignment explanation
Indices: 25569878--25569940 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
25569868 AATTCCTGAG
25569878 ATTTGGGGCAAAAGTGTAAATATGC-AAA
1 ATTTGGGGCAAAAGTGTAAATATGCTAAA
* * * *
25569906 ATTTAGGGGTAAAATTGTAATTTTGCTAAA
1 ATTT-GGGGCAAAAGTGTAAATATGCTAAA
25569936 ATTTG
1 ATTTG
25569941 AATTAAAGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 4 0.14
29 18 0.62
30 7 0.24
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.35
Consensus pattern (29 bp):
ATTTGGGGCAAAAGTGTAAATATGCTAAA
Found at i:25570407 original size:46 final size:45
Alignment explanation
Indices: 25570355--25570528 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
25570345 TGGTTGAGCA
25570355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
25570401 TTCGAACTCGTT-AGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
*
25570445 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * *
25570493 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
25570529 GGCGGGTTAC
Statistics
Matches: 106, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 3 0.03
45 18 0.17
46 53 0.50
47 16 0.15
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:25577956 original size:46 final size:45
Alignment explanation
Indices: 25577904--25578078 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
25577894 TGGTTGAGCA
* *
25577904 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA-GGATGCAAATG
* * * * * * *
25577950 TTCGAACTCGTTTAGTTGAGTCCGAGTTC-GTGA-GATGTAACTAG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTAGGATGCAAAT-G
*
25577994 ACATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 ---TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA-GGATGCAAATG
* *
25578043 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTAGG
25578079 GGCGGGTTAC
Statistics
Matches: 105, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 4 0.04
46 59 0.56
47 26 0.25
48 2 0.02
49 1 0.01
50 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (45 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTAGGATGCAAATG
Found at i:25578061 original size:93 final size:93
Alignment explanation
Indices: 25577902--25578071 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
25577892 GATGGTTGAG
* * * ** * *
25577902 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTTAGTT
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCAAACGCCCGAACTCATTGAGTT
25577967 GAGTCCGAGTTCGTGAGATGTAACTAGA
66 GAGTCCGAGTTCGTGAGATGTAACTAGA
* *
25577995 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGTT
1 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCAAACGCCCGAACTCATTGAGTT
25578060 GAGTCCGAGTTC
66 GAGTCCGAGTTC
25578072 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCAAACGCCCGAACTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGA
Found at i:25584331 original size:19 final size:21
Alignment explanation
Indices: 25584297--25584338 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
25584287 CTCCCAAAAA
*
25584297 CCCTCAAAACTTTTTATTTTC
1 CCCTCAAAACTTTTTACTTTC
25584318 CCCT-AAAA-TTTTTACTTTC
1 CCCTCAAAACTTTTTACTTTC
25584337 CC
1 CC
25584339 ATCCCACCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 4 0.20
21 4 0.20
ACGTcount: A:0.24, C:0.31, G:0.00, T:0.45
Consensus pattern (21 bp):
