Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 58 of 313
Found at i:19494319 original size:30 final size:30
Alignment explanation
Indices: 19494283--19494342 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
19494273 TATCGTATCT
*
19494283 TGGGTTTCTTTAT-TCTGAATTTCTTTATTC
1 TGGGTTTCTCTATCT-TGAATTTCTTTATTC
19494313 TGGGTTTCTCTATCTTGAATTTCTTTATTC
1 TGGGTTTCTCTATCTTGAATTTCTTTATTC
19494343 GATTTTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.13, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGAATTTCTTTATTC
Found at i:19496822 original size:46 final size:44
Alignment explanation
Indices: 19496766--19497034 Score: 195
Period size: 46 Copynumber: 5.8 Consensus size: 44
19496756 TATTTGGGCC
* *
19496766 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCCAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACG
* * * *
19496812 TCCTAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAAC---G
*
19496857 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATG-GAACG
* * * * * *
19496905 TACGAACTCGTTGAGTCGAGTCCAAGTTCGTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAAC---G
* ** *
19496950 CATCCGAGCTCGTTGAGTTGAGTCTAAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGAT-GGAACG
*
19496998 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGG
19497035 GCGGGTTACA
Statistics
Matches: 178, Mismatches: 27, Indels: 36
0.74 0.11 0.15
Matches are distributed among these distances:
42 6 0.03
43 8 0.04
45 6 0.03
46 87 0.49
47 52 0.29
48 6 0.03
50 7 0.04
51 6 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGGAACG
Found at i:19496887 original size:47 final size:47
Alignment explanation
Indices: 19496818--19496973 Score: 187
Period size: 47 Copynumber: 3.3 Consensus size: 47
19496808 AACGTCCTAA
19496818 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
* * * *
19496865 CTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGTGAAC---G--TACGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCCGAG
* *
19496911 CTCGTTGAGTCGAGTCCAAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
19496958 CTCGTTGAGTTGAGTC
1 CTCGTTGAGTTGAGTC
19496974 TAAGTTCACT
Statistics
Matches: 89, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 5 0.06
45 3 0.03
46 25 0.28
47 42 0.47
48 3 0.03
50 5 0.06
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.29
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
Found at i:19496926 original size:93 final size:93
Alignment explanation
Indices: 19496766--19497027 Score: 407
Period size: 93 Copynumber: 2.8 Consensus size: 93
19496756 TATTTGGGCC
* * * *
19496766 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAATTATGGATGCCAACGTCCTAACTCGTTGAGTTGA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
19496831 GTCCGAGTTCGTGAGATGTAACTAGGCA
66 GTCCGAGTTCGTGAGATGTAACTAGGCA
* * * *
19496859 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTATGGATGTGAACGTACGAACTCGTTGAGTCGA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
*
19496924 GTCCAAGTTCGTGAGATGTAACTAGGCA
66 GTCCGAGTTCGTGAGATGTAACTAGGCA
** * *
19496952 TCCGAGCTCGTTGAGTTGAGTCTAAGTTCACTTATGGATACGAACGTCCGAGCTCGTTGAGTTGA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
19497017 GTCCGAGTTCG
66 GTCCGAGTTCG
19497028 CTTATGGGCG
Statistics
Matches: 151, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 151 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGAGATGTAACTAGGCA
Found at i:19500408 original size:43 final size:43
Alignment explanation
Indices: 19500219--19500411 Score: 233
Period size: 43 Copynumber: 4.5 Consensus size: 43
19500209 TATTTTTAAA
* * * * *
19500219 AAACGCCGCTAAACGTCATGGCCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAAGCCGTGACCTTTAGCGGCGCTTTTCCCAC
* * * * * * *
19500262 AAACGCCGCTAAAGGTCATGGCCTTTAGCGACACTGTTCCCAC
1 AAACGCCGCTAAAAGCCGTGACCTTTAGCGGCGCTTTTCCCAC
* * *
19500305 AAACGCCGCTAAAAGCCGTAACCTTTAGCAGCGTTTTTCCCAC
1 AAACGCCGCTAAAAGCCGTGACCTTTAGCGGCGCTTTTCCCAC
* *
19500348 AAACACCGTTAAAAGCCGTGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAAGCCGTGACCTTTAGCGGCGCTTTTCCCAC
19500391 AAACGCCGCTAAAAGCCGTGA
1 AAACGCCGCTAAAAGCCGTGA
19500412 AATTTAAAAA
Statistics
Matches: 128, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 128 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAAGCCGTGACCTTTAGCGGCGCTTTTCCCAC
Found at i:19500709 original size:31 final size:30
Alignment explanation
Indices: 19500665--19500753 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 30
19500655 TCAATTTATT
19500665 AAATATTAAAATAAAAATAAAAATATAGAATC
1 AAATA-TAAAATAAAAATAAAAATATAG-ATC
*
19500697 AAA-ACTAAAATAAATAATAAAAAT-TAGATT
1 AAATA-TAAAATAAA-AATAAAAATATAGATC
*
19500727 AAATATAAAGATATAAAT-AAAATATAG
1 AAATATAAA-ATAAAAATAAAAATATAG
19500754 CAAGTCTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
29 5 0.10
30 15 0.30
31 18 0.36
32 12 0.24
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.26
Consensus pattern (30 bp):
AAATATAAAATAAAAATAAAAATATAGATC
Found at i:19500719 original size:19 final size:19
Alignment explanation
Indices: 19500674--19500720 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
19500664 TAAATATTAA
*
19500674 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
19500693 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
19500712 AATAAAAAT
1 AATAAAAAT
19500721 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:19504202 original size:25 final size:26
Alignment explanation
Indices: 19504174--19504226 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
19504164 ATACACAGAT
*
19504174 AAATAGAC-AGAAAATGAAAGTAGCA
1 AAATAGACAAAAAAATGAAAGTAGCA
19504199 AAATAGACAAAAAAATGAAAGTAGCA
1 AAATAGACAAAAAAATGAAAGTAGCA
19504225 AA
1 AA
19504227 CTGTTATGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.64, C:0.08, G:0.17, T:0.11
Consensus pattern (26 bp):
AAATAGACAAAAAAATGAAAGTAGCA
Found at i:19504964 original size:21 final size:22
Alignment explanation
Indices: 19504940--19504980 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
19504930 TTCTTTTCTA
19504940 TTTCGGCCGATTTGC-TCATAG
1 TTTCGGCCGATTTGCGTCATAG
*
19504961 TTTCTGCCGATTTGCGTCAT
1 TTTCGGCCGATTTGCGTCAT
19504981 CGGTTAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.12, C:0.24, G:0.22, T:0.41
Consensus pattern (22 bp):
TTTCGGCCGATTTGCGTCATAG
Found at i:19507401 original size:86 final size:86
Alignment explanation
Indices: 19507311--19507491 Score: 355
Period size: 86 Copynumber: 2.1 Consensus size: 86
19507301 AATATAATTG
19507311 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
19507376 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
19507397 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
1 TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
19507462 TGTTAAGTATTAATGTTGATA
66 TGTTAAGTATTAATGTTGATA
19507483 TAATT-TTAT
1 TAATTATTAT
19507492 GTGGAGAGAA
Statistics
Matches: 95, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 4 0.04
86 91 0.96
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (86 bp):
TAATTATTATAATTTTTATCTTTAATATTAATAATTTGAAATTAATAATAAACATGAAACCTGTT
TGTTAAGTATTAATGTTGATA
Found at i:19507633 original size:51 final size:51
Alignment explanation
Indices: 19507558--19507711 Score: 276
Period size: 51 Copynumber: 3.0 Consensus size: 51
19507548 TATACGTAAA
19507558 AATTAT-CATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
19507608 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
*
19507659 AATTATACATACACCAACAATATTTTTTAGGG-ACAATAACATTAAACCAAC
1 AATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAAC
19507710 AA
1 AA
19507712 GTAATTTTAG
Statistics
Matches: 101, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
50 7 0.07
51 94 0.93
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (51 bp):
AATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAAC
Found at i:19507720 original size:33 final size:34
Alignment explanation
Indices: 19507657--19507767 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
19507647 CATTAAACCA
* *
19507657 ACAATTATACATACACCAACAA-TATTTTTTAGGG
1 ACAATTATACATAAACCAACAAGTA-ATTTTAGGG
19507691 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
19507723 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
19507756 TCAATTATACAT
1 ACAATTATACAT
19507768 GCTTTATAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
32 8 0.12
33 51 0.75
34 9 0.13
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:19520838 original size:20 final size:20
Alignment explanation
Indices: 19520813--19520856 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
19520803 AATAAAAAAC
19520813 TATATATATATATTGCAAAG
1 TATATATATATATTGCAAAG
19520833 TATATATATATATTGCAAAG
1 TATATATATATATTGCAAAG
19520853 TATA
1 TATA
19520857 AATCCTGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (20 bp):
TATATATATATATTGCAAAG
Found at i:19521490 original size:17 final size:16
Alignment explanation
Indices: 19521464--19521496 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
19521454 TTAGTATTAA
19521464 AAAAATTATAAAAAAT
1 AAAAATTATAAAAAAT
19521480 AAAAATATATAAAAAAT
1 AAAAAT-TATAAAAAAT
19521497 TGATCAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAATTATAAAAAAT
Found at i:19523008 original size:29 final size:28
Alignment explanation
Indices: 19522968--19523041 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
19522958 TCTAAGAATT
*
19522968 AAAATTACATTTTTAAATA-AAAAAGTAA
1 AAAATTAAATTTTTAAATATAAAAA-TAA
19522996 ATAAATTAAATTTCTTAAA-ATAAAAATAA
1 A-AAATTAAATTT-TTAAATATAAAAATAA
19523025 AAAATTAAA-TTTTAAAT
1 AAAATTAAATTTTTAAAT
19523042 GCACAAATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
26 5 0.12
27 2 0.05
28 9 0.22
29 15 0.37
30 10 0.24
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAATTAAATTTTTAAATATAAAAATAA
Found at i:19526638 original size:24 final size:22
Alignment explanation
Indices: 19526611--19526665 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 22
19526601 TTGAGAAACA
*
19526611 TTTATTTTAATATTTTTAAGTATT
1 TTTATTTT-ATATTTTTAA-AATT
19526635 TTTATGTATTATATTTTTAAAATT
1 TTTAT-T-TTATATTTTTAAAATT
19526659 TTTATTT
1 TTTATTT
19526666 AAGAAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 1 0.04
23 1 0.04
24 13 0.46
25 11 0.39
26 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATTTTATATTTTTAAAATT
Found at i:19529168 original size:80 final size:80
Alignment explanation
Indices: 19529035--19529197 Score: 317
Period size: 80 Copynumber: 2.0 Consensus size: 80
19529025 AGTCTGCTGG
19529035 ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATCTTTGACGATAGTTAGGAGCT
1 ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATCTTTGACGATAGTTAGGAGCT
19529100 TGAATTATGAATTTA
66 TGAATTATGAATTTA
*
19529115 ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATTTTTGACGATAGTTAGGAGCT
1 ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATCTTTGACGATAGTTAGGAGCT
19529180 TGAATTATGAATTTA
66 TGAATTATGAATTTA
19529195 ATT
1 ATT
19529198 TTTGTTAAAT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 82 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (80 bp):
ATTGCTTGGGAGACCTCAGGTAAACAAACAAATAAAATGAGAATCTTTGACGATAGTTAGGAGCT
TGAATTATGAATTTA
Found at i:19546711 original size:15 final size:16
Alignment explanation
Indices: 19546691--19546721 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
19546681 GTAAGGACAG
19546691 CATACATT-ACATATA
1 CATACATTCACATATA
19546706 CATACATTCACATATA
1 CATACATTCACATATA
19546722 TGTTTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (16 bp):
CATACATTCACATATA
Found at i:19552183 original size:87 final size:87
Alignment explanation
Indices: 19552067--19552228 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
19552057 AGACTTGATG
* * * * *
19552067 CGATCTACTCTGCTGTAACCTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAACT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACC
19552131 TCAGGGAGATAGGATAGTGTCTT
65 TCAGGGAGATAGGATAGTGTCTT
* * * * *
19552154 CGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
19552219 CAGGGAGATA
66 CAGGGAGATA
19552229 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 63 0.98
88 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
CGATCTACTCCGCTGTAACCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
CAGGGAGATAGGATAGTGTCTT
Found at i:19552418 original size:214 final size:214
Alignment explanation
Indices: 19552028--19552495 Score: 697
Period size: 214 Copynumber: 2.2 Consensus size: 214
19552018 GTTGTTTTCA
* * * * *
19552028 GTCTATTCCACTGCATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* * *
19552093 AGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGAT
66 AGATAAGATCC----TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGAT
19552158 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
127 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGG
19552223 GAGATAAGATCTGAAATTCTCCG
192 GAGATAAGATCTGAAATTCTCCG
* * * *
19552246 GTCTACTCCACTGTAACCTCAGGGAAATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
* *
19552311 AGATAAGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCT
66 AGATAAGATCCTTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCT
19552374 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
129 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
**
19552439 GATAAGATCTGAAATTCTTTG
194 GATAAGATCTGAAATTCTCCG
* * *
19552460 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
1 GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTG
19552496 TATAATAAAC
Statistics
Matches: 228, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
212 1 0.00
213 32 0.14
214 128 0.56
218 67 0.29
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (214 bp):
GTCTATTCCACTGTAACCTCAGGGAAATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCCTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGC
TCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGA
TAAGATCTGAAATTCTCCG
Found at i:19552487 original size:46 final size:44
Alignment explanation
Indices: 19552079--19552491 Score: 257
Period size: 44 Copynumber: 9.5 Consensus size: 44
19552069 ATCTACTCTG
* * * * * *
19552079 CTGTAACCTCAGAGAGATAAGATCCTTTAT-TTTAATCCGCTCCA
1 CTGTAATCTCAGGGAGATAAGAT-CTATGTCTTTGATCTGCTCCA
* * *
19552123 CTGTAA-CTTCAGGGAGATAGGA--TAGTGTCTTCGATCTGCTCCG
1 CTGTAATC-TCAGGGAGATAAGATCTA-TGTCTTTGATCTGCTCCA
* * **
19552166 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* ** * *
19552210 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTCCGGTCTACTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATGTCTTTGATCTGCTCCA
* * * * *
19552256 CTGTAACCTCAGGGAAATAAGACCTGATG----TGATCTTCTCTA
1 CTGTAATCTCAGGGAGATAAGATCT-ATGTCTTTGATCTGCTCCA
* * *
19552297 CTGTAA-CTTCAGAGAGATAAGATC-----CTTTAATCCGCTCCA
1 CTGTAATC-TCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* * * * *
19552336 TTGTAATCTCAAGGAGATAGGAT-TACTATCTTTGATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCTA-TGTCTTTGATCTGCTCCA
* * **
19552380 CTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCA
1 CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
* * *
19552424 CTGTAACCTCAGGGAGATAAGATCTGAAAT-TCTTTGGTCTGTTCCA
1 CTGTAATCTCAGGGAGATAAGATCT---ATGTCTTTGATCTGCTCCA
19552470 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
19552492 CCTGTATAAT
Statistics
Matches: 286, Mismatches: 58, Indels: 48
0.73 0.15 0.12
Matches are distributed among these distances:
39 25 0.09
40 2 0.01
41 28 0.10
42 2 0.01
43 30 0.10
44 129 0.45
45 2 0.01
46 66 0.23
47 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGTAATCTCAGGGAGATAAGATCTATGTCTTTGATCTGCTCCA
Found at i:19561276 original size:61 final size:61
Alignment explanation
Indices: 19561178--19561297 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 61
19561168 AGCCTGAACT
* * *
19561178 GCTAGAGTTTGCAAATGATCAGCTACTTCGCGTACTTGAGTCACTGCTTCTCCCATAATCC
1 GCTAGAGTTTGCAAATGATCAGCTACTTCGCGCACTTGAGTCACCGCCTCTCCCATAATCC
* *
19561239 GCTAGAGTTTGCAGATGATCGGCTACTTCGCGCACTTGAGTCACCGCCTCTCCCATAAT
1 GCTAGAGTTTGCAAATGATCAGCTACTTCGCGCACTTGAGTCACCGCCTCTCCCATAAT
19561298 ATAATCTCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (61 bp):
GCTAGAGTTTGCAAATGATCAGCTACTTCGCGCACTTGAGTCACCGCCTCTCCCATAATCC
Found at i:19569473 original size:53 final size:53
Alignment explanation
Indices: 19569393--19569498 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
19569383 TGGGTACACG
*
19569393 AGGCACTTCGGTCGCCAGTGTTGGGAATGAACGTCGAGACAGAACGGAATGCC
1 AGGCACTTCGGTCGCCAGTGTTGGGAATGAACGTCGAGACAGAACGAAATGCC
*
19569446 AGGCACTTCGGTCGCCAGTGTTGGGAATGAATGTCGAGACAGAACGAAATGCC
1 AGGCACTTCGGTCGCCAGTGTTGGGAATGAACGTCGAGACAGAACGAAATGCC
19569499 GATATTGCGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.27, C:0.22, G:0.33, T:0.18
Consensus pattern (53 bp):
AGGCACTTCGGTCGCCAGTGTTGGGAATGAACGTCGAGACAGAACGAAATGCC
Found at i:19578665 original size:22 final size:24
Alignment explanation
Indices: 19578631--19578674 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
19578621 ATTGGTTTGG
*
19578631 TTTGAGATGATGATATA-ATGAGT
1 TTTGAGATGATGAAATAGATGAGT
*
19578654 TTTGTGAT-ATGAAATAGATGA
1 TTTGAGATGATGAAATAGATGA
19578675 TATTATGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (24 bp):
TTTGAGATGATGAAATAGATGAGT
Found at i:19584088 original size:58 final size:59
Alignment explanation
Indices: 19583953--19584107 Score: 152
Period size: 58 Copynumber: 2.7 Consensus size: 59
19583943 AATAATACTA
* * * * * *
19583953 CATATGTTGCAGATAGAATTTAGCCCAGACGGGTAAT-TCTAATGTAAGCCCACTTGAG
1 CATATGCTACAGATAGGATTTAGCCCAGACGGGTAATCCCAAATGTAAGCCCACTAGAG
* * * * * *
19584011 CTTATGTTATAGATTGGATTTAGCCCAGACGGGTAATCCCAAAT-TAAGCTCTCTAGAG
1 CATATGCTACAGATAGGATTTAGCCCAGACGGGTAATCCCAAATGTAAGCCCACTAGAG
* ** *
19584069 CATATGCTACGGATAGGATTTAGCCTGGACTGGTAATCC
1 CATATGCTACAGATAGGATTTAGCCCAGACGGGTAATCC
19584108 TACTGTAAAA
Statistics
Matches: 78, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
58 74 0.95
59 4 0.05
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (59 bp):
CATATGCTACAGATAGGATTTAGCCCAGACGGGTAATCCCAAATGTAAGCCCACTAGAG
Found at i:19588568 original size:40 final size:40
Alignment explanation
Indices: 19588470--19588812 Score: 424
Period size: 40 Copynumber: 8.6 Consensus size: 40
19588460 TCCTCGTTCA
* * * * *
19588470 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
19588509 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19588549 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19588589 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
19588629 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
19588669 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
19588709 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
19588749 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
19588789 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19588813 CAGCATTCAA
Statistics
Matches: 275, Mismatches: 23, Indels: 11
0.89 0.07 0.04
Matches are distributed among these distances:
39 39 0.14
40 224 0.81
41 12 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:19588821 original size:41 final size:41
Alignment explanation
Indices: 19588744--19588821 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
19588734 TTTGTATCTC
* * *
19588744 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
19588785 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
19588822 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:19593303 original size:300 final size:300
Alignment explanation
Indices: 19592761--19593356 Score: 1030
Period size: 300 Copynumber: 2.0 Consensus size: 300
19592751 GTGACCGTAC
* *
19592761 CTCGTTCTGAAAGCAGTTTTGGGTACGTCTGAATCTCGAATCCGCAACTGATAATAACCCGATCT
1 CTCGTTCTGAAAGCAGTTTTGGGAACATCTGAATCTCGAATCCGCAACTGATAATAACCCGATCT
* *
19592826 CAAATCTATTTTTGAGAACACTGAGGCCCCCTTTAGTTGATCAAACAAATCATCGATACGCGGTA
66 CAAATCTATTTTTGAGAACACTGAGGCCCCCTTCAGTTGATCAAACAAATCATCGATACGCGGCA
** * *
19592891 GTGGGTATTTATTCTTTATCGTCACTTTATTCAGTTGACGATAGTCAATGCACAACCTCATGGTT
131 ACGGATATTTATTCTTTATCGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTT
19592956 CCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCGAAACC
196 CCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCGAAACC
19593021 TCTATCCGTCAGTTCTTGCAACTAAGCTTTCAACTCATAT
261 TCTATCCGTCAGTTCTTGCAACTAAGCTTTCAACTCATAT
* * * * *
19593061 CTCGTTCTGAAGGCAGTTTTGGGAATATCTGAATCTCGAATTCGCAACTGATAATAGCCTGATCT
1 CTCGTTCTGAAAGCAGTTTTGGGAACATCTGAATCTCGAATCCGCAACTGATAATAACCCGATCT
* * * *
19593126 CAAATCTATTTTTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATGCGCGGCA
66 CAAATCTATTTTTGAGAACACTGAGGCCCCCTTCAGTTGATCAAACAAATCATCGATACGCGGCA
*
19593191 ACGGATATTTGTTCTTTATCGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTT
131 ACGGATATTTATTCTTTATCGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTT
19593256 CCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCGAAACC
196 CCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCGAAACC
19593321 TCTATCCGTCAGTTCTTGCAACTAAGCTTTCAACTC
261 TCTATCCGTCAGTTCTTGCAACTAAGCTTTCAACTC
19593357 CTTTAACTCA
Statistics
Matches: 278, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
300 278 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (300 bp):
CTCGTTCTGAAAGCAGTTTTGGGAACATCTGAATCTCGAATCCGCAACTGATAATAACCCGATCT
CAAATCTATTTTTGAGAACACTGAGGCCCCCTTCAGTTGATCAAACAAATCATCGATACGCGGCA
ACGGATATTTATTCTTTATCGTCACTTTATTCAGCTGACGATAGTCAATGCACAACCTCATGGTT
CCGTCCTTCTTTTTCACGAACAATACTGGTGCACCCCAAGGTGAGAAACTTGGTCGAGCGAAACC
TCTATCCGTCAGTTCTTGCAACTAAGCTTTCAACTCATAT
Found at i:19596753 original size:40 final size:40
Alignment explanation
Indices: 19596610--19596793 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
19596600 TAACTCATAC
* * *
19596610 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTTGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
19596650 AATGCCTTCGGGACTTAACTCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
19596690 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
19596730 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
19596771 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19596794 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 102 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:19596777 original size:80 final size:79
Alignment explanation
Indices: 19596608--19596793 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 79
19596598 AGTAACTCAT
* * * *
19596608 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTTGCACGAATGCCTTCGGGACTTAACTCGG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACTCGG
*
19596673 AATTAGTATCTCGC
66 AATTAGTATCTAGC
*
19596687 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTT-AGT
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGGA-CTTAACT
19596749 CCGG-ATATAGTCA-CTTAGC
63 -CGGAAT-TAGT-ATC-TAGC
*
19596768 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
19596794 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
79 15 0.16
80 69 0.74
81 9 0.10
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGGACTTAACTCGG
AATTAGTATCTAGC
Found at i:19601062 original size:15 final size:15
Alignment explanation
Indices: 19601042--19601079 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
19601032 CAAGAAAACC
19601042 GAATAAAGA-ATTCCA
1 GAATAAAGAGA-TCCA
19601057 GAATAAAGAGATCCA
1 GAATAAAGAGATCCA
*
19601072 GGATAAAG
1 GAATAAAG
19601080 CAACCCAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 20 0.95
16 1 0.05
ACGTcount: A:0.53, C:0.11, G:0.21, T:0.16
Consensus pattern (15 bp):
GAATAAAGAGATCCA
Found at i:19604144 original size:93 final size:93
Alignment explanation
Indices: 19604032--19604946 Score: 1785
Period size: 93 Copynumber: 9.8 Consensus size: 93
19604022 GCCCATAAGT
* * * *
19604032 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604097 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604125 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604190 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604218 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604283 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604311 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604376 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604404 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604469 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604497 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604562 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604590 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604655 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604683 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604748 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604776 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
