Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 30 of 216
Found at i:8792249 original size:100 final size:100
Alignment explanation
Indices: 8792081--8792262 Score: 240
Period size: 100 Copynumber: 1.8 Consensus size: 100
8792071 GCAATGTCGG
** * * * * *
8792081 GGAAACAAGATTCGTCGTCGTGGCTTCAATCTGCTCCGCTACAATGCCAGGGAAGTAAGATTCAC
1 GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGAGAAGTAAGATTCAC
8792146 CGTTGCGACTTCAATCTTTTAAATTGAAATGTTGA
66 CGTTGCGACTTCAATCTTTTAAATTGAAATGTTGA
* * * *
8792181 GGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCATTACACCGCCA-AGAGAGTAAGATTCG
1 GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGAGA-AGTAAGATTCA
*
8792245 CCGTTGCGGCTTCAATCT
65 CCGTTGCGACTTCAATCT
8792263 GCTCCACTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
99 2 0.03
100 67 0.97
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (100 bp):
GGAAACAAGATTCACCGTCGTAGCTTCAATCTACTCCACTACAACGCCAGAGAAGTAAGATTCAC
CGTTGCGACTTCAATCTTTTAAATTGAAATGTTGA
Found at i:8792560 original size:44 final size:44
Alignment explanation
Indices: 8792511--8792676 Score: 230
Period size: 44 Copynumber: 3.8 Consensus size: 44
8792501 ACCTACTATT
8792511 TTCAACCTACTT-CACTGCTG-CTCAGGGAGATAGGATTCACAATC
1 TTCAACCTA-TTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
* *
8792555 TTCAACCTATTCCACTGCTGACCAGGTAGATAGGA-CCTACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTC-ACAATC
* * * *
8792599 TTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
8792643 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGG
8792677 GCTGGGGTCA
Statistics
Matches: 107, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
43 3 0.03
44 102 0.95
45 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:8792603 original size:88 final size:88
Alignment explanation
Indices: 8792500--8792676 Score: 275
Period size: 88 Copynumber: 2.0 Consensus size: 88
8792490 AGGAAGGCAA
* * * *
8792500 GACCTACTATTTTCAACCTACTT-CACTGCTGCTCAGGGAGATAGGATTCACAATCTTCAACCTA
1 GACCTACAATCTTCAACCTA-TTCCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTA
*
8792564 TTCCACTGCTGACCAGGTAGATAG
65 TTCCACTGCTGACCAGGGAGATAG
* *
8792588 GACCTACAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTCTCAATCTTCAACCTAT
1 GACCTACAATCTTCAACCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTAT
8792653 TCCACTGCTGACCAGGGAGATAG
66 TCCACTGCTGACCAGGGAGATAG
8792676 G
1 G
8792677 GCTGGGGTCA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
87 2 0.02
88 79 0.98
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (88 bp):
GACCTACAATCTTCAACCTATTCCACTGCTGCCCAGGGAGATAGAATTCACAATCTTCAACCTAT
TCCACTGCTGACCAGGGAGATAG
Found at i:8792738 original size:88 final size:88
Alignment explanation
Indices: 8792676--8793165 Score: 737
Period size: 88 Copynumber: 5.6 Consensus size: 88
8792666 AGGGAGATAG
* * **
8792676 GGCTGGGGTCATCGATCTGCTTCGCTGTTAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* * * *
8792741 TCCATTGCAACCTAGGGAGGCAA
66 TCTACTGTAACCCAGGGAGGCAA
*
8792764 GGCTGGTGTCTTCGATCTGCTTAGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
8792829 TCTGCTGTAACCCAGGGAGGCAA
66 TCTACTGTAACCCAGGGAGGCAA
* * * *
8792852 GGCTGGTGTCTTCGATCTGCTTCGTTGTTGGTGTAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
8792917 TTTACTGCAACCCAGGGAGGCAA
66 TCTACTGTAACCCAGGGAGGCAA
* *
8792940 GGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAGCCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
*
8793005 TCTGCTGTAACCCAGGGAGGCAA
66 TCTACTGTAACCCAGGGAGGCAA
* * * * *
8793028 GTCTGGTGTCTTTGATTTGCTTCACTGTCAGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
* *
8793093 TCTGCTGTAACCCAGGGAGACAA
66 TCTACTGTAACCCAGGGAGGCAA
*
8793116 GGCTGGTGTCTTTGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
8793166 TTATCTTCAC
Statistics
Matches: 365, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 365 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (88 bp):
GGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGC
TCTACTGTAACCCAGGGAGGCAA
Found at i:8792806 original size:44 final size:44
Alignment explanation
Indices: 8792758--8792984 Score: 113
Period size: 44 Copynumber: 5.2 Consensus size: 44
8792748 CAACCTAGGG
8792758 AGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCGGTGCAGGA
* * * * ** * **** *
8792802 AGGCAAGATCTGCTATTTTTAACCTGCTCT-GCTGT-AACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCT-TAGCTGTCGGTGCAGGA
* * * *
8792846 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGTTGTTGGTGTAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCGGTGCAGGA
* * * ** * **** *
8792890 AGGCAAGATCTGCTAT-TTTTAGCCTGCTTTA-CTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGA-TCTGC-TTAGCTGTCGGTGCAGGA
* *
8792934 AGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCGGTGCAGGA
8792978 AGGCAAG
1 AGGCAAG
8792985 ATCTGCTATT
Statistics
Matches: 119, Mismatches: 54, Indels: 20
0.62 0.28 0.10
Matches are distributed among these distances:
42 3 0.03
43 28 0.24
44 56 0.47
45 29 0.24
46 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.29
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTAGCTGTCGGTGCAGGA
Found at i:8793026 original size:44 final size:44
Alignment explanation
Indices: 8792973--8793108 Score: 125
Period size: 44 Copynumber: 3.1 Consensus size: 44
8792963 GCTGTCGGTG
8792973 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCTGCTGTAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCTGCTGTAACC
* * * * ** * ***
8793017 CAGGGAGGCAAG-TCTGGTGTCTTT-GATTTGCT-TCACTGTCAGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAG-CCTGCTCT-GCTGT-AACC
*
8793061 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCTGCTGTAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCTGCTGTAACC
8793105 CAGG
1 CAGG
8793109 GAGACAAGGC
Statistics
Matches: 65, Mismatches: 21, Indels: 12
0.66 0.21 0.12
Matches are distributed among these distances:
42 2 0.03
43 17 0.26
44 28 0.43
45 17 0.26
46 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAGCCTGCTCTGCTGTAACC
Found at i:8794457 original size:14 final size:15
Alignment explanation
Indices: 8794434--8794466 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
8794424 TTCGACGCTT
8794434 TTCCAAATAAGG-CC
1 TTCCAAATAAGGTCC
*
8794448 TTCCACATAAGGTCC
1 TTCCAAATAAGGTCC
8794463 TTCC
1 TTCC
8794467 CAGCTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.33, G:0.12, T:0.27
Consensus pattern (15 bp):
TTCCAAATAAGGTCC
Found at i:8795359 original size:26 final size:25
Alignment explanation
Indices: 8795300--8795369 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
8795290 AAGAAAATCC
* **
8795300 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAAT-ATTAGCTCA
8795326 AAAAGAATGAAAAAATATTAGCTCA
1 AAAAGAATGAAAAAATATTAGCTCA
* * *
8795351 GAAATGAATGCAAAGATAT
1 -AAAAGAATGAAAAAATAT
8795370 ATTTTATTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 7 0.19
26 30 0.81
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.23
Consensus pattern (25 bp):
AAAAGAATGAAAAAATATTAGCTCA
Found at i:8799047 original size:28 final size:27
Alignment explanation
Indices: 8798990--8799049 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
8798980 AAAAAGGTAC
* *
8798990 AAAATATATACATGTACATATATAAAA
1 AAAATATATACATATACATAGATAAAA
* *
8799017 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TAAAA
8799046 AAAA
1 AAAA
8799050 GATAATTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.15
28 15 0.56
29 8 0.30
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (27 bp):
AAAATATATACATATACATAGATAAAA
Found at i:8799048 original size:30 final size:28
Alignment explanation
Indices: 8798990--8799096 Score: 74
Period size: 30 Copynumber: 3.6 Consensus size: 28
8798980 AAAAAGGTAC
* * *
8798990 AAAA-TATATACATGTACATATATAAAA
1 AAAATTATATACATATATATAGATAAAA
8799017 AAAATTATATACATATATATAGATTATAAA
1 AAAATTATATACATATATATAGA-TA-AAA
* * *
8799047 AAAGATAAT-TAAATATATATATATAAACA
1 AAA-ATTATATACATATATATAGATAAA-A
*
8799076 AATAATAATAATTACATATAT
1 AA-AATTAT-A-TACATATAT
8799097 TGAAATTAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
27 4 0.06
28 17 0.27
29 12 0.19
30 19 0.30
31 4 0.06
32 8 0.12
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATTATATACATATATATAGATAAAA
Found at i:8799251 original size:16 final size:16
Alignment explanation
Indices: 8799232--8799273 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8799222 AGGAATTAAA
8799232 AAATGTATATGTATAT
1 AAATGTATATGTATAT
*
8799248 AAATGTAAATGTATAT
1 AAATGTATATGTATAT
*
8799264 ATATGTATAT
1 AAATGTATAT
8799274 AAAAGTTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (16 bp):
AAATGTATATGTATAT
Found at i:8799378 original size:28 final size:29
Alignment explanation
Indices: 8799342--8799401 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
8799332 AAGTTTTTTT
* * *
8799342 TAAACAAATATATGTATATATAT-TATTG
1 TAAAAAAATATACGTATATATATATATAG
*
8799370 TAAAAAAATATACGTATGTATATATATAG
1 TAAAAAAATATACGTATATATATATATAG
8799399 TAA
1 TAA
8799402 TAATAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 20 0.74
29 7 0.26
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.38
Consensus pattern (29 bp):
TAAAAAAATATACGTATATATATATATAG
Found at i:8799407 original size:3 final size:3
Alignment explanation
Indices: 8799399--8799443 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
8799389 ATATATATAG
*
8799399 TAA TAA TAA TAA TAA TAG 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
8799444 CTTAATAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8799800 original size:23 final size:22
Alignment explanation
Indices: 8799757--8799854 Score: 66
Period size: 22 Copynumber: 4.6 Consensus size: 22
8799747 AAAGGGTATC
* *
8799757 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
8799778 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
8799801 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
8799820 TGC--AT-ATATCATATCTAAGAT
1 TACAAATCATATC-T-TCTAAGAT
*
8799841 TACATATCATATCT
1 TACAAATCATATCT
8799855 AAGATTGCAC
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
16 3 0.05
17 2 0.03
19 11 0.18
21 13 0.21
22 15 0.24
23 13 0.21
24 5 0.08
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:8799817 original size:19 final size:19
Alignment explanation
Indices: 8799793--8799863 Score: 115
Period size: 19 Copynumber: 3.6 Consensus size: 19
8799783 AATCATATCT
