Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 50 of 198
Found at i:14957784 original size:142 final size:141
Alignment explanation
Indices: 14957520--14957907 Score: 636
Period size: 142 Copynumber: 2.7 Consensus size: 141
14957510 TGGCAGTGGT
* * * *
14957520 GGAGTAGACTGAAGCTAGTAATCCTATCTTCCTAAGATTACAGTGGAGCAGATT-AAATAAAGGA
1 GGAGCAGATTGAAGCTAGTAATCCTATC-TCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
* *
14957584 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCT
65 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
*
14957649 TGAGATTATAGC
130 TGAGATTACAGC
*
14957661 GGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAAATAAAGGA
1 GGAGCAGATTGAAGCTAGTAATCCTATCTCC-TGAGATTACAGTGGAGCGGATTAAAATAAAGGA
* *
14957726 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGTATCAGATTGAAGCCAGAAATCTTATCTCCC
65 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
14957791 TGAGATTACAGC
130 TGAGATTACAGC
14957803 GGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 GGAGCAGATTGAAGCTAGTAATCCTATCT-CCTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
14957868 TCTTATCTCTCTGAAGTTACAGTAGAG-AGGATCGCATCAG
65 TCTTATCTCTCTGAAGTTACAGTAGAGTA-GATCGCATCAG
14957908 GTCTTATCTC
Statistics
Matches: 230, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
140 3 0.01
141 46 0.20
142 179 0.78
143 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (141 bp):
GGAGCAGATTGAAGCTAGTAATCCTATCTCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
CTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCT
GAGATTACAGC
Found at i:14958307 original size:24 final size:24
Alignment explanation
Indices: 14958271--14958317 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
14958261 CCGCACACCA
14958271 AAAATAAACCC-AATTTTACAAATG
1 AAAATAAACCCAAATTTTA-AAATG
*
14958295 AAAATAAAGCCAAATTTTAAAAT
1 AAAATAAACCCAAATTTTAAAAT
14958318 ATCCACAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (24 bp):
AAAATAAACCCAAATTTTAAAATG
Found at i:14965909 original size:51 final size:51
Alignment explanation
Indices: 14965833--14966051 Score: 402
Period size: 51 Copynumber: 4.3 Consensus size: 51
14965823 ACTTCTAATC
14965833 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
14965884 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
14965935 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
14965986 AGTAACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGGGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
14966037 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
14966052 ATGTGATCCG
Statistics
Matches: 162, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 162 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:14966811 original size:53 final size:52
Alignment explanation
Indices: 14966704--14966814 Score: 143
Period size: 53 Copynumber: 2.1 Consensus size: 52
14966694 GGGTGTTACA
* *
14966704 TGTACAGAGAATGTATATGCATGATATTTGACTTTGCGGAGGTTCGTGCAGAT
1 TGTACAGAGAATGTATATGCATGATATTTGACTTTGCGAAGGTACGTG-AGAT
* * *
14966757 TGTATAGAGAATGTATATGCATGATATTTGGCTTTGCGAATGTACAGTTG-GAT
1 TGTACAGAGAATGTATATGCATGATATTTGACTTTGCGAAGGTAC-G-TGAGAT
14966810 TGTAC
1 TGTAC
14966815 GGGGATATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 47 0.94
54 1 0.02
55 2 0.04
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.36
Consensus pattern (52 bp):
TGTACAGAGAATGTATATGCATGATATTTGACTTTGCGAAGGTACGTGAGAT
Found at i:14968653 original size:538 final size:539
Alignment explanation
Indices: 14967586--14968660 Score: 1466
Period size: 538 Copynumber: 2.0 Consensus size: 539
14967576 TAAGAATTTG
*
14967586 CATATATGAATCTGTGATGATGATTCCACATATAAAGGATTTGCAAGTATGGTATGCAAGTATGC
1 CATATATGAATATGTGATGATGATTCCACATATAAAGGATTTGCAAGTATGGTATGCAAGTATGC
* *
14967651 GTTTGCCATGCTTGAGTCCACGTTTTCTAAGACTTTAAGTGTAAATCAGAAGGTAAAAATTATTC
66 GTTCGCCATGCTTGAGTCCACGTTTTCTAAGACTTTAAGTGTAAATCAGAAGGTAAAAATTATCC
* * * * *
14967716 ACGTGTGAATCTCCATGCATGAGTTTTCTGAAATCAATCTGTCATAAGTTAGTCCATAATGATAA
131 ACATCTAAATCTCCATGCATGAGTTTTCTGAAATCAATCTGTCATAAGTTAATCCACAATGATAA
* * *
14967781 TAATTGTTAGGGTAATACGCACATGTTTTGCAAGAAAAATAGGTAACGATTCATCTTGTAAAAAA
196 TAATTATTAGAGTAATACGCACATGTTTTGCAAGAAAAAGAGGTAACGATTCATCTTGTAAAAAA
* *
14967846 CCAGAGCAAATGGGTAAGCGAAATCGTTCCTCATTATAGCCTATAACACGAATGATTGAAACGGA
261 CCAGAGCAAACGGGTAAGCGAAATCATTCCTCATTATAGCCTATAACACGAATGATTGAAACGGA
* ** * *
14967911 GGATTGTAGTAATGTCACAAGTGTATGAATTTTCATGTTGAGCCAACGCAATGGAGGATAAAATT
326 GGATTGCAGTAATGTCACAAGTGTACAAATTTTCAAGTTGAGCCAACGCAATGGAGGATAAAAGT
** * * * *
14967976 ATGCCAGGAAGATGTGTGAATTATATTTGTGCAAATGATGTGAGACAAGATCAAACCCATGAAGT
391 ACACCAGGAAGATGTGCGAACTATATTTATGCAAATGATGTGACACAAGATCAAACCCATGAAGT
* ** * * *
14968041 TCTAACTTATAGTTTCATGAACAATATGAAATATTAGAAACTCGTTAAGTTTATTTAAGCTTTCT
456 TCTAACTTATAATTTCATGAACAATATGAAATATTAGAAACTCACTAAGCTCATTTAAGCTTACT
14968106 TAGGTTTTTTATGTTTCTA
521 TAGGTTTTTTATGTTTCTA
*** * *
14968125 CATATATGAATATGTGATGATGATTTTGCATATAAA-TATTTGCAAGTATGGTCTGCAAGTATGC
1 CATATATGAATATGTGATGATGATTCCACATATAAAGGATTTGCAAGTATGGTATGCAAGTATGC
** * *
14968189 GTTCGCCATGCTTGAGTCCGTGTTTTGTAAGACTTTAAGTGTAAATCCA-CAGGTAAAAATTATC
66 GTTCGCCATGCTTGAGTCCACGTTTTCTAAGACTTTAAGTGTAAAT-CAGAAGGTAAAAATTATC
* * * *
14968253 CACATCTAAATCTCCATGCATGAGTTTTCTGAAATC-ATTTCGTCATACGTTAATTCGCAATGAT
130 CACATCTAAATCTCCATGCATGAGTTTTCTGAAATCAATCT-GTCATAAGTTAATCCACAATGAT
* * * * *
14968317 AATAATTATTAGAGTAATACGCACATGTTTTGCAAGCAAAAGAGGTAATGGTTCATTTTGTAAGA
194 AATAATTATTAGAGTAATACGCACATGTTTTGCAAGAAAAAGAGGTAACGATTCATCTTGTAAAA
* * *
14968382 AACC-GAAGCAAACGGGTAAGCGAAATCATT-TTACATTGTAGCCTATAGCAC-AAGTGATTGAA
259 AACCAG-AGCAAACGGGTAAGCGAAATCATTCCT-CATTATAGCCTATAACACGAA-TGATTGAA
* * * *
14968444 ATGGAGGATTGCAGTAATGCTGA-AAGTGTACAAATTTTCAAGTTGAGCTAATGCAA-GGAGGAT
321 ACGGAGGATTGCAGTAATG-TCACAAGTGTACAAATTTTCAAGTTGAGCCAACGCAATGGAGGAT
* *
14968507 GAAAGTACACCAGGAAGATGTGCGAACTATATTTATGCAAATGATGCCTGACAGAAGATCAAACC
385 AAAAGTACACCAGGAAGATGTGCGAACTATATTTATGCAAATGATG--TGACACAAGATCAAACC
** * *
14968572 CATGAAGTTCTAACTTATAATTTCATGAACGGTATGAAATATTAGAAACTCACTAAGCTCGTTTG
448 CATGAAGTTCTAACTTATAATTTCATGAACAATATGAAATATTAGAAACTCACTAAGCTCATTTA
14968637 AGCTTACTTA-GTTTTTTATGTTTC
513 AGCTTACTTAGGTTTTTTATGTTTC
14968661 CAAGGTGTAA
Statistics
Matches: 467, Mismatches: 61, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
537 53 0.11
538 298 0.64
539 116 0.25
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (539 bp):
CATATATGAATATGTGATGATGATTCCACATATAAAGGATTTGCAAGTATGGTATGCAAGTATGC
GTTCGCCATGCTTGAGTCCACGTTTTCTAAGACTTTAAGTGTAAATCAGAAGGTAAAAATTATCC
ACATCTAAATCTCCATGCATGAGTTTTCTGAAATCAATCTGTCATAAGTTAATCCACAATGATAA
TAATTATTAGAGTAATACGCACATGTTTTGCAAGAAAAAGAGGTAACGATTCATCTTGTAAAAAA
CCAGAGCAAACGGGTAAGCGAAATCATTCCTCATTATAGCCTATAACACGAATGATTGAAACGGA
