Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 78 of 199
Found at i:23534420 original size:39 final size:38
Alignment explanation
Indices: 23534323--23534420 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 38
23534313 TATCCTAAAC
* * *
23534323 TATGACATAATTAAAACCCTTATTAATGTTGTTCAAAT
1 TATGACATAATTAAAACTCATATTAATGATGTTCAAAT
23534361 TATGACATAATTAAAAACTCATATTAATGATGTTCAAAT
1 TATGACATAATT-AAAACTCATATTAATGATGTTCAAAT
23534400 TATGACATAATTAAACACTCA
1 TATGACATAATTAAA-ACTCA
23534421 AACTAAATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
38 15 0.27
39 40 0.73
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (38 bp):
TATGACATAATTAAAACTCATATTAATGATGTTCAAAT
Found at i:23535555 original size:20 final size:20
Alignment explanation
Indices: 23535530--23535632 Score: 68
Period size: 20 Copynumber: 5.2 Consensus size: 20
23535520 ATTATATTGA
23535530 TTGCACATACGTGCCCCTGT
1 TTGCACATACGTGCCCCTGT
* * * *
23535550 TTGCAC-TTCGGTACCCTTGA
1 TTGCACATAC-GTGCCCCTGT
* * *
23535570 TTACACACATGTGCCCCTGT
1 TTGCACATACGTGCCCCTGT
* * *
23535590 TTGTAC-TATGATACCCCTGAT
1 TTGCACATACG-TGCCCCTG-T
23535611 TT-CACATACGTGCCCCTGT
1 TTGCACATACGTGCCCCTGT
23535630 TTG
1 TTG
23535633 TACTTTGGTT
Statistics
Matches: 59, Mismatches: 18, Indels: 12
0.66 0.20 0.13
Matches are distributed among these distances:
19 8 0.14
20 45 0.76
21 6 0.10
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.34
Consensus pattern (20 bp):
TTGCACATACGTGCCCCTGT
Found at i:23535571 original size:40 final size:40
Alignment explanation
Indices: 23535527--23535707 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
23535517 TTAATTATAT
* * *
23535527 TGATTGCACATACGTGCCCCTGTTTGCACTTCGGTACCCT
1 TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
23535567 TGATTACACACATGTGCCCCTGTTTGTACTAT-GATACCCC
1 TGATTACACATACGTGCCCCTGTTTGTACT-TCGGTACCCC
* * *
23535607 TGATTTCACATACGTGCCCCTGTTTGTACTTTGGTTCCCC
1 TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*** * * *
23535647 TGCCAACACACACGTGCCCCTATTTGTACTTCAGTACCCC
1 TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
23535687 TGATTATAGATACGTGCCCCT
1 TGATTACACATACGTGCCCCT
23535708 ATTTATACCT
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 111 0.98
41 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.33
Consensus pattern (40 bp):
TGATTACACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:23535630 original size:80 final size:80
Alignment explanation
Indices: 23535527--23535707 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 80
23535517 TTAATTATAT
* * ** * *
23535527 TGATTGCACATACGTGCCCCTGTTTGCACTTCGGTACCCTTGATTACACACATGTGCCCCTGTTT
1 TGATTTCACATACGTGCCCCTGTTTGCACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
*
23535592 GTACTATGA-TACCCC
66 GTACT-TCAGTACCCC
* * * *
23535607 TGATTTCACATACGTGCCCCTGTTTGTACTTTGGTTCCCCTGCCAACACACACGTGCCCCTATTT
1 TGATTTCACATACGTGCCCCTGTTTGCACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
23535672 GTACTTCAGTACCCC
66 GTACTTCAGTACCCC
*
23535687 TGATTAT-AGATACGTGCCCCT
1 TGATT-TCACATACGTGCCCCT
23535708 ATTTATACCT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.02
80 84 0.97
81 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.33
Consensus pattern (80 bp):
TGATTTCACATACGTGCCCCTGTTTGCACTTCGGTACCCCTGACAACACACACGTGCCCCTATTT
GTACTTCAGTACCCC
Found at i:23539015 original size:17 final size:16
Alignment explanation
Indices: 23538983--23539026 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
23538973 AATAAAAAAT
23538983 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
23538998 TAAATTAAATTGGGAAA
1 TAAATTAAATT-GGAAA
23539015 TAAATTCAAATT
1 TAAATT-AAATT
23539027 TTTTAAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.15
16 6 0.23
17 11 0.42
18 5 0.19
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:23541450 original size:40 final size:40
Alignment explanation
Indices: 23541387--23541654 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 40
23541377 AATTATATTG
* * **
23541387 ATTGCACGTACGTGCCCCTGTTTGTACTTTGGTACCCCCG
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
23541427 ATTTCATATACGTGCCCCTGTTTGTACTT-GGTACCCCTT
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
23541466 ATTGCACATACGTGCCCATGTTTGTACTTCAGTACTCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
23541506 ATTACACACACGTGCCCCTGTTTGTACGTCGGTACCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* *
23541546 ATTGCACATACGTGCCCCTATTTGTACTTCGGTATCCCTA
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * * * *
23541586 ATTACACACACGTGCCTCTATTTGCACTTCGGTACCCC-A
1 ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* *
23541625 TATTGCACATACGTGCCCCTATTTATACTT
1 -ATTGCACATACGTGCCCCTGTTTGTACTT
23541655 TGATAATTTT
Statistics
Matches: 194, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 35 0.18
40 159 0.82
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (40 bp):
ATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:23541563 original size:20 final size:20
Alignment explanation
Indices: 23541540--23541645 Score: 65
Period size: 20 Copynumber: 5.3 Consensus size: 20
23541530 TACGTCGGTA
23541540 CCCCTAATTGCACATACGTG
1 CCCCTAATTGCACATACGTG
* * * *
23541560 CCCCTATTTGTAC-TTCGGTA
1 CCCCTAATTGCACATAC-GTG
* * *
23541580 TCCCTAATTACACACACGTG
1 CCCCTAATTGCACATACGTG
* * * *
23541600 CCTCTATTTGCAC-TTCGGTA
1 CCCCTAATTGCACATAC-GTG
23541620 CCCC-ATATTGCACATACGTG
1 CCCCTA-ATTGCACATACGTG
23541640 CCCCTA
1 CCCCTA
23541646 TTTATACTTT
Statistics
Matches: 58, Mismatches: 22, Indels: 11
0.64 0.24 0.12
Matches are distributed among these distances:
19 4 0.07
20 50 0.86
21 4 0.07
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (20 bp):
CCCCTAATTGCACATACGTG
Found at i:23546439 original size:56 final size:54
Alignment explanation
Indices: 23546313--23546475 Score: 179
Period size: 54 Copynumber: 3.0 Consensus size: 54
23546303 AGCCATGGCA
* *
23546313 AGAAGATCATATAGTGTAAGACCTAGTCTGGTACTATAGTATCATATGGGGAAG
1 AGAAGACCATATAGTGTAAGACCTAGTCTGGTACTATAGCATCATATGGGGAAG
* * * *
23546367 TGAAGACCATATAGTGTAAGACCTAGTCATGGTGGCTATGGCATCATATGAGGATA-
1 AGAAGACCATATAGTGTAAGACCTAGTC-TGGT-ACTATAGCATCATATGGGGA-AG
* * *
23546423 AG-AGAACCATATAGTGTAAGACCTAGTCTAGG-ACTATGGCGTCATGTGGGGAA
1 AGAAG-ACCATATAGTGTAAGACCTAGTCT-GGTACTATAGCATCATATGGGGAA
23546476 AAGATAAAGG
Statistics
Matches: 93, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
53 1 0.01
54 42 0.45
55 7 0.08
56 42 0.45
57 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (54 bp):
AGAAGACCATATAGTGTAAGACCTAGTCTGGTACTATAGCATCATATGGGGAAG
Found at i:23549010 original size:16 final size:16
Alignment explanation
Indices: 23548991--23549021 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23548981 ATGTTTAATT
23548991 TTTTTATTAATATTAA
1 TTTTTATTAATATTAA
23549007 TTTTTATTAATATTA
1 TTTTTATTAATATTA
23549022 TTATCTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTATTAATATTAA
Found at i:23549422 original size:19 final size:18
Alignment explanation
Indices: 23549400--23549435 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
23549390 TTACTAAAAC
23549400 TATTAATATATATATATAA
1 TATTAATATAT-TATATAA
23549419 TATTAATATATTATATA
1 TATTAATATATTATATA
23549436 GCATTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATTAATATATTATATAA
Found at i:23554826 original size:20 final size:20
Alignment explanation
Indices: 23554803--23554851 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
23554793 AAAAATATAT
*
23554803 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
** *
23554823 ATATGGATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
23554843 ATATATATA
1 ATATATATA
23554852 TATACACGTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:23554890 original size:20 final size:20
Alignment explanation
Indices: 23554834--23554893 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 20
23554824 TATGGATAGA
23554834 AAGTATAATATATATATATAT
1 AAGT-TAATATATATATATAT
23554855 ACACG-TACATATATATATATAT
1 A-A-GTTA-ATATATATATATAT
*
23554877 AAGTTAATAAATATATA
1 AAGTTAATATATATATA
23554894 GATCATAAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
20 11 0.32
21 6 0.18
22 16 0.47
23 1 0.03
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
AAGTTAATATATATATATAT
Found at i:23554947 original size:20 final size:20
Alignment explanation
Indices: 23554919--23554965 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23554909 GATTTCATAT
*
23554919 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
23554939 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
23554959 ATATATA
1 ATATATA
23554966 CGTACATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:23554958 original size:50 final size:52
Alignment explanation
Indices: 23554862--23555012 Score: 123
Period size: 52 Copynumber: 2.9 Consensus size: 52
23554852 TATACACGTA
* * *
23554862 CATATATATATATATAAGTTAATAAATATATAGATCATAAAGATAATGATTT
1 CATATATATATATAGAAATTAATAAATATATAGATCAGAAAGATAATGATTT
23554914 CATATATATATATAGAAATT-ATAAA-ATAT-GTAT-AGAAAGTATAAT-ATATAT
1 CATATATATATATAGAAATTAATAAATATATAG-ATCAGAAAG-ATAATGAT-T-T
* * * ** * * *
23554965 ACGTACATATATATATAAGGTAATAAATATATAAATCATAAAAATAAT
1 -CATATATATATATAGAAATTAATAAATATATAGATCAGAAAGATAAT
23555013 AATTACATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
49 8 0.10
50 12 0.15
51 6 0.08
52 33 0.42
53 5 0.06
54 11 0.14
55 4 0.05
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.36
Consensus pattern (52 bp):
CATATATATATATAGAAATTAATAAATATATAGATCAGAAAGATAATGATTT
Found at i:23554994 original size:16 final size:17
Alignment explanation
Indices: 23554956--23554998 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
23554946 TAGAAAGTAT
23554956 AATATATATACGTACATA
1 AATATATA-ACGTACATA
* *
23554974 TATATATAAGGTA-ATA
1 AATATATAACGTACATA
23554990 AATATATAA
1 AATATATAA
23554999 ATCATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (17 bp):
AATATATAACGTACATA
Found at i:23556890 original size:89 final size:86
Alignment explanation
Indices: 23556646--23556915 Score: 219
Period size: 89 Copynumber: 3.1 Consensus size: 86
23556636 TATCTTGGAA
* * * *
23556646 AGATAAGATTTGCCATCTTCAGTCTGCCTACACTGCAACTTCAGGAGGATAAGACTAGATGC-GA
1 AGATAAGATTTGCCATCTTTAGTCTGCCT-CACTGCAACTTCAGGAGGATAAGACTTGCT-CTTA
** *
23556710 TCTGCT-TTCTGCAACTTCAGAG
64 TCTGCTCCACTGCAACTTCAGGG
* **** * * * ** *
23556732 AGATAAGATCTAAGGT-TTTAATCCG-CTCACTGCCACTTCAGCGA-GATTGGATTATCGGCT-T
1 AGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAG-GAGGATAAGACT-T--GCTCT
*
23556793 TAATCTGCTCCACTGCAATTTCAGGG
62 T-ATCTGCTCCACTGCAACTTCAGGG
23556819 AGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTA
1 AGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTG-CT-CTTA
* *
23556884 GTCTGCTCCACCGCAACTTCAAGG
64 -TCTGCTCCACTGCAACTTCAGGG
23556908 AGATAAGA
1 AGATAAGA
23556916 CTAGATGCGA
Statistics
Matches: 137, Mismatches: 33, Indels: 25
0.70 0.17 0.13
Matches are distributed among these distances:
83 19 0.14
84 4 0.03