CCCTCAAAACTTTTTACTTTC
Found at i:25585569 original size:17 final size:19
Alignment explanation
Indices: 25585533--25585573 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
25585523 TAATGACAAG
25585533 CATCATTTGACTACACACA
1 CATCATTTGACTACACACA
*
25585552 CATCATTTGATTACACACA
1 CATCATTTGACTACACACA
25585571 CAT
1 CAT
25585574 ACACATGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.05, T:0.29
Consensus pattern (19 bp):
CATCATTTGACTACACACA
Found at i:25589380 original size:43 final size:43
Alignment explanation
Indices: 25589333--25589599 Score: 238
Period size: 43 Copynumber: 6.2 Consensus size: 43
25589323 TCCCAAATGT
* *
25589333 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAA
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAA
* * * *** * *
25589376 GGTCTTACACGAAATTAAATA-CGATGTCAATGTATTAGATAT
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAA
* **
25589418 GGTCTTACACGAAAATCTCAA-ATCGATGCCAAC-GTCCCAGACGT
1 GGTCTTACACG-AAATC-AAATATCGATGCC-ACTGTCCCAGACAA
* * * *
25589462 GGTCTTCCACGAAATCATATATCGATGCCAAC-GTCCCAAACGTA
1 GGTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCAGAC-AA
* * *
25589506 -GTCTTACACGAAATCATATATCGATGCCACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAA
* * * *
25589548 GGTCTTACACGAAATCATATATCGATCCCACTGTCCTAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAA
25589591 GGTCTTACA
1 GGTCTTACA
25589600 TGATATCTCA
Statistics
Matches: 185, Mismatches: 31, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
42 28 0.15
43 132 0.71
44 24 0.13
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAA
Found at i:25589520 original size:86 final size:84
Alignment explanation
Indices: 25589314--25589573 Score: 272
Period size: 86 Copynumber: 3.0 Consensus size: 84
25589304 AACTCGTACA
* * * *
25589314 ATGCCAACGTCCCAAATGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGT
1 ATGCCAACGTCCCAAATGTGGTCTTACACGAAATCTAA-ATCGATGCCACTGTCCCAGAC-GGGT
* *
25589379 CTTACACGAAATTAAATA-CG
64 CTTACACGAAATCATATATCG
* * *** * *
25589399 ATGTCAATGTATTAGATATGGTCTTACACGAAAATCTCAAATCGATGCCAAC-GTCCCAGACGTG
1 ATGCCAACGTCCCAAATGTGGTCTTACACG-AAATCT-AAATCGATGCC-ACTGTCCCAGACG-G
*
25589463 GTCTTCCACGAAATCATATATCG
62 GTCTTACACGAAATCATATATCG
* * * *
25589486 ATGCCAACGTCCCAAACGTAGTCTTACACGAAATCATATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAAATGTGGTCTTACACGAAATC-TAAATCGATGCCACTGTCCCAGAC-GGGT
25589551 CTTACACGAAATCATATATCG
64 CTTACACGAAATCATATATCG
25589572 AT
1 AT
25589574 CCCACTGTCC
Statistics
Matches: 141, Mismatches: 26, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
85 24 0.17
86 88 0.62
87 29 0.21
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (84 bp):
ATGCCAACGTCCCAAATGTGGTCTTACACGAAATCTAAATCGATGCCACTGTCCCAGACGGGTCT
TACACGAAATCATATATCG
Found at i:25589596 original size:129 final size:129
Alignment explanation
Indices: 25589314--25589561 Score: 311
Period size: 129 Copynumber: 1.9 Consensus size: 129
25589304 AACTCGTACA
* * * * * *
25589314 ATGCCAACGTCCCAAATGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGT
1 ATGCCAACGTCCCAGACGTGGTCTTCCACGAAATCAAATATCGATGCCACTGTCCCAAACAAGGT
* * * * *
25589379 CTTACACGAAATTAAATACGATGTCAATGTATTAGATATGGTCTTACACGAAAATCTCAAATCG
66 CTTACACGAAATCAAATACGATGCCAATGTACTAGACAGGGTCTTACACGAAAATCTCAAATCG