19604841 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
19604869 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
19604934 CGAGTTCGGATGC
66 CGAGCTCGGATGC
19604947 TCAACCATCC
Statistics
Matches: 817, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 817 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:19605686 original size:116 final size:116
Alignment explanation
Indices: 19605481--19605703 Score: 401
Period size: 116 Copynumber: 1.9 Consensus size: 116
19605471 TGCTGATCAT
19605481 TTTCCCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTATGACTATTACGTATTTTTA
1 TTTCCCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTATGACTATTACGTATTTTTA
*
19605546 CCGATTAAGCCCTTTTGCTCGTTTTCACTTAAAACCGAGTAGTCCGTAAAA
66 CCGATTAAGCCCTTTTGCTAGTTTTCACTTAAAACCGAGTAGTCCGTAAAA
*
19605597 TTTCCCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTATGACTATTAGGTATTTTTA
1 TTTCCCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTATGACTATTACGTATTTTTA
* * *
19605662 CCGATTAAGCCCTTTTTCTAGTTTTCGCTTAAAACTGAGTAG
66 CCGATTAAGCCCTTTTGCTAGTTTTCACTTAAAACCGAGTAG
19605704 CACAAGTTGT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 102 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.39
Consensus pattern (116 bp):
TTTCCCTTCTATGGCAACATCAAATTCTCACTCTAACATGTACTTATGACTATTACGTATTTTTA
CCGATTAAGCCCTTTTGCTAGTTTTCACTTAAAACCGAGTAGTCCGTAAAA
Found at i:19606103 original size:64 final size:64
Alignment explanation
Indices: 19606029--19606152 Score: 248
Period size: 64 Copynumber: 1.9 Consensus size: 64
19606019 AATGCCCTTA
19606029 CTACTAAACTTTCCAAAAATTCCATCAATGTCCAATTTTTTTCCATAGACTTAGAAATTGGTAC
1 CTACTAAACTTTCCAAAAATTCCATCAATGTCCAATTTTTTTCCATAGACTTAGAAATTGGTAC
19606093 CTACTAAACTTTCCAAAAATTCCATCAATGTCCAATTTTTTTCCATAGACTTAGAAATTG
1 CTACTAAACTTTCCAAAAATTCCATCAATGTCCAATTTTTTTCCATAGACTTAGAAATTG
19606153 NNNNNNNNNN
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (64 bp):
CTACTAAACTTTCCAAAAATTCCATCAATGTCCAATTTTTTTCCATAGACTTAGAAATTGGTAC
Found at i:19609429 original size:43 final size:43
Alignment explanation
Indices: 19609329--19609500 Score: 183
Period size: 43 Copynumber: 4.0 Consensus size: 43
19609319 TCGAAATGTG
* * * *
19609329 ATATTCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATA
1 ATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATA
19609370 ATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATA
1 ATA-T-TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA-ATA
* *
19609416 ATATT-GGGCTTCGGGCCTAGCATGCTATAATGCCGGTGAAATG
1 ATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-AATA
** * *
19609459 ATA-TCGGGCTTCAAGCCTAGCTGGC-AAAATGCCGGTGAATA
1 ATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATA
19609500 A
1 A
19609501 GTTCAGACTT
Statistics
Matches: 112, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
41 7 0.06
42 13 0.12
43 61 0.54
44 17 0.15
45 8 0.07
46 6 0.05
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (43 bp):
ATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATA
Found at i:19609578 original size:40 final size:41
Alignment explanation
Indices: 19609387--19609577 Score: 147
Period size: 43 Copynumber: 4.6 Consensus size: 41
19609377 CGGGCTTCGG
* ***
19609387 GCCTAGCAGGCTATAATGCCGGTGAGAT-AATATTGGGCTTCGG
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCGGGCTTAAA
* *
19609430 GCCTAGCATGCTATAATGCCGGTGAAATG-ATATCGGGCTTCAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCGGGCTTAAA
* * * *
19609473 GCCTAGCTGGCAAAATGCCGGTGAAT-AAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAA-TTCGGGCTTAAA
* *** *
19609514 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCGGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
*
19609554 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
19609578 TTTGATAAAA
Statistics
Matches: 118, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
40 29 0.25
41 31 0.26
42 11 0.09
43 46 0.39
44 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCGGGCTTAAA
Found at i:19614385 original size:11 final size:10
Alignment explanation
Indices: 19614353--19614398 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
19614343 CATGAGATTT
19614353 TGATAT-ACA
1 TGATATGACA
*
19614362 TGATTTGACA
1 TGATATGACA
19614372 TGATATGCACA
1 TGATATG-ACA
*
19614383 TGATATG-TA
1 TGATATGACA
19614392 TGATATG
1 TGATATG
19614399 CGCATGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:19622345 original size:11 final size:10
Alignment explanation
Indices: 19622313--19622358 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
19622303 CATGAGATTT
19622313 TGATAT-ACA
1 TGATATGACA
*
19622322 TGATTTGACA
1 TGATATGACA
19622332 TGATATGCACA
1 TGATATG-ACA
*
19622343 TGATATG-TA
1 TGATATGACA
19622352 TGATATG
1 TGATATG
19622359 CGCATGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:19626701 original size:44 final size:43
Alignment explanation
Indices: 19626651--19626763 Score: 115
Period size: 43 Copynumber: 2.6 Consensus size: 43
19626641 TTCGAGCCTC
* * *
19626651 GGCCTAGCAAGCTTTAA-GCTGGTGAATAAT-ATTATCGGGCTTCG
1 GGCCTAGCAAGCTATAATGCCGGTG-A-AATGA-TATCGGGCTTCA
*
19626695 GGCCTAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTCA
1 GGCCTAGCAAGCTATAATGCCGGTGAAATGATATCGGGCTTCA
* * *
19626738 AGCCTAGCAGGCGA-AATGCCGGTGAA
1 GGCCTAGCAAGCTATAATGCCGGTGAA
19626764 TGAGTTCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
42 12 0.20
43 26 0.43
44 17 0.28
45 6 0.10
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (43 bp):
GGCCTAGCAAGCTATAATGCCGGTGAAATGATATCGGGCTTCA
Found at i:19626734 original size:43 final size:42
Alignment explanation
Indices: 19626683--19626763 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 42
19626673 TGAATAATAT
** *
19626683 TATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAATGA
1 TATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAAATGA
19626726 TATCGGGCTTCAAGCCTAGCAGGCGAAATGCCGGTGAA
1 TATCGGGCTTCAAGCCTAGCAGGCGAAATGCCGGTGAA
19626764 TGAGTTCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 12 0.34
43 23 0.66
ACGTcount: A:0.25, C:0.22, G:0.32, T:0.21
Consensus pattern (42 bp):
TATCGGGCTTCAAGCCTAGCAGGCGAAATGCCGGTGAAATGA
Found at i:19632409 original size:27 final size:27
Alignment explanation
Indices: 19632375--19632428 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
19632365 GGTAAAAATG
19632375 TGAATAAATGAAATGTGTGGGCTGCTA
1 TGAATAAATGAAATGTGTGGGCTGCTA
19632402 TGAATAAATGAAATGTGTGGGCTGCTA
1 TGAATAAATGAAATGTGTGGGCTGCTA
19632429 GGAAATTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (27 bp):
TGAATAAATGAAATGTGTGGGCTGCTA
Found at i:19634144 original size:13 final size:13
Alignment explanation
Indices: 19634126--19634152 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19634116 GCTCGGCAGG
19634126 GACACGCCCGTGT
1 GACACGCCCGTGT
19634139 GACACGCCCGTGT
1 GACACGCCCGTGT
19634152 G
1 G
19634153 CGATTGCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:19638033 original size:13 final size:13
Alignment explanation
Indices: 19638015--19638039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19638005 TGTAGGTGCA
19638015 CACGGCCGTGTCG
1 CACGGCCGTGTCG
19638028 CACGGCCGTGTC
1 CACGGCCGTGTC
19638040 TGTCTTCGTT
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:0.08, C:0.40, G:0.36, T:0.16
Consensus pattern (13 bp):
CACGGCCGTGTCG
Found at i:19644149 original size:19 final size:20
Alignment explanation
Indices: 19644110--19644149 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
19644100 GAGTTTTGAG
19644110 TAATGATTTTGTTTGTGATA
1 TAATGATTTTGTTTGTGATA
19644130 TAATG-TTTTGATTTGT-ATA
1 TAATGATTTTG-TTTGTGATA
19644149 T
1 T
19644150 GAATTTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.57
Consensus pattern (20 bp):
TAATGATTTTGTTTGTGATA
Found at i:19650336 original size:24 final size:24
Alignment explanation
Indices: 19650304--19650352 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
19650294 AAGAACCAGG
19650304 TATGTATGATACCTTTGTGGTAGA
1 TATGTATGATACCTTTGTGGTAGA
19650328 TATGTATGATACCTTTGTGGTAGA
1 TATGTATGATACCTTTGTGGTAGA
19650352 T
1 T
19650353 GATATTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.43
Consensus pattern (24 bp):
TATGTATGATACCTTTGTGGTAGA
Found at i:19653142 original size:56 final size:56
Alignment explanation
Indices: 19653056--19653368 Score: 626
Period size: 56 Copynumber: 5.6 Consensus size: 56
19653046 NNNNNNNNNN
19653056 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
1 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
19653112 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
1 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
19653168 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
1 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
19653224 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
1 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
19653280 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
1 AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
19653336 AACACAACATGTTTCATGACATGTTTTGCCCAT
1 AACACAACATGTTTCATGACATGTTTTGCCCAT
19653369 CATCCCTTGT
Statistics
Matches: 257, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 257 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.43
Consensus pattern (56 bp):
AACACAACATGTTTCATGACATGTTTTGCCCATGCTTGTTATTTTATTCTTCCATT
Found at i:19664605 original size:37 final size:37
Alignment explanation
Indices: 19664546--19664647 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
19664536 TTGAATATAT
19664546 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
19664583 TAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
19664620 AAATCCCCACACGTAGTCATCGGGTCTT
1 TAATCTCCACACGTAGTCATCGGGTCTT
19664648 TAGAGCTCGG
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:19665143 original size:24 final size:23
Alignment explanation
Indices: 19665095--19665152 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
19665085 TAATCAAACA
19665095 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
19665119 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
19665143 TTATT-TTATA
1 TTATTATTATA
19665153 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:19667319 original size:50 final size:50
Alignment explanation
Indices: 19667265--19667364 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
19667255 TGAATTATTT
19667265 CCATATAAACATTAGCTCATCAATAACAATTGTAATTCATTACTGCTTTC
1 CCATATAAACATTAGCTCATCAATAACAATTGTAATTCATTACTGCTTTC
19667315 CCATATAAACATTAGCTCATCAATAACAATTGTAATTCATTACTGCTTTC
1 CCATATAAACATTAGCTCATCAATAACAATTGTAATTCATTACTGCTTTC
19667365 ACATCGATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (50 bp):
CCATATAAACATTAGCTCATCAATAACAATTGTAATTCATTACTGCTTTC
Found at i:19668650 original size:40 final size:40
Alignment explanation
Indices: 19668364--19668704 Score: 366
Period size: 40 Copynumber: 8.5 Consensus size: 40
19668354 AGCATGATTA
* * * * *
19668364 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAGTG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* ** * *
19668404 CTCTTTGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
19668444 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** *
19668484 CTCTTCGAAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
19668524 CTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
19668564 CTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
** * * *
19668604 CTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATG
1 CTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATG
* ** * *
19668645 C-CTTC-GGATCTTAGTCCGGATATGGTCAATTAGCAC-AAAG
1 CTCTTCGGGA-CTTAGCCCGGATA-CATC-ACTAGCACGAATG
19668685 C-CTTCGGGACTTAGCCCGGA
1 CTCTTCGGGACTTAGCCCGGA