85 6 0.04
86 21 0.15
87 25 0.18
88 11 0.08
89 51 0.37
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (86 bp):
AGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTCTTATC
TGCTCCACTGCAACTTCAGGG
Found at i:23556900 original size:44 final size:45
Alignment explanation
Indices: 23556790--23557477 Score: 274
Period size: 45 Copynumber: 15.9 Consensus size: 45
23556780 GGATTATCGG
* * *
23556790 CTTTAATCTGCTCCACTGCAATTTCAGG-GAGATAAGATTTGCCAT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCAT
23556835 CTTTAGTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGCC-T
1 CTTTAGTCTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCAT
* *
23556879 AC-TTAGTCTGCTCCACCGCAACTTCAAGGA-GATAAGACTAG--AT
1 -CTTTAGTCTGCTCCACTGCAACTTC-AGGAGGATAAGACTTGCCAT
* * * * * *
23556922 GC--GA-TCTGCT-CTCTGTAACTTCA-AAGAGATAAGATCTAAG--GT
1 -CTTTAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGA-CT-TGCCAT
* * * **
23556964 -TTTAATCTGCT-CATTGCAACTTCAGCGA-GATAGGA-TT-CTCGG
1 CTTTAGTCTGCTCCACTGCAACTTCAG-GAGGATAAGACTTGC-CAT
* *
23557006 CTTTAATCTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCCAT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCAT
* *
23557051 CTTTAGTCTGC-CTCACTGCAACTTCAGAAGGATAAGACTAG--AT
1 CTTTAGTCTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCAT
* * * * * *
23557094 GC--GA-TCTACT-CTCTGTAACTTCA-GAGAGATAAGATCTAAG--GT
1 -CTTTAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGA-CT-TGCCAT
* * * **
23557136 -TTTAATCTGCT-CACTGCAACTTCAGCGA-GATAGGA-TTACCGG
1 CTTTAGTCTGCTCCACTGCAACTTCAG-GAGGATAAGACTTGCCAT
* *
23557178 CTTTAATCTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCCAT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCAT
*
23557223 CTTTAGTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTAG--AT
1 CTTTAGTCTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCAT
* * * ****
23557266 GC--GA-TCTGCT-CTCTGCAACTTCA-GAGAGATAAGATTTAAGGT
1 -CTTTAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCAT
* * * * * * * ***
23557308 -TTTAAT-T-CACTCACTGCCACTTCAGCAAGATAGGA-TTACTGG
1 CTTTAGTCTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCAT
* * *
23557350 CTTTAATCTGCTCCACTGTAACTTCAGG-GAGATAAGATTTGCCAT
1 CTTTAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACTTGCCAT
23557395 CTTTAGTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGCC-T
1 CTTTAGTCTGCTC-CACTGCAACTTCAGGAGGATAAGACTTGCCAT
* *
23557439 AC-TTAGTCTGCTCTATTGCAACTTCAGG-GAGATAAGACT
1 -CTTTAGTCTGCTCCACTGCAACTTCAGGAG-GATAAGACT
23557478 CGATCTTCAC
Statistics
Matches: 497, Mismatches: 80, Indels: 133
0.70 0.11 0.19
Matches are distributed among these distances:
38 1 0.00
39 6 0.01
40 54 0.11
41 22 0.04
42 20 0.04
43 99 0.20
44 128 0.26
45 162 0.33
46 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (45 bp):
CTTTAGTCTGCTCCACTGCAACTTCAGGAGGATAAGACTTGCCAT
Found at i:23556923 original size:216 final size:218
Alignment explanation
Indices: 23556647--23557089 Score: 723
Period size: 216 Copynumber: 2.0 Consensus size: 218
23556637 ATCTTGGAAA
* *
23556647 GATAAGATTTGCCATCTTCAGTCTGCCTACACTGCAACTTCAGGAGGATAAGACTAGATGCGATC
1 GATAAGACTTGCCATCTTCAGTCTGCCTACACCGCAACTTCAGGAGGATAAGACTAGATGCGATC
* * *
23556712 TGCTTTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCCACTTCAGCGAG
66 TGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAG
* *
23556777 ATTGGATTATCGGCTTTAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGCCATCTTTAGT
131 ATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGT
*
23556842 CTGCCTCACTGCAACTTCAGGAG
196 CTGCCTCACTGCAACTTCAGAAG
*
23556865 GATAAGACTTGCC-TACTT-AGTCTG-CTCCACCGCAACTTCAAGGA-GATAAGACTAGATGCGA
1 GATAAGACTTGCCAT-CTTCAGTCTGCCTACACCGCAACTTC-AGGAGGATAAGACTAGATGCGA
* * *
23556926 TCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAAGGTTTTAATCTGCTCATTGCAACTTCAGCG
64 TCTGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCG
*
23556991 AGATAGGATTCTCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTA
129 AGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTA
23557056 GTCTGCCTCACTGCAACTTCAGAAG
194 GTCTGCCTCACTGCAACTTCAGAAG
23557081 GATAAGACT
1 GATAAGACT
23557090 AGATGCGATC
Statistics
Matches: 210, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
216 184 0.88
217 11 0.05
218 15 0.07
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (218 bp):
GATAAGACTTGCCATCTTCAGTCTGCCTACACCGCAACTTCAGGAGGATAAGACTAGATGCGATC
TGCTCTCTGCAACTTCAAAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAG
ATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGT
CTGCCTCACTGCAACTTCAGAAG
Found at i:23557087 original size:172 final size:173
Alignment explanation
Indices: 23556791--23557433 Score: 948
Period size: 172 Copynumber: 3.7 Consensus size: 173
23556781 GATTATCGGC
* * * * ** *
23556791 TTTAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGC-CATCTTTAGTCTGC-CTCACTGC
1 TTTAATCTGCT-CACTGCAACTTCAGCGAGATAGGA-TTACTCGGCTTTAATCTGCTC-CACTGC
* * *
23556854 AACTTCA-GGAGGATAAGACTTGCC-TAC-TTAGTCTG-CTCCACCGCAACTTCA-AGGAGATAA
63 AACTTCAGGGA-GATAAGATTTGCCAT-CTTTAGTCTGCCT-CACTGCAACTTCAGAAG-GATAA
*
23556914 GACTAGATGCGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAAGGT
124 GACTAGATGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGT
*
23556964 TTTAATCTGCTCATTGCAACTTCAGCGAGATAGGATT-CTCGGCTTTAATCTGCTCCACTGCAAC
1 TTTAATCTGCTCACTGCAACTTCAGCGAGATAGGATTACTCGGCTTTAATCTGCTCCACTGCAAC
23557028 TTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTAGA
66 TTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTAGA
*
23557093 TGCGATCTACTCTCTGTAACTTCAGAGAGATAAGATCTAAGGT
131 TGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGT
23557136 TTTAATCTGCTCACTGCAACTTCAGCGAGATAGGATTAC-CGGCTTTAATCTGCTCCACTGCAAC
1 TTTAATCTGCTCACTGCAACTTCAGCGAGATAGGATTACTCGGCTTTAATCTGCTCCACTGCAAC
*
23557200 TTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTAGA
66 TTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTAGA
* *
23557265 TGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATTTAAGGT
131 TGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGT
* * * *
23557308 TTTAAT-TCACTCACTGCCACTTCAGCAAGATAGGATTACT-GGCTTTAATCTGCTCCACTGTAA
1 TTTAATCT-GCTCACTGCAACTTCAGCGAGATAGGATTACTCGGCTTTAATCTGCTCCACTGCAA
*
23557371 CTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
65 CTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACT
23557434 TGCCTACTTA
Statistics
Matches: 439, Mismatches: 21, Indels: 21
0.91 0.04 0.04
Matches are distributed among these distances:
170 1 0.00
171 40 0.09
172 382 0.87
173 16 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (173 bp):
TTTAATCTGCTCACTGCAACTTCAGCGAGATAGGATTACTCGGCTTTAATCTGCTCCACTGCAAC
TTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTAGA
TGCGATCTGCTCTCTGTAACTTCAGAGAGATAAGATCTAAGGT
Found at i:23557200 original size:216 final size:215
Alignment explanation
Indices: 23556680--23557259 Score: 692
Period size: 216 Copynumber: 2.7 Consensus size: 215
23556670 TGCCTACACT
* *
23556680 GCAACTTC-AGGAGGATAAGACTAGATGCGATCTGCTTTCTGCAACTTCAGAGAGATAAGATCTA
1 GCAACTTCAAGGA-GATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTA
* * *
23556744 AGGTTTTAATCCGCTCACTGCCACTTCAGCGAGATTGGATTATCGGCTTTAATCTGCTCCACTGC
65 AGGTTTTAATCTGCTCACTGCAACTTCAGCGAGATAGGATT-TCGGCTTTAATCTGCTCCACTGC
* *
23556809 AATTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACT
129 AACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACT
* * * *
23556874 TGCCTACTTAGTCTGCTCCACC
194 AGCATACTGAGTCTACTCCACC
* * *
23556896 GCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAA
1 GCAACTTCAAGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAA
*
23556961 GGTTTTAATCTGCTCATTGCAACTTCAGCGAGATAGGATTCTCGGCTTTAATCTGCTCCACTGCA
66 GGTTTTAATCTGCTCACTGCAACTTCAGCGAGATAGGATT-TCGGCTTTAATCTGCTCCACTGCA
23557026 ACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTA
130 ACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTA
* * *
23557091 G-ATGC-GA-TCTACT-CTCT
195 GCATACTGAGTCTACTCCACC
* * ** * * *
23557108 GTAACTTC-AGAGAGATAAGATCTAAGGTTTTAATCTGCTCACTGCAACTTCAGCGAGATAGGAT
1 GCAACTTCAAG-GAGATAAGA-CT-A-GATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGAT
* * * * ** *
23557172 -TACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGC-C
62 CTA-AGGTTTTAATCTGCT-CACTGCAACTTCAGCGAGATAGGATTT--CGGCTTTAATCTGCTC
23557235 TCACTGCAACTTCA-GGAGGATAAGA
123 -CACTGCAACTTCAGGGA-GATAAGA
23557260 CTAGATGCGA
Statistics
Matches: 318, Mismatches: 35, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
211 2 0.01
212 18 0.06
213 7 0.02
214 4 0.01
215 45 0.14
216 207 0.65
217 35 0.11
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (215 bp):
GCAACTTCAAGGAGATAAGACTAGATGCAATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAA
GGTTTTAATCTGCTCACTGCAACTTCAGCGAGATAGGATTTCGGCTTTAATCTGCTCCACTGCAA
CTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTAG
CATACTGAGTCTACTCCACC
Found at i:23557285 original size:40 final size:41
Alignment explanation
Indices: 23556676--23557299 Score: 186
Period size: 43 Copynumber: 14.6 Consensus size: 41
23556666 AGTCTGCCTA
*
23556676 CACTGCAACTTCAGGAG-GATAAGACTAGATGCGATCTGCT
1 CACTGCAACTTCAGGAGAGATAAGACTAGATGCAATCTGCT
** * ** *
23556716 TTCTGCAACTTCA-GAGAGATAAGATCTAAGGTTTTAATCCGCT
1 CACTGCAACTTCAGGAGAGATAAGA-CT-A-GATGCAATCTGCT
* * ** * * **
23556759 CACTGCCACTTCA-GCGAGATTGGATTATCGGCTTTAATCTGCT
1 CACTGCAACTTCAGGAGAGATAAGACTA---GATGCAATCTGCT
* * * *
23556802 CCACTGCAATTTCAGG-GAGATAAGATTTGCCAT-CTTTAGTCTGCCT
1 -CACTGCAACTTCAGGAGAGATAAGACTAG--ATGC---AATCTG-CT
* * * *
23556848 CACTGCAACTTCAGGAG-GATAAGACTTGCCTACTTAGTCTGCT
1 CACTGCAACTTCAGGAGAGATAAGACTAG-ATGC--AATCTGCT
* * *
23556891 CCACCGCAACTTCAAG-GAGATAAGACTAGATGCGATCTGCT
1 -CACTGCAACTTCAGGAGAGATAAGACTAGATGCAATCTGCT
* * * * **
23556932 CTCTGTAACTTCA-AAGAGATAAGATCTAAGGTTTTAATCTGCT
1 CACTGCAACTTCAGGAGAGATAAGA-CT-A-GATGCAATCTGCT
* * * * * **
23556975 CATTGCAACTTCA-GCGAGATAGGATTCTCGGCTTTAATCTGCT
1 CACTGCAACTTCAGGAGAGATAAGA--CT-AGATGCAATCTGCT
* * *
23557018 CCACTGCAACTTCAGG-GAGATAAGATTTGCCAT-CTTTAGTCTGCCT
1 -CACTGCAACTTCAGGAGAGATAAGACTAG--ATGC---AATCTG-CT
* * *
23557064 CACTGCAACTTCAGAAG-GATAAGACTAGATGCGATCTACT
1 CACTGCAACTTCAGGAGAGATAAGACTAGATGCAATCTGCT
* * * **
23557104 CTCTGTAACTTCA-GAGAGATAAGATCTAAGGTTTTAATCTGCT
1 CACTGCAACTTCAGGAGAGATAAGA-CT-A-GATGCAATCTGCT
* * * * **
23557147 CACTGCAACTTCA-GCGAGATAGGATTACCGGCTTTAATCTGCT
1 CACTGCAACTTCAGGAGAGATAAGACTA---GATGCAATCTGCT
* * *
23557190 CCACTGCAACTTCAGG-GAGATAAGATTTGCCAT-CTTTAGTCTGCCT
1 -CACTGCAACTTCAGGAGAGATAAGACTAG--ATGC---AATCTG-CT
*
23557236 CACTGCAACTTCAGGAG-GATAAGACTAGATGCGATCTGCT
1 CACTGCAACTTCAGGAGAGATAAGACTAGATGCAATCTGCT
*
23557276 CTCTGCAACTTCA-GAGAGATAAGA
1 CACTGCAACTTCAGGAGAGATAAGA
23557300 TTTAAGGTTT
Statistics
Matches: 446, Mismatches: 88, Indels: 100
0.70 0.14 0.16
Matches are distributed among these distances:
39 8 0.02
40 78 0.17
41 24 0.05
42 6 0.01
43 130 0.29
44 101 0.23
45 90 0.20