GGATTGCAGTAATGTCACAAGTGTACAAATTTTCAAGTTGAGCCAACGCAATGGAGGATAAAAGT
ACACCAGGAAGATGTGCGAACTATATTTATGCAAATGATGTGACACAAGATCAAACCCATGAAGT
TCTAACTTATAATTTCATGAACAATATGAAATATTAGAAACTCACTAAGCTCATTTAAGCTTACT
TAGGTTTTTTATGTTTCTA
Found at i:14971433 original size:7 final size:7
Alignment explanation
Indices: 14971416--14971450 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
14971406 GTGAAATGTT
14971416 TAAAA-A
1 TAAAATA
14971422 TAAAATA
1 TAAAATA
14971429 TAAAATA
1 TAAAATA
14971436 TAAAATA
1 TAAAATA
14971443 TAAAATA
1 TAAAATA
14971450 T
1 T
14971451 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAAATA
Found at i:14973367 original size:4 final size:4
Alignment explanation
Indices: 14973358--14973405 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
14973348 AAATATGTAC
* * *
14973358 TAGA TAGA TAGA TAAA TAGA TAGA TAGA TAAA TTGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
14973406 GGTGAAAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (4 bp):
TAGA
Found at i:14973379 original size:16 final size:16
Alignment explanation
Indices: 14973358--14973403 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
14973348 AAATATGTAC
14973358 TAGATAGATAGATAAA
1 TAGATAGATAGATAAA
14973374 TAGATAGATAGATAAA
1 TAGATAGATAGATAAA
*
14973390 TTGATAGATAGATA
1 TAGATAGATAGATA
14973404 GAGGTGAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (16 bp):
TAGATAGATAGATAAA
Found at i:14976066 original size:33 final size:33
Alignment explanation
Indices: 14975984--14976066 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
14975974 TGGTCCAACC
* * ** * *
14975984 ATGGTCTTACGTTGAAGGTGCCATAACCCAGTT
1 ATGGTCTTACATTTAAAATGCCATAAACCAGCT
*
14976017 ATGGTCTTTTCA-TTAAAATGCCATAAACCAGCT
1 ATGGTC-TTACATTTAAAATGCCATAAACCAGCT
14976050 ATGGTCTTACATTTAAA
1 ATGGTCTTACATTTAAA
14976067 CACTGTCATG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
32 4 0.10
33 33 0.82
34 3 0.08
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (33 bp):
ATGGTCTTACATTTAAAATGCCATAAACCAGCT
Found at i:14991034 original size:3 final size:3
Alignment explanation
Indices: 14991011--14991101 Score: 75
Period size: 3 Copynumber: 30.3 Consensus size: 3
14991001 ATAAGTAAAT
*
14991011 ATA ATTA ATA AAA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
14991056 ATA CA-A AGCTA ATA GT- ATA AT- ATA ATA AT- ATA ATA GTA ATGA ATA
1 ATA -ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
14991101 A
1 A
14991102 GTAACTATAA
Statistics
Matches: 72, Mismatches: 6, Indels: 20
0.73 0.06 0.20
Matches are distributed among these distances:
2 8 0.11
3 55 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14993057 original size:43 final size:44
Alignment explanation
Indices: 14992711--14993144 Score: 269
Period size: 44 Copynumber: 9.8 Consensus size: 44
14992701 GAATTTGTCG
* * * *
14992711 CTTCAATCTACTCCACTGCAACTTCAAGGAGATGAGATTTGTGT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
* * ** *
14992755 CTTCAATTTGCTCCACTGTGACTTCAGGGAGATAAGA-TTCACTAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT--GTAT
* * * * *
14992800 TTTCACTCTGCTCCACTGCAATTTCAGGAAGATAAGACTTGTAAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGT-AT
* * * * * * *
14992845 -TTCAACCT-GTCCCACTGTAACTTTTA-GGAGACAAG-GTT-T-G
1 CTTCAATCTACT-CCACTGCAAC-TTCAGGGAGATAAGACTTGTAT
* * * * * *
14992885 CTAT-GATCTGCTCTACTTCAACTTCAGAGAAATAAGATCTGTAATGTAT
1 CT-TCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-C--T--TGTAT
* * * * *
14992934 AGCTTCAATCTA-TTCACCGCAACTTCAAGGAGATAAGATTTACTAT
1 --CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT
* *
14992980 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
* * * * **
14993024 CTTCAATCTGC-CCACTGCAACTTTAGGGGGATAA-AATTAGTGG
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTT-GTAT
*
14993067 CTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
* *
14993111 CTTCAATCCACTCCACTGCAACTTCATGGAGATA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATA
14993145 GGATTTGTGG
Statistics
Matches: 291, Mismatches: 73, Indels: 52
0.70 0.18 0.12
Matches are distributed among these distances:
40 3 0.01
41 17 0.06
42 6 0.02
43 38 0.13
44 126 0.43
45 67 0.23
46 5 0.02
47 2 0.01
48 1 0.00
50 20 0.07
51 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
Found at i:15005980 original size:22 final size:22
Alignment explanation
Indices: 15005952--15006000 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
15005942 ATCCCTTTTC
15005952 CTCCGGTGGTGGTTCGGTTATA
1 CTCCGGTGGTGGTTCGGTTATA
*
15005974 CTCCGGTGTTGGTTCGGTTATA
1 CTCCGGTGGTGGTTCGGTTATA
15005996 CTCCG
1 CTCCG
15006001 ATCTATGGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.08, C:0.22, G:0.33, T:0.37
Consensus pattern (22 bp):
CTCCGGTGGTGGTTCGGTTATA
Found at i:15007871 original size:3 final size:3
Alignment explanation
Indices: 15007865--15007899 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15007855 AAGAAGGTTA
15007865 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
15007900 AAAAATTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:15008885 original size:39 final size:40
Alignment explanation
Indices: 15008806--15008885 Score: 90
Period size: 39 Copynumber: 2.0 Consensus size: 40
15008796 CCCTAAATCT
* *
15008806 CAAACTCTAAATATTGAACCTTAAACTCAAACATTAAACC
1 CAAACCCTAAATATTGAACCTTAAACTCAAACATCAAACC
* * * * *
15008846 CAAACCCTAAATCTT-ATCCTTAAACTTAAACCTCGAACC
1 CAAACCCTAAATATTGAACCTTAAACTCAAACATCAAACC
15008885 C
1 C
15008886 TGAACTCTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
39 20 0.61
40 13 0.39
ACGTcount: A:0.42, C:0.30, G:0.03, T:0.25
Consensus pattern (40 bp):
CAAACCCTAAATATTGAACCTTAAACTCAAACATCAAACC
Found at i:15011762 original size:2 final size:2
Alignment explanation
Indices: 15011755--15011784 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15011745 TAACTTACTT
15011755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15011785 AGAGTTTTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15015812 original size:17 final size:18
Alignment explanation
Indices: 15015792--15015825 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15015782 TTTAGATATT
15015792 ATTTGT-AAAGAGATTTC
1 ATTTGTAAAAGAGATTTC
15015809 ATTTGTAAAAGAGATTT
1 ATTTGTAAAAGAGATTT
15015826 TTGAGTGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (18 bp):
ATTTGTAAAAGAGATTTC
Found at i:15016440 original size:28 final size:28
Alignment explanation
Indices: 15016405--15016464 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
15016395 TGATAAATGC
15016405 ACATAGCCATTCAAAAGTCTTAAACATA
1 ACATAGCCATTCAAAAGTCTTAAACATA
15016433 ACATAGCCATTCAAAAGTCTTAAACATA
1 ACATAGCCATTCAAAAGTCTTAAACATA
15016461 ACAT
1 ACAT
15016465 TCAATGAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.47, C:0.22, G:0.07, T:0.25
Consensus pattern (28 bp):
ACATAGCCATTCAAAAGTCTTAAACATA