8799793 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
8799812 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
8799833 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
8799852 TCTAAGATTGCA
1 TCTAAGATTGCA
8799864 CATCCTTGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 30 0.62
21 18 0.38
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:8799830 original size:21 final size:20
Alignment explanation
Indices: 8799770--8799863 Score: 111
Period size: 19 Copynumber: 4.6 Consensus size: 20
8799760 AAATTAAATC
* *
8799770 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
8799790 TCTTCTAAGATTGC-ATATCATA
1 ---TCTAAGATTGCAATATCATA
8799812 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
*
8799833 TCTAAGATTAC-ATATCATA
1 TCTAAGATTGCAATATCATA
8799852 TCTAAGATTGCA
1 TCTAAGATTGCA
8799864 CATCCTTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
19 29 0.45
21 18 0.28
22 7 0.11
23 10 0.16
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:8801925 original size:32 final size:34
Alignment explanation
Indices: 8801887--8801965 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 34
8801877 AAGTTATGTG
8801887 TATATATAATATATAAGTATA-GGG-TTT-TGTTA
1 TATATATAATATATAA-TATATGGGTTTTGTGTTA
*
8801919 TTTATAT-ATA-AT-ATATATGGGTTTTGGTGTTA
1 TATATATAATATATAATATATGGGTTTT-GTGTTA
8801951 TATATATAATATATA
1 TATATATAATATATA
8801966 TTTATGTGCA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
28 4 0.11
29 4 0.11
30 5 0.13
31 3 0.08
32 17 0.45
33 3 0.08
34 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (34 bp):
TATATATAATATATAATATATGGGTTTTGTGTTA
Found at i:8801957 original size:30 final size:29
Alignment explanation
Indices: 8801895--8801966 Score: 94
Period size: 30 Copynumber: 2.5 Consensus size: 29
8801885 TGTATATATA
* *
8801895 ATATATAA-GTATA-GGGTTTTGTTATTT
1 ATATATAATATATATGGGTTTTGGTATTT
*
8801922 ATATATAATATATATGGGTTTTGGTGTTAT
1 ATATATAATATATATGGGTTTTGGTATT-T
8801952 ATATATAATATATAT
1 ATATATAATATATAT
8801967 TTATGTGCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.21
28 4 0.10
29 11 0.28
30 16 0.41
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (29 bp):
ATATATAATATATATGGGTTTTGGTATTT
Found at i:8801966 original size:32 final size:33
Alignment explanation
Indices: 8801887--8801998 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 33
8801877 AAGTTATGTG
* * *
8801887 TATATATAATATATAAGTATAGGGTTTTGTTATT-
1 TATATATAATATAT-ATTAT-GGGTTTTGGTGTTA
8801921 TATATAT-A-ATATA-TATGGGTTTTGGTGTTA
1 TATATATAATATATATTATGGGTTTTGGTGTTA
* ** *
8801951 TATATATAATATATATTTATGTGCATGGGTGTTA
1 TATATATAATATATA-TTATGGGTTTTGGTGTTA
*
8801985 TATGTATAATATAT
1 TATATATAATATAT
8801999 TTGCATGGGT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
29 11 0.17
30 10 0.15
31 2 0.03
32 9 0.14
33 1 0.02
34 33 0.50
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.49
Consensus pattern (33 bp):
TATATATAATATATATTATGGGTTTTGGTGTTA
Found at i:8801986 original size:28 final size:28
Alignment explanation
Indices: 8801953--8802057 Score: 93
Period size: 30 Copynumber: 3.6 Consensus size: 28
8801943 TGGTGTTATA
*
8801953 TATATAATATATATTTATGTGCATGGGTGT
1 TATAT-ATATA-ATATATGTGCATGGGTGT
* * *
8801983 TATATGTATAATATATTTGCATGGGTCT
1 TATATATATAATATATGTGCATGGGTGT
* * * *
8802011 ACTATATACATAATATATATGTATGGGTTT
1 --TATATATATAATATATGTGCATGGGTGT
8802041 TATTATATATAATATAT
1 TA-TATATATAATATAT
8802058 ATGCGGTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 17 0.27
29 17 0.27
30 28 0.45
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (28 bp):
TATATATATAATATATGTGCATGGGTGT
Found at i:8804237 original size:5 final size:5
Alignment explanation
Indices: 8804227--8804315 Score: 78
Period size: 5 Copynumber: 18.4 Consensus size: 5
8804217 CTTTTATATT
* * * *
8804227 TTTTC TTTTC -TTTC TATT- ATTTC TTCTTC TTTTC TTCTC TTTTC -TCT-
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC
** *
8804274 TTTTC GGTTC TTTTA TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT
8804316 CATTTTGATT
Statistics
Matches: 65, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
4 10 0.15
5 50 0.77
6 5 0.08
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTC
Found at i:8804239 original size:19 final size:20
Alignment explanation
Indices: 8804213--8804259 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
8804203 ACGTTAGTCA
*
8804213 TCTTCTTTTATATTTTTTCT
1 TCTTCTTTTATATTATTTCT
*
8804233 T-TTC-TTTCTATTATTTCT
1 TCTTCTTTTATATTATTTCT
8804251 TCTTCTTTT
1 TCTTCTTTT
8804260 CTTCTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 13 0.57
19 6 0.26
20 4 0.17
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (20 bp):
TCTTCTTTTATATTATTTCT
Found at i:8804241 original size:23 final size:24
Alignment explanation
Indices: 8804215--8804315 Score: 73
Period size: 28 Copynumber: 4.0 Consensus size: 24
8804205 GTTAGTCATC
8804215 TTCTTTTATATT-TT-TTCTTTTCT
1 TTCTTTTAT-TTCTTCTTCTTTTCT
*
8804238 TTCTATTATTTCTTCTTCTTTTCT
1 TTCTTTTATTTCTTCTTCTTTTCT
* * *
8804262 TCTCTTTTCTCTTTTTCGGTTCTTTTATT
1 T-TCTTTTAT-TTCTTC--TTCTTTT-CT
*
8804291 TTCTTTTCTTTTCTT-TTCTTTTCT
1 TTCTTTT-ATTTCTTCTTCTTTTCT
8804315 T
1 T
8804316 CATTTTGATT
Statistics
Matches: 62, Mismatches: 8, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
22 2 0.03
23 10 0.16
24 12 0.19
25 13 0.21
26 5 0.08
28 17 0.27
29 3 0.05
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (24 bp):
TTCTTTTATTTCTTCTTCTTTTCT
Found at i:8804253 original size:21 final size:19
Alignment explanation
Indices: 8804215--8804254 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
8804205 GTTAGTCATC
*
8804215 TTCTTTTATATTTTTTCTT
1 TTCTTTTATATTTCTTCTT
8804234 TTCTTTCTATTATTTCTTCTT
1 TTCTTT-TA-TATTTCTTCTT
8804255 CTTTTCTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (19 bp):
TTCTTTTATATTTCTTCTT
Found at i:8813170 original size:41 final size:40
Alignment explanation
Indices: 8813104--8813226 Score: 149
Period size: 41 Copynumber: 3.0 Consensus size: 40
8813094 TTTCATTCGT
**
8813104 TATCCTTTTTGGATAACATTATTTTCAACCTTCTTATTTGA
1 TATCCTTTTTGGATAACATCCTTTTCAACCTT-TTATTTGA
* * *
8813145 TATCATTTTTGGATAACATCCTTTTCAATCTTTTCATTCGA
1 TATCCTTTTTGGATAACATCCTTTTCAACCTTTT-ATTTGA
* *
8813186 TATCCTTTTT-TATTAACATCCTTTTCAACCTTTTAATTGA
1 TATCCTTTTTGGA-TAACATCCTTTTCAACCTTTTATTTGA
8813226 T
1 T
8813227 TCAGAAATAC
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
40 8 0.11
41 62 0.89
ACGTcount: A:0.24, C:0.19, G:0.06, T:0.51
Consensus pattern (40 bp):
TATCCTTTTTGGATAACATCCTTTTCAACCTTTTATTTGA
Found at i:8813644 original size:68 final size:68
Alignment explanation
Indices: 8813535--8813671 Score: 247
Period size: 68 Copynumber: 2.0 Consensus size: 68
8813525 CATGCAATGA
8813535 ACTCAAATTGGCCGAAAGATTCTAACCTCGTCTAATGGTGTTTCAATTTTCCCATCACCAAAATG
1 ACTCAAATTGGCCGAAAGATTCTAACCTCGTCTAATGGTGTTTCAATTTTCCCATCACCAAAATG
8813600 AAG
66 AAG
** *
8813603 ACTCAAATTGGCCGAAATCTTCTAACCTCGTCTAATGGTGTTTCGATTTTCCCATCACCAAAATG
1 ACTCAAATTGGCCGAAAGATTCTAACCTCGTCTAATGGTGTTTCAATTTTCCCATCACCAAAATG
8813668 AAG
66 AAG
8813671 A
1 A
8813672 ATATGATGAT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (68 bp):
ACTCAAATTGGCCGAAAGATTCTAACCTCGTCTAATGGTGTTTCAATTTTCCCATCACCAAAATG
AAG
Found at i:8816996 original size:13 final size:13
Alignment explanation
Indices: 8816975--8817051 Score: 127
Period size: 13 Copynumber: 5.9 Consensus size: 13
8816965 ACACTCAAAT
8816975 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
8816988 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
8817001 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
*
8817014 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
8817027 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
8817040 TTCTCAAAAGCA
1 TTCTCAAAAGCA
8817052 ATGAAGAACT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 62 1.00
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:8835328 original size:18 final size:19
Alignment explanation
Indices: 8835300--8835336 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
8835290 GAAACAAAAT
8835300 TGAAAATTTTGGGAAAACA
1 TGAAAATTTTGGGAAAACA
8835319 TGAAAA-TTTGGGAAAACA
1 TGAAAATTTTGGGAAAACA
8835337 GGGGTTACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.49, C:0.05, G:0.22, T:0.24
Consensus pattern (19 bp):
TGAAAATTTTGGGAAAACA
Found at i:8837677 original size:41 final size:41
Alignment explanation
Indices: 8837470--8837666 Score: 299
Period size: 41 Copynumber: 4.8 Consensus size: 41
8837460 TTTATCGTTA
* * * * *
8837470 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
8837511 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
8837552 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
8837593 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
8837634 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
8837667 AAGAGCCGGT
Statistics
Matches: 145, Mismatches: 7, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 140 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:8837689 original size:123 final size:124
Alignment explanation
Indices: 8837470--8837720 Score: 287
Period size: 123 Copynumber: 2.0 Consensus size: 124
8837460 TTTATCGTTA
* * *
8837470 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
* * ** *
8837535 TAGCAGGCTTAATGCCGGTGACACATTTCAGGCTAT-AAGTCTAGCAGGCTTAATGCCG
66 TAGCAGGCTTAAAGCCGGTGACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
* * *
8837593 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACA-T-TTCGGACTATAAG
1 GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGA-A-ATTATTCAGACTATAAG
*** * *
8837656 TCTAGCAGGC-TAAGAGCCGGTGTATTGA-ATCAGGTTTTAAAACCTAGCAGGCTAAATGCCG
64 TCTAGCAGGCTTAA-AGCCGGTG-ACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
8837717 GTGA
1 GTGA
8837721 ATCCGTTTAA
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
122 3 0.03
123 76 0.71
124 27 0.25
125 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (124 bp):
GTGACACAATTCAGACTATAAGTCTAGCAGGCTTAACGCCGGTGAAATTATTCAGACTATAAGTC
TAGCAGGCTTAAAGCCGGTGACACATATCAGGCTATAAAACCTAGCAGGCTAAATGCCG
Found at i:8837939 original size:33 final size:33
Alignment explanation
Indices: 8837883--8837980 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
8837873 AGATATGTAT
*
8837883 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
8837915 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