* *
25589443 ATGCCAACGTCCCAGACGTGGTCTTCCACGAAATCATATATCGATGCCAAC-GTCCCAAACGTA-
1 ATGCCAACGTCCCAGACGTGGTCTTCCACGAAATCAAATATCGATGCC-ACTGTCCCAAAC-AAG
* * *
25589506 GTCTTACACGAAATCATATATCGATGCCACTGTCCTAGACAGGGTCTTACACGAAA
64 GTCTTACACGAAATCAAATA-CGATGCCAATGTACTAGACAGGGTCTTACACGAAA
25589562 TCATATATCG
Statistics
Matches: 100, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
129 68 0.68
130 32 0.32
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (129 bp):
ATGCCAACGTCCCAGACGTGGTCTTCCACGAAATCAAATATCGATGCCACTGTCCCAAACAAGGT
CTTACACGAAATCAAATACGATGCCAATGTACTAGACAGGGTCTTACACGAAAATCTCAAATCG
Found at i:25591715 original size:21 final size:20
Alignment explanation
Indices: 25591677--25591715 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
25591667 ATTATTAAAA
25591677 ATAATAAAAATTAAAAATAC
1 ATAATAAAAATTAAAAATAC
*
25591697 ATAATAAACAATTATAAAT
1 ATAATAAA-AATTAAAAAT
25591716 TGGTTCAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAATAAAAATTAAAAATAC
Found at i:25594790 original size:28 final size:31
Alignment explanation
Indices: 25594735--25594791 Score: 75
Period size: 28 Copynumber: 1.9 Consensus size: 31
25594725 TTCTAAAAAA
*
25594735 TTCAAAGAAATATATAAAATACATAAATATT
1 TTCAAAGAAATATATAAAATACAAAAATATT
*
25594766 TTCAAA-AAAT-T-TAAAATATAAAAATA
1 TTCAAAGAAATATATAAAATACAAAAATA
25594792 AAAAAATGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.54
29 1 0.04
30 4 0.17
31 6 0.25
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (31 bp):
TTCAAAGAAATATATAAAATACAAAAATATT
Found at i:25599322 original size:26 final size:27
Alignment explanation
Indices: 25599259--25599492 Score: 222
Period size: 27 Copynumber: 8.7 Consensus size: 27
25599249 CCCCGGGTTG
* * *
25599259 AAATTACTGAAATACCCTTAATTTGTG
1 AAATTACCGAAATACCCTCAATTTGTA
* *
25599286 AAATTACCGAAATGCCC-CGATTTGTA
1 AAATTACCGAAATACCCTCAATTTGTA
* * *
25599312 AAACTATCGAAATACCCTCAATTTGGA
1 AAATTACCGAAATACCCTCAATTTGTA
*
25599339 AAATTACCGAAATACCCTCAATTTATA
1 AAATTACCGAAATACCCTCAATTTGTA
** *
25599366 AAATTACAAAAAATACCCTCAATTTGGA
1 AAATTAC-CGAAATACCCTCAATTTGTA
* * * *
25599394 AAATTACCAAAATACCCCCGATTTGCA
1 AAATTACCGAAATACCCTCAATTTGTA
* * *
25599421 AAATTATCGAAATACCC-CTAGTTTGGA
1 AAATTACCGAAATACCCTC-AATTTGTA
* * *
25599448 AAATTACCGAAATA-CGTCCAGTTCGTA
1 AAATTACCGAAATACCCT-CAATTTGTA
25599475 AAATTACCGAAATACCCT
1 AAATTACCGAAATACCCT
25599493 GGTAGTGTAA
Statistics
Matches: 169, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
26 22 0.13
27 121 0.72
28 26 0.15
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCAATTTGTA
Found at i:25599515 original size:27 final size:25
Alignment explanation
Indices: 25599472--25599722 Score: 191
Period size: 27 Copynumber: 9.4 Consensus size: 25
25599462 CGTCCAGTTC
* *
25599472 GTAAAATTACCGAAATACCCTGGTAG
1 GTAAAATGACCGTAATACCCT-GTAG
* *
25599498 TGTAAAATGATCGTAATATCCTTGTAAG
1 -GTAAAATGACCGTAATA-CCCTGT-AG
*
25599526 GTAAACA-G-CCGTAATGCCCTTGTAG
1 GTAAA-ATGACCGTAATACCC-TGTAG
* *
25599551 GTTAAATGACTGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATA-CCCTGTA-G
*
25599578 GTAAAATGACCATAATACCCCTGTAG
1 GTAAAATGACCGTAATA-CCCTGTAG
* *
25599604 GATAAAATGACCGTAATGCCTCCGTAG
1 G-TAAAATGACCGTAATACC-CTGTAG
*
25599631 GATAAAATGACCGTAATGTCCCTGTAGG