Found at i:15020310 original size:25 final size:25
Alignment explanation
Indices: 15020282--15020434 Score: 104
Period size: 25 Copynumber: 6.2 Consensus size: 25
15020272 CTTATGAGTG
15020282 TCCCGATATTTGGCTCTCTCGAGCT
1 TCCCGATATTTGGCTCTCTCGAGCT
*
15020307 TCCC-ATTATTTGGCTCTCTGGAGCT
1 TCCCGA-TATTTGGCTCTCTCGAGCT
* * * *
15020332 TCTCGATAATTGGTTCT-TATGAGCT
1 TCCCGATATTTGGCTCTCT-CGAGCT
* *
15020357 TCCCCAT-TAATGGCTCT-TCGGAGCT
1 TCCCGATAT-TTGGCTCTCTC-GAGCT
* * *
15020382 TCCTGATA-TTGGCTCACAT-AAGCT
1 TCCCGATATTTGGCTCTC-TCGAGCT
* *
15020406 TCCC-AAATTTGGCTCTCTTGAGCT
1 TCCCGATATTTGGCTCTCTCGAGCT
15020430 TCCCG
1 TCCCG
15020435 TTTACTACTC
Statistics
Matches: 97, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
23 3 0.03
24 31 0.32
25 61 0.63
26 2 0.02
ACGTcount: A:0.16, C:0.28, G:0.19, T:0.37
Consensus pattern (25 bp):
TCCCGATATTTGGCTCTCTCGAGCT
Found at i:15020356 original size:50 final size:49
Alignment explanation
Indices: 15020302--15020432 Score: 135
Period size: 50 Copynumber: 2.7 Consensus size: 49
15020292 TGGCTCTCTC
* **
15020302 GAGCTTCCCATTATTTGGCTCTCTGGAGCTT-CTCGATAATTGGTTCTTAT
1 GAGCTTCCCATTATTTGGCTCTCTGGAGCTTCCT-GAT-ATTGGCTCACAT
*
15020352 GAGCTTCCCCATTA-ATGGCTCT-TCGGAGCTTCCTGATATTGGCTCACAT
1 GAGCTT-CCCATTATTTGGCTCTCT-GGAGCTTCCTGATATTGGCTCACAT
* * *
15020401 AAGCTTCCCA-AATTTGGCTCTCTTGAGCTTCC
1 GAGCTTCCCATTATTTGGCTCTCTGGAGCTTCC
15020433 CGTTTACTAC
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
47 1 0.01
48 19 0.28
49 16 0.24
50 23 0.34
51 9 0.13
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.37
Consensus pattern (49 bp):
GAGCTTCCCATTATTTGGCTCTCTGGAGCTTCCTGATATTGGCTCACAT
Found at i:15020492 original size:25 final size:25
Alignment explanation
Indices: 15020464--15020530 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
15020454 TCCCAATGTT
*
15020464 TGGCTCGCAAGAGCTTCCCATTACA
1 TGGCTCACAAGAGCTTCCCATTACA
* * **
15020489 TGGCTCACATGAGCTTCCCGTTGTA
1 TGGCTCACAAGAGCTTCCCATTACA
*
15020514 TGGCTCAAAAGAGCTTC
1 TGGCTCACAAGAGCTTC
15020531 TTGATTTCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.27
Consensus pattern (25 bp):
TGGCTCACAAGAGCTTCCCATTACA
Found at i:15023660 original size:28 final size:28
Alignment explanation
Indices: 15023628--15023683 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15023618 GAAATGAGAA
15023628 AACCTCCTTGTAGTTGAGAGCCTCCATT
1 AACCTCCTTGTAGTTGAGAGCCTCCATT
15023656 AACCTCCTTGTAGTTGAGAGCCTCCATT
1 AACCTCCTTGTAGTTGAGAGCCTCCATT
15023684 GCCATTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (28 bp):
AACCTCCTTGTAGTTGAGAGCCTCCATT
Found at i:15026222 original size:51 final size:50
Alignment explanation
Indices: 15026029--15026272 Score: 290
Period size: 50 Copynumber: 4.8 Consensus size: 50
15026019 ATTTGGGTAA
* * * * *
15026029 AGAGGTACCATGTAAGACCATATCTTGGACATGACGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * *
15026079 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGACACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * *
15026129 AGAGGTCACATGTAAGATCATGTTTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * *
15026179 AGAGGTCCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGGT-CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * *
15026230 AGAACATCCCATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
15026273 TGTTATTATC
Statistics
Matches: 167, Mismatches: 25, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
50 96 0.57
51 69 0.41
52 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:15029630 original size:23 final size:23
Alignment explanation
Indices: 15029604--15029702 Score: 180
Period size: 23 Copynumber: 4.3 Consensus size: 23
15029594 AGTGTTATTG
15029604 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
15029627 ATCAGTGGTAGCTTCAGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
15029650 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
15029673 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
15029696 ATCAGTG
1 ATCAGTG
15029703 TGGCACTTAT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACGT
Found at i:15030783 original size:11 final size:11
Alignment explanation
Indices: 15030767--15030805 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
15030757 AATTCGGTTT
15030767 ATGTCATGGAA
1 ATGTCATGGAA
*
15030778 ATGTCA-AGAA
1 ATGTCATGGAA
15030788 CATGTCATGGAA
1 -ATGTCATGGAA
15030800 ATGTCA
1 ATGTCA
15030806 AGAACATTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (11 bp):
ATGTCATGGAA
Found at i:15030827 original size:24 final size:22
Alignment explanation
Indices: 15030767--15030812 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
15030757 AATTCGGTTT
15030767 ATGTCATGGAAATGTCAAGAAC
1 ATGTCATGGAAATGTCAAGAAC
15030789 ATGTCATGGAAATGTCAAGAAC
1 ATGTCATGGAAATGTCAAGAAC
15030811 AT
1 AT
15030813 TTGTCTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (22 bp):
ATGTCATGGAAATGTCAAGAAC
Found at i:15031913 original size:47 final size:48
Alignment explanation
Indices: 15031856--15031981 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 48
15031846 ATTATGAAAT
15031856 TTCCGTGTAAGACCATATCTGGAATATGGCATC-AT-TGTGATATGTGA
1 TTCCGTGTAAGACCATATCTGG-ATATGGCATCGATATGTGATATGTGA
* * * *
15031903 TTCCGTGTAAGACTATAGCTGGGCTATGGCATCGGTATGTGATATGTGA
1 TTCCGTGTAAGACCATATCT-GGATATGGCATCGATATGTGATATGTGA
* *
15031952 TTACATGTAAGACCATAGT-TGGATATGGCA
1 TTCCGTGTAAGACCATA-TCTGGATATGGCA
15031982 ATGTGAAAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
47 27 0.41
48 12 0.18
49 27 0.41
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (48 bp):
TTCCGTGTAAGACCATATCTGGATATGGCATCGATATGTGATATGTGA
Found at i:15031962 original size:49 final size:47
Alignment explanation
Indices: 15031861--15031981 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 47
15031851 GAAATTTCCG
* * *
15031861 TGTAAGACCATATCTGGAATATGGCATCATTGTGATATGTGATTCCG
1 TGTAAGACCATAGCTGGAATATGGCATCATTGTGATATGTGATTACA
* ** *
15031908 TGTAAGACTATAGCTGGGCTATGGCATCGGTATGTGATATGTGATTACA
1 TGTAAGACCATAGCTGGAATATGGCATC-AT-TGTGATATGTGATTACA
*
15031957 TGTAAGACCATAGTTGG-ATATGGCA
1 TGTAAGACCATAGCTGGAATATGGCA
15031982 ATGTGAAAAC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
47 24 0.39
48 8 0.13
49 30 0.48
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.32
Consensus pattern (47 bp):
TGTAAGACCATAGCTGGAATATGGCATCATTGTGATATGTGATTACA
Found at i:15040965 original size:50 final size:50
Alignment explanation
Indices: 15040890--15041075 Score: 264
Period size: 50 Copynumber: 3.7 Consensus size: 50
15040880 ATTTGGGTAA
* *
15040890 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
15040940 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
15040990 AGAGGTCCCCCGTAAGACCATGTCTGGAACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