8837948 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
8837981 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:8839496 original size:41 final size:41
Alignment explanation
Indices: 8839427--8839557 Score: 172
Period size: 41 Copynumber: 3.2 Consensus size: 41
8839417 AGATACATCA
* *
8839427 TTTTCATTTGTTATCCTTTTCGGGTAACATCTTTTTCAACC
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
* * **
8839468 TTTTCATTTGATATCATTTTTGGATAACATCTTTTTCAATA
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
* ** *
8839509 TTTTCATTTGAGATCCTTTTCAAATAACATCCTTTTCAACC
1 TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
8839550 TTTTCATT
1 TTTTCATT
8839558 GATTCAAAAA
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (41 bp):
TTTTCATTTGATATCCTTTTCGGATAACATCTTTTTCAACC
Found at i:8845181 original size:29 final size:28
Alignment explanation
Indices: 8845147--8845210 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
8845137 ATATATATGG
8845147 TATATATAACAAAACCCAAT-CATATAATA
1 TATATATAACAAAACCC-ATGCATA-AATA
*
8845176 TATATATAACAAAGCCCATGCATAAATA
1 TATATATAACAAAACCCATGCATAAATA
8845204 T-TATATA
1 TATATATA
8845211 CTGAACCCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
27 6 0.18
28 7 0.21
29 20 0.61
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.30
Consensus pattern (28 bp):
TATATATAACAAAACCCATGCATAAATA
Found at i:8850173 original size:25 final size:26
Alignment explanation
Indices: 8850131--8850181 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
8850121 TCTTCCATTA
*
8850131 TTTTTTATTTCATCAATCCTTCATAG
1 TTTTTTATTTCATAAATCCTTCATAG
* *
8850157 TTTTTTTTTTCA-AAATCTTTCATAG
1 TTTTTTATTTCATAAATCCTTCATAG
8850182 CTTCACTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.24, C:0.16, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTTTATTTCATAAATCCTTCATAG
Found at i:8851087 original size:18 final size:18
Alignment explanation
Indices: 8851064--8851099 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8851054 ATTTTATAAT
* *
8851064 TATATTTGTTTTGATACC
1 TATATTTGCTCTGATACC
8851082 TATATTTGCTCTGATACC
1 TATATTTGCTCTGATACC
8851100 AAGACATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (18 bp):
TATATTTGCTCTGATACC
Found at i:8852205 original size:32 final size:32
Alignment explanation
Indices: 8852169--8852230 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
8852159 TATGACGAAC
8852169 AACATAATTAGATATGATAAAACATGCCTTTT
1 AACATAATTAGATATGATAAAACATGCCTTTT
*
8852201 AACATAATTAGATATGATAAAATATGCCTT
1 AACATAATTAGATATGATAAAACATGCCTT
8852231 CAATGTTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (32 bp):
AACATAATTAGATATGATAAAACATGCCTTTT
Found at i:8853145 original size:6 final size:6
Alignment explanation
Indices: 8853134--8853160 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8853124 AAACAGTGAC
8853134 CCTCAT CCTCAT CCTCAT CCTCAT CCT
1 CCTCAT CCTCAT CCTCAT CCTCAT CCT
8853161 AATGCCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.52, G:0.00, T:0.33
Consensus pattern (6 bp):
CCTCAT
Found at i:8861933 original size:22 final size:22
Alignment explanation
Indices: 8861905--8861973 Score: 88
Period size: 22 Copynumber: 3.1 Consensus size: 22
8861895 TATGCACTAT
8861905 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
*
8861927 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAA-GTGC
*
8861949 TAAAC-GAAGAGCACTAATGTGC
1 TAAACAG-AGAGCACTAAAGTGC
8861971 TAA
1 TAA
8861974 TAATTGGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.10
22 35 0.85
23 2 0.05
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:8865144 original size:15 final size:15
Alignment explanation
Indices: 8865124--8865207 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 15
8865114 TTATGTAAAG
*
8865124 TCAAATATATGGTTA
1 TCAAATATATGGATA
* *
8865139 TCAAATA-ATGAAAA
1 TCAAATATATGGATA
* *
8865153 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
8865169 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
8865184 TCAAAGATATGGGTA
1 TCAAATATATGGATA
8865199 TCGAAATAT
1 TC-AAATAT
8865208 TGGCATAAGA
Statistics
Matches: 50, Mismatches: 14, Indels: 9
0.68 0.19 0.12
Matches are distributed among these distances:
14 7 0.14
15 31 0.62
16 12 0.24
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:8865206 original size:31 final size:31
Alignment explanation
Indices: 8865120--8865210 Score: 132
Period size: 30 Copynumber: 3.0 Consensus size: 31
8865110 GTATTTATGT
* * *
8865120 AAAGTCAAATATATGGTTATCAAATAAT-GA
1 AAAGTCAAAGATATGGGTATCAAATATTGGA
8865150 AAAGTCAAAGATATGGGTATCAAATATTGGA
1 AAAGTCAAAGATATGGGTATCAAATATTGGA
8865181 AAA-TCAAAGATATGGGTATCGAAATATTGG
1 AAAGTCAAAGATATGGGTATC-AAATATTGG
8865211 CATAAGAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
30 42 0.75
31 14 0.25
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (31 bp):
AAAGTCAAAGATATGGGTATCAAATATTGGA
Found at i:8869812 original size:15 final size:15
Alignment explanation
Indices: 8869792--8869868 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
8869782 TTATGTAAAG
*
8869792 TCAAATATATGGTTA
1 TCAAATATATGGATA
*
8869807 TCAAATA-ATGGAAA
1 TCAAATATATGGATA
* *
8869821 GTCAAAGATATGGGTA
1 -TCAAATATATGGATA
*
8869837 TCAAATAT-TGGAAAA
1 TCAAATATATGG-ATA
* *
8869852 TCAAAGATATGGGTA
1 TCAAATATATGGATA
8869867 TC
1 TC
8869869 GAGATATTGG
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (15 bp):
TCAAATATATGGATA
Found at i:8869824 original size:30 final size:30
Alignment explanation
Indices: 8869788--8869868 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
8869778 GTATTTATGT
* *
8869788 AAAGTCAAATATATGGTTATCAAATAATGG
1 AAAGTCAAAGATATGGGTATCAAATAATGG
*
8869818 AAAGTCAAAGATATGGGTATCAAATATTGG
1 AAAGTCAAAGATATGGGTATCAAATAATGG
*
8869848 AAAATCAAAGATATGGGTATC
1 AAAGTCAAAGATATGGGTATC
8869869 GAGATATTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.27
Consensus pattern (30 bp):
AAAGTCAAAGATATGGGTATCAAATAATGG
Found at i:8877797 original size:13 final size:13
Alignment explanation
Indices: 8877779--8877805 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
8877769 CATTTTCTTT
8877779 GTTAAACAAGAAA
1 GTTAAACAAGAAA
8877792 GTTAAACAAGAAA
1 GTTAAACAAGAAA
8877805 G
1 G
8877806 CATAAAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (13 bp):
GTTAAACAAGAAA
Found at i:8878052 original size:16 final size:16
Alignment explanation
Indices: 8878024--8878061 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8878014 CCACATAATA
*
8878024 TTTTTT-ATTTTTTAT
1 TTTTTTCATATTTTAT
*
8878039 TTTTTTCATATTTTCT
1 TTTTTTCATATTTTAT
8878055 TTTTTTC
1 TTTTTTC
8878062 GTCCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTCATATTTTAT
Found at i:8878902 original size:17 final size:18
Alignment explanation
Indices: 8878877--8878910 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8878867 ACTTTTTTAT
8878877 TAACATAAAAT-CCTAAA
1 TAACATAAAATACCTAAA
*
8878894 TAACTTAAAATACCTAA
1 TAACATAAAATACCTAA
8878911 TAATTATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.18, G:0.00, T:0.26
Consensus pattern (18 bp):
TAACATAAAATACCTAAA
Found at i:8878920 original size:18 final size:18
Alignment explanation
Indices: 8878877--8878921 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
8878867 ACTTTTTTAT
8878877 TAAC-ATAAAATCCTAAA
1 TAACTATAAAATCCTAAA
8878894 TAACT-TAAAATACCT-AA
1 TAACTATAAAAT-CCTAAA
*
8878911 TAATTATAAAA
1 TAACTATAAAA
8878922 AATTAGAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (18 bp):
TAACTATAAAATCCTAAA
Found at i:8880598 original size:55 final size:57
Alignment explanation
Indices: 8880514--8880635 Score: 148
Period size: 55 Copynumber: 2.2 Consensus size: 57
8880504 TTCCAATAAT
* **
8880514 TTTTGAGAAATCCTTATTCATTTGTAAATGAATTC-A-TTTAT-CATTTTC-TTTTCCA
1 TTTTGAGAAAACCACATTCATTTGTAAATG-ATTCAATTTTATCCATTTTCATTTT-CA
8880569 TTTTGAGAAAACCACATTCATTT-TCAAATGATTCAATTTTATCCATTTTCATTTTCA
1 TTTTGAGAAAACCACATTCATTTGT-AAATGATTCAATTTTATCCATTTTCATTTTCA
8880626 TTTT-AGAAAA
1 TTTTGAGAAAA
8880636 AATCGTAACC
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
54 5 0.08
55 26 0.44
56 11 0.19
57 13 0.22
58 4 0.07
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.48
Consensus pattern (57 bp):
TTTTGAGAAAACCACATTCATTTGTAAATGATTCAATTTTATCCATTTTCATTTTCA
Found at i:8888162 original size:34 final size:34
Alignment explanation
Indices: 8888117--8888240 Score: 176
Period size: 34 Copynumber: 3.6 Consensus size: 34
8888107 ACATATAAAA
* * **
8888117 ATATCAGATCAGATTGTCATATAACTAGAAACAT
1 ATATCATATCAGAATGTCATATTTCTAGAAACAT
* *
8888151 ATATCATATCAGAATGTCATATTTCCAGAGACAT
1 ATATCATATCAGAATGTCATATTTCTAGAAACAT
*
8888185 ATATCATATCAGAATGTCATATTTTTAGAAACAT
1 ATATCATATCAGAATGTCATATTTCTAGAAACAT
*
8888219 ATATCAAATCAGAATGTCATAT
1 ATATCATATCAGAATGTCATAT
8888241 CAGATCAAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 80 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (34 bp):
ATATCATATCAGAATGTCATATTTCTAGAAACAT
Found at i:8889421 original size:15 final size:14
Alignment explanation
Indices: 8889388--8889443 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
8889378 AAAAGATCTC
8889388 AAAGAAGAAAAAGG
1 AAAGAAGAAAAAGG
8889402 AAAGAAG-AAAAGTAG
1 AAAGAAGAAAAAG--G
*
8889417 AAAGAATAAGAAA-G
1 AAAGAAGAA-AAAGG
8889431 AAAGAAGAGAAAA
1 AAAGAAGA-AAAA
8889444 CATGATAGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
13 5 0.14
14 18 0.51
15 8 0.23
16 1 0.03
17 3 0.09
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (14 bp):
AAAGAAGAAAAAGG
Found at i:8891641 original size:22 final size:22
Alignment explanation
Indices: 8891616--8891663 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
8891606 ATTTTCCAAG
* *
8891616 AGGTTTTGTTGGTTTTTGTTTA
1 AGGTTTTGTTGGTTTCTATTTA
8891638 AGGTTTTGTTGGTTTCTATTTA
1 AGGTTTTGTTGGTTTCTATTTA
8891660 AGGT
1 AGGT
8891664 CTTTTATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.12, C:0.02, G:0.27, T:0.58
Consensus pattern (22 bp):
AGGTTTTGTTGGTTTCTATTTA
Found at i:8893597 original size:21 final size:18
Alignment explanation
Indices: 8893578--8893612 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8893568 ATTAAATATA
*
8893578 ATTTAATAAAAATAAAAT
1 ATTTTATAAAAATAAAAT
*
8893596 ATTTTTTAAAAATAAAA
1 ATTTTATAAAAATAAAA
8893613 AAATTCTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTTATAAAAATAAAAT
Found at i:8895955 original size:18 final size:18
Alignment explanation
Indices: 8895932--8895989 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