1 G-TAAAATGACCGTAAT-ACCCTGTA-G
* *
25599659 GTGAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCGTAAT-ACCCTGTA-G
* *
25599686 GTAAAATGATCATAATACCCCTGTAAG
1 GTAAAATGACCGTAATA-CCCTGT-AG
25599713 GTAAAATGAC
1 GTAAAATGAC
25599723 GATTATGCCC
Statistics
Matches: 185, Mismatches: 25, Indels: 28
0.78 0.11 0.12
Matches are distributed among these distances:
24 1 0.01
25 9 0.05
26 23 0.12
27 141 0.76
28 11 0.06
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (25 bp):
GTAAAATGACCGTAATACCCTGTAG
Found at i:25599620 original size:54 final size:53
Alignment explanation
Indices: 25599472--25599722 Score: 233
Period size: 54 Copynumber: 4.7 Consensus size: 53
25599462 CGTCCAGTTC
* * * * *
25599472 GTAAAATTACCGA-AATA-CCCTGGTAGTGTAAAATGATCGTAATATCCTTGTAAG
1 GTAAAATGACC-ATAATACCCCT-GTAG-GTAAAATGACCGTAATACCCCTGTAGG
* * * * *
25599526 GTAAACA-G-CCGTAATGCCCTTGTAGGTTAAATGACTGTAATACCCCTGTAGG
1 GTAAA-ATGACCATAATACCCCTGTAGGTAAAATGACCGTAATACCCCTGTAGG
*
25599578 GTAAAATGACCATAATACCCCTGTAGGATAAAATGACCGTAATGCCTCC-GTAGG
1 GTAAAATGACCATAATACCCCTGTAGG-TAAAATGACCGTAATACC-CCTGTAGG
* * ** * *
25599632 ATAAAATGACCGTAATGTCCCTGTAGGGTGAAATGACCGTAATGCCCCTGTAGG
1 GTAAAATGACCATAATACCCCTGTA-GGTAAAATGACCGTAATACCCCTGTAGG
*
25599686 GTAAAATGATCATAATACCCCTGTAAGGTAAAATGAC
1 GTAAAATGACCATAATACCCCTGT-AGGTAAAATGAC
25599723 GATTATGCCC
Statistics
Matches: 160, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
51 1 0.01
52 27 0.17
53 26 0.16
54 100 0.62
55 6 0.04
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (53 bp):
GTAAAATGACCATAATACCCCTGTAGGTAAAATGACCGTAATACCCCTGTAGG
Found at i:25599718 original size:81 final size:80
Alignment explanation
Indices: 25599547--25599722 Score: 219
Period size: 81 Copynumber: 2.2 Consensus size: 80
25599537 TAATGCCCTT
* *
25599547 GTAGGTTAAATGACTGTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGATAAAAT
1 GTAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGATAAAAT
* *
25599612 GACCGTAATGCCTCC
66 GACCATAATACCTCC
** * * * *
25599627 GTAGGATAAAATGACCGTAATGTCCCTGTAGGGTGAAATGACCGTAATGCCCCTGTAGGGTAAAA
1 GTAGG-TAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGATAAAA
*
25599692 TGATCATAATACC-CC
65 TGACCATAATACCTCC
25599707 TGTAAGGTAAAATGAC
1 -GT-AGGTAAAATGAC
25599723 GATTATGCCC
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 7 0.09
81 72 0.88
82 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (80 bp):
GTAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCATAATACCCCTGTAGGATAAAAT
GACCATAATACCTCC
Found at i:25599902 original size:27 final size:27
Alignment explanation
Indices: 25599858--25599949 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
25599848 AAGGAGGAAA
* *
25599858 TACTG-TACTGGTGACTATGTCACATT
1 TACTGTTACTGGTGGCTATGCCACATT
* *
25599884 TACTGTTACTAGTGGCTATGCCACAAT
1 TACTGTTACTGGTGGCTATGCCACATT
* * *
25599911 TACTGATACTGGTGGCTTTGCCATATT
1 TACTGTTACTGGTGGCTATGCCACATT
*
25599938 TACTGTTTCTGG
1 TACTGTTACTGG
25599950 CAGCTATACT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
26 5 0.09
27 49 0.91
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACATT
Found at i:25607516 original size:42 final size:42
Alignment explanation
Indices: 25607457--25607536 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