**
15041040 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
15041076 TTTGTCATGT
Statistics
Matches: 119, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 91 0.76
51 28 0.24
ACGTcount: A:0.27, C:0.23, G:0.30, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15045651 original size:17 final size:17
Alignment explanation
Indices: 15045625--15045658 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15045615 CAATTTGTAG
15045625 TTATTTAAATAA-AACT
1 TTATTTAAATAACAACT
15045641 TTATCTTAAATAACAACT
1 TTAT-TTAAATAACAACT
15045659 AATTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 8 0.50
18 4 0.25
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
TTATTTAAATAACAACT
Found at i:15046653 original size:4 final size:4
Alignment explanation
Indices: 15046644--15046680 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
15046634 AATGTATTTA
15046644 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
1 AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT AGAT A
15046681 CACTAAGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AGAT
Found at i:15065604 original size:51 final size:51
Alignment explanation
Indices: 15065550--15066062 Score: 528
Period size: 51 Copynumber: 10.5 Consensus size: 51
15065540 TTCCCGGGCA
* * **
15065550 TTGCAGTGGAACAGATTAAAGCTTAAGGCAACGAATCTTATTTCCTTGGTA
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
* *
15065601 TTGCAGTGGAACAGATTAAAGTTGAAGGCAGTGAATCTTATTTCCTTGGCG
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
* * * * *
15065652 TTGTAGT-----AGATTAAGGTTGAAGGCAGCGAACCTTATTTCCTTAGCG
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
* * * * * **
15065698 TTGCAGTGGAATAGATTAAAGCTGAAGGCAACAAATATTATTTCCCTGTTG
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
* * * *
15065749 TTGCAGT-----AGATTAAAGCTGAAGGCAGCGGATCTTCTTTCCCTAGCG
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
* * *
15065795 TTACAGTGGAACAGATTAAAGCTGAAGGCATCGAATCTTATTTCCCTGGCG
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
*
15065846 TTGCAGT-----AGATTAAAACTGAAGGCAGCGAATCTTATTTCCTTGGCG
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
* * *
15065892 TTGCAGTGGAACAGATTAAAGCTGAAAGTAACGAATCTTATTT-CTCTGGCG
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCT-TGGCG
* * *
15065943 TTGCAGT-----AGATTAAAGCTGAAGGTAGCGAATCTTATTTTCTTGGTG
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
* * * *
15065989 TTGCAATGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCA
1 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
* *
15066040 TTGCAGTAGAATAGATTAAAGCT
1 TTGCAGTGGAACAGATTAAAGCT
15066063 ACAAATCATG
Statistics
Matches: 384, Mismatches: 56, Indels: 44
0.79 0.12 0.09
Matches are distributed among these distances:
46 160 0.42
47 2 0.01
50 2 0.01
51 220 0.57
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (51 bp):
TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCG
Found at i:15065692 original size:97 final size:97
Alignment explanation
Indices: 15065562--15066049 Score: 661
Period size: 97 Copynumber: 5.0 Consensus size: 97
15065552 GCAGTGGAAC
* * ** *
15065562 AGATTAAAGCTTAAGGCAACGAATCTTATTTCCTTGGTATTGCAGTGGAACAGATTAAAGTTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
** * *
15065627 GGCAGTGAATCTTATTTCCTTGGCGTTGTAGT
66 GGCAACGAATCTTATTTCCCTGGCGTTGCAGT
* * * * *
15065659 AGATTAAGGTTGAAGGCAGCGAACCTTATTTCCTTAGCGTTGCAGTGGAATAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
* * **
15065724 GGCAACAAATATTATTTCCCTGTTGTTGCAGT
66 GGCAACGAATCTTATTTCCCTGGCGTTGCAGT
* * * * *
15065756 AGATTAAAGCTGAAGGCAGCGGATCTTCTTTCCCTAGCGTTACAGTGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
*
15065821 GGCATCGAATCTTATTTCCCTGGCGTTGCAGT
66 GGCAACGAATCTTATTTCCCTGGCGTTGCAGT
*
15065853 AGATTAAAACTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
* * *
15065918 AGTAACGAATCTTATTTCTCTGGCGTTGCAGT
66 GGCAACGAATCTTATTTCCCTGGCGTTGCAGT
* * * *
15065950 AGATTAAAGCTGAAGGTAGCGAATCTTATTTTCTTGGTGTTGCAATGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
* * *
15066015 GGCAGCGAATCTTATTTCCCTAGCATTGCAGT
66 GGCAACGAATCTTATTTCCCTGGCGTTGCAGT
15066047 AGA
1 AGA
15066050 ATAGATTAAA
Statistics
Matches: 339, Mismatches: 52, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
97 339 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (97 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
GGCAACGAATCTTATTTCCCTGGCGTTGCAGT
Found at i:15066183 original size:44 final size:43
Alignment explanation
Indices: 15066076--15066243 Score: 169
Period size: 44 Copynumber: 3.8 Consensus size: 43
15066066 AATCATGACA
*
15066076 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--ATAC
** * * * *
15066120 AATCCCATCTTCCTTAAGTTGCAGTGGAGCGGATTGAAGTTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC
*
15066163 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-C
* * *
15066208 TAATCTTATTTCCCT-AGTGTTGCAGTGGAACAGATT
1 -AATCTTATCTCCCTGA-AGTTGCAGTGGAGCAGATT
15066244 AAAACTGAAG
Statistics
Matches: 101, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
43 4 0.04
44 67 0.66
45 28 0.28
46 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC
Found at i:15066230 original size:45 final size:44
Alignment explanation
Indices: 15066076--15066287 Score: 135
Period size: 44 Copynumber: 4.6 Consensus size: 44
15066066 AATCATGACA
* * * ** *
15066076 AATCTTATCTCCCT-GAAGTTGCAGTGGAGCAGATTAAAGCCAAC
1 AATCTTATTTCCCTAG-AGTTGCAGTGGAGCAGACTGAAGATAGC
** * * * *
15066120 AATCCCATCTTCCTTA-AGTTGCAGTGGAGCGGATTGAAGTTA-C
1 AATCTTAT-TTCCCTAGAGTTGCAGTGGAGCAGACTGAAGATAGC
*
15066163 AAGTCTTATCTCCCT-GAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AA-TCTTATTTCCCTAG-AGTTGCAGTGGAGCAGACTGAAGATAGC
* * *
15066208 TAATCTTATTTCCCTAGTGTTGCAGTGGAACAGATTAAAACTGAAGGTAGC
1 -AATCTTATTTCCCTAGAGTTGCAGTGGAGCAG------ACTGAAGATAGC
*
15066259 GAATCTTATTTCCCTAGCGTTGCAGTGGA
1 -AATCTTATTTCCCTAGAGTTGCAGTGGA
15066288 ATAGATTAAA
Statistics
Matches: 133, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
43 7 0.05
44 55 0.41
45 30 0.23
46 3 0.02
51 38 0.29
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATTTCCCTAGAGTTGCAGTGGAGCAGACTGAAGATAGC
Found at i:15066262 original size:238 final size:238
Alignment explanation
Indices: 15065959--15066392 Score: 627
Period size: 238 Copynumber: 1.8 Consensus size: 238
15065949 TAGATTAAAG
* * * * *
15065959 CTGAAGGTAGCGAATCTTATTTTCTTGGTGTTGCAATGGAACAGATTAAAGCTGAAGGCAGCGAA
1 CTGAAGATAGCGAATCTTATTTCCCTAGTGTTGCAATGGAACAGATTAAAACTGAAGGCAGCGAA
*
15066024 TCTTATTTCCCTAGCATTGCAGTAGAATAGATTAAAGCTACAAATCATGACAAATCTTATCTCCC
66 TCTTATTTCCCTAGCATTGCAGTAGAATAGATTAAAGCTACAAATCATGACAAACCTTATCTCCC
* * * * * *
15066089 TGAAGTTGCAGTGGAGCAGA-TTAAAGCCAACAATCCCATCTTCCTTAAGTTGCAGTGGAGCGGA
131 TGAAGTTGCAATGAAGCAGACTGAAA-CCAACAATCCCATCTCCCTGAAGTTACAGTGGAGCGGA