8895922 TACAGAGCAA
*
8895932 CATATCTTAATAGAAAAT
1 CATATCTCAATAGAAAAT
8895950 CATATCTCAATAGAAAAT
1 CATATCTCAATAGAAAAT
* *
8895968 CATATCCCAACAGAAAAT
1 CATATCTCAATAGAAAAT
8895986 CATA
1 CATA
8895990 ACAAAAACAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.50, C:0.19, G:0.05, T:0.26
Consensus pattern (18 bp):
CATATCTCAATAGAAAAT
Found at i:8899392 original size:18 final size:18
Alignment explanation
Indices: 8899336--8899392 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
8899326 AGCACTTCTA
8899336 CCTCTGCCACG---ACCT
1 CCTCTGCCACGATAACCT
* *
8899351 CCTCTACCACGATAACCA
1 CCTCTGCCACGATAACCT
8899369 CCTCTGCCACGATAACCT
1 CCTCTGCCACGATAACCT
*
8899387 CTTCTG
1 CCTCTG
8899393 TATGTGGCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 10 0.29
18 24 0.71
ACGTcount: A:0.21, C:0.46, G:0.11, T:0.23
Consensus pattern (18 bp):
CCTCTGCCACGATAACCT
Found at i:8900305 original size:18 final size:18
Alignment explanation
Indices: 8900279--8900331 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
8900269 AGAGCAACAA
*
8900279 ATCTTAATAGAAAATCAT
1 ATCTCAATAGAAAATCAT
*
8900297 ATCTCAATAGGAAATCAT
1 ATCTCAATAGAAAATCAT
* *
8900315 ATCCCAACAGAAAATCA
1 ATCTCAATAGAAAATCA
8900332 CAACAAAAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.25
Consensus pattern (18 bp):
ATCTCAATAGAAAATCAT
Found at i:8903801 original size:45 final size:45
Alignment explanation
Indices: 8903737--8903828 Score: 123
Period size: 45 Copynumber: 2.0 Consensus size: 45
8903727 TTCTGAATCA
*
8903737 GGAAGAAAATCCATAGGAGCATCAACGGGAAAAATAGG-CTCATTG
1 GGAAGAAAATCCATAGGAGCATCAACGGGAAAAACAGGTC-CATTG
* * * *
8903782 GGAAGATAATCCGTAGGAGCATCAATGGGAGAAACAGGTCCATTG
1 GGAAGAAAATCCATAGGAGCATCAACGGGAAAAACAGGTCCATTG
8903827 GG
1 GG
8903829 CATTGTATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
45 40 0.98
46 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.16
Consensus pattern (45 bp):
GGAAGAAAATCCATAGGAGCATCAACGGGAAAAACAGGTCCATTG
Found at i:8905537 original size:23 final size:23
Alignment explanation
Indices: 8905510--8905556 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8905500 AGGCGATCAG
8905510 GAGTTGATCAGTAGTAAATCTTT
1 GAGTTGATCAGTAGTAAATCTTT
8905533 GAGTTGATCAGTAGTAAATCTTT
1 GAGTTGATCAGTAGTAAATCTTT
8905556 G
1 G
8905557 TCGAGGGTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (23 bp):
GAGTTGATCAGTAGTAAATCTTT
Found at i:8907020 original size:98 final size:98
Alignment explanation
Indices: 8906842--8907038 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
8906832 GTACAATAAA
*
8906842 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
8906907 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
8906940 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
8907005 CCTTTAAAATTCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
8907038 A
1 A
8907039 TTATTTTTAG
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:8908366 original size:19 final size:19
Alignment explanation
Indices: 8908342--8908454 Score: 154
Period size: 19 Copynumber: 5.8 Consensus size: 19
8908332 AATCATATAT
8908342 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
8908361 TCTAAGATTATATATCATC
1 TCTAAGATTGCATATCATA
8908380 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
8908399 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
** *
8908420 TCTTGGATTGCATATTATA
1 TCTAAGATTGCATATCATA
8908439 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
8908455 CTCAAAAATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 63 0.79
21 17 0.21
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:8908429 original size:40 final size:40
Alignment explanation
Indices: 8908342--8908453 Score: 174
Period size: 40 Copynumber: 2.9 Consensus size: 40
8908332 AATCATATAT
*
8908342 TCTAAGATTGCATATCATATCTAAGATT--ATATATCATC
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
8908380 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
** *
8908420 TCTTGGATTGCATATTATATCTAAGATTGCATAT
1 TCTAAGATTGCATATCATATCTAAGATTGCATAT
8908454 CCTCAAAAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 28 0.41
40 40 0.59
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (40 bp):
TCTAAGATTGCATATCATATCTAAGATTGCATATATCATA
Found at i:8908780 original size:89 final size:86
Alignment explanation
Indices: 8908668--8909515 Score: 408
Period size: 84 Copynumber: 9.8 Consensus size: 86
8908658 TTTCAATCTA
* *
8908668 CTCCACTGTAACTTCAGGGAGATAAGACTTGCCATCTTCAATCTGCCTCACTGCAACTTTA-GGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTCAATCTG-CTCACTGCAACTTCAGGGA
*
8908732 GGATAAGACTTGCTTCCTTAGTCTA
64 -GATAAGACTTGCTT-CTTAGTCTG
* * * * *
8908757 CTCCACTGCAACTTCAGGGAGATAAGACTAG-A--TGCGATCTGCTCTCTGCAACTTCAGAGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAATCTGCTCACTGCAACTTCAGGGAGA
* * *
8908819 TAAGATCTGTGATT-TTAATCCG
66 TAAGA-CT-TGCTTCTTAGTCTG
* * * * *
8908841 CTCTACTGCAACTTCAGGGAGATAGGA-TTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-GCATCTTCAATCTGCT-CACTGCAACTTCAGGGA
* * * *
8908905 GATAATATTTTCCATCTTCAGTCTG
64 GATAAGA-CTTGCTTCTT-AGTCTG
* * *
8908930 C-CTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTT-AATCTTG-TCCACCGCAACTTCAG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTCAATC-TGCT-CACTGCAACTTCAG
* * * *
8908991 GGAGATAAGACTAGATGC-GA-TCTG
61 GGAGATAAGACTTGCTTCTTAGTCTG
* * * * * * *
8909015 CT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTAAT-TTTAATCCGCTCTACTGTAACTTCAGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTTCAATCTGCTC-ACTGCAACTTCAGGG
* ** * *
8909077 AGATAGGA-TTGTCGGCTTTAATATG
63 AGATAAGACTTG-CTTC-TTAGTCTG
* * * * *
8909102 CTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTACCTCACTGTAACTTCA-GGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTCAATCT-GCTCACTGCAACTTCAGGGA
8909166 GGATAAGACTTGCTTACTTAGTCTTG
64 -GATAAGACTTGCTT-CTTAGTC-TG
* * * * * * * *
8909192 -TCCACCGCAAATTCAGGGAGATAAGACTAG-A--TGCGATCTGCTCTCTGTAACTTCAGAGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAATCTGCTCACTGCAACTTCAGGGAGA
** * *
8909253 TAAGATCTGTAATT-TTAATCCG
66 TAAGA-CT-TGCTTCTTAGTCTG
* * ** * *
8909275 CTCCACTGTAACTTCAGGGAGATAGGA-TTGTCGGCTTTAATCTGCTCCACTGCAACTTCAGGAA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTTCAATCTGCT-CACTGCAACTTCAGGGA
* *
8909339 GATAAGATTTGCCATCTTCAGTCTG
64 GATAAGACTTG-CTTCTT-AGTCTG
* * * * * * *
8909364 C-CTCACTGTAACTTTA-GAAGGATGAGACTTGCTTACTT-AGTCTGCTCCACTACAACTTCAGG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTTCAATCTGCT-CACTGCAACTTCAGG
* * * * *
8909426 GAGATAAGACTAGATGC-GA-TCTT
62 GAGATAAGACTTGCTTCTTAGTCTG
* * * * *
8909449 CT-CTCTGCAACTTCAGAGG-GATAAGATTTGTGAT-TTTAATCCGCTTCACTGCAACTTCAGGG
1 CTCCACTGCAACTTCAG-GGAGATAAGACTTG-CATCTTCAATCTGC-TCACTGCAACTTCAGGG
8909511 AGATA
63 AGATA
8909516 GGATTGTCGA
Statistics
Matches: 572, Mismatches: 131, Indels: 117
0.70 0.16 0.14
Matches are distributed among these distances:
83 13 0.02
84 190 0.33
85 35 0.06
86 12 0.02
87 27 0.05
88 84 0.15
89 189 0.33
90 22 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (86 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTTCAATCTGCTCACTGCAACTTCAGGGAGA
TAAGACTTGCTTCTTAGTCTG
Found at i:8908781 original size:44 final size:43
Alignment explanation
Indices: 8908662--8909515 Score: 424
Period size: 44 Copynumber: 19.7 Consensus size: 43
8908652 TTAGTGTTTC
* *
8908662 AATCTACTCCACTGTAACTTCAGGGAGATAAGACTTGCCATCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT
* *
8908706 CAATCTGC-CTCACTGCAACTTTA-GGAGGATAAGACTTGCTTCCTT
1 -AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTT
* * *
8908751 AGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTT
* * * *
8908792 GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTG-ATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCATCTT
* * * * *
8908835 AATCCGCTCTACTGCAACTTCAGGGAGATAGGA-TTATCAGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCATC-TT
* * *
8908879 AATCTGCTCCACTGCAACTTCAGGGAGATAATATTTTCCATCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTTGCATCTT
* * *
8908923 CAGTCTGC-CTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTT
* *
8908968 AATCTTG-TCCACCGCAACTTCAGGGAGATAAGACTAG-ATGC--
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTT
* * * * * *
8909009 GATCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTAATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTT
* * * * **
8909052 AATCCGCTCTACTGTAACTTCAGGGAGATAGGA-TTGTCGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATC-TT
* * *
8909096 AATATGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT
* * * *
8909140 CAGTCTAC-CTCACTGTAACTTCA-GGAGGATAAGACTTGCTTACTT
1 -AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTT
* * * *
8909185 AGTCTTG-TCCACCGCAAATTCAGGGAGATAAGACTAG-ATGC--
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTT
* * * * * *
8909226 GATCTGCT-CTCTGTAACTTCAGAGAGATAAGA-TCTGTAATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TG-CATCTT
* * * **
8909269 AATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTGTCGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATC-TT
* *
8909313 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATCTT
* * * * * *
8909357 CAGTCTGC-CTCACTGTAACTTTA-GAAGGATGAGACTTGCTTACTT
1 -AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCAT-CTT
* * *
8909402 AGTCTGCTCCACTACAACTTCAGGGAGATAAGACTAG-ATGC--
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCAT-CTT
* * * * * *
8909443 GATCTTCT-CTCTGCAACTTCAGAGG-GATAAGATTTGTGATTTT
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAAGACTTG-CATCTT
* *
8909486 AATCCGCTTCACTGCAACTTCAGGGAGATA
1 AATCTGCTCCACTGCAACTTCAGGGAGATA
8909516 GGATTGTCGA
Statistics
Matches: 614, Mismatches: 135, Indels: 121
0.71 0.16 0.14
Matches are distributed among these distances:
39 2 0.00
40 88 0.14
41 22 0.04
42 10 0.02
43 40 0.07
44 303 0.49
45 147 0.24
46 2 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATCTT
Found at i:8909001 original size:217 final size:217
Alignment explanation
Indices: 8908662--8909537 Score: 1396
Period size: 217 Copynumber: 4.0 Consensus size: 217
8908652 TTAGTGTTTC
* * * * * *
8908662 AATCTACTCCACTGTAACTTCAGGGAGATAAGACTTGCCATCTTCAATCTGCCTCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
* * ** *
8908727 TAGGAGGATAAGACTTGCTTCCTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGC
66 CAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
*
8908792 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAATCCGCTCTACTGCAACTTCA
131 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCTACTGCAACTTCA
* *
8908857 GGGAGATAGGATTATCAGCTTT
196 GGGAGATAGGATTGTCGGCTTT
* * *
8908879 AATCTGCTCCACTGCAACTTCAGGGAGATAATATTTTCCATCTTCAGTCTGCCTCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
*
8908944 CAGGAGGATAAGACTTGCTTACTTAATCTTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
66 CAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
* *
8909009 GATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCTACTGTAACTTCA
131 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCTACTGCAACTTCA
8909074 GGGAGATAGGATTGTCGGCTTT
196 GGGAGATAGGATTGTCGGCTTT
* *
8909096 AATATGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTACCTCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
*
8909161 CAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAAATTCAGGGAGATAAGACTAGATGC
66 CAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
* * *
8909226 GATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCCACTGTAACTTCA
131 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCTACTGCAACTTCA
8909291 GGGAGATAGGATTGTCGGCTTT
196 GGGAGATAGGATTGTCGGCTTT
8909313 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
* * * **
8909378 TAGAAGGATGAGACTTGCTTACTTAGTC-TGCTCCACTACAACTTCAGGGAGATAAGACTAGATG
66 CAGGAGGATAAGACTTGCTTACTTAGTCTTG-TCCACCGCAACTTCAGGGAGATAAGACTAGATG
* * * *
8909442 CGATCTTCTCTCTGCAACTTCAGAGGGATAAGATTTGTGATTTTAATCCGCT-TCACTGCAACTT
130 CGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCT-ACTGCAACTT
*
8909506 CAGGGAGATAGGATTGTCGACTTT
194 CAGGGAGATAGGATTGTCGGCTTT
8909530 AATCTGCT
1 AATCTGCT
8909538 TCCCACTATC
Statistics
Matches: 615, Mismatches: 42, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
216 2 0.00
217 613 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGTAACTT
CAGGAGGATAAGACTTGCTTACTTAGTCTTGTCCACCGCAACTTCAGGGAGATAAGACTAGATGC
GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTAATTTTAATCCGCTCTACTGCAACTTCA
GGGAGATAGGATTGTCGGCTTT
Found at i:8909531 original size:44 final size:44
Alignment explanation
Indices: 8909453--8909539 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
8909443 GATCTTCTCT
*
8909453 CTGCAACTTCAGAGGGATAAGATTTGTGATTTTAATCCGCTTCA
1 CTGCAACTTCAGAGGGATAAGATTTGTGACTTTAATCCGCTTCA
* *
8909497 CTGCAACTTCAG-GGAGATAGGA-TTGTCGACTTTAATCTGCTTC
1 CTGCAACTTCAGAGG-GATAAGATTTGT-GACTTTAATCCGCTTC
8909540 CCACTATCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 6 0.16
44 32 0.84
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (44 bp):
CTGCAACTTCAGAGGGATAAGATTTGTGACTTTAATCCGCTTCA
Found at i:8909677 original size:132 final size:132
Alignment explanation
Indices: 8909530--8910014 Score: 772
Period size: 132 Copynumber: 3.7 Consensus size: 132
8909520 TGTCGACTTT
* * *
8909530 AATCTGCTTCCCACTATCTTGGAAAGATATGATTTGTCGTCTTCGATCTGCTCCATTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* * * * *
8909595 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTTAGGGAAACAAGGTTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
8909660 TA
131 TA
** * * *
8909662 AATCTGCTTTTCACTATCTTGAAAAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
8909727 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
8909792 TA
131 TA
* * *
8909794 AATCTGCTTCCCACTATCTTAGAAATATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
* *
8909859 GAGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCT
66 GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
8909924 TA
131 TA
* * * *
8909926 AATTTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCGTCTTCGATATGCTCCACTACTGTTTA
1 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
8909991 GGGAGATAAGATCTACAATTTTCA
66 GGGAGATAAGATCTACAATTTTCA
8910015 CTGATCTGTT
Statistics
Matches: 324, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 324 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (132 bp):
AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTACAATTTTCAACCTTCTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCT
TA
Found at i:8909734 original size:44 final size:44
Alignment explanation
Indices: 8909507--8909870 Score: 142
Period size: 44 Copynumber: 8.3 Consensus size: 44
8909497 CTGCAACTTC
* * *
8909507 AGGGAGATAGGA-TTGTCGACTTTAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAAGATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
* * * *
8909550 -GGAAAGATATGATTTGTCGTCTTCGATCTGCTCCATTACTGCTT
1 AGG-GAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
8909594 AGGGAGATAAGATCT-ACAATCTTCAACCTACTCCACTGCTGCTT
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * * *
8909638 AGGGAAACAAGGTTTGGT-GGCTTAAATCTGCTTTTCACTA-T-CTT
1 AGGGAGATAAGATTT-GTCGTCTTCAATCTGC--TCCACTACTGCTT
** * *
8909682 -GAAAAGATAAGATTTGTCATCTTCGATCTGCTCCACTACTGCTT
1 AG-GGAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
* * * * * * * *
8909726 AGGGAGATAAGATCT-ACAATTTTCAACCTTCTCCGCTGCTGCTT
1 AGGGAGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTT
* * * * *
8909770 AGGGAGACAAGGCTTGGT-GGCTTAAATCTGCTTCCCACTA-T-CTT
1 AGGGAGATAA-GATTTGTCGTCTTCAATCTGC-T-CCACTACTGCTT
** * * * *
8909814 AGAAATATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTT
1 AGGGAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
*
8909858 AGAGAGATAAGAT
1 AGGGAGATAAGAT
8909871 CTACAATTTT
Statistics
Matches: 224, Mismatches: 74, Indels: 45
0.65 0.22 0.13
Matches are distributed among these distances:
42 19 0.08
43 21 0.09
44 167 0.75
45 8 0.04
46 9 0.04
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (44 bp):
AGGGAGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTT
Found at i:8911235 original size:6 final size:6
Alignment explanation
Indices: 8911220--8911276 Score: 53
Period size: 6 Copynumber: 9.0 Consensus size: 6
8911210 TTGGCCTCTC
* *
8911220 CTTTTA CTTTTT CTTTTT CTTTTTTT CCTTTTT CCTTTT CTTTTT CCTTTTT
1 CTTTTT CTTTTT CTTTTT C--TTTTT -CTTTTT CTTTTT CTTTTT -CTTTTT
8911272 -TTTTT
1 CTTTTT
8911277 GAAATATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
5 5 0.11
6 22 0.50
7 11 0.25
8 5 0.11
9 1 0.02
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:8911248 original size:27 final size:28
Alignment explanation
Indices: 8911218--8911273 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
8911208 CCTTGGCCTC
*
8911218 TCCTTTTACTTTTTCTTTTT-CTTTTTT
1 TCCTTTTACCTTTTCTTTTTCCTTTTTT
*
8911245 TCCTTTTTCCTTTTCTTTTTCCTTTTTT
1 TCCTTTTACCTTTTCTTTTTCCTTTTTT
8911273 T
1 T
8911274 TTTGAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (28 bp):
TCCTTTTACCTTTTCTTTTTCCTTTTTT
Found at i:8915537 original size:98 final size:98
Alignment explanation
Indices: 8915363--8915559 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
8915353 GTACAGTAAA
* **
8915363 ACTTTAAAAGAACATCCACTCATTCAAGATTTAAGAAATCACACCCAATACGTTAGGGCATGATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
8915428 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
*
8915461 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
8915526 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
8915559 A
1 A
8915560 TTATTTTTAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:8916220 original size:23 final size:24
Alignment explanation
Indices: 8916192--8916238 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
8916182 ATATATATAT
8916192 GAAAATATTC-ATTTAAAAAAAAG
1 GAAAATATTCGATTTAAAAAAAAG
*
8916215 GAAAATATTCGTTTTTAAAAAAAA
1 GAAAATATTCG-ATTTAAAAAAAA
8916239 TATATATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (24 bp):
GAAAATATTCGATTTAAAAAAAAG
Found at i:8921498 original size:110 final size:108
Alignment explanation
Indices: 8921382--8921755 Score: 399
Period size: 109 Copynumber: 3.5 Consensus size: 108
8921372 AAGAAAAAGG
* *
8921382 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCTGGCACCCA-ACAGTAATAATAATAAAAATTT
1 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGACA--AATAATAA-AAAAA-AT
* * *
8921446 TGATTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTTAA
62 T-ATTTTTTTTCGTATCAGAATCAAATATCAATATACGAAAAAAG-TAA
* * * ** *
8921495 AAAAAAAATTTTGAGTGTTGGCCTATCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAATTCT
1 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACAAATAATAAAAAAAATTAT
8921560 TTTTTTTCGTATCAGAATCAAATATCAATATACGAAAAAAGTAA
65 TTTTTTTCGTATCAGAATCAAATATCAATATACGAAAAAAGTAA
* * *
8921604 AAAAAAAAATTTGGTTGCTGGCCTGTCAATGGCCGGCACCTAGTACAAAT--TAAAAAAAA--A-
1 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACAAATAATAAAAAAAATTAT
* * * * *
8921664 ---ATTT-GTGTCAGAATCAGATATCAGTATACGAAAAAAATAAA
65 TTTTTTTCGTATCAGAATCAAATATCAATATACGAAAAAAGT-AA
*
8921705 AAATAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAAAT
1 AAA-AAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG-ACAAAT
8921756 TAAATTTTTT
Statistics
Matches: 230, Mismatches: 27, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
100 30 0.13
101 8 0.03
102 43 0.19
107 9 0.04
109 47 0.20
110 39 0.17
111 2 0.01
112 5 0.02
113 44 0.19
115 3 0.01
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (108 bp):
AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGACAAATAATAAAAAAAATTATT
TTTTTTCGTATCAGAATCAAATATCAATATACGAAAAAAGTAA
Found at i:8921751 original size:102 final size:102
Alignment explanation
Indices: 8921452--8921858 Score: 438
Period size: 102 Copynumber: 4.0 Consensus size: 102
8921442 ATTTTGATTT
* * * *
8921452 TTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAGTTAAAAAAAAAATTTTGAGTGTTGGC
1 TTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGC
*
8921517 CTATCAATGGCCGGCACCCAGTACAAATTTTAAAAAAAA
66 CTGTCAATGGCCGGCACCCAGTACAAA--TTAAAAAAAA
* * * * *
8921556 TTCTTTTTTTTCGTATCAGAATCAAATATCAATATACGAAAAAAGTAAAAAAAAAAA-TTTGGTT
1 ------TTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAAATTTTGGGT
*
8921620 GCTGGCCTGTCAATGGCCGGCACCTAGTACAAATTAAAAAAAA
60 GCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA
**
8921663 AATTT-GTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAATAAAAATTTTGGGTGCTGG
1 TTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAA-AAAAATTTTGGGTGCTGG
* ****
8921727 CCTGTCAATGGCCGACACCCAGTACAAATT-AAATTTT
65 CCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA
* * * *
8921764 TTTTTCGTGTCAGAATTAGATATCAGTAGTA-G-----AA-AAAAAAATAAATTGTTGGGTTCTA