25607447 AATGTTGATG
*
25607457 CAATGCAAGTATAATAGGAAAGTTCCTACCCATACTCCGCTA
1 CAATGCAAGTATAATAGGAAAGTTCCTACCCACACTCCGCTA
25607499 CAATGCAAGTATAATAGGAAAGTTCCTACCCACACTCC
1 CAATGCAAGTATAATAGGAAAGTTCCTACCCACACTCC
25607537 ATTTTGTGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.23
Consensus pattern (42 bp):
CAATGCAAGTATAATAGGAAAGTTCCTACCCACACTCCGCTA
Found at i:25607679 original size:43 final size:43
Alignment explanation
Indices: 25607618--25607710 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 43
25607608 TTAAAAAAAG
** *
25607618 GTTTGTAGTTAAACTGCCAGTAAGTTATGGATAAACCACCAGT
1 GTTTGTACATAAACTGCCAGTAAGTCATGGATAAACCACCAGT
* *
25607661 GTTTGTACATAAATTGCCAGTAAGTCATGGATGAACCACCAGT
1 GTTTGTACATAAACTGCCAGTAAGTCATGGATAAACCACCAGT
25607704 GTTTGTA
1 GTTTGTA
25607711 GATTATTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (43 bp):
GTTTGTACATAAACTGCCAGTAAGTCATGGATAAACCACCAGT
Found at i:25607842 original size:38 final size:37
Alignment explanation
Indices: 25607799--25607950 Score: 144
Period size: 38 Copynumber: 4.0 Consensus size: 37
25607789 TACAGAAACA
* * *
25607799 ATAGACATACTTAACATGTAATCGGTTCAACAGTAGCGT
1 ATAGACATGCTTAACATGTATTCAGTTCAACAGT--CGT
*
25607838 -TAGACATGCTTAACTTGTATTCAGTTCAACAGTCGT
1 ATAGACATGCTTAACATGTATTCAGTTCAACAGTCGT
* * *
25607874 AGTAGACATGCTTAACATGTATTCAGTTCAATACTCGC
1 A-TAGACATGCTTAACATGTATTCAGTTCAACAGTCGT
* * * * * *
25607912 AGTAGGCATGCTTCACATGTTTTTAGGTCAACAATCGT
1 A-TAGACATGCTTAACATGTATTCAGTTCAACAGTCGT
25607950 A
1 A
25607951 GTGTTAATAG
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
36 3 0.03
38 92 0.97
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (37 bp):
ATAGACATGCTTAACATGTATTCAGTTCAACAGTCGT
Found at i:25607943 original size:76 final size:76
Alignment explanation
Indices: 25607800--25607952 Score: 173
Period size: 76 Copynumber: 2.0 Consensus size: 76
25607790 ACAGAAACAA
* * * *
25607800 TAGACATACTTAACATGTAATCGGTTCAACAGTAGCGTTAGACATGCTTAACTTGTATTCAGTTC
1 TAGACATACTTAACATGTAATCAGTTCAACACTAGCGTTAGACATGCTTAACATGTATTCAGGTC
*
25607865 AACAGTCGTAG
66 AACAATCGTAG
* * * * * * * *
25607876 TAGACATGCTTAACATGTATTCAGTTCAATACTCGCAG-TAGGCATGCTTCACATGTTTTTAGGT
1 TAGACATACTTAACATGTAATCAGTTCAACACTAGC-GTTAGACATGCTTAACATGTATTCAGGT
25607940 CAACAATCGTAG
65 CAACAATCGTAG
25607952 T
1 T
25607953 GTTAATAGTA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
76 62 0.98
77 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (76 bp):
TAGACATACTTAACATGTAATCAGTTCAACACTAGCGTTAGACATGCTTAACATGTATTCAGGTC
AACAATCGTAG
Found at i:25612254 original size:24 final size:24
Alignment explanation
Indices: 25612204--25612257 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
25612194 AATCGAATTT
*
25612204 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
25612228 GCACACATAGTGCCATAGT-ACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
25612252 GCACAC
1 GCACAC
25612258 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 5 0.19
26 3 0.11
ACGTcount: A:0.30, C:0.37, G:0.17, T:0.17
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:25612673 original size:16 final size:16
Alignment explanation
Indices: 25612634--25612664 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25612624 ACTACACCAG
25612634 AAATAGAACAAAATAC
1 AAATAGAACAAAATAC