15066153 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
195 TTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* * *
15066197 CTGAAGATAGCTAATCTTATTTCCCTAGTGTTGCAGTGGAACAGATTAAAACTGAAGGTAGCGAA
1 CTGAAGATAGCGAATCTTATTTCCCTAGTGTTGCAATGGAACAGATTAAAACTGAAGGCAGCGAA
* * * * * **
15066262 TCTTATTTCCCTAGCGTTGCAGTGGAATAGATTAAAGCTACAAATTATGGCGAACCTTATCTTTC
66 TCTTATTTCCCTAGCATTGCAGTAGAATAGATTAAAGCTACAAATCATGACAAACCTTATCTCCC
* * *
15066327 TGAAGTTGCAATGAAGCAGACTGAAACCACCAATCCTATCTCCCTGAAGTTATAGTGGAGCGGAT
131 TGAAGTTGCAATGAAGCAGACTGAAACCAACAATCCCATCTCCCTGAAGTTACAGTGGAGCGGAT
15066392 T
196 T
15066393 AAAATTATAA
Statistics
Matches: 170, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
238 166 0.98
239 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (238 bp):
CTGAAGATAGCGAATCTTATTTCCCTAGTGTTGCAATGGAACAGATTAAAACTGAAGGCAGCGAA
TCTTATTTCCCTAGCATTGCAGTAGAATAGATTAAAGCTACAAATCATGACAAACCTTATCTCCC
TGAAGTTGCAATGAAGCAGACTGAAACCAACAATCCCATCTCCCTGAAGTTACAGTGGAGCGGAT
TGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
Found at i:15066272 original size:51 final size:51
Alignment explanation
Indices: 15066196--15066297 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
15066186 AGTGGAGCAG
* *
15066196 ACTGAAGATAGCTAATCTTATTTCCCTAGTGTTGCAGTGGAACAGATTAAA
1 ACTGAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAA
* *
15066247 ACTGAAGGTAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAATAGATTAAA
1 ACTGAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAA
15066298 GCTACAAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (51 bp):
ACTGAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAA
Found at i:15072820 original size:23 final size:23
Alignment explanation
Indices: 15072794--15072840 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15072784 ATTGTATATG
15072794 TTTATTTTGTAGTGTAGGTTTAT
1 TTTATTTTGTAGTGTAGGTTTAT
* *
15072817 TTTATTTTTTAGTGTATGTTTAT
1 TTTATTTTGTAGTGTAGGTTTAT
15072840 T
1 T
15072841 AAGATAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (23 bp):
TTTATTTTGTAGTGTAGGTTTAT
Found at i:15072857 original size:28 final size:28
Alignment explanation
Indices: 15072826--15072923 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 28
15072816 TTTTATTTTT
15072826 TAGTGTATGTTTATTAAGATAGTTTTGG
1 TAGTGTATGTTTATTAAGATAGTTTTGG
* * ** *
15072854 TAGTGCATGTTTATTTTAG-TAGAATTGT
1 TAGTGTATGTTTA-TTAAGATAGTTTTGG
** *
15072882 TAGAAT-TGTGTATTAAGATAGTTTTGG
1 TAGTGTATGTTTATTAAGATAGTTTTGG
15072909 TAGTGTATGTTTATT
1 TAGTGTATGTTTATT
15072924 TTATTTTTTA
Statistics
Matches: 51, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
26 4 0.08
27 15 0.29
28 28 0.55
29 4 0.08
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (28 bp):
TAGTGTATGTTTATTAAGATAGTTTTGG
Found at i:15076286 original size:24 final size:24
Alignment explanation
Indices: 15076229--15076292 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
15076219 AACTTCCACC
15076229 CCCTATTGTACC-CCTTGTTGCACA
1 CCCTATTGTACCTCC-TGTTGCACA
*
15076253 CCCTACTGTACCTCCTGTTGCACA
1 CCCTATTGTACCTCCTGTTGCACA
* *
15076277 CCCTGTTGTACATCCT
1 CCCTATTGTACCTCCT
15076293 ATTGTACCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.16, C:0.39, G:0.12, T:0.33
Consensus pattern (24 bp):
CCCTATTGTACCTCCTGTTGCACA
Found at i:15084815 original size:49 final size:48
Alignment explanation
Indices: 15084744--15084836 Score: 168
Period size: 49 Copynumber: 1.9 Consensus size: 48
15084734 AAATTCTAAA
*
15084744 AATTAAAGGATAAATAATTAGACTTTAGACTTATTCAAGGATAATCAG
1 AATTAAAGGATAAATAATTAGACTTTAGACTTATTCAAGAATAATCAG
15084792 AATTAAAGAGATAAATAATTAGACTTTAGACTTATTCAAGAATAA
1 AATTAAAG-GATAAATAATTAGACTTTAGACTTATTCAAGAATAA
15084837 ACAAATAAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 8 0.19
49 35 0.81
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (48 bp):
AATTAAAGGATAAATAATTAGACTTTAGACTTATTCAAGAATAATCAG
Found at i:15088131 original size:60 final size:54
Alignment explanation
Indices: 15088053--15088200 Score: 190
Period size: 54 Copynumber: 2.6 Consensus size: 54
15088043 CATCTTCAAA
* *
15088053 TGAAGTGTTTTCTTCATCAGAATTATAACTAGTGACTTTTATGTCTTCATCCTGATCTGT
1 TGAAGTTTTTTCTTCATCAGAATTATAACTAGTAACTTTTA-----T-ATCCTGATCTGT
*
15088113 TGAAGTTTTTTCTCCATCAG-ATTGATAACTAGTAACTTTTATATCCTGATCTGT
1 TGAAGTTTTTTCTTCATCAGAATT-ATAACTAGTAACTTTTATATCCTGATCTGT
*
15088167 TGAAGTTTTTTCTTCATCAGATTTATAACTAGTA
1 TGAAGTTTTTTCTTCATCAGAATTATAACTAGTA
15088201 GCTTCTAAGT
Statistics
Matches: 81, Mismatches: 5, Indels: 10
0.84 0.05 0.10
Matches are distributed among these distances:
54 41 0.51
55 3 0.04
59 3 0.04
60 34 0.42
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (54 bp):
TGAAGTTTTTTCTTCATCAGAATTATAACTAGTAACTTTTATATCCTGATCTGT
Found at i:15089229 original size:15 final size:15
Alignment explanation
Indices: 15089209--15089250 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
15089199 TATTTGATAA
15089209 TTTACAATCTGTTAG
1 TTTACAATCTGTTAG
**
15089224 TTTACAATCTCCTAG
1 TTTACAATCTGTTAG
15089239 TTTACAATCTGT
1 TTTACAATCTGT
15089251 CTACACAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (15 bp):
TTTACAATCTGTTAG
Found at i:15097763 original size:24 final size:24
Alignment explanation
Indices: 15097711--15097765 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
15097701 TCTTCTAGTT
*
15097711 AAACGCTATTTATTCGTTTCAATC
1 AAACTCTATTTATTCGTTTCAATC
*
15097735 AAACTCTATTTATTTGTTTCAATC
1 AAACTCTATTTATTCGTTTCAATC
15097759 AAACTCT
1 AAACTCT
15097766 GATTAGTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.44
Consensus pattern (24 bp):
AAACTCTATTTATTCGTTTCAATC
Found at i:15098921 original size:21 final size:20
Alignment explanation
Indices: 15098895--15098939 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
15098885 AGATTTTTTA
*
15098895 AACACTTTGAAAATTACTTTG
1 AACACTTAGAAAA-TACTTTG
* *
15098916 AACACTTAGGAAATATTTTG
1 AACACTTAGAAAATACTTTG
15098936 AACA
1 AACA
15098940 AGTTTAGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (20 bp):
AACACTTAGAAAATACTTTG
Found at i:15100894 original size:74 final size:74
Alignment explanation
Indices: 15100810--15100957 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
15100800 GGTATAAAAA
* *
15100810 CTAAAATGTAAAAGTGGTGAAAGTTAATTTTTAATTAATTGAAGGACAAATTGAGCAATTAGACC
1 CTAAAATGTAAAAGTGATAAAAGTTAATTTTTAATTAATTGAAGGACAAATTGAGCAATTAGACC
15100875 TTCTTTATT
66 TTCTTTATT
* *
15100884 CTAAATTGTAAAAGTGATAAAAGTTAATTTTTAATTAATTGAAGGACCAATTGAGCAATTAGACC
1 CTAAAATGTAAAAGTGATAAAAGTTAATTTTTAATTAATTGAAGGACAAATTGAGCAATTAGACC
15100949 TTCTTTATT
66 TTCTTTATT
15100958 ATGTCCAACA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (74 bp):
CTAAAATGTAAAAGTGATAAAAGTTAATTTTTAATTAATTGAAGGACAAATTGAGCAATTAGACC
TTCTTTATT
Found at i:15102492 original size:42 final size:42
Alignment explanation