1 TTTTTCGTGTCAGAATCAGATATCAGTA-TACGAAAAAAATAAAAAAAAAAATT-TTGGGTGCTG
*
8921822 GCCTGTCAATGGCCTGCACCCAGTACAAATTAAAAAA
64 GCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAA
8921859 TTCTTTTTTT
Statistics
Matches: 259, Mismatches: 32, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
95 6 0.02
96 43 0.17
97 5 0.02
100 36 0.14
101 14 0.05
102 61 0.24
103 2 0.01
107 10 0.04
109 35 0.14
110 47 0.18
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.29
Consensus pattern (102 bp):
TTTTTCGTGTCAGAATCAGATATCAGTATACGAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGC
CTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAAA
Found at i:8921990 original size:110 final size:112
Alignment explanation
Indices: 8921853--8922098 Score: 379
Period size: 110 Copynumber: 2.2 Consensus size: 112
8921843 AGTACAAATT
* *
8921853 AAAAAATTCTTTTTTTTATTTTTTTCGTATACTGATATCTAATTCTGACACAAAAAAAAAAGAA-
1 AAAAAATT-TTTTTTTTACTTTTTTCGTATACTGATATCTAATTCTAACACAAAAAAAAAAGAAT
8921917 ATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGACCAGCA-CA
65 ATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGACCAGCACCA
* * *
8921964 AAAAAATTTTTTTTTTACTTTTTTCGTATTCTGATATCTGATTCTAACACAAAAAAAAAAGAATT
1 AAAAAATTTTTTTTTTACTTTTTTCGTATACTGATATCTAATTCTAACACAAAAAAAAAAGAATA
* * * *
8922029 TTTTTTTTAATTTGTATTGGGTGCTGGCCATTGACAGGCCAGCACCC
66 TTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGACCAGCACCA
*
8922076 AAAAAATTTTTTTTTTCCTTTTT
1 AAAAAATTTTTTTTTTACTTTTT
8922099 CTTTTTTCTC
Statistics
Matches: 123, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
110 51 0.41
111 49 0.40
112 23 0.19
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (112 bp):
AAAAAATTTTTTTTTTACTTTTTTCGTATACTGATATCTAATTCTAACACAAAAAAAAAAGAATA
TTTTTTTTAATTTGTACTGGGTGCCGGCCATTGACAGACCAGCACCA
Found at i:8922731 original size:22 final size:22
Alignment explanation
Indices: 8922698--8922758 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
8922688 GCCCGGCCCG
* *
8922698 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAA-TAAAATTAAAACTAA
8922721 TTTTTAATAAAATTAAAACTAA
1 TTTTTAATAAAATTAAAACTAA
* *
8922743 TTGTTATTAAAATTAA
1 TTTTTAATAAAATTAA
8922759 TTGTTAGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 27 0.79
23 7 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTAATAAAATTAAAACTAA
Found at i:8922771 original size:16 final size:16
Alignment explanation
Indices: 8922734--8922773 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
8922724 TTAATAAAAT
* *
8922734 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
8922750 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
8922766 TAAAATTA
1 TAAAATTA
8922774 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:8922852 original size:59 final size:61
Alignment explanation
Indices: 8922783--8922962 Score: 265
Period size: 68 Copynumber: 2.9 Consensus size: 61
8922773 ATCAAATTAT
*
8922783 TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTA
1 TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC--A--A
8922848 TTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATC-A
1 -TAA-T-TATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAA
*
8922911 -AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAA
8922963 ACAAACTTGA
Statistics
Matches: 110, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
59 48 0.44
60 1 0.01
61 2 0.02
63 1 0.01
66 3 0.03
67 1 0.01
68 54 0.49
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (61 bp):
TAATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAA
Found at i:8922879 original size:9 final size:9
Alignment explanation
Indices: 8922846--8922873 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
8922836 TTTATCAAAT
8922846 TATTAATTG
1 TATTAATTG
8922855 TATTAATTG
1 TATTAATTG
8922864 TATTAATTG
1 TATTAATTG
8922873 T
1 T
8922874 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:8922883 original size:68 final size:68
Alignment explanation
Indices: 8922762--8922932 Score: 319
Period size: 68 Copynumber: 2.5 Consensus size: 68
8922752 AAATTAATTG
*
8922762 TTAGTAAAATTATCAAATTATTAATTG--TTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
8922825 TGA
66 TGA
8922828 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
8922893 TGA
66 TGA
8922896 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGT
8922933 TGTAACAAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
66 26 0.25
68 76 0.75
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:8925364 original size:31 final size:31
Alignment explanation
Indices: 8925324--8925390 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
8925314 AAAAACTTAG
* * *
8925324 TAGTCCAATGACTTAAGTAAAAACATTCTAA
1 TAGTTCAATGACTTAAATAAAAACATTCAAA
* *
8925355 TAGTTCAATGACTTAAATGAAAACTTTCAAA
1 TAGTTCAATGACTTAAATAAAAACATTCAAA
8925386 TAGTT
1 TAGTT
8925391 TACTGGTCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (31 bp):
TAGTTCAATGACTTAAATAAAAACATTCAAA
Found at i:8926167 original size:6 final size:6
Alignment explanation
Indices: 8926157--8926186 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8926147 TCATATGGCA
*
8926157 GCATTA GCATTG GCATTG GCATTG GCATTG
1 GCATTG GCATTG GCATTG GCATTG GCATTG
8926187 ATATCTTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (6 bp):
GCATTG
Found at i:8930121 original size:10 final size:10
Alignment explanation
Indices: 8930106--8930138 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
8930096 CCCCAACCCC
8930106 AAAAAAAGAA
1 AAAAAAAGAA
8930116 AAAAAAAGAA
1 AAAAAAAGAA
8930126 AAGAAAAAGAA
1 AA-AAAAAGAA
8930137 AA
1 AA
8930139 CAAGAAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:8930122 original size:11 final size:11
Alignment explanation
Indices: 8930106--8930138 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
8930096 CCCCAACCCC
8930106 AAAAAAAG-AA
1 AAAAAAAGAAA
8930116 AAAAAAAGAAA
1 AAAAAAAGAAA
*
8930127 AGAAAAAGAAA
1 AAAAAAAGAAA
8930138 A
1 A
8930139 CAAGAAAAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:8939163 original size:12 final size:12
Alignment explanation
Indices: 8939146--8939176 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8939136 AGATAGAGAT
*
8939146 AGAAGAAGATCC
1 AGAAGAAGACCC
8939158 AGAAGAAGACCC
1 AGAAGAAGACCC
8939170 AGAAGAA
1 AGAAGAA
8939177 TATCTTGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.16, G:0.26, T:0.03
Consensus pattern (12 bp):
AGAAGAAGACCC
Found at i:8940272 original size:16 final size:16
Alignment explanation
Indices: 8940248--8940296 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
8940238 TTCGCTGTAT
*
8940248 TGGATTAGAGGCGTAA
1 TGGAATAGAGGCGTAA
8940264 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
8940280 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
8940296 T
1 T
8940297 AGCAAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.35, C:0.04, G:0.37, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:8940341 original size:45 final size:44
Alignment explanation
Indices: 8940276--8940372 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
8940266 GAATAGAGGC
*
8940276 GTAATGGAATAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AAATC-ATGTGTTTGGTTGAAT
* *
8940321 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
*
8940365 GGAATGGA
1 GTAATGGA
8940373 GGTGTAGTAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.33
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAAATCATGTGTTTGGTTGAAT
Found at i:8940542 original size:15 final size:15
Alignment explanation
Indices: 8940524--8940581 Score: 80
Period size: 16 Copynumber: 3.7 Consensus size: 15
8940514 CATAATTATT
8940524 ATTAAATATATTTTA
1 ATTAAATATATTTTA
8940539 ATTAAAATATATTTTA
1 ATT-AAATATATTTTA
*
8940555 ATTAAATATAATTTA
1 ATTAAATATATTTTA
*
8940570 ATAATAATATAT
1 ATTA-AATATAT
8940582 AATTTCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 17 0.45
16 21 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTAAATATATTTTA
Found at i:8940583 original size:18 final size:18
Alignment explanation
Indices: 8940529--8940591 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
8940519 TTATTATTAA
*
8940529 ATATATTTTAATTAA-AAT
1 ATATAATTTAA-TAATAAT
8940547 ATAT--TTTAAT--TAA-
1 ATATAATTTAATAATAAT
8940560 ATATAATTTAATAATAAT
1 ATATAATTTAATAATAAT
*
8940578 ATATAATTTCATAA
1 ATATAATTTAATAA
8940592 AATTCTTGAT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 4 0.11
14 2 0.05
15 7 0.18
16 5 0.13
17 3 0.08
18 17 0.45
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATAATTTAATAATAAT
Found at i:8940608 original size:47 final size:46
Alignment explanation
Indices: 8940557--8940701 Score: 156
Period size: 47 Copynumber: 3.2 Consensus size: 46
8940547 ATATTTTAAT
*
8940557 TAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
* * ** *
8940604 TAAAT-T-TTCTTATATGAATTTATATAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTAATAA
8940648 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
8940695 TAAATAT
1 TAAATAT
8940702 TCTTATATAA
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.32
45 7 0.09
46 7 0.09
47 33 0.42
48 3 0.04
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (46 bp):
TAAATATAATTTAATAATATATATAATTTCATAAAATTCTTAATAA
Found at i:8940672 original size:44 final size:43
Alignment explanation
Indices: 8940555--8940677 Score: 106
Period size: 44 Copynumber: 2.7 Consensus size: 43
8940545 ATATATTTTA
** *
8940555 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 ATTAAATATAATTTAATAAT-ATATATAA-TT--TAAAATAATTAAT
* * *
8940602 AATAAAT-T-TTCTTATATGAATTTATATAATTTAAAATAATTAAT
1 ATTAAATATAAT-TTA-AT-AATATATATAATTTAAAATAATTAAT
8940646 ATTAAATATAATTTAATAATGATATATAATTT
1 ATTAAATATAATTTAATAAT-ATATATAATTT
8940678 CATAAAATTC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
43 3 0.05
44 28 0.46
45 5 0.08
46 7 0.11
47 15 0.25
48 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (43 bp):
ATTAAATATAATTTAATAATATATATAATTTAAAATAATTAAT
Found at i:8940705 original size:16 final size:16
Alignment explanation
Indices: 8940679--8940712 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8940669 ATATAATTTC
8940679 ATAAAATTCTTA-ATA
1 ATAAAATTCTTATATA
8940694 ATAAATATTCTTATATA
1 ATAAA-ATTCTTATATA
8940711 AT
1 AT
8940713 TTACTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAATTCTTATATA
Found at i:8941059 original size:66 final size:66
Alignment explanation