25612650 AAATAGAACAAAATA
1 AAATAGAACAAAATA
25612665 ATGATAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.10, G:0.06, T:0.13
Consensus pattern (16 bp):
AAATAGAACAAAATAC
Found at i:25618968 original size:15 final size:15
Alignment explanation
Indices: 25618921--25618969 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
25618911 CCCCTATCAC
*
25618921 CACCTCTTCCACCAC
1 CACCTCTTCCACCAT
* *
25618936 CTCCTCTTCC-TC-T
1 CACCTCTTCCACCAT
25618949 C-CCTCTTCCACCAT
1 CACCTCTTCCACCAT
25618963 CACCTCT
1 CACCTCT
25618970 GCCCCTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 8 0.30
13 2 0.07
14 3 0.11
15 14 0.52
ACGTcount: A:0.12, C:0.57, G:0.00, T:0.31
Consensus pattern (15 bp):
CACCTCTTCCACCAT
Found at i:25620066 original size:7 final size:7
Alignment explanation
Indices: 25620054--25620182 Score: 66
Period size: 7 Copynumber: 18.1 Consensus size: 7
25620044 ACTAATCAAT
25620054 CTAAACC
1 CTAAACC
25620061 CTAAACC
1 CTAAACC
* *
25620068 TTTTAACCC
1 --CTAAACC
*
25620077 CT-ATCC
1 CTAAACC
*
25620083 CATAAACA
1 C-TAAACC
*
25620091 CTAAACT
1 CTAAACC
25620098 CTAAACC
1 CTAAACC
*
25620105 CTTAACC
1 CTAAACC
*
25620112 CTTAACC
1 CTAAACC
*
25620119 CCAAACC
1 CTAAACC
*
25620126 CTTACACC
1 C-TAAACC
*
25620134 TTAAACTC
1 CTAAAC-C
25620142 C--AACC
1 CTAAACC
*
25620147 CTAACCC
1 CTAAACC
25620154 CTAAACC
1 CTAAACC
*
25620161 CTAAATC
1 CTAAACC
* *
25620168 ATAATCC
1 CTAAACC
25620175 CTAAACC
1 CTAAACC
25620182 C
1 C
25620183 ATAATTCATC
Statistics
Matches: 90, Mismatches: 24, Indels: 16
0.69 0.18 0.12
Matches are distributed among these distances:
5 2 0.02
6 7 0.08
7 68 0.76
8 8 0.09
9 5 0.06
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:25620232 original size:7 final size:7
Alignment explanation
Indices: 25620220--25620317 Score: 61
Period size: 7 Copynumber: 13.4 Consensus size: 7
25620210 AGTTAACTCC
*
25620220 TAAACCT
1 TAAACCA
*
25620227 TAAACCC
1 TAAACCA
25620234 TAAACCA
1 TAAACCA
* * *
25620241 TATATCT
1 TAAACCA
25620248 TAAACCA
1 TAAACCA
25620255 TAGATAACTCA
1 T--A-AAC-CA
*
25620266 TAAACCT
1 TAAACCA
*
25620273 TAAACCC
1 TAAACCA
25620280 TAAACCA
1 TAAACCA
* * *
25620287 TATATCT
1 TAAACCA
25620294 TAAACCA
1 TAAACCA
25620301 TAAACCA
1 TAAACCA
*
25620308 TAAACTA
1 TAAACCA
25620315 TAA
1 TAA
25620318 TGATAATTAA
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
7 58 0.84
8 3 0.04
9 2 0.03
10 3 0.04
11 3 0.04
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (7 bp):
TAAACCA
Found at i:25620251 original size:21 final size:21
Alignment explanation
Indices: 25620225--25620309 Score: 98
Period size: 21 Copynumber: 3.9 Consensus size: 21
25620215 ACTCCTAAAC
*
25620225 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
25620246 CTTAAACCATAGATAACTCATAAAC
1 CTTAAACCAT--A-AAC-CATATAT
*
25620271 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
25620292 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
25620310 AACTATAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 31 0.58
22 3 0.06
23 2 0.04
24 3 0.06
25 14 0.26
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:25620280 original size:46 final size:46
Alignment explanation
Indices: 25620213--25620302 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
25620203 AAACACTAGT