19668705 CATCGTTCGA
Statistics
Matches: 261, Mismatches: 35, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
39 3 0.01
40 238 0.91
41 20 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:19669049 original size:29 final size:29
Alignment explanation
Indices: 19669010--19669088 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
19669000 CTTAATAATC
*
19669010 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
19669040 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
19669069 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
19669089 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:19669134 original size:43 final size:43
Alignment explanation
Indices: 19669070--19669171 Score: 195
Period size: 43 Copynumber: 2.4 Consensus size: 43
19669060 TGCATTTCAA
*
19669070 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGACAATCTCACAACCGTGAACACTTATT
19669113 GCCCGCACACTTAGTGACAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGACAATCTCACAACCGTGAACACTTATT
19669156 GCCCGCACACTTAGTG
1 GCCCGCACACTTAGTG
19669172 CTGAAAACCA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGACAATCTCACAACCGTGAACACTTATT
Found at i:19671088 original size:37 final size:37
Alignment explanation
Indices: 19671038--19671116 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19671028 TTATTACGAA
* * *
19671038 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
19671075 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
19671112 GTCTT
1 GTCTT
19671117 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:19671311 original size:49 final size:47
Alignment explanation
Indices: 19671234--19671341 Score: 171
Period size: 49 Copynumber: 2.2 Consensus size: 47
19671224 GCCCTTCGGG
*
19671234 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTAATCACATCGGCCATTAGGCCCTATCAC--ATATATAC
*
19671284 ACTTTCACATTAATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTAATCACATCGGCCATTAGGCCCTATCACATATATAC
19671331 ACTTTCACATT
1 ACTTTCACATT
19671342 CTCAAAGTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
47 19 0.34
49 33 0.59
50 4 0.07
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTAATCACATCGGCCATTAGGCCCTATCACATATATAC
Found at i:19671661 original size:24 final size:23
Alignment explanation
Indices: 19671613--19671670 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
19671603 TAATCAAACA
19671613 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
19671637 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
19671661 TTATT-TTATA
1 TTATTATTATA
19671671 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:19679671 original size:45 final size:45
Alignment explanation
Indices: 19679606--19679736 Score: 180
Period size: 45 Copynumber: 3.0 Consensus size: 45
19679596 TATCGTACAG
* * *
19679606 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
19679651 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCCGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
19679696 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATGCCGGTGAA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
19679737 TGAATTCAGG
Statistics
Matches: 79, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
42 12 0.15
43 17 0.22
44 5 0.06
45 44 0.56
46 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:19684234 original size:16 final size:16
Alignment explanation
Indices: 19684215--19684245 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19684205 CTTCTTCACT
19684215 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
19684231 TACTTACTTACTTAA
1 TACTCACTTACTTAA
19684246 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:19684251 original size:20 final size:20
Alignment explanation
Indices: 19684212--19684251 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
19684202 AAACTTCTTC
* *
19684212 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
19684232 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
19684252 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:19684641 original size:108 final size:110
Alignment explanation
Indices: 19684489--19684686 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
19684479 ATCCTTTTGA
* * *
19684489 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTA-GAAACCTCACCAA
19684552 -TGCCATGCCTTGCCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TTGCCATGCCTTGCCATGGTCTTACATGGGACCTTTTCCTTATAGT
* *
19684597 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
* *
19684662 TGTCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGCCATGGTCTTACA
19684687 AGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.61
109 7 0.09
110 23 0.29
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGCCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:19684697 original size:55 final size:54
Alignment explanation
Indices: 19684442--19684697 Score: 244
Period size: 55 Copynumber: 4.8 Consensus size: 54
19684432 ACGTGGGTAC
* * * *
19684442 CTTACC-ATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* *
19684491 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA-GAAA
* * * * *
19684544 CTCACCAA-TGCCATGCCTTGCCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTACC-T-TAGAAA
* * *
19684599 CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* * *
19684652 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACAAGGTATCCTTA
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
19684698 AACCCTAATG
Statistics
Matches: 171, Mismatches: 23, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 43 0.25
54 13 0.08
55 70 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
Found at i:19696426 original size:227 final size:227
Alignment explanation
Indices: 19696025--19696478 Score: 854
Period size: 227 Copynumber: 2.0 Consensus size: 227
19696015 TGCTATATAA
*
19696025 TCGTAAGTTCTGTCAATATACATTTTTCCCACCCTTTTTAATATTTGGTAGATTCCCGGATCTAT
1 TCGTAAGTTCTGTCAATATACATTTTTCCCACCCTTTTTAATATTTGGCAGATTCCCGGATCTAT
19696090 AGGCTTATAGGGTTCTTGGTTTAAGACCAGGGATTTGAAAAGAAAGGTAAGTTTAGGCTTATCCA
66 AGGCTTATAGGGTTCTTGGTTTAAGACCAGGGATTTGAAAAGAAAGGTAAGTTTAGGCTTATCCA
* *
19696155 TCAGGCTTGCTGGTTTAAGACCAAGGATTCAAAAAGATTGGTCAACTTATGGGGTGCTTGTTGCA
131 TCAGGCTTGCTAGTTTAAGACCAAGGATTCAAAAAGAATGGTCAACTTATGGGGTGCTTGTTGCA
*
19696220 ACATAGCTTTTGTGTGGCCTAAAAATTCCTAC
196 ACATAGCTTTTGTGTGGCCCAAAAATTCCTAC
* *
19696252 TCGTAAGTTCTGTCAATATACATTTTTCCCACCCTTTTTAATATTTTGCGGATTCCCGGATCTAT
1 TCGTAAGTTCTGTCAATATACATTTTTCCCACCCTTTTTAATATTTGGCAGATTCCCGGATCTAT
19696317 AGGCTTATAGGGTTCTTGGTTTAAGACCAGGGATTTGAAAAGAAAGGTAAGTTTAGGCTTATCCA
66 AGGCTTATAGGGTTCTTGGTTTAAGACCAGGGATTTGAAAAGAAAGGTAAGTTTAGGCTTATCCA
19696382 TCAGGCTTGCTAGTTTAAGACCAAGGATTCAAAAAGAATGGTCAACTTATGGGGTGCTTGTTGCA
131 TCAGGCTTGCTAGTTTAAGACCAAGGATTCAAAAAGAATGGTCAACTTATGGGGTGCTTGTTGCA
19696447 ACATAGCTTTTGTGTGGCCCAAAAATTCCTAC
196 ACATAGCTTTTGTGTGGCCCAAAAATTCCTAC
19696479 ACGTGACAGC
Statistics
Matches: 221, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
227 221 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (227 bp):
TCGTAAGTTCTGTCAATATACATTTTTCCCACCCTTTTTAATATTTGGCAGATTCCCGGATCTAT
AGGCTTATAGGGTTCTTGGTTTAAGACCAGGGATTTGAAAAGAAAGGTAAGTTTAGGCTTATCCA
TCAGGCTTGCTAGTTTAAGACCAAGGATTCAAAAAGAATGGTCAACTTATGGGGTGCTTGTTGCA
ACATAGCTTTTGTGTGGCCCAAAAATTCCTAC
Found at i:19722062 original size:7 final size:7
Alignment explanation
Indices: 19722050--19722087 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
19722040 CCGTGTTTTA
19722050 CTTTATG
1 CTTTATG
19722057 CTTTATG
1 CTTTATG
19722064 CTTTATG
1 CTTTATG
19722071 CTTTATG
1 CTTTATG
19722078 CTTTATG
1 CTTTATG
19722085 CTT
1 CTT
19722088 CACATTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (7 bp):
CTTTATG
Found at i:19725332 original size:50 final size:50
Alignment explanation
Indices: 19725213--19725659 Score: 387
Period size: 50 Copynumber: 8.9 Consensus size: 50
19725203 ATTGTGAGAA
* * *** *
19725213 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTATGGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTA--GGT
* * *
19725265 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGTTAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * * *
19725315 CGCATGTGTTGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * *
19725366 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
19725416 CACGTGTGTTGTACTAAATGCAAGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * *
19725466 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * * *
19725517 CACGTGTGTAGTACTAAGTGCAGGCCACTACGTGTATCAAATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
19725567 CACATGTGTAGTACTAAATGGAGGCCACTACGTGTACCGGATTGCT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * **
19725616 TACATGTGTAGTACTAAGTGCAGGTTACTATGCATACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
19725660 CTTCAGTTAC
Statistics
Matches: 310, Mismatches: 79, Indels: 15
0.77 0.20 0.04
Matches are distributed among these distances:
49 39 0.13
50 158 0.51
51 73 0.24
52 40 0.13
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:19725395 original size:101 final size:101
Alignment explanation
Indices: 19725264--19725445 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
19725254 TGGTTATGGG
** *
19725264 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGTTAGTTAGGTCGCATGTGTTGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTTGTAC
* *
19725329 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAATGCAAGCTACTATGCGTACCCGACAACTTCAA
* * * *
19725365 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATAGTTAGGTCACGTGTGTTGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTTGTAC
19725430 TAAATGCAAGCTACTA
66 TAAATGCAAGCTACTA
19725446 CGTGTACCAG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATAGTTAGGTCACATGTGTTGTAC
TAAATGCAAGCTACTATGCGTACCCGACAACTTCAA
Found at i:19725536 original size:151 final size:151
Alignment explanation
Indices: 19725217--19725653 Score: 644
Period size: 151 Copynumber: 2.9 Consensus size: 151
19725207 TGAGAACACA
* * *
19725217 TGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATGGTTATGGGTCACGTGTGTAGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAA-ATGGTTA--GGTCACGTGTGTAGTACTA
* * *
19725281 AGTGCAAGCTACTACGTGTACCAGTTAGTTAGGTCGCATGTGTTGTACTAAGTGCAGGCTACTAT
63 AATGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
19725346 GCGTACCCGACAACTTCAATCACG
128 GCGTACCCGACAACTTCAATCACG
* * *
19725370 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATAGTTAGGTCACGTGTGTTGTACTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAAT
19725435 GCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
66 GCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
19725500 TACCCGACAACTTCAATCACG
131 TACCCGACAACTTCAATCACG
* *
19725521 TGTGTAGTACTAAGTGCAGGCCACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACTAAAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAAT
* * * * * * ** * *
19725586 GGAGGCCACTACGTGTACCGGATTGCT-GGTTACATGTGTAGTACTAAGTGCAGGTTACTATGCA
66 GCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
19725650 TACC
131 TACC
19725654 AGATAGCTTC
Statistics
Matches: 259, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
150 37 0.14
151 185 0.71
153 34 0.13
154 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (151 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACTAAAT
GCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCG
TACCCGACAACTTCAATCACG
Found at i:19725604 original size:101 final size:101
Alignment explanation
Indices: 19725415--19725604 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 101
19725405 AATAGTTAGG
* * * *
19725415 TCACGTGTGTTGTACTAAATGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAAGCCACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
* * *
19725480 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAATGCAGGCCACTACGCGTACCCGACAACTTCAA
* * * *
19725516 TCACGTGTGTAGTACTAAGTGCAGGCCACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAATGCAAGCCACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
* *
19725581 TAAATGGAGGCCACTACGTGTACC
66 TAAATGCAGGCCACTACGCGTACC
19725605 GGATTGCTGG
Statistics