Indices: 8940953--8941083 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
8940943 CGCAAATGTG
* *
8940953 ATTTGAGTTCAAATTAGATTCATAGTAAGCTCAAATTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
8941018 C
66 C
* * *
8941019 ATTTGGGTTCAAATTATACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACATTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
8941084 AAACCTTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (66 bp):
ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
C
Found at i:8945569 original size:40 final size:40
Alignment explanation
Indices: 8945524--8945602 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
8945514 ATATTTATGT
8945524 ACAAAATTTCATACGATGATATTCTATGAAACTAAGTTAA
1 ACAAAATTTCATACGATGATATTCTATGAAACTAAGTTAA
8945564 ACAAAATTTCATACGATGATATTCTATGAAACTAAGTTA
1 ACAAAATTTCATACGATGATATTCTATGAAACTAAGTTA
8945603 CCATAAAAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (40 bp):
ACAAAATTTCATACGATGATATTCTATGAAACTAAGTTAA
Found at i:8959339 original size:14 final size:14
Alignment explanation
Indices: 8959322--8959356 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
8959312 CTCACATTTC
8959322 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
8959336 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
8959350 TATTTCT
1 T-TTTCT
8959357 GCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:8959340 original size:19 final size:18
Alignment explanation
Indices: 8959302--8959346 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
8959292 TACGGTACGC
8959302 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
8959319 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
8959338 TTCTTTTCT
1 TTCTTTTCT
8959347 CCATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:8960841 original size:16 final size:17
Alignment explanation
Indices: 8960822--8960853 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8960812 TTATTAAATC
8960822 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
8960838 ATATATTTAATATTAA
1 ATATATTTAATATTAA
8960854 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:8960932 original size:120 final size:119
Alignment explanation
Indices: 8960808--8961100 Score: 464
Period size: 120 Copynumber: 2.4 Consensus size: 119
8960798 AATTATTTTA
* *
8960808 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTT-AATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
8960871 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
8960928 AATTTTATTAAATTATATAGTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
8960993 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
8961048 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTT
8961101 TAAATATGAT
Statistics
Matches: 160, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
119 4 0.03
120 151 0.94
121 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:8961053 original size:61 final size:60
Alignment explanation
Indices: 8960868--8961054 Score: 170
Period size: 61 Copynumber: 3.1 Consensus size: 60
8960858 TTAAAATTTT
*
8960868 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 ATTTTA-AGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
* * * * * * * * * *
8960929 ATTTT-ATTA-AAT-TA-TATAGTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-T
1 ATTTTAAGTATCATATATTATGGTTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGA
8960988 ATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 ATTTTA-AGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
8961049 ATTTTA
1 ATTTTA
8961055 TTAAATTATA
Statistics
Matches: 93, Mismatches: 21, Indels: 24
0.67 0.15 0.17
Matches are distributed among these distances:
55 3 0.03
56 12 0.13
57 8 0.09
58 6 0.06
59 11 0.12
60 6 0.06
61 17 0.18
62 6 0.06
63 8 0.09
64 13 0.14
65 3 0.03
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (60 bp):
ATTTTAAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
Found at i:8961077 original size:18 final size:17
Alignment explanation
Indices: 8961049--8961083 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8961039 ATTATTAAGA
*
8961049 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8961066 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8961084 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8961197 original size:147 final size:149
Alignment explanation
Indices: 8961037--8961311 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
8961027 ATAAGAATAT
*
8961037 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
8961102 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
8961165 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
8961184 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
8961249 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
8961312 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:8961224 original size:18 final size:17
Alignment explanation
Indices: 8961196--8961230 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8961186 ATTATTAAGA
*
8961196 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
8961213 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
8961231 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:8961502 original size:16 final size:16
Alignment explanation
Indices: 8961483--8961518 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
8961473 TCTATTTCAT
8961483 TACACCTCTAATCTAA
1 TACACCTCTAATCTAA
8961499 TACACCTCTAATCTAA
1 TACACCTCTAATCTAA
8961515 TACA
1 TACA
8961519 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.31, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCTAA
Found at i:8962376 original size:16 final size:16
Alignment explanation
Indices: 8962342--8962374 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8962332 TTTTGTAGAT
*
8962342 AATATTTTATTATATA
1 AATATATTATTATATA
8962358 AATATATTATT-TATA
1 AATATATTATTATATA
8962373 AA
1 AA
8962375 ATTGTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATATTATTATATA
Found at i:8963081 original size:5 final size:5
Alignment explanation
Indices: 8963071--8963106 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
8963061 AATAATTAAG
8963071 TATAT TATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
8963107 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:8964777 original size:39 final size:39
Alignment explanation
Indices: 8964670--8964804 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 39
8964660 GACCTCGAGT
* * *
8964670 CGATGAGACACTGGGTGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGCTAG-TC
** ** *
8964711 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
*
8964749 CGATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAACTATTACTTCG-GCTAGTC
*
8964788 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
8964805 CCATATTGGT
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.25
39 36 0.47
40 4 0.05
41 15 0.20
42 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGCTAGTC
Found at i:8966623 original size:16 final size:15
Alignment explanation
Indices: 8966603--8966644 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
8966593 AGGTCACACT
*
8966603 TTTTTTTTTAAATAA
1 TTTTTTTATAAATAA
8966618 TTTTTTTATAAATAAA
1 TTTTTTTATAAAT-AA
8966634 TTTTTTGTATA
1 TTTTTT-TATA
8966645 GGGTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.50
16 8 0.33
17 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TTTTTTTATAAATAA
Found at i:8969026 original size:16 final size:16
Alignment explanation
Indices: 8969004--8969072 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
8968994 TTTGGTTCGC
8969004 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
8969020 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8969036 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
8969053 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
8969069 TGTA
1 TGTA
8969073 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:8969050 original size:33 final size:32
Alignment explanation
Indices: 8969004--8969072 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
8968994 TTTGGTTCGC
8969004 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
8969036 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
8969069 TGTA
1 TGTA
8969073 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:8969137 original size:44 final size:45
Alignment explanation
Indices: 8969053--8969143 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
8969043 GGATTAGAGG
* * *
8969053 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
8969098 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
8969142 TG
1 TG
8969144 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:8969329 original size:18 final size:17
Alignment explanation
Indices: 8969308--8969342 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8969298 TTATTATTAA
*
8969308 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8969326 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8969343 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8969449 original size:18 final size:17
Alignment explanation
Indices: 8969428--8969462 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8969418 TTATTATTAA
*
8969428 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8969446 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8969463 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8969504 original size:120 final size:119
Alignment explanation
Indices: 8969291--8970028 Score: 1372
Period size: 120 Copynumber: 6.2 Consensus size: 119
8969281 ATCATATTTA
8969291 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA-AAAATTCTTAATAATTAA
*
8969356 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
8969411 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA-AAAATTCTTAATAATTAA
8969476 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
65 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
8969531 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAAAAATTCTTAATAATTAAT
8969596 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
8969650 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAA-AAAATTCTTAATAATTAA
*
8969715 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
8969770 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAAAAATTCTTAATAATTAAT
8969835 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT-AAATATAAATT
66 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