*
25620213 TAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCATAGA
1 TAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCATAGA
25620259 TAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCATA
1 TAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCATA
25620303 AACCATAAAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.44, C:0.28, G:0.01, T:0.27
Consensus pattern (46 bp):
TAACTCATAAACCTTAAACCCTAAACCATATATCTTAAACCATAGA
Found at i:25620652 original size:41 final size:40
Alignment explanation
Indices: 25620475--25620672 Score: 168
Period size: 41 Copynumber: 4.9 Consensus size: 40
25620465 GTTATATGAC
* * * *
25620475 TTTAGCGGCG-TTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
1 TTTAGCGGCGTTTTTACTAAAA-CGCCGCTATTGCTCT-ATT
* * * * *
25620516 TTTAGCGGC-ATTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
1 TTTAGCGGCGTTTTTACTAAAA-CGCCGCTATTGCTCT-ATT
* * * * *
25620557 TTTAGCTGCG-TTTTGCCAAAAGCGCCGCTAATGCTCTGTT
1 TTTAGCGGCGTTTTTACTAAAA-CGCCGCTATTGCTCTATT
25620597 TTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTCTATT
1 TTTAGCGGCG-TTTTTACTAAAACGCCGCTATTGCTCTATT
* **
25620638 TTTAGTGGCGTTTTTGGTAAAACGCCGCTATTGCT
1 TTTAGCGGCGTTTTTACTAAAACGCCGCTATTGCT
25620673 ATGAGTTTTA
Statistics
Matches: 144, Mismatches: 9, Indels: 9
0.89 0.06 0.06
Matches are distributed among these distances:
40 35 0.24
41 100 0.69
42 9 0.06
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTACTAAAACGCCGCTATTGCTCTATT
Found at i:25620672 original size:40 final size:41
Alignment explanation
Indices: 25620475--25620651 Score: 252
Period size: 41 Copynumber: 4.3 Consensus size: 41
25620465 GTTATATGAC
25620475 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
*
25620516 TTTAGCGGCATTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
*
25620557 TTTAGCTGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GTT
1 TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
* * * *
25620597 TTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCT-ATT
1 TTTAGCGGCG--TTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
*
25620638 TTTAGTGGCGTTTT
1 TTTAGCGGCGTTTT
25620652 TGGTAAAACG
Statistics
Matches: 125, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
39 4 0.03
40 12 0.10
41 100 0.80
42 9 0.07
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTT
Found at i:25620721 original size:12 final size:12
Alignment explanation
Indices: 25620706--25620731 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25620696 GTTTTTTGAT
25620706 AAAACGCCGCTA
1 AAAACGCCGCTA
25620718 AAAACGCCGCTA
1 AAAACGCCGCTA
25620730 AA
1 AA
25620732 GCTCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:25636729 original size:40 final size:40
Alignment explanation
Indices: 25636674--25636883 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
25636664 AACATTGGAA
25636674 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
25636714 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
25636754 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
25636794 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
25636833 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
25636874 CTATATCCGG
1 ATATATCCGG
25636884 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Done.