Matches: 76, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAATGCAAGCCACTACGTGTACCAAATAGTTAGGTCACATGTGTAGTAC
TAAATGCAGGCCACTACGCGTACCCGACAACTTCAA
Found at i:19725878 original size:16 final size:15
Alignment explanation
Indices: 19725857--19725886 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19725847 GAATGGAGTA
19725857 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
19725873 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
19725887 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:19732257 original size:50 final size:50
Alignment explanation
Indices: 19732190--19732574 Score: 259
Period size: 50 Copynumber: 7.7 Consensus size: 50
19732180 TAAGATTGTT
* **
19732190 TTAGGTCACGTGTGTAGTACTAAGTGTGGGCTACTTCGTGTACCAAATAG
1 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTTCGTGTACCAAATAG
* * * ** *
19732240 TTAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTAT-GCGTACGCGGCA-AC
1 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACT-TCGTGTAC-C-AAATAG
* * * * *
19732291 TTCA-ATTATGTGTGTAGTACTAAGTGCAGGCTACTGCGTGTATCAAATGG
1 TT-AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTTCGTGTACCAAATAG
* * * *
19732341 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAG
1 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTTCGTGTACCAAATAG
* * * *
19732391 TTAGGTCGCT-TGTGTAGTACTAAGTGCAGGCTACTAT-GCGTACCCGACAT-C
1 TTAGGTC-ATGTGTGTAGTACTAAGTGCAGGCTACT-TCGTGTA-CC-AAATAG
* ** * * * * *
19732442 TTCA-ATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGG
1 TT-AGGTCATGTGTGTAGTACTAAGTGCAGGCTACTTCGTGTACCAAATAG
* * ** *
19732492 TTAGGTCACT-TGTGTAGTACTAAGTGCAGGC-ACTACATGTACCGGATTG
1 TTAGGTCA-TGTGTGTAGTACTAAGTGCAGGCTACTTCGTGTACCAAATAG
* ***
19732541 CT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACT
1 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACT
19732575 ATGCATACCA
Statistics
Matches: 262, Mismatches: 54, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
48 25 0.10
49 24 0.09
50 137 0.52
51 70 0.27
52 6 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTTCGTGTACCAAATAG
Found at i:19732456 original size:101 final size:100
Alignment explanation
Indices: 19732346--19732526 Score: 299
Period size: 101 Copynumber: 1.8 Consensus size: 100
19732336 AATGGTTAGG
* *
19732346 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACTTGTGTAGTAC
19732411 TAAGTGCAGGCTACTATGCGTACCCGACATCTTCAA
66 TAAGTGCAGGC-ACTATGCGTACCCGACATCTTCAA
* * * *
19732447 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACTTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACTTGTGTAGTAC
19732512 TAAGTGCAGGCACTA
66 TAAGTGCAGGCACTA
19732527 CATGTACCGG
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
100 4 0.05
101 70 0.95
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACTTGTGTAGTAC
TAAGTGCAGGCACTATGCGTACCCGACATCTTCAA
Found at i:19732469 original size:151 final size:151
Alignment explanation
Indices: 19732190--19732583 Score: 569
Period size: 151 Copynumber: 2.6 Consensus size: 151
19732180 TAAGATTGTT
** * *
19732190 TTAGGTCACGTGTGTAGTACTAAGTGTGGGCTACTTCGTGTACCAAATAGTTAGGTCG-TATGTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCT-TGTG
* * * **
19732254 TAGTACTAAGTGCAGGCTACTATGCGTACGCGGCAACTTCAATTATGTGTGTAGTACTAAGTGCA
65 TAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACATGTGTAGTACTAAGTGCA
*
19732319 GGCTACTGCGTGTATCAAATGG
130 GGCTACTACGTGTATCAAATGG
*
19732341 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGT
* *
19732406 AGTACTAAGTGCAGGCTACTATGCGTACCCGACATCTTCAATCACATGTGTAGTACTATGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACATGTGTAGTACTAAGTGCAG
*
19732471 GCTACTACGTGTATCAGATGG
131 GCTACTACGTGTATCAAATGG
* * * * * *
19732492 TTAGGTCACTTGTGTAGTACTAAGTGCAGGC-ACTACATGTACCGGATTGCT-GGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGT
*
19732555 AGTACTAAGTGCAGGCTACTATGCATACC
66 AGTACTAAGTGCAGGCTACTATGCGTACC
19732584 AGATAGCTTC
Statistics
Matches: 220, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
149 39 0.18
150 16 0.07
151 164 0.75
152 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (151 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCAATCACATGTGTAGTACTAAGTGCAG
GCTACTACGTGTATCAAATGG
Found at i:19738056 original size:49 final size:49
Alignment explanation
Indices: 19737987--19738160 Score: 178
Period size: 49 Copynumber: 3.6 Consensus size: 49
19737977 CTTGTTGTGT
*
19737987 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGACAAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGACAAAA
* * ** *
19738036 G-CTAGTGTAAGACCTATCTGGGACATGGCATCGGCCTTGATATACAAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGACAAAA
* * * *
19738085 GTCAGTGTAAGACCTGTCTGGGACACGGCATCGACTTTAAT-GTAC--TA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAG-ACAAAA
*
19738132 GCCAGTGTAAGACCATGTCTGGGACATGG
1 GTCAGTGTAAGACC-TGTCTGGGACATGG
19738161 GGTTGGCATC
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
47 14 0.13
48 15 0.14
49 75 0.71
50 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGACAAAA
Found at i:19740575 original size:45 final size:44
Alignment explanation
Indices: 19740508--19740678 Score: 157
Period size: 45 Copynumber: 3.8 Consensus size: 44
19740498 TTCAAGGATG
* * * *
19740508 CCATAGTGCCTTTCAGCCATGGTCTTATTTATTTCTGACATTATT
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGACATT-TT
* *
19740553 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTC-CATCATGTTG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGA-CAT-TTT
* * * * *
19740598 CTATTGTGTCTTTCAATTATGGTCTTATTCATTTTTGATATTGTGT
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGACATT-T-T
* * *
19740644 -TATAGTGTCTTTTAACTATGGTCTTAATCATTTCT
1 CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCT
19740679 CAAGCCGATA
Statistics
Matches: 103, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
44 2 0.02
45 99 0.96
46 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (44 bp):
CCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGACATTTT
Found at i:19745503 original size:55 final size:55
Alignment explanation
Indices: 19745372--19745504 Score: 180
Period size: 55 Copynumber: 2.4 Consensus size: 55
19745362 ACACTTAAAA
* *
19745372 TTTT-AAGTCAGTGTTGTACACGGGCAGGCCACACAGGCGTATGCCATGGCCGTG
1 TTTTAAAGTCAGTGTTGTACATGGGCAGGCCACACAGGCGTACGCCATGGCCGTG
* * * *
19745426 TTATAAAGTCAGTGTTGTACATGGGTCA-GCCACACGGGCGTGCGCCATGGCTGTG
1 TTTTAAAGTCAGTGTTGTACATGGG-CAGGCCACACAGGCGTACGCCATGGCCGTG
*
19745481 TTTTAAAGTCAGTGTTGCACATGG
1 TTTTAAAGTCAGTGTTGTACATGG
19745505 ACTAAGGGCA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
54 3 0.04
55 64 0.93
56 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (55 bp):
TTTTAAAGTCAGTGTTGTACATGGGCAGGCCACACAGGCGTACGCCATGGCCGTG
Found at i:19750518 original size:29 final size:29
Alignment explanation
Indices: 19750456--19750604 Score: 210
Period size: 29 Copynumber: 5.2 Consensus size: 29
19750446 TACATACAAA
* *
19750456 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
19750484 CATATGGCCTATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
19750513 CGTATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
** * * *
19750542 TGTATGGTCCATTAGGCCAAAATCCCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
19750571 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
19750600 CATAT
1 CATAT
19750605 ACATGCTTTC
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
28 17 0.16
29 89 0.84
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:19754370 original size:50 final size:51
Alignment explanation
Indices: 19754311--19754414 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 51
19754301 GTTTTTAGTA
19754311 TGAAATTGTTTTGGAATATTAAT-GAGGTCTTAAATAGCAATTTGACCAAT
1 TGAAATTGTTTTGGAATATTAATGGAGGTCTTAAATAGCAATTTGACCAAT
19754361 TGAAATTGTTTTGGAATATTAATGAGGAGGTCTTAAATAGCAATTTGACCAAT
1 TGAAATTGTTTTGGAATATTAAT--GGAGGTCTTAAATAGCAATTTGACCAAT
19754414 T
1 T
19754415 TTAAGTTCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
50 23 0.45
53 28 0.55
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (51 bp):
TGAAATTGTTTTGGAATATTAATGGAGGTCTTAAATAGCAATTTGACCAAT
Found at i:19755591 original size:93 final size:92
Alignment explanation
Indices: 19755433--19755603 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 92
19755423 GGATGATTGA
*
19755433 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
19755498 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
19755525 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
19755589 TTGAGTCCGAGTTCG
64 TTGAGTCCGAGTTCG
19755604 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
92 26 0.35
93 48 0.65
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19755601 original size:46 final size:45
Alignment explanation
Indices: 19755437--19755610 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
19755427 GATTGAGCAT
* *
19755437 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* *
19755481 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAC---G
19755526 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 ---CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
* *
19755574 CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19755611 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 25 0.23
46 39 0.35
47 29 0.26
48 3 0.03
50 5 0.05
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
Found at i:19772045 original size:557 final size:550
Alignment explanation
Indices: 19770193--19772915 Score: 2503
Period size: 546 Copynumber: 5.1 Consensus size: 550
19770183 GCGGTTTCAA
* * *
19770193 CCATTGTGTCATCTTGTAATTTGCTTAAGAATTTTTAATTAGAACTTAATTTAAAGGGGTTAAAT
1 CCATTGTATCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAAAT
*
19770258 AGTAATTATACCTAGAATATATATATGGTCT-GTTATTGAAGTAAGTTTGTATGCTATATTATAA
66 AGTAATTATACCTAG-A-ATATATATGG-CTGGTTATTGAAGTAAGTATGTATGCTATATTATAA
* *
19770322 AACATTGGTAATTAAAATTATAAAATG-AAATTTTATTAAATAGAACATAAGTGATAATGGGAAT
128 AACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTGATAATGGGAAT
* * * * *
19770386 AGGTGG---GAA-AAAAATATTTCCATCTTTTCTTCGTGCAAACCAAATCAAGTGA-GAAATAAG
193 AGGTGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCGAACCAAG-GAGGAAAGAAG
* * * * * * * *
19770446 AGAG-TAACTTCTGTTTTAAGAGTGTAATG-CCAGAAAAATTTTTATTTTTTGAAATGTTAAAAC
257 AGAGAAAAGTTCGGCTTTAAGGGTGTAACGCCCA-AAAAA-TTTT-GTTTTGGAAATGTTAAAAC
* * *
19770509 ATGTCAAGCGTGTAACGTTCGACTTTTACAATATTTTTTTTATATGAG-AAA-----CC-G---C
319 ATGTCAAGGGTGTAACGTTCGACTTTGAAAATA-TTTTTTTATATGAGAAAATGCCGCCTGATTC
* * * * *
19770564 --C---T-----CATTGTGTCGTCTTGTTATAAAAATATTATCATTTTTAACATGAAATTGTTGC
383 GACGGTTACACCCATTCTGTCATCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTGC
* * * *
19770619 GGAGGCAATTTTAACAAAAAAAAAACT-GATAT--GACAATTTCACCCATTGTGTTATCTTGTTA
448 GGAGGCAATTTTAACAAAAAAAAAAATATATATACGACAGTTTCACCCATTGTGTCATCTTGTTA
19770681 TAAAATATTATTATTTTTATCATGAAACTGCTGTAAAC
513 TAAAATATTATTATTTTTATCATGAAACTGCTGTAAAC
* * * *
19770719 CCATTGTGTCATTTTGTAATTTACTTAAGGATTTAT-A-T----C-TAATTTAAAGGGGTTAAAC
1 CCATTGTATCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAAAT
* * * *
19770777 AATAATTATACCAATAATATATATGGCTGGTTATTAAAGTAAGTATG-A---TATATTATAAAAC
66 AGTAATTATACCTAGAATATATATGGCTGGTTATTGAAGTAAGTATGTATGCTATATTATAAAAC
* *
19770838 ATTAGTAATTAAAATTATAAAATTAAAATTTAATTAAATAGAACATAAGTGATAATGGAAATAGG
131 ATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAGG
* *
19770903 TGGCAAAAACAAAAACATTTCCATCTTTTCTTCATGCAAATCGAACCAAGG-GAGAAAGAA-ATG
196 TGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCGAACCAAGGAG-GAAAGAAGA-G
* * * *
19770966 AGGAACGTTCGGCTTTAAGGGTGTAATGCCCCAAAAAATTTTGTTCTTGGAATTGTTAAAACATG
259 AGAAAAGTTCGGCTTTAAGGGTGTAACG-CCCAAAAAATTTTGTT-TTGGAAATGTTAAAACATG
* * * * *
19771031 -CAAGGGTGTAACGTTCGGA-TATGAAAATATTTTCTTATATGAGAAAATGCCGCCTTATACGAT
322 TCAAGGGTGTAACGTTC-GACTTTGAAAATATTTTTTTATATGAGAAAATGCCGCCTGATTCGAC
* * * * *
19771094 GGTTACACCCATCCTTTCATCTTATTATAAAAATATTATTCTTTGTATCATGAAATTGTTGCGGT
386 GGTTACACCCATTCTGTCATCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTGCGGA
* * ** * *
19771159 GACAATTTTAAC----AAAAAAA-AT-GATACGAGGGGTTCACCTATTGTGTCATCTTGTTATAA