Indices: 15102441--15102523 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
15102431 CGAAATTTTA
*
15102441 CTAGCGGTAAAATCGTTAAAATTTTATTTGGGGTAAAATCGT
1 CTAGCGGTAAAATCGTTAAAATTTTATTTGGAGTAAAATCGT
* *
15102483 CTAGGGGTAAAATCGTTAAAATTTTATTTGGAGTAACATCG
1 CTAGCGGTAAAATCGTTAAAATTTTATTTGGAGTAAAATCG
15102524 GCAAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.35
Consensus pattern (42 bp):
CTAGCGGTAAAATCGTTAAAATTTTATTTGGAGTAAAATCGT
Found at i:15102544 original size:26 final size:26
Alignment explanation
Indices: 15102483--15102547 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
15102473 GTAAAATCGT
**
15102483 CTAGGGGTAAAATCGTTAAAATTTTA
1 CTAGGGGTAAAATCGGCAAAATTTTA
* * * *
15102509 TTTGGAGTAACATCGGCAAAATTTTA
1 CTAGGGGTAAAATCGGCAAAATTTTA
15102535 CTAGGGGTAAAAT
1 CTAGGGGTAAAAT
15102548 AGGGATGAGA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (26 bp):
CTAGGGGTAAAATCGGCAAAATTTTA
Found at i:15104419 original size:27 final size:27
Alignment explanation
Indices: 15104389--15104466 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
15104379 TGTCCCGATA
* *
15104389 GACTATCCCATGTTCACTGTCCTGGTG
1 GACTATCCCATGTTTAATGTCCTGGTG
* * *
15104416 GACTACCCCGTGTTTATTGCTCC-GGTG
1 GACTATCCCATGTTTAATG-TCCTGGTG
*
15104443 GACTATCACATGTTTAATGTCCTG
1 GACTATCCCATGTTTAATGTCCTG
15104467 ACAGACTCTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 3 0.07
27 35 0.85
28 3 0.07
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.35
Consensus pattern (27 bp):
GACTATCCCATGTTTAATGTCCTGGTG
Found at i:15104447 original size:54 final size:54
Alignment explanation
Indices: 15104363--15104466 Score: 129
Period size: 54 Copynumber: 1.9 Consensus size: 54
15104353 GTCCTAGCGT
* * *
15104363 ACTACCCCATTTTTATTGTCCCGATAGACTATCCCATGTTCACTGTCCTGGTGG
1 ACTACCCCATGTTTATTGTCCCGATAGACTATCACATGTTCAATGTCCTGGTGG
* * * *
15104417 ACTACCCCGTGTTTATTG-CTCCGGTGGACTATCACATGTTTAATGTCCTG
1 ACTACCCCATGTTTATTGTC-CCGATAGACTATCACATGTTCAATGTCCTG
15104467 ACAGACTCTA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 1 0.02
54 41 0.98
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (54 bp):
ACTACCCCATGTTTATTGTCCCGATAGACTATCACATGTTCAATGTCCTGGTGG
Found at i:15107313 original size:18 final size:19
Alignment explanation
Indices: 15107290--15107327 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
15107280 ACGAGAGAAG
*
15107290 GAAAAACCAAAAAA-AAAA
1 GAAAAACAAAAAAAGAAAA
*
15107308 GAAAAAGAAAAAAAGAAAA
1 GAAAAACAAAAAAAGAAAA
15107327 G
1 G
15107328 GAGGAGACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (19 bp):
GAAAAACAAAAAAAGAAAA
Found at i:15117727 original size:27 final size:27
Alignment explanation
Indices: 15117689--15117744 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
15117679 AGACATTGTG
15117689 TCCTAACTTACTGGATATGATTCTCTT
1 TCCTAACTTACTGGATATGATTCTCTT
15117716 TCCTAACTTACTGGATATGATTCTCTT
1 TCCTAACTTACTGGATATGATTCTCTT
15117743 TC
1 TC
15117745 TCGAATAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.11, T:0.45
Consensus pattern (27 bp):
TCCTAACTTACTGGATATGATTCTCTT
Found at i:15121204 original size:19 final size:20
Alignment explanation
Indices: 15121164--15121207 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
15121154 GTCTCTTTAG
* *
15121164 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
15121183 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
15121202 GCATTA
1 GCATTA
15121208 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:15123103 original size:17 final size:17
Alignment explanation
Indices: 15123081--15123124 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
15123071 TTATTATTTT
15123081 ATTCTTTCATCTAAATC
1 ATTCTTTCATCTAAATC
15123098 ATTCTTTCATCTAAATC
1 ATTCTTTCATCTAAATC
15123115 ATTCTTTCAT
1 ATTCTTTCAT
15123125 TCATTCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTCTTTCATCTAAATC
Found at i:15123888 original size:17 final size:17
Alignment explanation
Indices: 15123868--15123916 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
15123858 AGAAAAAACA
15123868 AAAAAAAAATCAAAATC
1 AAAAAAAAATCAAAATC
15123885 --AAAAAAATCAAAAAATC
1 AAAAAAAAATC--AAAATC
15123902 AAAAAAAAATCAAAA
1 AAAAAAAAATCAAAA
15123917 AATCAAAGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 9 0.32
17 10 0.36
19 9 0.32
ACGTcount: A:0.80, C:0.10, G:0.00, T:0.10
Consensus pattern (17 bp):
AAAAAAAAATCAAAATC
Found at i:15123911 original size:19 final size:19
Alignment explanation
Indices: 15123868--15123923 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
15123858 AGAAAAAACA
15123868 AAAAAAAAATC--AAAATC
1 AAAAAAAAATCAAAAAATC
15123885 --AAAAAAATCAAAAAATC
1 AAAAAAAAATCAAAAAATC
15123902 AAAAAAAAATCAAAAAATC
1 AAAAAAAAATCAAAAAATC
15123921 AAA
1 AAA
15123924 GTCAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.26
17 6 0.17
19 20 0.57
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (19 bp):
AAAAAAAAATCAAAAAATC
Found at i:15123916 original size:8 final size:8
Alignment explanation
Indices: 15123871--15123923 Score: 56
Period size: 8 Copynumber: 6.4 Consensus size: 8
15123861 AAAAACAAAA
15123871 AAAAAATC
1 AAAAAATC
15123879 --AAAATC
1 AAAAAATC
15123885 AAAAAAATC
1 -AAAAAATC
15123894 AAAAAATC
1 AAAAAATC
15123902 AAAAAAAAATC
1 ---AAAAAATC
15123913 AAAAAATC
1 AAAAAATC
15123921 AAA
1 AAA
15123924 GTCAAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
6 6 0.15
8 19 0.49
9 6 0.15
11 8 0.21
ACGTcount: A:0.77, C:0.11, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATC
Found at i:15123916 original size:9 final size:9
Alignment explanation
Indices: 15123879--15123923 Score: 58
Period size: 8 Copynumber: 5.0 Consensus size: 9
15123869 AAAAAAAATC
15123879 AAAATCAAA
1 AAAATCAAA
15123888 AAAATC-AA
1 AAAATCAAA
15123896 AAAATCAAAAA
1 AAAATC--AAA
15123907 AAAATC-AA
1 AAAATCAAA
15123915 AAAATCAAA
1 AAAATCAAA
15123924 GTCAAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 16 0.50
9 8 0.25
11 8 0.25
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAATCAAA
Found at i:15124772 original size:12 final size:11
Alignment explanation
Indices: 15124755--15124784 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
15124745 CTTTGAATCA
15124755 AAAAAAAAGATG
1 AAAAAAAA-ATG
15124767 AAAAAAAAATG
1 AAAAAAAAATG
15124778 AAAAAAA
1 AAAAAAA
15124785 TGAAAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATG
Found at i:15126278 original size:88 final size:88
Alignment explanation
Indices: 15125980--15126835 Score: 1017
Period size: 88 Copynumber: 9.8 Consensus size: 88
15125970 ATGAAGTTGC
* ** *
15125980 AGATCTTGCCTTCCTGCATTGACAATGAAGCAGATTGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
15126045 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
15126068 AGATCTTGCCTTCCTGAATTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTT
* * **