8969888 AACATAATTATTATTAAATATA-TTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAAAAATTCTTAATAATTAAT
*
8969952 GTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
8970006 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
8970029 AACTTGAAAA
Statistics
Matches: 606, Mismatches: 9, Indels: 7
0.97 0.01 0.01
Matches are distributed among these distances:
117 83 0.14
118 66 0.11
119 177 0.29
120 280 0.46
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (119 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAAAAAATTCTTAATAATTAAT
ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:8969711 original size:239 final size:239
Alignment explanation
Indices: 8969291--8970028 Score: 1392
Period size: 239 Copynumber: 3.1 Consensus size: 239
8969281 ATCATATTTA
*
8969291 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
*
8969356 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
65 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
8969421 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
130 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
8969486 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
195 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
8969531 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
8969596 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
66 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
*
8969661 TATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATAT
131 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
*
8969726 TAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
196 TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
8969770 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
8969835 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT-AAATATAAATTAACATAATTAT
66 ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
* *
8969899 TATTAAATATA-TTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAATGTTCTTATAT
131 TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
8969962 TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
196 TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
8970006 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
8970029 AACTTGAAAA
Statistics
Matches: 490, Mismatches: 8, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
236 93 0.19
237 22 0.04
238 33 0.07
239 297 0.61
240 45 0.09
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (239 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAAT
ATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTAT
TATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATAT
TAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:8970021 original size:359 final size:359
Alignment explanation
Indices: 8969291--8970028 Score: 1428
Period size: 359 Copynumber: 2.1 Consensus size: 359
8969281 ATCATATTTA
8969291 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
8969356 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
8969421 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
8969486 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
8969551 TATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTC
261 TATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTC
8969616 AAATCATAATATATGATACTGTAAAATATAAATT
326 AAATCATAATATATGATACTGTAAAATATAAATT
*
8969650 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
8969715 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
8969780 TTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
8969844 TTAATTTACTCAAATCATAATATATGATACTGT-AAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
*
8969908 TA-TTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATGTTCTTATATTAATTTACTC
261 TATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTC
8969972 AAATCATAATATATGATACTGTAAAATATAAATT
326 AAATCATAATATATGATACTGTAAAATATAAATT
8970006 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
8970029 AACTTGAAAA
Statistics
Matches: 376, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
356 118 0.31
357 33 0.09
358 61 0.16
359 164 0.44
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (359 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATA
TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
TATTTTAATTAAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTC
AAATCATAATATATGATACTGTAAAATATAAATT
Found at i:8975073 original size:45 final size:46
Alignment explanation
Indices: 8974985--8975075 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
8974975 AAAATATGTC
*
8974985 TATAGTGATTGTATTTTTTGAAAATTTCAAAGTAGGAAATTTAATT
1 TATAGTGATTGTATTTTTTAAAAATTTCAAAGTAGGAAATTTAATT
* * *
8975031 TATAGTGGTTGTATTTTTTAAAAATTTTATAGTAGG-AATTTAATT
1 TATAGTGATTGTATTTTTTAAAAATTTCAAAGTAGGAAATTTAATT
8975076 CTGTGAAGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 9 0.22
46 32 0.78
ACGTcount: A:0.35, C:0.01, G:0.15, T:0.48
Consensus pattern (46 bp):
TATAGTGATTGTATTTTTTAAAAATTTCAAAGTAGGAAATTTAATT
Found at i:8975128 original size:25 final size:26
Alignment explanation
Indices: 8975090--8975138 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
8975080 GAAGAATAAG
*
8975090 TTTTATTATAAAAATCATGTTTAATT
1 TTTTATTATAAAAATCAAGTTTAATT
*
8975116 TTTTATT-TCAAAATCAAGTTTAA
1 TTTTATTATAAAAATCAAGTTTAA
8975139 GAATTGGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (26 bp):
TTTTATTATAAAAATCAAGTTTAATT
Found at i:8975412 original size:23 final size:23
Alignment explanation
Indices: 8975382--8975427 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8975372 AGAAGCTAGT
8975382 ATGTAACTTAATCAGGCAGCAGA
1 ATGTAACTTAATCAGGCAGCAGA
8975405 ATGTAACTTAATCAGGCAGCAGA
1 ATGTAACTTAATCAGGCAGCAGA
8975428 CATGAAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (23 bp):
ATGTAACTTAATCAGGCAGCAGA
Found at i:8976995 original size:18 final size:18
Alignment explanation
Indices: 8976974--8977037 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
8976964 ATATATAGAT
8976974 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
8976992 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
8977011 ATATA-AAT-AGTTATATA
1 ATATATAATAAGATATA-A
8977028 ATA-ATAATAA
1 ATATATAATAA
8977038 TAATAATAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
16 4 0.10
17 9 0.23
18 18 0.46
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:8977011 original size:35 final size:35
Alignment explanation
Indices: 8976971--8977037 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
8976961 GAGATATATA
8976971 GATATATAT-AATAAGATATA-AATATATAATAAGAT
1 GATATATATAAAT-AGATATATAATA-ATAATAAGAT
*
8977006 GATATATATAAATAGTTATATAATAATAATAA
1 GATATATATAAATAGATATATAATAATAATAA
8977038 TAATAATAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
35 22 0.76
36 7 0.24
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (35 bp):
GATATATATAAATAGATATATAATAATAATAAGAT
Found at i:8978959 original size:44 final size:43
Alignment explanation
Indices: 8978910--8979322 Score: 241
Period size: 44 Copynumber: 9.5 Consensus size: 43
8978900 ATCTACTCTG
* * * *
8978910 CTGTAACCTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTT-CTTCAATCTGCTCCA
* * ** * * *
8978954 CTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
* **
8978997 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAACCTCAGGGAGATAAGATC-CTTTCTTCAATCTGCTCCA
* ** *
8979041 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTCCGGTCTACTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT----TTCTTCAATCTGCTCCA
* * * * * *
8979087 CTGTAACCTCAGGGAAATAAGA-CCTGAT-GT-GATCTTCTCTA
1 CTGTAACCTCAGGGAGATAAGATCCT-TTCTTCAATCTGCTCCA
* * *
8979128 CTGTAACTTCAGAGAGATAAGATCC--T-TT-AATCCGCTCCA
1 CTGTAACCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
* * * * * * ** *
8979167 TTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGA-TCCTTTCTTCAATCTGCTCCA
* ** *
8979211 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCG
1 CTGTAACCTCAGGGAGATAAGATC-CTTTCTTCAATCTGCTCCA
*** *
8979255 CTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTTGGTCTGTTCCA
1 CTGTAACCTCAGGGAGATAAGATCCT----TTCTTCAATCTGCTCCA
*
8979301 CTGTAATCTCAGGGAGATAAGA
1 CTGTAACCTCAGGGAGATAAGA
8979323 CCTGTATAAT
Statistics
Matches: 283, Mismatches: 69, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
39 25 0.09
40 2 0.01
41 27 0.10
42 7 0.02
43 34 0.12
44 123 0.43
46 65 0.23
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
CTGTAACCTCAGGGAGATAAGATCCTTTCTTCAATCTGCTCCA
Found at i:8979014 original size:87 final size:87
Alignment explanation
Indices: 8978898--8979059 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
8978888 AGACTTGATG
* * * * *
8978898 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
8978962 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * *
8978985 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
8979050 CAGGGAGATA
66 CAGGGAGATA
8979060 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:8979249 original size:214 final size:214
Alignment explanation
Indices: 8978859--8979326 Score: 688
Period size: 214 Copynumber: 2.2 Consensus size: 214
8978849 GTTGTTTTTA
* * * * *
8978859 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* * *
8978924 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGAT
66 AGATAAGATCC----TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGAT
8978989 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
127 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
8979054 GAGATAAGATCTGAAATTCTCCG
192 GAGATAAGATCTGAAATTCTCCG
* * * *
8979077 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
8979142 AGATAAGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCT
66 AGATAAGATCCTTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCT
*
8979205 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCGCTGTAACCTCAGGGA
129 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
**
8979270 GATAAGATCTGAAATTCTTTG
194 GATAAGATCTGAAATTCTCCG
* * *
8979291 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTG
8979327 TATAATAAAC
Statistics
Matches: 227, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
212 1 0.00
213 32 0.14
214 127 0.56
218 67 0.30
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (214 bp):
GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGC
TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
TAAGATCTGAAATTCTCCG
Done.