46 9 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (41 bp):
CACTGCAACTTCAGGAGAGATAAGACTAGATGCAATCTGCT
Found at i:23557449 original size:89 final size:87
Alignment explanation
Indices: 23556848--23557475 Score: 440
Period size: 89 Copynumber: 7.3 Consensus size: 87
23556838 TAGTCTGCCT
* *
23556848 CACTGCAACTTCA-GGAGGATAAGACTTGCC-TAC-TTAGTCTG-CTCCACCGCAACTTCAAGGA
1 CACTGCAACTTCAGGGA-GATAAGATTTGCCAT-CTTTAGTCTGCCT-CACTGCAACTTC-AGGA
* * *
23556909 -GATAAGACTAGATGC-GATCTGCT-
62 GGATAAGACTTGCTGCTTATCTGCTC
* * ** * **** * *
23556932 CTCTGTAACTTCAAAGAGATAAGATCTAAGGT-TTTAATCTG-CTCATTGCAACTTCAGCGA-GA
1 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAG-GAGGA
*
23556994 TAGGA-TT-CTCGGCTTTAATCTGCTC
65 TAAGACTTGCT--GC-TT-ATCTGCTC
*
23557019 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGAT
* * * *
23557084 AAGACTAGATGC-GATCTACT-
66 AAGACTTGCTGCTTATCTGCTC
* * * * **** *
23557104 CTCTGTAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCTG-CTCACTGCAACTTCAGCGA-GA
1 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAG-GAGGA
* * *
23557166 TAGGA-TTACCGGCTTTAATCTGCTC
65 TAAGACTT-GCTGC-TT-ATCTGCTC
23557191 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGAT
* * *
23557256 AAGACTAGATGC-GATCTGCT-
66 AAGACTTGCTGCTTATCTGCTC
* * **** * * * *
23557276 CTCTGCAACTTCAGAGAGATAAGATTTAAGGT-TTTAAT-T-CACTCACTGCCACTTCAGCAAGA
1 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGC-CTCACTGCAACTTCAGGAGGA
* *
23557338 TAGGA-TTACTGGCTTTAATCTGCTC
65 TAAGACTTGCT-GC-TT-ATCTGCTC
*
23557363 CACTGTAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGAT
1 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGAT
*
23557428 AAGACTTGCCTACTTAGTCTGCTC
66 AAGACTTG-CTGCTTA-TCTGCTC
* *
23557452 TATTGCAACTTCAGGGAGATAAGA
1 CACTGCAACTTCAGGGAGATAAGA
23557476 CTCGATCTTC
Statistics
Matches: 411, Mismatches: 96, Indels: 69
0.71 0.17 0.12
Matches are distributed among these distances:
81 1 0.00
82 7 0.02
83 69 0.17
84 42 0.10
85 53 0.13
86 33 0.08
87 72 0.18
88 25 0.06
89 100 0.24
90 6 0.01
91 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (87 bp):
CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGAT
AAGACTTGCTGCTTATCTGCTC
Found at i:23557475 original size:388 final size:388
Alignment explanation
Indices: 23556646--23557477 Score: 1064
Period size: 388 Copynumber: 2.1 Consensus size: 388
23556636 TATCTTGGAA
* *
23556646 AGATAAGATTTGCCATCTTCAGTCTGCCTACACTGCAACTTCAGGAGGATAAGACTAGATGCGAT
1 AGATAAGACTTGCCATCTTTAGTCTGCCT-CACTGCAACTTCAGGAGGATAAGACTAGATGCGAT
* * *
23556711 CTGCTTTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCCACTTCAGCGA
65 CTACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGA
* * *
23556776 GATTGGATTATCGGCTTTAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGCCATCTTTAG
130 GATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAG
* * *
23556841 TCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCCTACTTAGTCTGCTCCACCGCAACTTCAA
195 TCTGCCTCACTGCAACTTCAGGAGGATAAGACTAGCATACTGAGTCTGCTCCACCGCAACTTCAA
* * * * *
23556906 GGAGATAAGACTAGATGCGATCTGCTCTCTGTAACTTCAAAGAGATAAGATCTAAGGTTTTAATC
260 GGAGATAAGACTAGATGCAATCTACTCACTGCAACTTCAAAGAGATAAGATCTAAGGCTTTAATC
* * *
23556971 TGCTCATTGCAACTTCAGCGAGATAGGATTCTCGGCTTTAATCTGCTCCACTGCAACTTCAGGG
325 TGCTCACTGCAACTTCAGCGAGATAAGATTCTCAGCTTTAATCTGCTCCACTGCAACTTCAGGG
* *
23557035 AGATAAGATTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGAAGGATAAGACTAGATGCGATC
1 AGATAAGACTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTAGATGCGATC
* *
23557100 TACTCTCTGTAACTTCAGAGAGATAAGATCTAAGGTTTTAATCTGCTCACTGCAACTTCAGCGAG
66 TACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAG
23557165 ATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGT
131 ATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGT
* * *
23557230 CTGCCTCACTGCAACTTCAGGAGGATAAGACTAG-ATGC-GA-TCTGCT-CTCTGCAACTTC-AG
196 CTGCCTCACTGCAACTTCAGGAGGATAAGACTAGCATACTGAGTCTGCTCCACCGCAACTTCAAG
* * ** * * * *
23557290 AGAGATAAGATTTAAGGTTTTAAT-TCACTCACTGCCACTTCAGCA-AGATAGGAT-TACTGGCT
261 -GAGATAAGA-CT-A-GATGCAATCT-ACTCACTGCAACTTCA-AAGAGATAAGATCTA-AGGCT
* * * *
23557352 TTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATT-TGCCATCTTTAGTCTGC-CTCACTGCA
319 TTAATCTGCT-CACTGCAACTTCAGCGAGATAAGATTCT--CAGCTTTAATCTGCTC-CACTGCA
23557415 ACTTCA-GG
380 ACTTCAGGG
*
23557423 AGGATAAGACTTGCC-TAC-TTAGTCTG-CTCTATTGCAACTTCAGG-GAGATAAGACT
1 A-GATAAGACTTGCCAT-CTTTAGTCTGCCTC-ACTGCAACTTCAGGAG-GATAAGACT
23557478 CGATCTTCAC
Statistics
Matches: 389, Mismatches: 39, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
383 2 0.01
384 19 0.05
385 7 0.02
386 5 0.01
387 44 0.11
388 247 0.63
389 65 0.17
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (388 bp):
AGATAAGACTTGCCATCTTTAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTAGATGCGATC
TACTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCGCTCACTGCAACTTCAGCGAG
ATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTTAGT
CTGCCTCACTGCAACTTCAGGAGGATAAGACTAGCATACTGAGTCTGCTCCACCGCAACTTCAAG
GAGATAAGACTAGATGCAATCTACTCACTGCAACTTCAAAGAGATAAGATCTAAGGCTTTAATCT
GCTCACTGCAACTTCAGCGAGATAAGATTCTCAGCTTTAATCTGCTCCACTGCAACTTCAGGG
Found at i:23566533 original size:16 final size:16
Alignment explanation
Indices: 23566512--23566551 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
23566502 TGCTCTATCT
23566512 TTTTCTCCAAATCCGC
1 TTTTCTCCAAATCCGC
23566528 TTTTCTCCAAATCCGC
1 TTTTCTCCAAATCCGC
*
23566544 ATTTCTCC
1 TTTTCTCC
23566552 TCTCAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.17, C:0.38, G:0.05, T:0.40
Consensus pattern (16 bp):
TTTTCTCCAAATCCGC
Found at i:23569531 original size:20 final size:20
Alignment explanation
Indices: 23569508--23569545 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23569498 AAATATATAT
*
23569508 ATAGAAATTATAAAATATGG
1 ATAGAAAGTATAAAATATGG
*
23569528 ATAGAAAGTATAATATAT
1 ATAGAAAGTATAAAATAT
23569546 ATATACGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (20 bp):
ATAGAAAGTATAAAATATGG
Found at i:23569579 original size:16 final size:16
Alignment explanation
Indices: 23569533--23569582 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
23569523 TATGGATAGA
23569533 AAGTATAATATATATAT
1 AAGT-TAATATATATAT
*
23569550 ACG-TACATATATATAT
1 AAGTTA-ATATATATAT
*
23569566 AAGTTAATAAATATAT
1 AAGTTAATATATATAT
23569582 A
1 A
23569583 GATCATAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 2 0.07
16 22 0.79
17 4 0.14
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (16 bp):
AAGTTAATATATATAT
Found at i:23569625 original size:108 final size:108
Alignment explanation
Indices: 23569500--23569720 Score: 379
Period size: 108 Copynumber: 2.0 Consensus size: 108
23569490 ATAAAGAAAA
23569500 ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATA
1 ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATA
* * * * *
23569565 TAAGTTAATAAATATATAGATCATAAAGATAATGATTTCATAT
66 TAAGGTAATAAATATATAAATCATAAAAATAATAATTACATAT
*
23569608 ATATATATATAGAAATTATAAAATATGTATAGAAAGTATAATATATATATACGTACATATATATA
1 ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATA
*
23569673 TAAGGTAATAAATATATAAATTATAAAAATAATAATTACATAT
66 TAAGGTAATAAATATATAAATCATAAAAATAATAATTACATAT
23569716 ATATA
1 ATATA
23569721 ATGTAATAAA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (108 bp):
ATATATATATAGAAATTATAAAATATGGATAGAAAGTATAATATATATATACGTACATATATATA
TAAGGTAATAAATATATAAATCATAAAAATAATAATTACATAT
Found at i:23569638 original size:20 final size:20
Alignment explanation
Indices: 23569610--23569658 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
23569600 TTTCATATAT
*
23569610 ATATATATAGAAATTATAAA
1 ATATATATAGAAAGTATAAA
* *
23569630 ATATGTATAGAAAGTATAAT
1 ATATATATAGAAAGTATAAA
23569650 ATATATATA
1 ATATATATA
23569659 CGTACATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (20 bp):
ATATATATAGAAAGTATAAA
Found at i:23569687 original size:16 final size:15
Alignment explanation
Indices: 23569646--23569737 Score: 64
Period size: 16 Copynumber: 5.9 Consensus size: 15
23569636 ATAGAAAGTA
* *
23569646 TAATATATATATACG
1 TAATAAATATATAAG
*
23569661 TACATATATATATAAGG
1 TA-ATAAATATATAA-G
*
23569678 TAATAAATATATAAA
1 TAATAAATATATAAG
*
23569693 TTATAAA-A-ATAA-
1 TAATAAATATATAAG
23569705 TAATTACATATATATAATG
1 TAA-TA-A-ATATATAA-G
23569724 TAATAAATATATAA
1 TAATAAATATATAA
23569738 ATCATAAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
12 2 0.03
13 6 0.10
14 2 0.03
15 9 0.14
16 31 0.49
17 8 0.13
18 2 0.03
19 3 0.05
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.37
Consensus pattern (15 bp):
TAATAAATATATAAG
Found at i:23569727 original size:46 final size:46
Alignment explanation
Indices: 23569666--23569759 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
23569656 ATACGTACAT
*
23569666 ATATATATAAGGTAATAAATATATAAATTATAAAAATAATAATTAC
1 ATATATATAAGGTAATAAATATATAAATCATAAAAATAATAATTAC
*
23569712 ATATATATAATGTAATAAATATATAAATCATAAAAATAATAATTAC
1 ATATATATAAGGTAATAAATATATAAATCATAAAAATAATAATTAC
23569758 AT
1 AT
23569760 GTGTAAACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (46 bp):
ATATATATAAGGTAATAAATATATAAATCATAAAAATAATAATTAC
Found at i:23571515 original size:20 final size:18
Alignment explanation
Indices: 23571490--23571528 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
23571480 TTTTAAATTT
23571490 CTTTATATATTCTTTAAAAA
1 CTTTATAT-TT-TTTAAAAA
23571510 CTTTATATTTTTTAAAAA
1 CTTTATATTTTTTAAAAA
23571528 C
1 C
23571529 ATATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
19 2 0.11
20 8 0.42
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (18 bp):
CTTTATATTTTTTAAAAA
Found at i:23573303 original size:23 final size:24
Alignment explanation
Indices: 23573252--23573304 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
23573242 ATTTATTGAT
*
23573252 AATTATTTTTTACATTTGTAACAA
1 AATTATTTTTTACATTTGTAAAAA
*
23573276 TATTATTTTTATA-ATTT-TAAAAA
1 AATTATTTTT-TACATTTGTAAAAA
23573299 AATTAT
1 AATTAT
23573305 CCAAGCTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 10 0.40
24 13 0.52
25 2 0.08
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTATTTTTTACATTTGTAAAAA
Found at i:23575144 original size:2 final size:2
Alignment explanation
Indices: 23575137--23575163 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23575127 AATAGTTAAT
23575137 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
23575164 TAGGGTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23582939 original size:26 final size:24
Alignment explanation
Indices: 23582872--23583218 Score: 131
Period size: 25 Copynumber: 13.9 Consensus size: 24
23582862 GGCTGTACGA
* *
23582872 ATAATACGCCACATAGGCCTTTCAG
1 ATAATTCGCCACAAAGG-CTTTCAG
23582897 ATAATTCGCCACAAAGGCTTTACAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* * *
23582922 ATAACTTTGCCACTAAGGCTTTCTAA
1 ATAA-TTCGCCACAAAGGCTTTC-AG
* * * *
23582948 ATAATACACCACATATGCCTTTCAG
1 ATAATTCGCCACA-AAGGCTTTCAG
** *
23582973 ATAATTTTCCACAAAGGCTTTATAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* ** * **