451 GGCAATTTTAACAAAAAAAAAAATATATATACGACAGTTTCACCCATTGTGTCATCTTGTTATAA
* *
19771218 AATATTATTATTTTTATCATGGAACTACTGTAAAC
516 AATATTATTATTTTTATCATGAAACTGCTGTAAAC
* * * * * * *
19771253 CCATTGTGTCATCTTATAATTTGCTGAAGGATTTGTAAATAGAACTTAAGTTAAAAGAGGTTAAA
1 CCATTGTATCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAA-TTTAAAGGGGTTAAA
* * *
19771318 TAGTCATTCTACCTAGAATATATATGGCTGGTTATTGAAGTTAGTATGTATGCTATATTATAAAA
65 TAGTAATTATACCTAGAATATATATGGCTGGTTATTGAAGTAAGTATGTATGCTATATTATAAAA
* *
19771383 CATTAGGAATTAAAATTATAAAATGAAATTTTAATTAAATAGAACATAAGTGATAATGGGAATAG
130 CATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAG
* *
19771448 GTGGCAAAAACAAAAACATTTCCATCTTTCCTTGGTGCAAACCGAACCAAGGAGGAAAGAAGAGA
195 GTGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCGAACCAAGGAGGAAAGAAGAGA
* ***** * *
19771513 GAAAAGTTTGGCTTTAAGGGTGTAACGCCCATTTTTTTTTTGTTTTGGAAATGTTAAAATAAGTC
260 GAAAAGTTCGGCTTTAAGGGTGTAACGCCCA-AAAAATTTTGTTTTGGAAATGTTAAAACATGTC
* * * *
19771578 AAAGGTGTAACGTTCAACTTTGAAAATATTTTTTTATATGAGAAACTGTCGCCTGATTCGACGGT
324 AAGGGTGTAACGTTCGACTTTGAAAATATTTTTTTATATGAGAAAATGCCGCCTGATTCGACGGT
* * * * * * *
19771643 TTCACCCATTGTGACATTTTATTATAAAAATAGTATTATTTTTATCATGAAATCGTTGCAGAGGC
389 TACACCCATTCTGTCATCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTGCGGAGGC
** *
19771708 AATTTTAACAAAAAAAATATAAATATATATTACGACAGTTTCACCTTTTGTGTTATCTTGTTATA
454 AATTTTAAC-AAAAAAA-A-AAATATATA-TACGACAGTTTCACCCATTGTGTCATCTTGTTATA
* * * *
19771773 AATTATTATTATTTTTATTATGAAATTGCTATAAAC
515 AAATATTATTATTTTTATCATGAAACTGCTGTAAAC
* * *
19771809 TCATTGTATCATCTTGTAATTTGCTTAAGGATGTATAATTAAAACTTAATTTAAAGGGGTTAAAT
1 CCATTGTATCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAAA-
* * *
19771874 TA-TAATTATACCTAGAATATATATGTGGCGGGCTATTGAAGTAAGTATGTATGTTATATTATAA
65 TAGTAATTATACCTAGAATATATA--TGGCTGGTTATTGAAGTAAGTATGTATGCTATATTATAA
*** *
19771938 AACACCCGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATATGTGATAATGGGAAT
128 AACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTGATAATGGGAAT
* * * * ** * *
19772003 AGGTGGCAAAAGCAAAGACATTTCCATCTTTTCTTTGTGCAAACCGAACCAAGCAATAAGGAAGT
193 AGGTGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCGAACCAAGGAGGAAAGAAGA
* * ** **
19772068 GAGGAACA-TTCGGCTTTAAGGGTGTAATGCCCCCAAAAAATCGT-TTTTGGAGGTGTTAAAACA
258 GA-GAAAAGTTCGGCTTTAAGGGTGTAA--CGCCCAAAAAATTTTGTTTTGGAAATGTTAAAACA
* * * * * *
19772131 TGTCAAGGGTATAATGTTCGGCTTTTTAAAA-ATATTTTTTATATGAGAAATTGCCACCTGATAT
320 TGTCAAGGGTGTAACGTTCGAC-TTTGAAAATAT-TTTTTTATATGAGAAAATGCCGCCTGAT-T
* * * * * *
19772195 -GACGATTCCACGCATTTTGTCGTCTTGTTAT--AAA-ATTATTA---TTATCATGAAATTGTTG
382 CGACGGTTACACCCATTCTGTCATCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTG
* * ** * * * * *
19772253 CCGTGGCAATTTT-A-ATTAAAAAAAAT-T-GATACAACGGTTTCACCCATTGTGCCATCTTATT
447 CGGAGGCAATTTTAACAAAAAAAAAAATATATATACGACAGTTTCACCCATTGTGTCATCTTGTT
* * * *
19772314 ATAAAATATTATTATTATTATCATGAAACCGTTGTAGAC
512 ATAAAATATTATTATTTTTATCATGAAACTGCTGTAAAC
* *
19772353 CCATTGTATCATCTTGTAACTTGCTTAAAGATTTATAATTAGAACTTAATTTAAAGGGGTTAAAT
1 CCATTGTATCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAAAT
* * *
19772418 AGTACTTCTACCTA-ATATATATATGTGGCAT-GTTATTGAAGCAAGTATGTATGCTATATTATA
66 AGTAATTATACCTAGA-ATATATA--TGGC-TGGTTATTGAAGTAAGTATGTATGCTATATTATA
* * *
19772481 AAACATTAGTGATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATATGTGATAATGAGAA
127 AAACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTGATAATGGGAA
*** * *
19772546 TA---GG----------------------TTTT-TTCGTGCAAATAAAACTAAGG-GACAAAGAA
192 TAGGTGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCGAACCAAGGAG-GAAAGAA
* * * *
19772584 GAGAGGAACGTTTC-ACTTTAAGGGTGTAACGCCTC--AAAATTTT-TTTTAAGAAATGTTAAAA
256 GAGAGAAAAG-TTCGGCTTTAAGGGTGTAACGCC-CAAAAAATTTTGTTTT-GGAAATGTTAAAA
* * * * *
19772645 CATGTCAAGGGTGTAATGTTCGGCTTTGAAAATATTTTTTTTATATGAGAAACTGCCGCCTGGTA
318 CATGTCAAGGGTGTAACGTTCGACTTTGAAAATA-TTTTTTTATATGAGAAAATGCCGCCTGATT
* ** * * * * * * *
19772710 CAACAATTGCACCCATTGTATCGTCTTAATATAAAAATATTATTCTTTTTATCATGAAATTATTG
382 CGACGGTTACACCCATTCTGTCATCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTG
* ** * * * * *
19772775 CTGAAACAATTTT----AATAAAAAAA-CT-GATACGAC-GATTTCATCTA-T-TG------TG-
447 CGGAGGCAATTTTAACAAAAAAAAAAATATATATACGACAG-TTTCACCCATTGTGTCATCTTGT
*
19772824 TATAAAATATTATTATTTTTATCATGAAACTGCTATAAAC
511 TATAAAATATTATTATTTTTATCATGAAACTGCTGTAAAC
* * *
19772864 CCATTGTGTCATCTTGTAATTTGGTTAAGAATTTATAATTAGAACTTAATTT
1 CCATTGTATCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTT
19772916 TAGAACTTAA
Statistics
Matches: 1820, Mismatches: 285, Indels: 199
0.79 0.12 0.09
Matches are distributed among these distances:
511 82 0.05
512 1 0.00
513 35 0.02
514 41 0.02
515 17 0.01
516 88 0.05
517 47 0.03
518 114 0.06
519 87 0.05
520 28 0.02
521 3 0.00
522 25 0.01
523 2 0.00
524 1 0.00
525 1 0.00
526 32 0.02
527 1 0.00
532 3 0.00
533 6 0.00
534 91 0.05
535 1 0.00
536 1 0.00
537 57 0.03
540 1 0.00
541 5 0.00
542 53 0.03
543 4 0.00
544 229 0.13
545 22 0.01
546 277 0.15
547 6 0.00
548 1 0.00
549 5 0.00
551 4 0.00
552 28 0.02
553 3 0.00
554 2 0.00
555 39 0.02
556 106 0.06
557 204 0.11
558 61 0.03
559 6 0.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (550 bp):
CCATTGTATCATCTTGTAATTTGCTTAAGGATTTATAATTAGAACTTAATTTAAAGGGGTTAAAT
AGTAATTATACCTAGAATATATATGGCTGGTTATTGAAGTAAGTATGTATGCTATATTATAAAAC
ATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAACATAAGTGATAATGGGAATAGG
TGGCAAAAACAAAAACATTTCCATCTTTTCTTCGTGCAAACCGAACCAAGGAGGAAAGAAGAGAG
AAAAGTTCGGCTTTAAGGGTGTAACGCCCAAAAAATTTTGTTTTGGAAATGTTAAAACATGTCAA
GGGTGTAACGTTCGACTTTGAAAATATTTTTTTATATGAGAAAATGCCGCCTGATTCGACGGTTA
CACCCATTCTGTCATCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTGCGGAGGCAA
TTTTAACAAAAAAAAAAATATATATACGACAGTTTCACCCATTGTGTCATCTTGTTATAAAATAT
TATTATTTTTATCATGAAACTGCTGTAAAC
Found at i:19772918 original size:13 final size:13
Alignment explanation
Indices: 19772902--19772928 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19772892 GAATTTATAA
19772902 TTAGAACTTAATT
1 TTAGAACTTAATT
19772915 TTAGAACTTAATT
1 TTAGAACTTAATT
19772928 T
1 T
19772929 AAAGGGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTAGAACTTAATT
Found at i:19773056 original size:33 final size:33
Alignment explanation
Indices: 19773008--19773073 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
19772998 CGGAGTTAAA
19773008 TTTTGTCATGCATTTTTAAATTGTATTTAGAAT
1 TTTTGTCATGCATTTTTAAATTGTATTTAGAAT
* *
19773041 TTTTTTCATGTATTTTTAAATTGTATTTAGAAT
1 TTTTGTCATGCATTTTTAAATTGTATTTAGAAT
19773074 ATTAAAAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.58
Consensus pattern (33 bp):
TTTTGTCATGCATTTTTAAATTGTATTTAGAAT
Found at i:19776075 original size:32 final size:32
Alignment explanation
Indices: 19776010--19776078 Score: 84
Period size: 32 Copynumber: 2.2 Consensus size: 32
19776000 TTATGGGCCT
* * * *
19776010 ACACGCCCAGATTGGCTTTGCCCGTGTGGCCC
1 ACACGCCCAGATTGGCCTAGCCCATGTGACCC
* *
19776042 ACACGCCCAGCTTGGCCTAGTCCATGTGACCC
1 ACACGCCCAGATTGGCCTAGCCCATGTGACCC
19776074 ACACG
1 ACACG
19776079 GCCACACCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.17, C:0.39, G:0.25, T:0.19
Consensus pattern (32 bp):
ACACGCCCAGATTGGCCTAGCCCATGTGACCC
Found at i:19787252 original size:42 final size:42
Alignment explanation
Indices: 19787163--19787311 Score: 192
Period size: 43 Copynumber: 3.5 Consensus size: 42
19787153 CTAAGACTAC
* * *
19787163 GTGTAACACCATATCTGGGATAAGACATCG-TATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTT
*
19787204 TTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTT
* * **
19787246 GTGTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTT
* *
19787289 ATGTAAGACCATATATGGGATAT
1 GTGTAAGACCATATCTGGGATAT
19787312 TGTGTTGGTA
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
41 26 0.28
42 31 0.33
43 36 0.39
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTT
Found at i:19798961 original size:17 final size:18
Alignment explanation
Indices: 19798935--19798977 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
19798925 CAACGGGTAG
*
19798935 GAGAATATAA-CAAAAAA
1 GAGAAAATAATCAAAAAA
* *
19798952 GAGAAAATAATGAAAATA
1 GAGAAAATAATCAAAAAA
19798970 GAGAAAAT
1 GAGAAAAT
19798978 GGAGAAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.67, C:0.02, G:0.16, T:0.14
Consensus pattern (18 bp):
GAGAAAATAATCAAAAAA
Found at i:19801491 original size:46 final size:45
Alignment explanation
Indices: 19801441--19801616 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
19801431 TGGTTGAGCA
*
19801441 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
19801487 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
19801534 TCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
19801580 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19801617 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:19801597 original size:93 final size:93
Alignment explanation
Indices: 19801438--19801608 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
19801428 GGATGGTTGA
* * *
19801438 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
19801503 TGAGTTCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
19801531 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
19801596 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
19801609 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:19804617 original size:30 final size:30
Alignment explanation
Indices: 19804539--19804626 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
19804529 CATAGTATCG
* * *
19804539 TATCTTGGGTTTCTTTATCCTGGATCTT-TT
1 TATCTTGGATTTCTTTATTCTGGAT-TTCTC
*
19804569 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
19804599 TATCTTGGATTTCTTTATT-TGGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
19804627 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 11 0.22
30 38 0.76
31 1 0.02
ACGTcount: A:0.10, C:0.15, G:0.16, T:0.59
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:19804625 original size:14 final size:15
Alignment explanation
Indices: 19804548--19804627 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
19804538 GTATCTTGGG
*
19804548 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
19804563 TCTT-TTTATTCTGGA
1 T-TTCTTTATTCTGGA
*
19804578 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
19804593 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
19804608 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
19804622 TTTCTT
1 TTTCTT
19804628 GTTATCTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
14 13 0.24
15 39 0.71
16 3 0.05
ACGTcount: A:0.10, C:0.15, G:0.14, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:19809620 original size:26 final size:26
Alignment explanation
Indices: 19809573--19809641 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 26
19809563 GTAAATTATC
*
19809573 AAAAAAATAAAGAACGCCAAGAAGAA-AA
1 AAAAAAAAAAAGAA-G--AAGAAGAAGAA
19809601 AAAAAAGAAAAAGAAGAAGAAGAAGAA
1 AAAAAA-AAAAAGAAGAAGAAGAAGAA
*
19809628 AGAAAAAAAAAGAA
1 AAAAAAAAAAAGAA
19809642 TGGGAGTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
26 16 0.43
27 7 0.19
28 7 0.19
29 7 0.19
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.01
Consensus pattern (26 bp):
AAAAAAAAAAAGAAGAAGAAGAAGAA
Found at i:19811389 original size:40 final size:40
Alignment explanation
Indices: 19811341--19811458 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 40
19811331 TAAAAAAACG
19811341 CCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAATA
1 CCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAATA
* * * ** **
19811381 CCGCTATAGATCAAGTATTAGTGG-GCTTTTCAAAAAACG
1 CCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAATA
* *
19811420 CCGCTATA-AGTCGACCTTTAGCGGCGCTTTTTGAAAAAT
1 CCGCTATAGA-TCGAGCATTAGCGGCGCTTTTTGAAAAAT
19811459 GCCGTAAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
38 1 0.02
39 28 0.46
40 32 0.52
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (40 bp):
CCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAATA
Found at i:19811651 original size:40 final size:40
Alignment explanation
Indices: 19811512--19811643 Score: 138
Period size: 40 Copynumber: 3.3 Consensus size: 40