15126130 G-CAGTGGAGCTGGTTAAAGA-AGC
65 GTGA-TGGAGCTGGTTGAAGACAAA
* * *
15126153 AGGTCATGCCTTCCTGCATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
15126218 TGATGGAGCTGGTTAAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* ** * *
15126241 GGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTT
** * * * **
15126303 -ACAGTGGAGCTAGATAAAGA-AGC
65 GTGA-TGGAGCTGGTTGAAGACAAA
* * * *
15126326 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTT
* * **
15126388 G-CAGTGGAGCTGGTTAAAGA-AGC
65 GTGA-TGGAGCTGGTTGAAGACAAA
* * * * *
15126411 AGGTCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAA-A-ACAGATCCTTACTTCTCTCGGTT
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACA-AACCTTGCCTCTCTCGGTT
15126474 GTGATGGAGCTGGTTGAAGACAAA
65 GTGATGGAGCTGGTTGAAGACAAA
* * *
15126498 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAATCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
15126563 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
15126586 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAATCTTGTCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
15126651 TGATGGAGTTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * * * *
15126674 AGATCTTGCATTCCTACATTGATAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
15126739 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
15126762 AGATCTTGCCTTCCTGCATTGACAGTGGAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
15126827 TGATGGAGC
66 TGATGGAGC
15126836 AGATCGAAGC
Statistics
Matches: 677, Mismatches: 75, Indels: 32
0.86 0.10 0.04
Matches are distributed among these distances:
85 160 0.24
86 93 0.14
87 77 0.11
88 344 0.51
89 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:15126293 original size:42 final size:42
Alignment explanation
Indices: 15126245--15126380 Score: 127
Period size: 42 Copynumber: 3.2 Consensus size: 42
15126235 GACAAAGGAT
15126245 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGC
1 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGC
* * * * *
15126287 CTTGCCTTCAT-TGGTT-ACAGTGGAGCTAGAT-AAAGAAGC-AGAT
1 CTTGCCTTCCTGT-GTTAACAGCGAAGC-AGATCGAA-AA-CAAG-C
* **
15126330 CTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAAAACAAGC
1 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGC
15126372 CTTGCCTTC
1 CTTGCCTTC
15126381 ATTGGTTGCA
Statistics
Matches: 71, Mismatches: 14, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
41 11 0.15
42 30 0.42
43 20 0.28
44 10 0.14
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAGC
Found at i:15126670 original size:176 final size:173
Alignment explanation
Indices: 15125980--15126835 Score: 1037
Period size: 173 Copynumber: 4.9 Consensus size: 173
15125970 ATGAAGTTGC
* *
15125980 AGATCTTGCCTTCCTGCATTGACAATGAAGCAGATTGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
15126045 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGAATTAACAGCGAAGCAGATCGAAAAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAAC
* * * **
15126110 AAGCCTTGCCT-TCATTGGTTG-CAGTGGAGCTGGTTAAAGAAGC
131 AAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTAAAGAAAA
* * *
15126153 AGGTCATGCCTTCCTGCATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * **
15126218 TGATGGAGCTGGTTAAAGACAAAGGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAAC
* * ** * * **
15126283 AAGCCTTGCCT-TCATTGGTT-ACAGTGGAGCTAGATAAAGAAGC
131 AAACCTTGCCTCTC-TCGGTTGTGA-TGGAGCTGGTTAAAGAAAA
* * * * * *
15126326 AGATCTTGCCGTCCTGAATTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTT
* * ** * *
15126388 G-CAGTGGAGCTGGTTAAAGA-AGCAGGTCTTGCCTTCCTGCATTAACAGTGAAGCAGATCGAAA
65 GTGA-TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAA
* * * *
15126451 ACAGATCCTTACTTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAA
129 ACA-AACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGA-AAA
*
15126498 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAATCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
15126563 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-
* * * *
15126628 ACAAATCTTGTCTCTCTCGGTTGTGATGGAGTTGGTTGAAGACAAA
129 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGA-AAA
* * * * * *
15126674 AGATCTTGCATTCCTACATTGATAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * *
15126739 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGGAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-
15126804 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGC
129 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGC
15126836 AGATCGAAGC
Statistics
Matches: 599, Mismatches: 70, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
170 42 0.07
171 59 0.10
172 40 0.07
173 196 0.33
174 32 0.05
175 40 0.07
176 187 0.31
177 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (173 bp):
AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAAC
AAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAAAGAAAA
Found at i:15126880 original size:44 final size:44
Alignment explanation
Indices: 15126830--15127272 Score: 189
Period size: 44 Copynumber: 10.1 Consensus size: 44
15126820 TCGGTTGTGA
15126830 TGGAGCAGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAG
1 TGGAGCAGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAG
* * ** *
15126874 CGGAGCAGATTGAAGTTAGTA-ATCCTATCTCCCTGAGATTACAG
1 TGGAGCAGATCGAAGCCAG-AGATCTTATCTCCCTGAGATTACAG
** ** *** * *
15126918 TGGAGTGGATTAAAAAAAAAAGATCTTATCTCTCTGA-AGTTACAG
1 TGGAGCAGA-TCGAAGCCAGAGATCTTATCTCCCTGAGA-TTACAG
** * * * *
15126963 CAGAGTAGATCGTA-TCAG-G-TCTTATCTCCCTGAGGTTACAG
1 TGGAGCAGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAG
* * * *
15127004 TGGAGTAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGATTACAG
1 TGGAGCAGATCGAAGCCA---GAGATCTTATCTCCCTGAGATTACAG
* * ** * * *
15127050 CGGAGCAGATTGAAGCTGGTA-ATCCTATCTTCCTGGGATTACAG
1 TGGAGCAGATCGAAGCCAG-AGATCTTATCTCCCTGAGATTACAG
* ** * *
15127094 TGGAGCGGATTAAAACCA-ATGATCTTATCTCTCTGA-AGTTACAG
1 TGGAGCAGATCGAAGCCAGA-GATCTTATCTCCCTGAGA-TTACAG
* * * * *
15127138 TAGAGTAGATCGCA-CCAG-G-TCTTATTTCTCTGAGATTACAG
1 TGGAGCAGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAG
* * * * *
15127179 TGGAACAGACCGAAG-AATTTCAGATCTTATCTCCCTGAGACTACAG
1 TGGAGCAGATCGAAGCCA---GAGATCTTATCTCCCTGAGATTACAG
* * * * * *
15127225 CGGAGTAGATTGAAG-CTGATAATCCTA--TCCCTGAGATTACAG
1 TGGAGCAGATCGAAGCCAGA-GATCTTATCTCCCTGAGATTACAG
15127267 TGGAGC
1 TGGAGC
15127273 GGATTAAAAT
Statistics
Matches: 290, Mismatches: 84, Indels: 52
0.68 0.20 0.12
Matches are distributed among these distances:
41 59 0.20
42 22 0.08
43 6 0.02
44 109 0.38
45 33 0.11
46 61 0.21
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TGGAGCAGATCGAAGCCAGAGATCTTATCTCCCTGAGATTACAG
Found at i:15126941 original size:264 final size:264
Alignment explanation
Indices: 15125980--15126944 Score: 821