23582998 GTAACTTTACTACTAAA-GCTTTTTG
1 ATAA-TTCGCCAC-AAAGGCTTTCAG
* * * * *
23583023 AATAATACACTACAAAGGCCATTCAA
1 -ATAATTCGCCACAAAGG-CTTTCAG
*
23583049 ATAATTCACCACAAAGGCTTTACAG
1 ATAATTCGCCACAAAGGCTTT-CAG
* * * * * *
23583074 ATTACTCGCTATAAAGGCTTCCCAA
1 ATAATTCGCCACAAAGGCTT-TCAG
* *
23583099 ATAATACGCCACAAAGGCCATTCAG
1 ATAATTCGCCACAAAGG-CTTTCAG
* * ** *
23583124 ATAATTTGCCATAAAGATTTTACAA
1 ATAATTCGCCACAAAGGCTTT-CAG
* * * *
23583149 ATTACTCACCACAAAGGCTTTCCG
1 ATAATTCGCCACAAAGGCTTTCAG
* * *
23583173 AATAATACGCCATAAAGGCCTTTAAG
1 -ATAATTCGCCACAAAGG-CTTTCAG
*
23583199 ATAATTCGCCA-AAAAGCTTT
1 ATAATTCGCCACAAAGGCTTT
23583219 AAAGACTACT
Statistics
Matches: 233, Mismatches: 73, Indels: 34
0.69 0.21 0.10
Matches are distributed among these distances:
23 4 0.02
24 23 0.10
25 152 0.65
26 51 0.22
27 3 0.01
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (24 bp):
ATAATTCGCCACAAAGGCTTTCAG
Found at i:23582951 original size:76 final size:75
Alignment explanation
Indices: 23582846--23583219 Score: 329
Period size: 76 Copynumber: 5.0 Consensus size: 75
23582836 GGATTCCCAC
* * * *
23582846 ATAACTTCACCACTAAGGCTGTACGAATAATACGCCACATAGGCCTTTCAGATAATTCGCCACAA
1 ATAAC-TCACCACTAAGGCTTTCCAAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
23582911 AGGCTTTACAG
65 AGGCTTTACAG
** * * * * **
23582922 ATAACTTTGCCACTAAGGCTTTCTAAATAATACACCACATATGCCTTTCAGATAATTTTCCACAA
1 ATAAC-TCACCACTAAGGCTTTCCAAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
*
23582987 AGGCTTTATAG
65 AGGCTTTACAG
* * * * *** * * * * *
23582998 GTAACTTTACTACTAAAGCTTTTTGAATAATACACTACAAAGGCCATTCAAATAATTCACCACAA
1 ATAAC-TCACCACTAAGGCTTTCCAAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
23583063 AGGCTTTACAG
65 AGGCTTTACAG
* * * * * * *
23583074 ATTACTCGCTA-TAAAGGCTTCCCAAATAATACGCCACAAAGGCCATTCAGATAATTTGCCATAA
1 ATAACTCACCACT-AAGGCTTTCCAAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAA
** *
23583138 AGATTTTACAA
65 AGGCTTTACAG
* * * * *
23583149 ATTACTCACCACAAAGGCTTTCCGAATAATACGCCATAAAGGCCTTTAAGATAATTCGCCA-AAA
1 ATAACTCACCACTAAGGCTTTCCAAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAAA
*
23583213 AGCTTTA
66 GGCTTTA
23583220 AAGACTACTC
Statistics
Matches: 241, Mismatches: 55, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
74 8 0.03
75 103 0.43
76 130 0.54
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (75 bp):
ATAACTCACCACTAAGGCTTTCCAAATAATACGCCACAAAGGCCTTTCAGATAATTCGCCACAAA
GGCTTTACAG
Found at i:23605258 original size:16 final size:18
Alignment explanation
Indices: 23605230--23605263 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
23605220 TAGAATTGTG
23605230 TTTGAGAAAATT-ATTTA
1 TTTGAGAAAATTAATTTA
23605247 TTTGAG-AAATTAATTTA
1 TTTGAGAAAATTAATTTA
23605264 GCTAAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (18 bp):
TTTGAGAAAATTAATTTA
Found at i:23612282 original size:125 final size:125
Alignment explanation
Indices: 23612078--23612308 Score: 408
Period size: 125 Copynumber: 1.8 Consensus size: 125
23612068 ACAAGGGAGT
*
23612078 CCACCAAGCTCACCTAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
1 CCACCAAGCTCACCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
*
23612143 AGTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
66 ACTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
* *
23612203 CCACCAAGCTCGCCGAATGTAGACTTCGCCGAAAGGCGCACTTGCTGACTTACATTCTTAGTCAC
1 CCACCAAGCTCACCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
* *
23612268 ACTTAATACGTTACCCACTCAGCACTTGCTCTAAACACCAT
66 ACTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCAT
23612309 ACTTCAATAA
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 100 1.00
ACGTcount: A:0.30, C:0.32, G:0.15, T:0.23
Consensus pattern (125 bp):
CCACCAAGCTCACCGAATGTAGACTTCGCCGAAAGGCGCACTTGCAGACTTACATTCTTAGTCAC
ACTTAATACCTTACCCACTCAGAACTTGCTCTAAACACCATTACAAGGGAGTCCACCAAA
Found at i:23612680 original size:26 final size:27
Alignment explanation
Indices: 23612651--23612703 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
23612641 TTTATTTTTG
23612651 TATTTCCAA-AAATAAACATCTCAATA
1 TATTTCCAATAAATAAACATCTCAATA
* *
23612677 TATTTCCAATTAAATAATCTTCTCAAT
1 TATTTCCAA-TAAATAAACATCTCAAT
23612704 CCAATTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
28 14 0.61
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (27 bp):
TATTTCCAATAAATAAACATCTCAATA
Found at i:23612876 original size:51 final size:52
Alignment explanation
Indices: 23612813--23612922 Score: 143
Period size: 51 Copynumber: 2.1 Consensus size: 52
23612803 TTTCCAGACC
* *
23612813 ATTTTCATTTTGGAGAAAACCA-CATACATTTTCAAATGATTC-CATTTCTTT
1 ATTTTCATTTTGGAGAAAACCATAATA-ATTTTCAAAAGATTCTCATTTCTTT
* * **
23612864 ATTTTTATTTTGGAGAAAACCATAATAATTTTCAAAAGTTTCTCATTTCTCC
1 ATTTTCATTTTGGAGAAAACCATAATAATTTTCAAAAGATTCTCATTTCTTT
23612916 ATTTTCA
1 ATTTTCA
23612923 CCGTTTATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 34 0.68
52 16 0.32
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (52 bp):
ATTTTCATTTTGGAGAAAACCATAATAATTTTCAAAAGATTCTCATTTCTTT
Found at i:23616823 original size:19 final size:19
Alignment explanation
Indices: 23616786--23616824 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23616776 CTTAATGTTC
*
23616786 ATATGATATAGAAAGATGA
1 ATATGATATACAAAGATGA
23616805 ATATGCATATACAAA-ATGA
1 ATATG-ATATACAAAGATGA
23616824 A
1 A
23616825 AATGGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (19 bp):
ATATGATATACAAAGATGA
Found at i:23620677 original size:12 final size:12
Alignment explanation
Indices: 23620645--23620679 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23620635 ATCAAATACG
23620645 AACTCAAATTTA
1 AACTCAAATTTA
* *
23620657 AAATAAAATTTA
1 AACTCAAATTTA
23620669 AACTCAAATTT
1 AACTCAAATTT
23620680 CGCATATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (12 bp):
AACTCAAATTTA
Found at i:23620962 original size:17 final size:19
Alignment explanation
Indices: 23620929--23620963 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
23620919 AAATTGCGTA
23620929 TTTAAAATATAAATATATG
1 TTTAAAATATAAATATATG
23620948 TTTAAAA-AT-AATATAT
1 TTTAAAATATAAATATAT
23620964 AATAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (19 bp):
TTTAAAATATAAATATATG
Found at i:23623900 original size:2 final size:2
Alignment explanation
Indices: 23623893--23623923 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23623883 GATAAATTTA
23623893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23623924 AACTTTAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23624034 original size:14 final size:14
Alignment explanation
Indices: 23624017--23624055 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
23624007 TTTTATTTTT
23624017 AATTTATTATTAA-A
1 AATTTATT-TTAATA
23624031 AATTTATTTTAATA
1 AATTTATTTTAATA
23624045 AATTTAATTTT
1 AATTT-ATTTT
23624056 TACTAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.17
14 14 0.61
15 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTTATTTTAATA
Found at i:23624056 original size:16 final size:15
Alignment explanation
Indices: 23624017--23624062 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
23624007 TTTTATTTTT
*
23624017 AATTTATTATTAA-A
1 AATTTATTTTTAATA
23624031 AATTTA-TTTTAATA
1 AATTTATTTTTAATA
*
23624045 AATTTAATTTTTACTA
1 AATTT-ATTTTTAATA
23624061 AA
1 AA
23624063 AACATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 5 0.19
14 12 0.44
15 1 0.04
16 9 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
AATTTATTTTTAATA
Found at i:23624231 original size:96 final size:96
Alignment explanation
Indices: 23624123--23624314 Score: 280
Period size: 96 Copynumber: 2.0 Consensus size: 96
23624113 AACAACTAGC
*
23624123 TTTATTTAA-TTTTTCCTTAAAAATCC-TAAATACTAAACCCCAATCTAATTTTTTTAAAATTTA
1 TTTATTTAATTTTTTCCTTAAAAA-CCATAAACACTAAACCCCAATCTAA-TTTTTTAAAATTTA
* * *
23624186 TAATTAATTTACTCAAGTAACCTTAAACCCTAA
64 TAATTAATTTAATCAAGAAACCCTAAACCCTAA
* *
23624219 TTTATTTGATTTTTTCCTTAAAAACCATAAACACTAAACCCTAATCTAATTTTTTAAAATTTATA
1 TTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCCAATCTAATTTTTTAAAATTTATA
* *
23624284 CTTAATTTAATTAAGAAACCCTAAACCCTAA
66 ATTAATTTAATCAAGAAACCCTAAACCCTAA
23624315 ACCCTTATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
96 52 0.60
97 34 0.40
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.41
Consensus pattern (96 bp):
TTTATTTAATTTTTTCCTTAAAAACCATAAACACTAAACCCCAATCTAATTTTTTAAAATTTATA
ATTAATTTAATCAAGAAACCCTAAACCCTAA
Found at i:23624360 original size:15 final size:16
Alignment explanation
Indices: 23624340--23624381 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
23624330 ATTTTATCCT
23624340 TAAAACTCTAAAA-TC
1 TAAAACTCTAAAACTC
*
23624355 TAAAACTCAAAAACTC
1 TAAAACTCTAAAACTC
* *
23624371 CAAAACCCTAA
1 TAAAACTCTAA
23624382 CCCTAATTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAACTCTAAAACTC
Found at i:23624367 original size:8 final size:8
Alignment explanation
Indices: 23624340--23624381 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
23624330 ATTTTATCCT
23624340 TAAAACTC
1 TAAAACTC
23624348 TAAAA-TC
1 TAAAACTC
23624355 TAAAACTC
1 TAAAACTC
*
23624363 AAAAACTC
1 TAAAACTC
* *
23624371 CAAAACCC
1 TAAAACTC
23624379 TAA
1 TAA
23624382 CCCTAATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (8 bp):
TAAAACTC
Found at i:23624503 original size:40 final size:39
Alignment explanation
Indices: 23624429--23624506 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 39
23624419 GAAAGTGCTT
23624429 CCTCAAGGAAGCGCTTTGTCCACGTGGACGCAAAGCGCGC
1 CCTCAAGGAAGCGCTTTGTCCACGTGGAC-CAAAGCGCGC
*
23624469 CCTCAAGGAAGCGTTTTCTGTCCACGTGGA-CAAAGCGC
1 CCTCAAGGAAGCG-CTT-TGTCCACGTGGACCAAAGCGC
23624507 TTCCTTGAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
40 21 0.60
41 2 0.06
42 12 0.34
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (39 bp):
CCTCAAGGAAGCGCTTTGTCCACGTGGACCAAAGCGCGC
Found at i:23647915 original size:20 final size:20
Alignment explanation
Indices: 23647814--23647932 Score: 80
Period size: 20 Copynumber: 6.0 Consensus size: 20
23647804 GATGCATAAT
* * *
23647814 AGGGGCACCGAAGTGTAGAC
1 AGGGGCACCAAAGTGCAAAC
*
23647834 AGGGGCA-CAAATGTGCAAAT
1 AGGGGCACCAAA-GTGCAAAC
* *
23647854 AGGGGCACTATAA-TGCGAAC
1 AGGGGCACCA-AAGTGCAAAC
* *** * * *
23647874 AAGGATGCCGAAGTGTATAC
1 AGGGGCACCAAAGTGCAAAC
23647894 AGGGGCACCAAAGTGCAAAC
1 AGGGGCACCAAAGTGCAAAC
*
23647914 AGGGGCACCGAAGTGCAAA
1 AGGGGCACCAAAGTGCAAA
23647933 TCTCGTACAA
Statistics
Matches: 71, Mismatches: 24, Indels: 8
0.69 0.23 0.08
Matches are distributed among these distances:
19 5 0.07
20 63 0.89
21 1 0.01
22 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.33, T:0.12
Consensus pattern (20 bp):
AGGGGCACCAAAGTGCAAAC
Found at i:23653868 original size:7 final size:7
Alignment explanation
Indices: 23653858--23653905 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
23653848 TTTAAATAAT
23653858 ATTTAGG
1 ATTTAGG
23653865 ATTTAGG
1 ATTTAGG
* *
23653872 GTTTAGA
1 ATTTAGG