19811502 GTAGCGGCAC
* *
19811512 TAGCGGCGCTTTTTGAAAAACGCTGCTATAGATTGAGCAT
1 TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATTGAGCAT
** * * * * *
19811552 TAGCAACGCTTTTTAAAAAATGCCACTATAGGTTGACCAC
1 TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATTGAGCAT
* * * *
19811592 TAGTGGCGCTTTTTTAAAAACGCCGCTATAGATCGAGCTT
1 TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATTGAGCAT
*
19811632 TAGCGTCGCTTT
1 TAGCGGCGCTTT
19811644 ATCAAAAATG
Statistics
Matches: 70, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (40 bp):
TAGCGGCGCTTTTTAAAAAACGCCGCTATAGATTGAGCAT
Found at i:19811723 original size:21 final size:21
Alignment explanation
Indices: 19811698--19811738 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19811688 TAACTGGTTT
19811698 ATTTA-TATTAATTGAAATACA
1 ATTTATTATTAATT-AAATACA
*
19811719 ATTTATTTTTAATTAAATAC
1 ATTTATTATTAATTAAATAC
19811739 TTAAATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTATTATTAATTAAATACA
Found at i:19811913 original size:14 final size:14
Alignment explanation
Indices: 19811894--19811943 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
19811884 TTAATTATCA
19811894 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
19811908 TTATAGTTTAGGAT
1 TTATAGTTTAGGGT
* *
19811922 GTATGGTTTAGGGT
1 TTATAGTTTAGGGT
19811936 TTA-AGTTT
1 TTATAGTTT
19811944 TAAAAGTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 4 0.13
14 26 0.87
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:19812019 original size:14 final size:15
Alignment explanation
Indices: 19812002--19812034 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
19811992 TATGGTTTAC
19812002 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
19812016 GGTTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
19812031 GGTT
1 GGTT
19812035 ATATATGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.39
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:19812019 original size:21 final size:21
Alignment explanation
Indices: 19811995--19812034 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19811985 TAGAGATTAT
*
19811995 GGTTTACGGTTTAAGGGTTGG
1 GGTTTAAGGTTTAAGGGTTGG
*
19812016 GGTTTAAGGTTTAGGGGTT
1 GGTTTAAGGTTTAAGGGTT
19812035 ATATATGGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGTTTAAGGGTTGG
Found at i:19812483 original size:21 final size:21
Alignment explanation
Indices: 19812459--19812505 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
19812449 TTAGGGAGTA
19812459 GGTTTATGGTATAAGATTTAG
1 GGTTTATGGTATAAGATTTAG
* * *
19812480 GGTTTATGGTCTAGGATTTGG
1 GGTTTATGGTATAAGATTTAG
19812501 GGTTT
1 GGTTT
19812506 GGTGTTTGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.02, G:0.34, T:0.45
Consensus pattern (21 bp):
GGTTTATGGTATAAGATTTAG
Found at i:19817387 original size:43 final size:43
Alignment explanation
Indices: 19817326--19817439 Score: 147
Period size: 43 Copynumber: 2.7 Consensus size: 43
19817316 ATATTTATTT
* *
19817326 TTAAAGGTCATGTTCTTTAGTGGAGTTTATGGGAAAAGAGTCG
1 TTAAAGGTCATGTTCTTTAGCGGAGTTTATGGGAAAAGAGCCG
* * *
19817369 TTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCG
1 TTAAAGGTCATGTTCTTTAGCGGAGTTTATGGGAAAAGAGCCG
* * * *
19817412 CTAAAGATCATGTTCTATAGCGGCGTTT
1 TTAAAGGTCATGTTCTTTAGCGGAGTTT
19817440 TTTTACATAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (43 bp):
TTAAAGGTCATGTTCTTTAGCGGAGTTTATGGGAAAAGAGCCG
Found at i:19819496 original size:552 final size:549
Alignment explanation
Indices: 19818173--19819624 Score: 1700
Period size: 545 Copynumber: 2.6 Consensus size: 549
19818163 CGGTTTCACT
* * * * *
19818173 CATTGTGTCACCTTGTAATTTGCTTAAGAATTTATAATTAGATCTTACTTTAAAGGGGCTAAATA
1 CATTGTGTCATCTTGTAATTTGCTTAAGAATTTATAATTAGAACTTAATTTAAAGAGGTTAAATA
* *
19818238 GTAATTATACCTAG-A-ATATATATGGCTGGTTATTGAAGTAAGTATGTATGTTATATTATAAAA
66 GTAATTATACCTAGAATATATATATGGCCGGTTATTGAAG-AAGTATGTATGTTATATTAAAAAA
* * * * * * *
19818301 CGTTAGTCATTAAAATTAGAAAATGAAATTTTAATTAAATAGAACATAAGTGATTATGGGAATAG
130 CATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAAAATAAGTAATAATGGGAATAG
* *
19818366 GTGGCAAAAACAAAAAACATTTCCATCTTTTT-TTCGTGCAAACCGAACTAA-AGGAAATAATAG
195 GTGGCAAAAAC-AAAAACATTTCCAT-TTTTTCTTCGTGCAAACCAAACCAAGAGGAAAT-A-AG
* * *
19818429 AAATG-ACGTTCGGCTTTAAGGGTGTAACACCCCAAAAATTTTTGTTCTTGGAATTGTTAAAACA
256 AGATGAACGTTCGGCTTTAAAGGTGTAACACCCCAAAAATTTTTGTTATTGGAA-TGTTAAAACA
* * * * * *
19818493 TGTCAAGGGTGTAACATTTGGCTTCGAAAATATTTTTTTATATGAGAATTTGCCGCATGATACGA
320 TGTCAAGGGTGTAACATTCGGCTTTGAAAATATTTATATATATGAGAACTTGCCGCATGATACAA
*
19818558 TGGTTACACCCACTGTGTCGTTCTATTATAAAAATATTATTATTTTTATCATGAAATTGTTGCAG
385 CGGTTACACCCACTGTGTCGTTCTATTATAAAAATATTATTATTTTTATCATGAAATTGTTGCAG
* * * * *
19818623 ATGAAATTTTAACAATAAAAAAAACTGATACGACGGTTTCACCAATTATGTCATTTTGTTATAAA
450 AGGAAATTTAAACAATAAAAAAAACTGATACGACGATTTCACCAATTATGTCATCTTGTCATAAA
* *
19818688 ATATTATTATTTTTATCATGTAACTGCTTTAAACC
515 ATATTATCATTTTTATCATGAAACTGCTTTAAACC
* * * * * * * * *
19818723 TA-T-TGTCGTCTTATAATTTACTTAAGGATTTAAAATTAGAATTTAACTTAAA-AGGGTTGAAT
1 CATTGTGTCATCTTGTAATTTGCTTAAGAATTTATAATTAGAACTTAATTTAAAGA-GGTTAAAT
* * * *
19818785 AG-ACCTTCTACCTAGAATAT-T-TATGGCCGATTATT---GAAGTATGTATGCTATATTAAAAA
65 AGTA-ATTATACCTAGAATATATATATGGCCGGTTATTGAAGAAGTATGTATGTTATATT-AAAA
* * *
19818844 AACATTAGTAATTAAAATTATAAAATGAAAACTTAATTAAATAAAAAATAAGTAATAATGGAAAT
128 AACATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAAAATAAGTAATAATGGGAAT
* * * * *
19818909 AGGTGGCAAAAACAAAAATATTTTCATCTTTTCTTCGTGCAAATCAAACCAAGTAAGAAATAAGA
193 AGGTGGCAAAAACAAAAACATTTCCATTTTTTCTTCGTGCAAACCAAACCAAG-AGGAAATAAGA
* * * * * * *
19818974 GATGAAGGTTCAGTTTTAATGGTGTAACGCCACAAAAATTTTTGTT-TTCGGATATGTTAAAAGA
257 GATGAACGTTCGGCTTTAAAGGTGTAACACCCCAAAAATTTTTGTTATT-GGA-ATGTTAAAACA
* * * *
19819038 TGTCAAGGGTGTAACCTTCGGCTTTGAAAATATATATATATATATGAGAACTTGTCGCTTGATTC
320 TGTCAAGGGTGTAACATTCGGCTTTGAAAATAT-T-TATATATATGAGAACTTGCCGCATGATAC
* * *
19819103 AACGGTTTCACCCATTGTGTTG-TCTTATTATAAAAATATTATTATTTTTATCATGAAATTGTTG
383 AACGGTTACACCCACTGTGTCGTTC-TATTATAAAAATATTATTATTTTTATCATGAAATTGTTG
** * ** * * * *
19819167 TGGAGGCAATTTAAAC-A-AAAAAAATTTGATACGACTATTTTACCCATTGTGTCATCTTGTCAT
447 CAGAGGAAATTTAAACAATAAAAAAAACTGATACGACGATTTCACCAATTATGTCATCTTGTCAT
*
19819230 AAAATATTATCATTTTTATCATGAAAGTG-TTGTAAACC
512 AAAATATTATCATTTTTATCATGAAACTGCTT-TAAACC
*
19819268 CATTGTGTCATCTTGTAATTTGCTTAAGAATGTATAATTAGAACTTAATTTAAAGAGGTTAAATA
1 CATTGTGTCATCTTGTAATTTGCTTAAGAATTTATAATTAGAACTTAATTTAAAGAGGTTAAATA
* * * * *
19819333 GTAATTATATCAAGAATATATATATAGCGGGCTATTGAAGCAAGTATGTATGTTATATTAAAAAA
66 GTAATTATACCTAGAATATATATATGGCCGGTTATTGAAG-AAGTATGTATGTTATATTAAAAAA
* *
19819398 CATTAGTAATTGAAATTATAAAATGAAAATTTAATTAAATAGAATATAAGTAATAATGGGAATAG
130 CATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAAAATAAGTAATAATGGGAATAG
* * * *
19819463 GTGGAAAAAACAAAAACATATCCATTTTTTCTTCGTGCAAACCAAACCAAGGGGGAAAGAAGAGA
195 GTGGCAAAAACAAAAACATTTCCATTTTTTCTTCGTGCAAACCAAACCAA-GAGGAAATAAGAGA
* ** * * *
19819528 GGAATATTCGGCTTTAAAGGAGTAACACCCCAAAATTTTTTGTTATTGGAAATGTTAAAATATGT
259 TGAACGTTCGGCTTTAAAGGTGTAACACCCCAAAAATTTTTGTTATTGG-AATGTTAAAACATGT
* * * *
19819593 CAAAGATGTAATATTCGGCTTTAAAAATATTT
323 CAAGGGTGTAACATTCGGCTTTGAAAATATTT
19819625 TTTTATATAA
Statistics
Matches: 749, Mismatches: 125, Indels: 56
0.81 0.13 0.06
Matches are distributed among these distances:
543 4 0.01
544 55 0.07
545 220 0.29
546 12 0.02
547 153 0.20
548 71 0.09
549 13 0.02
550 4 0.01
551 1 0.00
552 195 0.26
553 21 0.03
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (549 bp):
CATTGTGTCATCTTGTAATTTGCTTAAGAATTTATAATTAGAACTTAATTTAAAGAGGTTAAATA
GTAATTATACCTAGAATATATATATGGCCGGTTATTGAAGAAGTATGTATGTTATATTAAAAAAC
ATTAGTAATTAAAATTATAAAATGAAAATTTAATTAAATAGAAAATAAGTAATAATGGGAATAGG
TGGCAAAAACAAAAACATTTCCATTTTTTCTTCGTGCAAACCAAACCAAGAGGAAATAAGAGATG
AACGTTCGGCTTTAAAGGTGTAACACCCCAAAAATTTTTGTTATTGGAATGTTAAAACATGTCAA
GGGTGTAACATTCGGCTTTGAAAATATTTATATATATGAGAACTTGCCGCATGATACAACGGTTA
CACCCACTGTGTCGTTCTATTATAAAAATATTATTATTTTTATCATGAAATTGTTGCAGAGGAAA
TTTAAACAATAAAAAAAACTGATACGACGATTTCACCAATTATGTCATCTTGTCATAAAATATTA
TCATTTTTATCATGAAACTGCTTTAAACC
Found at i:19820787 original size:25 final size:25
Alignment explanation
Indices: 19820753--19820802 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
19820743 TTTTCTTGCT
19820753 TCAAACCGAACCAAGGGAAAAAGAA
1 TCAAACCGAACCAAGGGAAAAAGAA
19820778 TCAAACCGAACCAAGGGAAAAAGAA
1 TCAAACCGAACCAAGGGAAAAAGAA
19820803 GAGGGAAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.56, C:0.20, G:0.20, T:0.04
Consensus pattern (25 bp):
TCAAACCGAACCAAGGGAAAAAGAA
Found at i:19821074 original size:91 final size:91
Alignment explanation
Indices: 19820918--19821332 Score: 785
Period size: 91 Copynumber: 4.5 Consensus size: 91
19820908 TATGAGATTG
* * * *
19820918 GTTTCACCCATTGTGTTATCTTATTATAAAAATATTATTATTTTTATCATGAAATTATTGCAGAG
1 GTTTCACCAATTGTATCATCTTGTTAT-AAAATATTATTATTTTTATCATGAAATTATTGCAGAG
19820983 ACAATTTAAACAAAAAAAAATTGATAT
65 ACAATTTAAACAAAAAAAAATTGATAT
19821010 GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATGAAATTATTGCAGAGA
1 GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATGAAATTATTGCAGAGA
19821075 CAATTTAAACAAAAAAAAATTGATAT
66 CAATTTAAACAAAAAAAAATTGATAT
19821101 GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATGAAATTATTGCAGAGA
1 GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATGAAATTATTGCAGAGA
19821166 CAATTTAAACAAAAAAAAATTGATAT
66 CAATTTAAACAAAAAAAAATTGATAT
19821192 GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATGAAATTATTGCAGAGA
1 GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATGAAATTATTGCAGAGA
19821257 CAATTTAAACAAAAAAAAATTGATAT
66 CAATTTAAACAAAAAAAAATTGATAT
19821283 GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATG
1 GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATG
19821333 GAGCTGCTGT
Statistics
Matches: 319, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
91 296 0.93
92 23 0.07
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.41
Consensus pattern (91 bp):
GTTTCACCAATTGTATCATCTTGTTATAAAATATTATTATTTTTATCATGAAATTATTGCAGAGA
CAATTTAAACAAAAAAAAATTGATAT
Found at i:19822799 original size:44 final size:44
Alignment explanation
Indices: 19822730--19822815 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
19822720 TTTATTATTT
19822730 ATAGAAACAAAAAAAAATAAAGTTTTGTGTTTGAACTTCAACGGC
1 ATAGAAACAAAAAAAAATAAAGTTTTGTGTTTG-ACTTCAACGGC
*
19822775 ATAGAAAC-AAAACAAATAAAGTTTTGTGTTTGACTTCAACG
1 ATAGAAACAAAAAAAAATAAAGTTTTGTGTTTGACTTCAACG
19822816 TAAAGAACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 9 0.22
44 23 0.57
45 8 0.20
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (44 bp):
ATAGAAACAAAAAAAAATAAAGTTTTGTGTTTGACTTCAACGGC
Found at i:19823877 original size:23 final size:23
Alignment explanation
Indices: 19823851--19823895 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19823841 ACAAACATCG
19823851 ATGCATAACAAATACAGATTCAT
1 ATGCATAACAAATACAGATTCAT
* **
19823874 ATGCATATCAGTTACAGATTCA
1 ATGCATAACAAATACAGATTCA
19823896 GATCCTACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (23 bp):
ATGCATAACAAATACAGATTCAT
Found at i:19824334 original size:30 final size:30
Alignment explanation
Indices: 19824278--19824334 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
19824268 TGGGTATTTT
* * * *
19824278 CACACGGGCTGGGCACATGCCTATGTGAAC
1 CACACGGGCTAGCCACACGCCCATGTGAAC
19824308 CACACGGGCTAGCCACACGCCCATGTG
1 CACACGGGCTAGCCACACGCCCATGTG
19824335 CCAGCCCATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.23, C:0.35, G:0.28, T:0.14
Consensus pattern (30 bp):
CACACGGGCTAGCCACACGCCCATGTGAAC
Found at i:19825188 original size:32 final size:32
Alignment explanation
Indices: 19825147--19825209 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
19825137 TGTCCTTAGT
19825147 AATTAGTTTAGTTAATTATAGATTAAAAATCA
1 AATTAGTTTAGTTAATTATAGATTAAAAATCA
19825179 AATTAGTTTAGTTAATTATAGATTAAAAATC
1 AATTAGTTTAGTTAATTATAGATTAAAAATC
19825210 CATCTCATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.41
Consensus pattern (32 bp):
AATTAGTTTAGTTAATTATAGATTAAAAATCA
Found at i:19838385 original size:6 final size:6