23653879 ATTTTAGG
1 A-TTTAGG
*
23653887 GTTTAGG
1 ATTTAGG
23653894 ATTTAGG
1 ATTTAGG
*
23653901 GTTTA
1 ATTTA
23653906 CGGTCTATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
7 28 0.85
8 5 0.15
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (7 bp):
ATTTAGG
Found at i:23653882 original size:14 final size:14
Alignment explanation
Indices: 23653859--23653905 Score: 76
Period size: 14 Copynumber: 3.3 Consensus size: 14
23653849 TTAAATAATA
23653859 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
*
23653873 TTTAGAATTTTAGGG
1 TTTAGGA-TTTAGGG
23653888 TTTAGGATTTAGGG
1 TTTAGGATTTAGGG
23653902 TTTA
1 TTTA
23653906 CGGTCTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (14 bp):
TTTAGGATTTAGGG
Found at i:23656124 original size:2 final size:2
Alignment explanation
Indices: 23656054--23656107 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
23656044 TTAATCAAAG
* *
23656054 AT AT GT AT AT -T AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23656095 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
23656108 AGATTCAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23656907 original size:41 final size:41
Alignment explanation
Indices: 23656751--23656896 Score: 256
Period size: 41 Copynumber: 3.6 Consensus size: 41
23656741 GTGAAGTAAT
23656751 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
23656792 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
*
23656833 CCAGACATTACGTCTAGTAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
23656874 TCAGACTTTATGTCTAGCAGGCT
1 CCAGACATTACGTCTAGCAGGCT
23656897 AAGTGCCGGT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:23656937 original size:82 final size:82
Alignment explanation
Indices: 23656752--23656949 Score: 220
Period size: 82 Copynumber: 2.4 Consensus size: 82
23656742 TGAAGTAATC
* * *
23656752 CAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTG
1 CAGACATTAAGCCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAG
* *
23656817 ATGCCGGTGAAACATAC
66 ATGCCGGTGAAACAAAA
* * * * * *
23656834 CAGACATTACGTCTAGTAGGCTTGATGCCGGTGAAACATATCAGACTTTATGTCTAGCAGGCTA-
1 CAGACATTAAGCCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAG
*
23656898 AGTGCCGGTG-TACTAAAA
66 A-TGCCGGTGAAAC-AAAA
* * **
23656916 CAGGCTTTAAGCCTAGCAGGCTAAATGCCGGTGA
1 CAGACATTAAGCCTAGCAGGCTTGATGCCGGTGA
23656950 TATTGTTTAT
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
81 3 0.03
82 96 0.97
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (82 bp):
CAGACATTAAGCCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTAG
ATGCCGGTGAAACAAAA
Found at i:23658881 original size:17 final size:17
Alignment explanation
Indices: 23658843--23658891 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
23658833 GGGTGAGAAG
23658843 TAAAAGTTTAGGGGAAAA
1 TAAAAGTTTAGGGG-AAA
*
23658861 TAAAAAGTTTTGGGG-AA
1 T-AAAAGTTTAGGGGAAA
23658878 TAAAAGTTTGAGGG
1 TAAAAGTTT-AGGG
23658892 AAAGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 8 0.30
17 6 0.22
18 1 0.04
19 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.27
Consensus pattern (17 bp):
TAAAAGTTTAGGGGAAA
Found at i:23659011 original size:19 final size:20
Alignment explanation
Indices: 23658987--23659024 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23658977 ATGGGAAGAG
*
23658987 AATAAAA-GTTTTAGGGGAA
1 AATAAAATGTTTTAAGGGAA
23659006 AATAAAATGTTTTAAGGGA
1 AATAAAATGTTTTAAGGGA
23659025 TTTTGGGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.24, T:0.29
Consensus pattern (20 bp):
AATAAAATGTTTTAAGGGAA
Found at i:23659238 original size:9 final size:9
Alignment explanation
Indices: 23659221--23659257 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
23659211 TATAGTTTGA
23659221 TATTCGAAT
1 TATTCGAAT
*
23659230 TATTTGAAT
1 TATTCGAAT
*
23659239 TATTCGAGT
1 TATTCGAAT
23659248 TATTCGAAT
1 TATTCGAAT
23659257 T
1 T
23659258 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:23659327 original size:9 final size:9
Alignment explanation
Indices: 23659310--23659340 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
23659300 TTGAGTTGAT
23659310 TCGAATAAC
1 TCGAATAAC
*
23659319 TCGATTAAC
1 TCGAATAAC
23659328 TCGAATAAC
1 TCGAATAAC
23659337 TCGA
1 TCGA
23659341 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:23665241 original size:51 final size:51
Alignment explanation
Indices: 23665181--23665401 Score: 205
Period size: 51 Copynumber: 4.4 Consensus size: 51
23665171 GATGAACACG
* *
23665181 TGTGTAGTACTATGTGAAGGCTATTACGTGTATCGATAAATA-ATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGA-AAATACATGGTCACA
* * * ** ** *
23665232 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGATTTTTTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAATACATGGTCACA
* * * * *
23665283 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAATACATGGTCACA
* * * * *
23665333 TGTGTAGTACTATGTGAAGGCTACTACATGTATCGAATGATA-ATAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA-AATACATGGTCACA
* *
23665384 TGGGTGGTACTATGTGAA
1 TGTGTAGTACTATGTGAA
23665402 AACCCCCAAA
Statistics
Matches: 139, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
50 45 0.32
51 93 0.67
52 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAAATACATGGTCACA
Found at i:23665397 original size:101 final size:102
Alignment explanation
Indices: 23665184--23665401 Score: 235
Period size: 101 Copynumber: 2.1 Consensus size: 102
23665174 GAACACGTGT
* * * *
23665184 GTAGTACTATGTGAAGGCTATTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGA
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAGTGA
** * ** * * *
23665249 AGGCTACTATGTGTACCGAAAAGATTTTTTCACGTGT
66 AGGCTACTACATGTACCGAAAAGATATAGTAACATGG
* * *
23665286 GTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTATGTG
1 GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-ATGATCACATGTGTAGTACTAAGTG
* *
23665349 AAGGCTACTACATGTATCG-AATGATAATAGTAACATGG
65 AAGGCTACTACATGTACCGAAAAGAT-ATAGTAACATGG
*
23665387 GTGGTACTATGTGAA
1 GTAGTACTATGTGAA
23665402 AACCCCCAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
100 6 0.06
101 61 0.64
102 29 0.30
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (102 bp):
GTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAATGATCACATGTGTAGTACTAAGTGA
AGGCTACTACATGTACCGAAAAGATATAGTAACATGG
Found at i:23666232 original size:13 final size:13
Alignment explanation
Indices: 23666214--23666241 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23666204 ACATACTTAC
23666214 TAAGCTATATGCT
1 TAAGCTATATGCT
23666227 TAAGCTATATGCT
1 TAAGCTATATGCT
23666240 TA
1 TA
23666242 CTCCTCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
TAAGCTATATGCT
Found at i:23666403 original size:2 final size:2
Alignment explanation
Indices: 23666396--23666427 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23666386 TGTAATGTGG
23666396 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23666428 ATACTGTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23686543 original size:43 final size:41
Alignment explanation
Indices: 23686496--23686576 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
23686486 GGTTTTACAT
* *
23686496 GTAATCAAATAACGATGCCACTGTCCCAGACAGGGTCTTATAC
1 GTAATCAAAT-ACGACGCCAATGTCCCAGA-AGGGTCTTATAC
* *
23686539 GTAATCATATACGACGCCAATGTCCCAGAATGGTCTTA
1 GTAATCAAATACGACGCCAATGTCCCAGAAGGGTCTTA
23686577 CACATAAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 8 0.24
42 17 0.50
43 9 0.26
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
GTAATCAAATACGACGCCAATGTCCCAGAAGGGTCTTATAC
Found at i:23688228 original size:55 final size:56
Alignment explanation
Indices: 23688141--23688297 Score: 199
Period size: 55 Copynumber: 2.8 Consensus size: 56
23688131 AATCTATTTA
* * *
23688141 TATAATAAATAACAACATAACTATTTACATAACAACATTTTTAACGGATACCAAAATC
1 TATAATATATAAC-A-ATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
* ** * * *
23688199 TATAATATATGAC-ATATTTATTTATATAACAACATTTCTAATGGATGCCAAAATC
1 TATAATATATAACAATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
*
23688254 TATGATATATAACAATAAATATTTATATAACAACATTTTTAACG
1 TATAATATATAACAATAAATATTTATATAACAACATTTTTAACG
23688298 TGGTGTGGGC
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
55 47 0.56
56 26 0.31
58 11 0.13
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.35
Consensus pattern (56 bp):
TATAATATATAACAATAAATATTTATATAACAACATTTTTAACGGATACCAAAATC
Found at i:23698441 original size:29 final size:29
Alignment explanation
Indices: 23698408--23698471 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
23698398 CCAAGAGCAT
23698408 CGTTTTCTAACCTTTCGGGGCTTTAGTGG
1 CGTTTTCTAACCTTTCGGGGCTTTAGTGG
*
23698437 CGTTTTCTGACCTTTCGGGGCTTTAGTGG
1 CGTTTTCTAACCTTTCGGGGCTTTAGTGG
23698466 CGTTTT
1 CGTTTT
23698472 TGACAAAGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.08, C:0.20, G:0.28, T:0.44
Consensus pattern (29 bp):
CGTTTTCTAACCTTTCGGGGCTTTAGTGG
Found at i:23698854 original size:41 final size:40
Alignment explanation
Indices: 23698451--23698846 Score: 450
Period size: 41 Copynumber: 9.7 Consensus size: 40
23698441 TTCTGACCTT
* *
23698451 TCGGGGCTTTAGTGGCGTTTTTGACAAAGTGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGA-AAAGCGCCGCTAATGC
* * * * *
23698492 TCGGGTCTTTAACGGTGGTTTTGAAAATGTGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGC
** *
23698533 TCGGCTCTTTAGCGGCGTTTTTGAAAATGCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGC
*
23698574 TCGGGTCTTTAGCGGCGTTTTTGAAAAGACGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAG-CGCCGCTAATGC
* * * *
23698615 TCAGGGCTTTAGCGACGTTTTTGAAAAGGTGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGC
* *
23698656 TCGGGTCTTTAGCGGCATTTTTGAAAAGGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAA-GCGCCGCTAATGC
* **
23698697 TCGGGCCTTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGC
* * * *
23698738 TCGGGGATTTAGCAGCGTTTTTAAAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTT-GAAAAGCGCCGCTAATGC
* * **
23698779 TCGGAGCTATAGCGGCGTTTTCCAAGAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAA-AAGCGCCGCTAATGC
*
23698820 TCGGGGCTTTAGCGGTGTTTTTGAAAA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAA
23698847 TGTGCCGCAA
Statistics
Matches: 303, Mismatches: 46, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
40 8 0.03
41 290 0.96
42 5 0.02
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (40 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAGCGCCGCTAATGC
Found at i:23699267 original size:14 final size:15
Alignment explanation
Indices: 23699232--23699278 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
23699222 TAGTGTAAGG
*
23699232 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
23699247 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
23699262 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
23699275 TTTA
1 TTTA
23699279 AGGGTTGAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:23699309 original size:7 final size:7
Alignment explanation
Indices: 23699297--23699334 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
23699287 GATTGAAGGT
23699297 TTAGGGG
1 TTAGGGG
23699304 TTAGGGG
1 TTAGGGG
23699311 TTAGGGG
1 TTAGGGG
*
23699318 TTAGAGG
1 TTAGGGG
23699325 TTAGGGG
1 TTAGGGG
23699332 TTA
1 TTA
23699335 AGAGTTTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.50, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:23699621 original size:19 final size:20
Alignment explanation
Indices: 23699597--23699635 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
23699587 ATTAAATGGT
23699597 TTAGGGCTTA-AGATTTGGG
1 TTAGGGCTTAGAGATTTGGG
* *
23699616 TTAGGGGTTAGAGGTTTGGG
1 TTAGGGCTTAGAGATTTGGG
23699636 GTTTCAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.44, T:0.36
Consensus pattern (20 bp):
TTAGGGCTTAGAGATTTGGG
Found at i:23702098 original size:13 final size:13
Alignment explanation
Indices: 23702080--23702104 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23702070 TTGCTGCAAG
23702080 TTCTGGTTAATGT
1 TTCTGGTTAATGT
23702093 TTCTGGTTAATG
1 TTCTGGTTAATG
23702105 CTGTGGTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.24, T:0.52
Consensus pattern (13 bp):
TTCTGGTTAATGT
Found at i:23702856 original size:18 final size:17
Alignment explanation
Indices: 23702829--23702932 Score: 57
Period size: 18 Copynumber: 5.7 Consensus size: 17
23702819 CATTAAATTG
23702829 ATAATCTACATAACTCAC
1 ATAAT-TACATAACTCAC
*
23702847 ATAACTTACATAA-TAAC
1 ATAA-TTACATAACTCAC
* * * **
23702864 TTATATATATATATCAAACC
1 ATA-AT-TACATAACTCA-C
* *
23702884 ATAAATTAAATAAATCAC
1 AT-AATTACATAACTCAC
23702902 ATAATATACATAACTCAC
1 ATAAT-TACATAACTCAC
23702920 ATAACTTACATAA
1 ATAA-TTACATAA
23702933 TAACTTATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
17 9 0.14
18 41 0.63
19 10 0.15
20 4 0.06
21 1 0.02
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAATTACATAACTCAC
Found at i:23703055 original size:131 final size:131
Alignment explanation
Indices: 23702857--23703099 Score: 366
Period size: 131 Copynumber: 1.8 Consensus size: 131
23702847 ATAACTTACA
* *
23702857 TAATAACTTATATATATATATCAAACCATAAATTAAATAAATCACATAATATACATAACTCACAT
1 TAATAACTTATATATATATATCAAACCATAAATTAAATAAATCACATAATACACAAAACTCACAT
*
23702922 AACTTAC-A-TAATAACTTATATATATCATACCATTACTTAAATAACTCACATAAGTTACCTAAC
66 AACTTACAACTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAGTTACCTAAC
23702985 T
131 T
* *
23702986 TAATAACTTATATATATATATATCAAACCATAACTTAAATAAATCACATAAT-CCCAGAAACTCA
1 TAATAAC-T-TATATATATATATCAAACCATAAATTAAATAAATCACATAATACACA-AAACTCA
23703050 CATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAAT
63 CATAACTTAC--AAC-TAATAACTTATATATATCATACCATAACTTAAAT
23703100 GTATCTCATA
Statistics
Matches: 101, Mismatches: 5, Indels: 9
0.88 0.04 0.08
Matches are distributed among these distances:
129 7 0.07
130 3 0.03
131 57 0.56
134 1 0.01
136 33 0.33
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (131 bp):
TAATAACTTATATATATATATCAAACCATAAATTAAATAAATCACATAATACACAAAACTCACAT
AACTTACAACTAATAACTTATATATATCATACCATAACTTAAATAACTCACATAAGTTACCTAAC
T
Found at i:23703110 original size:56 final size:56
Alignment explanation
Indices: 23703044--23703699 Score: 642
Period size: 56 Copynumber: 12.1 Consensus size: 56
23703034 TAATCCCAGA
* *
23703044 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAA-CTTAAAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATC-TACAT
* * * *
23703100 GTA-TCTCATAAATTA-GTGAA--TAATAACTTATATATATCATATCATAATCTACAT
1 -AACTCACATAACTTACAT-AACTTAATAACTTATATATATCATATCATAATCTACAT
* **
23703154 AACTCACATAACTTACATAAGTTAGCAAC-T-TATAT-T--TATCATAA-CTTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATC-TACAT
** * *
23703205 AACTTGCATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
23703261 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
* **
23703317 AACTCACATAACTTACATAAGTTAGCAAC-T-TATAT-T--TATCATAA-CTTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATC-TACAT
** * *
23703368 AACTTGCATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
23703424 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
* * *
23703480 AACTCACATAACTTACATAAGTTAACAACTTATATATATC--AT-A-ACT-TACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
** * *
23703531 AACTTGCATAACTTACCTAAC-T--TAA---A-ATGTATCATATCATAATCTACAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
* * * *
23703580 AACTCACATAAGTTACATAACTTAACAACTTATATATATATATATATAAATATATCATATCAT
1 AACTCACATAACTTACATAACTTAATAAC-T-TATATATAT-CATAT-CATA-ATC-TA-CAT
* * *
23703643 AACTTACATAACTTGCATAA--TACATAA-TTATATAT-TCTTATCATAAGT-TACAT
1 AACTCACATAACTTACATAACTTA-ATAACTTATATATATCATATCATAA-TCTACAT
23703696 AACT
1 AACT
23703700 GAATTATACT
Statistics
Matches: 496, Mismatches: 62, Indels: 86
0.77 0.10 0.13
Matches are distributed among these distances:
44 6 0.01
45 1 0.00
46 2 0.00
47 1 0.00
48 4 0.01
49 22 0.04
50 4 0.01
51 94 0.19
52 6 0.01
53 19 0.04
54 58 0.12
55 6 0.01
56 215 0.43
57 7 0.01
58 6 0.01
59 11 0.02
60 4 0.01
61 5 0.01
62 5 0.01
63 20 0.04
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (56 bp):
AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
Found at i:23703129 original size:107 final size:109
Alignment explanation
Indices: 23703044--23703618 Score: 543
Period size: 107 Copynumber: 5.4 Consensus size: 109
23703034 TAATCCCAGA
*
23703044 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACCATAACTTAAATGTA-TCT-C
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATA-CATAACTTAAAT-AACT-TGC
*
23703107 ATAAATTA-GTGAA-TAATAACTTATATATATCATATCATAATCTACAT
63 ATAAATTACCT-AACTAATAACTTATATATATCA-ATCATAATCTACAT
* ** *
23703154 AACTCACATAACTTACATAAGTTAGCAACTTATAT-T-T-AT-CATAACTTACATAACTTGCATA
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACATAACTTAAATAACTTGCATA
* *
23703215 ACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACAT
66 AATTACCTAAC-TAATAACTTATATATATCA-ATCATAATCTACAT
* **
23703261 AACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAA-TCTACATAACTCACA
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATA-CATAACT-TAAATAACTTGCA
* * * **
23703325 TAACTTACATAAGTTAGCAACTTATAT-T-T--ATCATAA-CTTACAT
64 TAAATTACCTAA-CTAATAACTTATATATATCAATCATAATC-TACAT
** * * * **
23703368 AACTTGCATAACTTACCTAACTTAATAACTTATATGTATCATATCATAA-TCTACATAACTCACA
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATA-CATAACT-TAAATAACTTGCA
* *
23703432 TAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACAT
64 TAAATTACCTAAC-TAATAACTTATATATATCA-ATCATAATCTACAT
* * *
23703480 AACTCACATAACTTACATAAGTTAACAAC-T-TATATAT-AT-CATAACTTACATAACTTGCATA
1 AACTCACATAACTTACATAACTTAATAACTTATATATATCATACATAACTTAAATAACTTGCATA
* *
23703541 ACTTACCTAACT--TAA---A-ATGTATCATATCATAATCTACAT
66 AATTACCTAACTAATAACTTATATATATCA-ATCATAATCTACAT
* *
23703580 AACTCACATAAGTTACATAACTTAACAACTTATATATAT
1 AACTCACATAACTTACATAACTTAATAACTTATATATAT
23703619 ATATATATAA
Statistics
Matches: 406, Mismatches: 36, Indels: 54
0.82 0.07 0.11
Matches are distributed among these distances:
100 49 0.12
101 2 0.00
102 7 0.02
104 5 0.01
105 22 0.05
106 3 0.01
107 190 0.47
108 4 0.01
109 5 0.01
110 41 0.10
111 3 0.01
112 74 0.18
113 1 0.00
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.36
Consensus pattern (109 bp):
AACTCACATAACTTACATAACTTAATAACTTATATATATCATACATAACTTAAATAACTTGCATA
AATTACCTAACTAATAACTTATATATATCAATCATAATCTACAT
Found at i:23703290 original size:8 final size:9
Alignment explanation
Indices: 23703149--23703603 Score: 218
Period size: 9 Copynumber: 50.2 Consensus size: 9
23703139 TATCATAATC
23703149 TACATAACT
1 TACATAACT
*
23703158 CACATAACT
1 TACATAACT
*
23703167 TACATAAGT
1 TACATAACT
23703176 TAGC--AACT
1 TA-CATAACT
*
23703184 T--AT-ATT
1 TACATAACT
23703190 TATCATAACT
1 TA-CATAACT
23703200 TACATAACT
1 TACATAACT
*
23703209 TGCATAACT
1 TACATAACT
*
23703218 TACCTAACT
1 TACATAACT
23703227 TA-ATAACT
1 TACATAACT
* * *
23703235 TATATGTATCA
1 TACA--TAACT
23703246 TATCATAA-T
1 TA-CATAACT
23703255 CTACATAACT
1 -TACATAACT
*
23703265 CACATAACT
1 TACATAACT
23703274 TACATAACT
1 TACATAACT
23703283 TA-ATAACT
1 TACATAACT
* *
23703291 TATATATATCA
1 TACATA-A-CT
23703302 TATCATAA-T
1 TA-CATAACT
23703311 CTACATAACT
1 -TACATAACT
*
23703321 CACATAACT
1 TACATAACT
*
23703330 TACATAAGT
1 TACATAACT
23703339 TAGC--AACT
1 TA-CATAACT
*
23703347 T--AT-ATT
1 TACATAACT
23703353 TATCATAACT
1 TA-CATAACT
23703363 TACATAACT
1 TACATAACT
*
23703372 TGCATAACT
1 TACATAACT
*
23703381 TACCTAACT
1 TACATAACT
23703390 TA-ATAACT
1 TACATAACT
* * *
23703398 TATATGTATCA
1 TACA--TAACT
23703409 TATCATAA-T
1 TA-CATAACT
23703418 CTACATAACT
1 -TACATAACT
*
23703428 CACATAACT
1 TACATAACT
23703437 TACATAACT
1 TACATAACT
23703446 TA-ATAACT
1 TACATAACT
* *
23703454 TATATATATCA
1 TACATA-A-CT
23703465 TATCATAA-T
1 TA-CATAACT
23703474 CTACATAACT
1 -TACATAACT
*
23703484 CACATAACT
1 TACATAACT
*
23703493 TACATAAGT
1 TACATAACT
*
23703502 TA-ACAACT
1 TACATAACT
*
23703510 TATAT-A--
1 TACATAACT
23703516 TATCATAACT
1 TA-CATAACT
23703526 TACATAACT
1 TACATAACT
*
23703535 TGCATAACT
1 TACATAACT
*
23703544 TACCTAACT
1 TACATAACT
* * *
23703553 TAAAATGTATCA
1 T-ACA--TAACT
23703565 TATCATAA-T
1 TA-CATAACT
23703574 CTACATAACT
1 -TACATAACT
* *
23703584 CACATAAGT
1 TACATAACT
23703593 TACATAACT
1 TACATAACT
23703602 TA
1 TA
23703604 ACAACTTATA
Statistics
Matches: 336, Mismatches: 61, Indels: 98
0.68 0.12 0.20
Matches are distributed among these distances:
6 8 0.02
7 2 0.01
8 46 0.14
9 212 0.63
10 36 0.11
11 19 0.06
12 13 0.04
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:23703324 original size:163 final size:163
Alignment explanation
Indices: 23703050--23703622 Score: 920
Period size: 163 Copynumber: 3.6 Consensus size: 163
23703040 CAGAAACTCA
* * * * * * *
23703050 CATAACTTACATAACTTAATAACTTATATATATCATACCATAA-CTTAAATGTA-TCTCATAAAT
1 CATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATC-TACAT-AACTCACATAACT
*
23703113 TA-GTGAA--TAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTTACATAAG
64 TACAT-AACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTTACATAAG
23703175 TTAGCAACTTATATTTATCATAACTTACATAACTTG
128 TTAGCAACTTATATTTATCATAACTTACATAACTTG
23703211 CATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACATAACTCACATAACTTA
1 CATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACATAACTCACATAACTTA
23703276 CATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTTACATAAGTTA
66 CATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTTACATAAGTTA
23703341 GCAACTTATATTTATCATAACTTACATAACTTG
131 GCAACTTATATTTATCATAACTTACATAACTTG
23703374 CATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACATAACTCACATAACTTA
1 CATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACATAACTCACATAACTTA
23703439 CATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTTACATAAGTTA
66 CATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTTACATAAGTTA
* *
23703504 ACAACTTATATATATCATAACTTACATAACTTG
131 GCAACTTATATTTATCATAACTTACATAACTTG
*