Alignment explanation
Indices: 19838360--19838410 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
19838350 ATCTTCCTAT
* * *
19838360 TTTTTA TTATTTA TTCTTA TTTTTA -TTTTA TTTCTA TTTTTA TTTTCA
1 TTTTTA TT-TTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
19838408 TTT
1 TTT
19838411 CAATTTTATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
5 5 0.13
6 27 0.71
7 6 0.16
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:19838391 original size:17 final size:17
Alignment explanation
Indices: 19838377--19838429 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 17
19838367 TATTTATTCT
19838377 TATTTTTATTTTATTTC
1 TATTTTTATTTTATTTC
19838394 TATTTTTATTTTCATTTC
1 TATTTTTATTTT-ATTTC
*
19838412 AATTTTATTATTTTATTT
1 TA-TTT-TTATTTTATTT
19838430 TGAAAGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 12 0.38
18 6 0.19
19 7 0.22
20 7 0.22
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTTATTTTATTTC
Found at i:19838397 original size:23 final size:24
Alignment explanation
Indices: 19838361--19838410 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
19838351 TCTTCCTATT
* *
19838361 TTTTATTATTTATTCTTATTTTTA
1 TTTTATTATCTATTCTTATTTTCA
*
19838385 TTTTATT-TCTATTTTTATTTTCA
1 TTTTATTATCTATTCTTATTTTCA
19838408 TTT
1 TTT
19838411 CAATTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTATTATCTATTCTTATTTTCA
Found at i:19838403 original size:29 final size:30
Alignment explanation
Indices: 19838364--19838420 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
19838354 TCCTATTTTT
**
19838364 TATTATTTATTCTT-ATTTTTATTTTATTTC
1 TATTATTTATT-TTCATTTCAATTTTATTTC
19838394 TATT-TTTATTTTCATTTCAATTTTATT
1 TATTATTTATTTTCATTTCAATTTTATT
19838421 ATTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 18 0.75
30 4 0.17
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (30 bp):
TATTATTTATTTTCATTTCAATTTTATTTC
Found at i:19841688 original size:35 final size:34
Alignment explanation
Indices: 19841642--19841710 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 34
19841632 TCCACTCACA
19841642 AATTGACAGTCAGTTGGAAAGAGAGATTCAGATT
1 AATTGACAGTCAGTTGGAAAGAGAGATTCAGATT
*
19841676 NAATTGACAGTCAGTTGGAAAGAGCGATTCAGATT
1 -AATTGACAGTCAGTTGGAAAGAGAGATTCAGATT
19841711 CTAGAGGACA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.26
Consensus pattern (34 bp):
AATTGACAGTCAGTTGGAAAGAGAGATTCAGATT
Found at i:19843839 original size:46 final size:46
Alignment explanation
Indices: 19843696--19843961 Score: 247
Period size: 46 Copynumber: 5.7 Consensus size: 46
19843686 TGTGTGAGCT
* * *
19843696 AGTGTAAGACAT-TCTGGGACATGCATCGGCCAC-ATTATGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTAAGCC
* * * *
19843741 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAAAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTAAGCC
*
19843789 AGTGTAAGACATGTGTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* *
19843835 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
* * * * * *
19843879 AGTGTAAGACCATGTCTGGGACATGGCATGGGAAC-AGATATATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CCTCGAGATGT-A-AGCC
19843929 AGTGTAAGACCATGTCTGGGACATAGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
19843962 ATCTTACCCC
Statistics
Matches: 185, Mismatches: 23, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
44 11 0.06
45 25 0.14
46 68 0.37
47 23 0.12
48 26 0.14
49 1 0.01
50 31 0.17
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:19845408 original size:12 final size:11
Alignment explanation
Indices: 19845387--19845435 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
19845377 ATTGAGTCCA
19845387 TTTATTTTATT
1 TTTATTTTATT
19845398 TTTAGTTTTATT
1 TTTA-TTTTATT
*
19845410 TCTATTTTTATT
1 TTTA-TTTTATT
*
19845422 TCTATTGTTATT
1 TTTATT-TTATT
19845434 TT
1 TT
19845436 CTTAAACTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 6 0.18
12 27 0.82
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:19845427 original size:18 final size:17
Alignment explanation
Indices: 19845387--19845435 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
19845377 ATTGAGTCCA
19845387 TTTATTTTATTTTTAGT
1 TTTATTTTATTTTTAGT
19845404 TTTATTTCTATTTTTA-T
1 TTTATTT-TATTTTTAGT
19845421 TTCTATTGTTATTTT
1 TT-TATT-TTATTTT
19845436 CTTAAACTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.34
18 18 0.62
19 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTTTTAGT
Found at i:19845679 original size:19 final size:21
Alignment explanation
Indices: 19845652--19845690 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
19845642 TCTCTCCCTC
19845652 TATTATGA-TAT-TCTATTTT
1 TATTATGATTATATCTATTTT
*
19845671 TATTGTGATTATATCTATTT
1 TATTATGATTATATCTATTT
19845691 GAACATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (21 bp):
TATTATGATTATATCTATTTT
Found at i:19848789 original size:13 final size:13
Alignment explanation
Indices: 19848771--19848795 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19848761 TCCCATACTT
19848771 ATACACATTATAG
1 ATACACATTATAG
19848784 ATACACATTATA
1 ATACACATTATA
19848796 ACATCAATTC
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:0.48, C:0.16, G:0.04, T:0.32
Consensus pattern (13 bp):
ATACACATTATAG
Found at i:19850338 original size:50 final size:50
Alignment explanation
Indices: 19850284--19850598 Score: 266
Period size: 50 Copynumber: 6.3 Consensus size: 50
19850274 ATTTGGTATG
19850284 CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTA
1 CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTA
** * ** *
19850334 CTACACACATGATCGAAGTAAACAGGT-ATGCA--TAGTAGCCTGCACTTAGTA
1 CTACACAC--G-T-GACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTA
* * * * * **
19850385 CTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTTAGTA
1 CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTA
* * *
19850435 CTACACACGTGACTTAACCATTTGATACACGTAGTAGCCTACACTTAGTA
1 CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTA
* * * *
19850485 CTACACACGTGA-TCGAA--GT-TAAGGGTACGCATAGTAGCCTGCACTTAGTA
1 CTACACACGTGACT-TAACCATCTAA---TACACGTAGTAGCCTGCACTTAGTA
* * * * * * *
19850535 CTACACATGCGACCTATCAATCTAGTACACGTAGTAGCCTGCATTTAGTA
1 CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTA
19850585 CTACACACGTGACT
1 CTACACACGTGACT
19850599 CACAACGAAT
Statistics
Matches: 206, Mismatches: 44, Indels: 30
0.74 0.16 0.11
Matches are distributed among these distances:
47 8 0.04
48 4 0.02
49 2 0.01
50 149 0.72
51 26 0.13
52 2 0.01
53 7 0.03
54 8 0.04
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTA
Found at i:19850577 original size:150 final size:151
Alignment explanation
Indices: 19850284--19850598 Score: 542
Period size: 150 Copynumber: 2.1 Consensus size: 151
19850274 ATTTGGTATG
*
19850284 CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACATGATCG
1 CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTACACTTAGTACTACACACATGATCG
* *
19850349 AAGTAAACAGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACA
66 AAGTAAACAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACA
19850414 CGTAGTAGCCTGCACTTAGTA
131 CGTAGTAGCCTGCACTTAGTA
* * *
19850435 CTACACACGTGACTTAACCATTTGATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCG
1 CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTACACTTAGTACTACACACATGATCG
* *
19850500 AAGTTAA-GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACA
66 AAGTAAACAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACA
*
19850564 CGTAGTAGCCTGCATTTAGTA
131 CGTAGTAGCCTGCACTTAGTA
19850585 CTACACACGTGACT
1 CTACACACGTGACT
19850599 CACAACGAAT
Statistics
Matches: 155, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
150 88 0.57
151 67 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (151 bp):
CTACACACGTGACTTAACCATCTAATACACGTAGTAGCCTACACTTAGTACTACACACATGATCG
AAGTAAACAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACA
CGTAGTAGCCTGCACTTAGTA
Found at i:19851198 original size:30 final size:30
Alignment explanation
Indices: 19851154--19851212 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
19851144 CAAAAATCAT
* *
19851154 ACTTTTACAAATTTGCATTTTGACCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
* *
19851184 ACTTTCACATATTTGCACTTTGGCCCCTA
1 ACTTTCACAAATTTGCACTTTGACCCCTA
19851213 GGCTCGTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTTTGACCCCTAA
Found at i:19853531 original size:15 final size:15
Alignment explanation
Indices: 19853511--19853549 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
19853501 AACCAAGATC
19853511 TCCAAGAT-AGAGAAA
1 TCCAAGATAAG-GAAA
19853526 TCCAAGATAAGGAAA
1 TCCAAGATAAGGAAA
19853541 TCCAAGATA
1 TCCAAGATA
19853550 CAATATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.15
Consensus pattern (15 bp):
TCCAAGATAAGGAAA
Found at i:19856783 original size:70 final size:70
Alignment explanation
Indices: 19856695--19856833 Score: 233
Period size: 70 Copynumber: 2.0 Consensus size: 70
19856685 TTACTAGTAC
*
19856695 TCTTAGTTCCTTTGGGTTCGAAAATCCGGTCTTGCTAAAGCTATACTACTGTTCAATAGGTACAC
1 TCTTAGTTCCTTCGGGTTCGAAAATCCGGTCTTGCTAAAGCTATACTACTGTTCAATAGGTACAC
19856760 TTGCG
66 TTGCG
* * * *
19856765 TCTTGGTTCCTTCGGGTTCGACAATCCGGTCTTGTTAAAGCTATACTACTGTTCGATAGGTACAC
1 TCTTAGTTCCTTCGGGTTCGAAAATCCGGTCTTGCTAAAGCTATACTACTGTTCAATAGGTACAC
19856830 TTGC
66 TTGC
19856834 CTTCATCTTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (70 bp):
TCTTAGTTCCTTCGGGTTCGAAAATCCGGTCTTGCTAAAGCTATACTACTGTTCAATAGGTACAC
TTGCG
Found at i:19873530 original size:50 final size:50
Alignment explanation
Indices: 19873465--19873859 Score: 366
Period size: 50 Copynumber: 7.9 Consensus size: 50
19873455 ACCGAAGCTC
* * **
19873465 TCTGGTACGCATAGTAGCCTACACTTAGCACTACACATACGACCTATCAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAA
* * * * *
19873515 TCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGGCTTAACTA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAA
* * * *
19873565 TCTGATACACATAGTAGCCTACACTTAGTACTACACACGTGA-TTGAAGTTAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCT--A-TCAA
* ** * *
19873617 -CGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAA
* * * * * *
19873666 TCTAGTACACGTAGTAGCCTACACTTAGTACTACACATGTGGCTTAACTA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAA
* * * *
19873716 TCTGATACACATAGTAGCCTACACTTAGTACTACACACGTGA-TTGAAGTTAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCT--A-TCAA
* ** * *
19873768 -CGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAA
* * * * *
19873817 TCTAGTCCACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGAC
19873860 TCACAACGAA
Statistics
Matches: 274, Mismatches: 61, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
49 10 0.04
50 190 0.69
51 70 0.26
52 4 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCTATCAA
Found at i:19873747 original size:151 final size:151
Alignment explanation
Indices: 19873468--19873853 Score: 709
Period size: 151 Copynumber: 2.6 Consensus size: 151
19873458 GAAGCTCTCT
* * * * *
19873468 GGTACGCATAGTAGCCTACACTTAGCACTACACATACGACCTATCAATCTGGTACACGTAGTAGC
1 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
19873533 CTACACTTAGTACTACACATGTGGCTTAACTATCTGATACACATAGTAGCCTACACTTAGTACTA
66 CTACACTTAGTACTACACATGTGGCTTAACTATCTGATACACATAGTAGCCTACACTTAGTACTA
19873598 CACACGTGATTGAAGTTAACG
131 CACACGTGATTGAAGTTAACG
19873619 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
1 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
19873684 CTACACTTAGTACTACACATGTGGCTTAACTATCTGATACACATAGTAGCCTACACTTAGTACTA
66 CTACACTTAGTACTACACATGTGGCTTAACTATCTGATACACATAGTAGCCTACACTTAGTACTA
19873749 CACACGTGATTGAAGTTAACG
131 CACACGTGATTGAAGTTAACG
*
19873770 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTCCACGTAGTAGC
1 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
*
19873835 CTGCACTTAGTACTACACA
66 CTACACTTAGTACTACACA
19873854 CGTGACTCAC
Statistics
Matches: 228, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
151 228 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (151 bp):
GGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTACACGTAGTAGC
CTACACTTAGTACTACACATGTGGCTTAACTATCTGATACACATAGTAGCCTACACTTAGTACTA
CACACGTGATTGAAGTTAACG
Done.