23703537 CATAACTTACCTAAC-T--TAA---A-ATGTATCATATCATAATCTACATAACTCACATAAGTTA
1 CATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACATAACTCACATAACTTA
*
23703595 CATAACTTAACAACTTATATATAT-ATAT
66 CATAACTTAATAACTTATATATATCATAT
23703623 ATATAAATAT
Statistics
Matches: 395, Mismatches: 12, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
155 4 0.01
156 60 0.15
157 1 0.00
160 4 0.01
161 56 0.14
162 3 0.01
163 267 0.68
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.36
Consensus pattern (163 bp):
CATAACTTACCTAACTTAATAACTTATATGTATCATATCATAATCTACATAACTCACATAACTTA
CATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCACATAACTTACATAAGTTA
GCAACTTATATTTATCATAACTTACATAACTTG
Found at i:23703596 original size:100 final size:98
Alignment explanation
Indices: 23703421--23703618 Score: 315
Period size: 100 Copynumber: 2.0 Consensus size: 98
23703411 TCATAATCTA
*
23703421 CATAACTCACATAACTTACATAACTTAATAACTTATATATATCATATCATAATCTACATAACTCA
1 CATAACTCACATAACTTACATAACTTAATAACTTAAATATATCATATCATAATCTACATAACTCA
*
23703486 CATAACTTACATAAGTTAACAACTTATATATAT
66 CATAACTTACATAACTTAACAACTTATATATAT
* * * *
23703519 CATAACTTACATAACTTGCATAACTTACCTAACTTAAAATGTATCATATCATAATCTACATAACT
1 CATAACTCACATAACTTACATAACTTA-ATAACTT-AAATATATCATATCATAATCTACATAACT
*
23703584 CACATAAGTTACATAACTTAACAACTTATATATAT
64 CACATAACTTACATAACTTAACAACTTATATATAT
23703619 ATATATATAA
Statistics
Matches: 91, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 25 0.27
99 6 0.07
100 60 0.66
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (98 bp):
CATAACTCACATAACTTACATAACTTAATAACTTAAATATATCATATCATAATCTACATAACTCA
CATAACTTACATAACTTAACAACTTATATATAT
Found at i:23709239 original size:21 final size:21
Alignment explanation
Indices: 23709215--23709257 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23709205 TAAAGCAAAT
*
23709215 GCAGCAGCGAGGGAAGCAGAG
1 GCAGCAGCGAGAGAAGCAGAG
* *
23709236 GCAGCATCGAGAGAAGCTGAG
1 GCAGCAGCGAGAGAAGCAGAG
23709257 G
1 G
23709258 TTCAAAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.44, T:0.05
Consensus pattern (21 bp):
GCAGCAGCGAGAGAAGCAGAG
Found at i:23709247 original size:87 final size:87
Alignment explanation
Indices: 23709141--23709319 Score: 259
Period size: 87 Copynumber: 2.1 Consensus size: 87
23709131 ACTCAACTTA
* *
23709141 AAGCGGAGGCAGCACCGAGAGAAGCTGAGGTCCAAAGAAAATATGAAGAACTCCAACCACAACTT
1 AAGCAGAGGCAGCACCGAGAGAAGCTGAGGTCCAAAGAAAACATGAAGAACTCCAACCACAACTT
* *
23709206 AAAGCAAATGCAGCAGCGAGGG
66 AAAGCAAACGCAGCAGCGAGAG
* * * * *
23709228 AAGCAGAGGCAGCATCGAGAGAAGCTGAGGTTCAAAGAAAACATGAAGAACTCTAGCTACAACTT
1 AAGCAGAGGCAGCACCGAGAGAAGCTGAGGTCCAAAGAAAACATGAAGAACTCCAACCACAACTT
**
23709293 AAAGCTGACGCAGCAGCGAGAG
66 AAAGCAAACGCAGCAGCGAGAG
23709315 AAGCA
1 AAGCA
23709320 AAGGAGAAAG
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.41, C:0.21, G:0.27, T:0.11
Consensus pattern (87 bp):
AAGCAGAGGCAGCACCGAGAGAAGCTGAGGTCCAAAGAAAACATGAAGAACTCCAACCACAACTT
AAAGCAAACGCAGCAGCGAGAG
Found at i:23709723 original size:43 final size:43
Alignment explanation
Indices: 23709670--23709865 Score: 320
Period size: 43 Copynumber: 4.6 Consensus size: 43
23709660 AAAAGTGCCA
23709670 CTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCACCG
1 CTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCACCG
**
23709713 CTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGTGCCG
1 CTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCACCG
23709756 CTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCACCG
1 CTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCACCG
* * *
23709799 CTAAAGGTCATGATCTGTAGCGGTGTTTGTGGGAGAAGCACCG
1 CTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCACCG
* * *
23709842 CTAAAGGTCATGACCTTTAGCGGC
1 CTAAAAGTCATGATCTATAGCGGC
23709866 ATTTTTGTAA
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
CTAAAAGTCATGATCTATAGCGGCGTTTGTGGGAGAAGCACCG
Found at i:23710470 original size:18 final size:18
Alignment explanation
Indices: 23710449--23710491 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23710439 TTAATTAGCC
*
23710449 ATTTTTATTTTTATTATA
1 ATTTTTATTTTTAGTATA
* *
23710467 ATTTTTGTTTTTAGTGTA
1 ATTTTTATTTTTAGTATA
23710485 ATTTTTA
1 ATTTTTA
23710492 CATTCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
ATTTTTATTTTTAGTATA
Found at i:23711562 original size:18 final size:18
Alignment explanation
Indices: 23711531--23711568 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23711521 GGAGGTGGAA
* *
23711531 TAAATTATCGAGAATATT
1 TAAATAATCCAGAATATT
23711549 TAAATAATCCAGAATATT
1 TAAATAATCCAGAATATT
23711567 TA
1 TA
23711569 CCCTTTGGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (18 bp):
TAAATAATCCAGAATATT
Found at i:23716569 original size:13 final size:13
Alignment explanation
Indices: 23716550--23716603 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
23716540 CTTTTACCCC
23716550 TTATTTTTATTTTA
1 TTATTTTTA-TTTA
23716564 TT-TTTTTATTTA
1 TTATTTTTATTTA
* *
23716576 TTGTCTTTATTTA
1 TTATTTTTATTTA
23716589 TTATTTCTT-TTTA
1 TTATTT-TTATTTA
23716602 TT
1 TT
23716604 TTAGCCTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 6 0.17
13 25 0.71
14 4 0.11
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.78
Consensus pattern (13 bp):
TTATTTTTATTTA
Found at i:23716781 original size:19 final size:18
Alignment explanation
Indices: 23716735--23716781 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
23716725 TGCTTAATTG
23716735 TTTTCTT-TTATTGCTTT
1 TTTTCTTATTATTGCTTT
*
23716752 TGTTT-TTATTATTTCTTT
1 T-TTTCTTATTATTGCTTT
23716770 ATTTTCTTATTA
1 -TTTTCTTATTA
23716782 CTTTTCTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.12
18 15 0.60
19 7 0.28
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (18 bp):
TTTTCTTATTATTGCTTT
Found at i:23717989 original size:20 final size:20
Alignment explanation
Indices: 23717961--23718003 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
23717951 ACCCATATGA
23717961 GGATGATTGAGCGACTTCAT
1 GGATGATTGAGCGACTTCAT
*
23717981 GGATTATTGAGCGACTTCAT
1 GGATGATTGAGCGACTTCAT
23718001 GGA
1 GGA
23718004 GTGGATCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (20 bp):
GGATGATTGAGCGACTTCAT
Found at i:23718359 original size:12 final size:11
Alignment explanation
Indices: 23718312--23718363 Score: 61
Period size: 11 Copynumber: 4.7 Consensus size: 11
23718302 ATTAAGTTTA
*
23718312 TTTATTTTCTT
1 TTTATTTTATT
*
23718323 TTTAGTTT-TT
1 TTTATTTTATT
*
23718333 TTTATTTTATG
1 TTTATTTTATT
23718344 TTTATGTTTATT
1 TTTAT-TTTATT
23718356 TTTATTTT
1 TTTATTTT
23718364 TAGTTGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.26
11 16 0.46
12 10 0.29
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:23723980 original size:22 final size:23
Alignment explanation
Indices: 23723937--23724005 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
23723927 GATGATGCAT
23723937 AAAATAAATAATATTGAAAAATTTG
1 AAAATAAATAATATT--AAAATTTG
* *
23723962 AAAATAAATAATATTAAATTTTT
1 AAAATAAATAATATTAAAATTTG
* *
23723985 AAATATAATTAA-ATTATAATT
1 AAA-ATAAATAATATTAAAATT
23724006 ATAATTATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 16 0.42
24 7 0.18
25 15 0.39
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (23 bp):
AAAATAAATAATATTAAAATTTG
Found at i:23724010 original size:17 final size:18
Alignment explanation
Indices: 23723965--23724012 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
23723955 AAATTTGAAA
23723965 ATAAATA-ATATTAAATTT
1 ATAAATATA-ATTAAATTT
*
23723983 TTAAATATAATTAAA-TT
1 ATAAATATAATTAAATTT
*
23724000 ATAATTATAATTA
1 ATAAATATAATTA
23724013 TTTTTTCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 13 0.50
18 12 0.46
19 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAATATAATTAAATTT
Found at i:23725182 original size:13 final size:13
Alignment explanation
Indices: 23725164--23725197 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
23725154 GTTAATTTAA
23725164 ATTAAAATTGAAT
1 ATTAAAATTGAAT
*
23725177 ATTAAAATTTAAT
1 ATTAAAATTGAAT
*
23725190 ATAAAAAT
1 ATTAAAAT
23725198 GTGGAGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (13 bp):
ATTAAAATTGAAT
Found at i:23728130 original size:13 final size:13
Alignment explanation
Indices: 23728114--23728145 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23728104 ATCAAAAATC
23728114 ATAAATAAAAGTT
1 ATAAATAAAAGTT
*
23728127 ATAAAAAAAAGTT
1 ATAAATAAAAGTT
23728140 ATAAAT
1 ATAAAT
23728146 TTTTTTAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (13 bp):
ATAAATAAAAGTT
Found at i:23728157 original size:17 final size:19
Alignment explanation
Indices: 23728135--23728172 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
23728125 TTATAAAAAA
23728135 AAGTTAT-AAATTTTT-TT
1 AAGTTATAAAATTTTTATT
23728152 AAGTTATAAAATTTTTATT
1 AAGTTATAAAATTTTTATT
23728171 AA
1 AA
23728173 AAATTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 8 0.42
19 4 0.21
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AAGTTATAAAATTTTTATT
Found at i:23728298 original size:24 final size:24
Alignment explanation
Indices: 23728270--23728317 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
23728260 TTTTGAATAA
23728270 AAAATTTATGATTT-TAAAATTTTT
1 AAAATTT-TGATTTGTAAAATTTTT
*
23728294 AAAATTTTGTTTTGTAAAATTTTT
1 AAAATTTTGATTTGTAAAATTTTT
23728318 TTATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (24 bp):
AAAATTTTGATTTGTAAAATTTTT
Found at i:23730762 original size:26 final size:26
Alignment explanation
Indices: 23730733--23730805 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
23730723 ACTGTAAACA
*
23730733 GTAAGCTCCTCCGAGTTGAAATAATG
1 GTAAGCTCCTACGAGTTGAAATAATG
* *
23730759 GTAAGCTCCTTCGAGCTG-AATAATG
1 GTAAGCTCCTACGAGTTGAAATAATG
* *
23730784 GTAAGCTCATAAGAGTTGAAAT
1 GTAAGCTCCTACGAGTTGAAAT
23730806 CGTAACCCTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 21 0.52
26 19 0.47
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (26 bp):
GTAAGCTCCTACGAGTTGAAATAATG
Found at i:23730786 original size:25 final size:26
Alignment explanation
Indices: 23730733--23730791 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
23730723 ACTGTAAACA
*
23730733 GTAAGCTCCTCCGAGTTGAAATAATG
1 GTAAGCTCCTCCGAGCTGAAATAATG
*
23730759 GTAAGCTCCTTCGAGCTG-AATAATG
1 GTAAGCTCCTCCGAGCTGAAATAATG
23730784 GTAAGCTC
1 GTAAGCTC
23730792 ATAAGAGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 15 0.48
26 16 0.52
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (26 bp):
GTAAGCTCCTCCGAGCTGAAATAATG
Found at i:23732236 original size:22 final size:22
Alignment explanation
Indices: 23732210--23732252 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
23732200 TAATAAATAC
23732210 CCATCCAAACCCACACACCAAA
1 CCATCCAAACCCACACACCAAA
23732232 CCATCCAAACCCACACACCAA
1 CCATCCAAACCCACACACCAA
23732253 TAGTGAACGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.44, C:0.51, G:0.00, T:0.05
Consensus pattern (22 bp):
CCATCCAAACCCACACACCAAA
Found at i:23732937 original size:21 final size:21
Alignment explanation
Indices: 23732911--23732950 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
23732901 CAACAAAGCT
23732911 TCAAACCCGAATCAATAATCA
1 TCAAACCCGAATCAATAATCA
23732932 TCAAACCCGAATCAATAAT
1 TCAAACCCGAATCAATAAT
23732951 TCAGCTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.05, T:0.20
Consensus pattern (21 bp):
TCAAACCCGAATCAATAATCA
Found at i:23735021 original size:18 final size:18
Alignment explanation
Indices: 23734998--23735038 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
23734988 CAATTGATAA
23734998 AAAAATGCATAATAAA-AT
1 AAAAATGCATAA-AAATAT
*
23735016 AAAAATGTATAAAAATAT
1 AAAAATGCATAAAAATAT
23735034 AAAAA
1 AAAAA
23735039 CAAAAGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAATGCATAAAAATAT
Found at i:23738471 original size:21 final size:21
Alignment explanation
Indices: 23738443--23738496 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
23738433 ATATTGTAAT
23738443 AAAAGAAATA-AATTGAA-GAAC
1 AAAAGAAA-AGAATT-AAGGAAC
*
23738464 AAATGAAAAGAATTAAGGAAC
1 AAAAGAAAAGAATTAAGGAAC
23738485 AAAAGAAAAGAA
1 AAAAGAAAAGAA
23738497 AAGTGTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.69, C:0.04, G:0.17, T:0.11
Consensus pattern (21 bp):
AAAAGAAAAGAATTAAGGAAC
Found at i:23743577 original size:25 final size:25
Alignment explanation
Indices: 23743531--23743578 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
23743521 CTGTCATTGA
* *
23743531 TAGTATATCCTGAAGCTGCTATAGG
1 TAGTATATACTGAAGCTACTATAGG
23743556 TAGTATATACTG-AGACTACTATA
1 TAGTATATACTGAAG-CTACTATA
23743579 ATTGACTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAGCTACTATAGG
Found at i:23747337 original size:29 final size:28
Alignment explanation
Indices: 23747274--23747337 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
23747264 CCTCCCCCAT
*
23747274 CTCTAC-CGATTTTTTTTTCTTCCTTGC
1 CTCTACTCGATTTTCTTTTCTTCCTTGC
* * *
23747301 TTCTTACTCGATTTTCTTTTCTTTTCTTTC
1 CTC-TACTCGATTTTCTTTTC-TTCCTTGC
23747331 CTCTACT
1 CTCTACT
23747338 ATCAAAATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 2 0.07
28 3 0.10
29 16 0.55
30 8 0.28
ACGTcount: A:0.08, C:0.28, G:0.05, T:0.59
Consensus pattern (28 bp):
CTCTACTCGATTTTCTTTTCTTCCTTGC
Found at i:23749375 original size:5 final size:6
Alignment explanation
Indices: 23749357--23749381 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23749347 AAGCTTTTGC
23749357 AATAAA AATAAA AATAAA AATAAA A
1 AATAAA AATAAA AATAAA AATAAA A
23749382 CATTTTGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:23751086 original size:17 final size:17
Alignment explanation
Indices: 23751050--23751087 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
23751040 ATTAAATATG
*
23751050 AAAATTAAATAAATAAA
1 AAAATTAAATAAAAAAA
23751067 AAAATT-AATAAAAAATA
1 AAAATTAAATAAAAAA-A
23751084 AAAA
1 AAAA
23751088 CATAATCAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATTAAATAAAAAAA
Found at i:23751717 original size:15 final size:15
Alignment explanation
Indices: 23751697--23751731 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
23751687 ACAAACCCAC
*
23751697 CAGAATAGGACAGAG
1 CAGAATAGGACAGAA
*
23751712 CAGAATATGACAGAA
1 CAGAATAGGACAGAA
23751727 CAGAA
1 CAGAA
23751732 CAGAGTAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.26, T:0.09
Consensus pattern (15 bp):
CAGAATAGGACAGAA
Found at i:23751764 original size:18 final size:18
Alignment explanation
Indices: 23751738--23751772 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23751728 AGAACAGAGT
*
23751738 AAAGCAGAACGGAACAGC
1 AAAGCAGAACGAAACAGC
*
23751756 AAAGTAGAACGAAACAG
1 AAAGCAGAACGAAACAG
23751773 AGCAGAACTG
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:0.54, C:0.17, G:0.26, T:0.03
Consensus pattern (18 bp):
AAAGCAGAACGAAACAGC
Found at i:23757580 original size:18 final size:17
Alignment explanation
Indices: 23757547--23757584 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
23757537 TTATATAAAT
23757547 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
23757565 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
23757582 TGT
1 TGT
23757585 AGAAGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:23757842 original size:23 final size:23
Alignment explanation
Indices: 23757812--23757932 Score: 179
Period size: 23 Copynumber: 5.3 Consensus size: 23
23757802 GTGTTCTTGA
23757812 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
* * * *
23757835 TCAATGGTAGCTACGACTACATA
1 TCAGTGGTAGCTTCGGCTACATT
*
23757858 TCAGTGGTAGCTTCAGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
23757881 TTAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
23757904 TCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
23757927 TCAGTG
1 TCAGTG
23757933 TGGCACTTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 85 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:23764210 original size:20 final size:20
Alignment explanation
Indices: 23764185--23764238 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
23764175 GGATGAAATT
23764185 CTCAAATGAGCTGAATT-GAG
1 CTCAAATGAGCT-AATTGGAG
* *
23764205 CTCAAAGGAGCTAGTTGGAG
1 CTCAAATGAGCTAATTGGAG
*
23764225 CTGAAATGAGCTAA
1 CTCAAATGAGCTAA
23764239 GGGAGTTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (20 bp):
CTCAAATGAGCTAATTGGAG
Found at i:23764248 original size:19 final size:20
Alignment explanation
Indices: 23764221--23764258 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23764211 GGAGCTAGTT
23764221 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
*
23764240 GGAGTTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
23764259 AGTCAGCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.21
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:23767867 original size:18 final size:18
Alignment explanation
Indices: 23767841--23767875 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23767831 ATTACGTTTT
*
23767841 TATTTTTTATTCAATTTA
1 TATTATTTATTCAATTTA
*
23767859 TATTATTTATTTAATTT
1 TATTATTTATTCAATTT
23767876 TCATATTTAT
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:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTATTTATTCAATTTA
Found at i:23770080 original size:64 final size:62
Alignment explanation
Indices: 23769967--23770089 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 62
23769957 ATGTATAACT
* *
23769967 TGCAAGAAAACAAACATACTTAAAATAACAAAAAATGTCAAAATAACACCGACTTATTCTTTA
1 TGCAAGAAAAAAAACATACTTAAAATAACAAAAAATGTCAAAATAACACCAACTT-TTCTTTA
* * *
23770030 TGCAAGAAAAAAAATATGCTTAAAA-ACTACATAAAATG-CTAAAATAACACCAACTTTTCT
1 TGCAAGAAAAAAAACATACTTAAAATA--ACAAAAAATGTC-AAAATAACACCAACTTTTCT
23770090 AATGATTCTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
62 1 0.02
63 27 0.52
64 24 0.46
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (62 bp):
TGCAAGAAAAAAAACATACTTAAAATAACAAAAAATGTCAAAATAACACCAACTTTTCTTTA
Found at i:23778085 original size:14 final size:14
Alignment explanation
Indices: 23778068--23778095 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23778058 CGTAATTAAC
23778068 TTTTTATATATAAA
1 TTTTTATATATAAA
23778082 TTTTTATATATAAA
1 TTTTTATATATAAA
23778096 AAATATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTATATATAAA
Found at i:23778550 original size:13 final size:13
Alignment explanation
Indices: 23778534--23778575 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
23778524 AATAAATATA
23778534 TATTTTTTATTTT
1 TATTTTTTATTTT
23778547 TATTTTTTATTTTT
1 TATTTTTTA-TTTT
*
23778561 TATTTTTTAATTT
1 TATTTTTTATTTT
23778574 TA
1 TA
23778576 AAATACTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:23778554 original size:8 final size:7
Alignment explanation
Indices: 23778534--23778574 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
23778524 AATAAATATA
23778534 TATTTTT
1 TATTTTT
23778541 TA-TTTT
1 TATTTTT
23778547 TATTTTT
1 TATTTTT
23778554 TATTTTT
1 TATTTTT
23778561 TATTTTT
1 TATTTTT
23778568 TAATTTT
1 T-ATTTT
23778575 AAAATACTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.19
7 21 0.66
8 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:23778625 original size:29 final size:29
Alignment explanation
Indices: 23778582--23778640 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
23778572 TTTAAAATAC
* *
23778582 TTTTAAAATATATTTTTTTATTTTTATTT
1 TTTTAAAATATATTTTTTAATGTTTATTT
23778611 TTTTGAAAATA-ATTTTTTAATGTTTATTT
1 TTTT-AAAATATATTTTTTAATGTTTATTT
23778640 T
1 T
23778641 AAAAATGGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTTAAAATATATTTTTTAATGTTTATTT
Found at i:23785480 original size:25 final size:25
Alignment explanation
Indices: 23785452--23785534 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 25
23785442 TTTTTAAGTG
23785452 GTATTATTGTGTTTTGCATGCTTTT
1 GTATTATTGTGTTTTGCATGCTTTT
* * * **
23785477 GTA-TATAT-TATTGTGATATTATTTT
1 GTATTAT-TGTGTTTTG-CATGCTTTT
* *
23785502 ATTATTATTGTGATTTGCATGCTTTT
1 -GTATTATTGTGTTTTGCATGCTTTT
23785528 GTATTAT
1 GTATTAT
23785535 ATTTATGTAT
Statistics
Matches: 40, Mismatches: 13, Indels: 10
0.63 0.21 0.16
Matches are distributed among these distances:
24 8 0.20
25 16 0.40
26 9 0.22
27 7 0.17
ACGTcount: A:0.20, C:0.05, G:0.16, T:0.59
Consensus pattern (25 bp):
GTATTATTGTGTTTTGCATGCTTTT
Found at i:23789893 original size:13 final size:13
Alignment explanation
Indices: 23789875--23789899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23789865 AATCACTCTG
23789875 TAAATATTTATGT
1 TAAATATTTATGT
23789888 TAAATATTTATG
1 TAAATATTTATG
23789900 GGCTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
TAAATATTTATGT
Found at i:23794980 original size:19 final size:19
Alignment explanation
Indices: 23794958--23794995 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
23794948 ATTCTTTCCC
*
23794958 TTTTTCCTTTTCTT-TTAT
1 TTTTTTCTTTTCTTCTTAT
23794976 TTTTTTCTTTTCTTCTTAT
1 TTTTTTCTTTTCTTCTTAT
23794995 T
1 T
23794996 CTCCTCCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTCTTTTCTTCTTAT
Found at i:23798265 original size:7 final size:7
Alignment explanation
Indices: 23798253--23798283 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
23798243 GAGGGAGCAT
23798253 GGGAGTG
1 GGGAGTG
23798260 GGGAGTG
1 GGGAGTG
23798267 GGGAGTG
1 GGGAGTG
23798274 GGGAGTG
1 GGGAGTG
23798281 GGG
1 GGG
23798284 TCAAACTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.74, T:0.13
Consensus pattern (7 bp):
GGGAGTG
Found at i:23801049 original size:38 final size:40
Alignment explanation
Indices: 23800990--23801071 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
23800980 AAAAAAAACT
*
23800990 AAAACTATTTTTTTATATTTTAT-AA-TTTTAAATTTTTA
1 AAAACTATTTTTTTATATTTTATGAATTTTTAAATTTTAA
*
23801028 AAAAC-ATTTTTTATATTTTTTATGAATTTTTAAATTTTAA
1 AAAACTATTTTTT-TATATTTTATGAATTTTTAAATTTTAA
23801068 AAAA
1 AAAA
23801072 TTAATTAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
37 7 0.18
38 14 0.36
39 2 0.05
40 16 0.41
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.56
Consensus pattern (40 bp):
AAAACTATTTTTTTATATTTTATGAATTTTTAAATTTTAA
Done.