Period size: 264 Copynumber: 3.7 Consensus size: 264
15125970 ATGAAGTTGC
* *
15125980 AGATCTTGCCTTCCTGCATTGACAATGAAGCAGATTGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * * * *
15126045 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGAATTAACAGCGAAGCAGATCGAA-A-
66 TGATGGAGCAGATCGAAGACAAAAGATCTTACCTCCCTGCATTGACAGCGAAGCAGATCGAAGAC
* * * * * * ** * * * *
15126108 AC-AAGCCT-TGCCTTCATTGGTTGCAG-TGGAGCTGGTT-AAAGAAGCAGGTCATGCCTTCCTG
131 ACAAATCCTAT--CTCCCTCGGTT-CAGATGGAGTTGGTTAAAAAAAAAAGATCTTGCATTCCTA
* * * * * *
15126169 CATTAACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTAA
193 CATTGATAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGA
15126234 AGACAAA
258 AGACAAA
* ** * * * *
15126241 GGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAA-A-ACAAGCCTTGCCT-TCATTGGTT
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTC-TCGGTT
** * ** * * *
15126303 -ACAGTGGAGCTAGAT-AAAGA-AGCAGATCTTGCCGT-CCTGAATTAACAGCGAAGCAGATCGA
65 GTGA-TGGAGC-AGATCGAAGACAAAAGATCTTACC-TCCCTGCATTGACAGCGAAGCAGATCGA
* * * * * * ** * *
15126364 A-A-AC-AAGCCT-TGCCTTCATTGGTTGCAG-TGGAGCTGGTT-AAAGAAGCAGGTCTTGCCTT
127 AGACACAAATCCTAT--CTCCCTCGGTT-CAGATGGAGTTGGTTAAAAAAAAAAGATCTTGCATT
* * * * * * * * *
15126423 CCTGCATTAACAGTGAAGCAGATCGAA-A-ACAGATCCTTACTTCTCTCGGTTGTGATGGAGCTG
189 CCTACATTGATAGCGAAACAGGTCGAAGACACA-AACCTTGCCTCTCTCGGTTGTGATGGAGCTG
15126486 GTTGAAGACAAA
253 GTTGAAGACAAA
*
15126498 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAATCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * *
15126563 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGAC
66 TGATGGAGCAGATCGAAGACAAAAGATCTTACCTCCCTGCATTGACAGCGAAGCAGATCGAAGAC
* * * ** * * *
15126628 ACAAATCTTGTCTCTCTCGGTTGTGATGGAGTTGGTTGAAGACAAAAGATCTTGCATTCCTACAT
131 ACAAATCCTATCTCCCTCGGTTCAGATGGAGTTGGTTAAAAAAAAAAGATCTTGCATTCCTACAT
15126693 TGATAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
196 TGATAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
15126758 CAAA
261 CAAA
* *
15126762 AGATCTTGCCTTCCTGCATTGACAGTGGAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * * * * *
15126827 TGATGGAGCAGATCGAAG-CCAGAGATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATTGAAGT
66 TGATGGAGCAGATCGAAGACAAAAGATCTTACCTCCCTG-CATTGACAGCGAAGCAGATCGAAGA
* **
15126890 TAGTAATCCTATCTCCCT-GAGATTACAG-TGGAG-TGGATTAAAAAAAAAAGATCTT
130 CACAAATCCTATCTCCCTCG-G-TT-CAGATGGAGTTGG-TTAAAAAAAAAAGATCTT
15126945 ATCTCTCTGA
Statistics
Matches: 590, Mismatches: 89, Indels: 47
0.81 0.12 0.06
Matches are distributed among these distances:
256 3 0.01
257 74 0.13
258 128 0.22
259 55 0.09
260 42 0.07
261 34 0.06
262 20 0.03
263 86 0.15
264 144 0.24
265 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (264 bp):
AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCAGATCGAAGACAAAAGATCTTACCTCCCTGCATTGACAGCGAAGCAGATCGAAGAC
ACAAATCCTATCTCCCTCGGTTCAGATGGAGTTGGTTAAAAAAAAAAGATCTTGCATTCCTACAT
TGATAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGA
CAAA
Found at i:15127203 original size:175 final size:174
Alignment explanation
Indices: 15126849--15127322 Score: 734
Period size: 175 Copynumber: 2.7 Consensus size: 174
15126839 TCGAAGCCAG
* *
15126849 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCT-CCTGAGATT
* * * *
15126914 ACAGTGGAGTGGATTAAAAAAAAAAGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTATC
65 ACAGTGGAGCGGATT-AAAAAAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACC
* **
15126979 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
129 AGGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTC
*
15127025 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTTCCTGGGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATC-TCCTGAGATT
** *
15127090 ACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCA
65 ACAGTGGAGCGGATTAAAAAAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCA
* *
15127155 GGTCTTATTTCTCTGAGATTACAGTGGAACAGACCGAAGAATTTC
130 GGTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTC
* * *
15127200 AGATCTTATCTCCCTGAGACTACAGCGGAGTAGATTGAAGCTGATAATCCTATC-CCTGAGATTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCTGAGATTA
* *
15127264 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
66 CAGTGGAGCGGATTAAAAAAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG
15127323 TATTAGATTC
Statistics
Matches: 275, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
173 65 0.24
175 135 0.49
176 74 0.27
177 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (174 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTCCTGAGATTA
CAGTGGAGCGGATTAAAAAAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAG
GTCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTC
Found at i:15127231 original size:87 final size:86
Alignment explanation
Indices: 15126938--15127234 Score: 255
Period size: 87 Copynumber: 3.4 Consensus size: 86
15126928 TAAAAAAAAA
* * * * *
15126938 AGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGGTTACA
1 AGATCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGAACCAGGTCTTAT-TTCCTGAGATTACA
*
15127003 GTGGAGTAGACCGAAGAATTTC
65 GTGGAGCAGACCGAAGAATTTC
* * * * * * *
15127025 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGCTGGTAATCCTATCTTCCTGGGAT
1 AGATCTTATCTCCCTGAAG-TTACAGCAGAGTAGATCGAACCAGG---TCTTAT-TTCCTGAGAT
* ** *
15127089 TACAGTGGAGCGGA-TTAA-AA--CC
61 TACAGTGGAGCAGACCGAAGAATTTC
* * *
15127111 AATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCTCTGAGATTA
1 -A-GATCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGAACCAGGTCTTATTTC-CTGAGATTA
*
15127176 CAGTGGAACAGACCGAAGAATTTC
63 CAGTGGAGCAGACCGAAGAATTTC
* *
15127200 AGATCTTATCTCCCTG-AGACTACAGCGGAGTAGAT
1 AGATCTTATCTCCCTGAAG-TTACAGCAGAGTAGAT
15127235 TGAAGCTGAT
Statistics
Matches: 162, Mismatches: 35, Indels: 26
0.73 0.16 0.12
Matches are distributed among these distances:
84 3 0.02
85 23 0.14
86 7 0.04
87 64 0.40
88 35 0.22
89 5 0.03
90 25 0.15
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (86 bp):
AGATCTTATCTCCCTGAAGTTACAGCAGAGTAGATCGAACCAGGTCTTATTTCCTGAGATTACAG
TGGAGCAGACCGAAGAATTTC
Found at i:15127391 original size:51 final size:51
Alignment explanation
Indices: 15127327--15127557 Score: 165
Period size: 43 Copynumber: 4.8 Consensus size: 51
15127317 AGATCGTATT
* *
15127327 AGATTCTATCTCCCTGGTTGGCAGTAGAATAGATTGAAGATCGAAAATGAC
1 AGATTCTACCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
* * * * *
15127378 AGATTTTACCTCCCTGTGATT-ACAGTGGAGTACATTGAAG--C--CAAT---
1 AGATTCTACCTCCCTG-G-TTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
*
15127423 A-ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
1 AGATTCTACCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
* * * * *
15127473 AGATTTTACCTCCCTGTGATT-ACAGTGGAGTACATTGAAG--C--CAAT---
1 AGATTCTACCTCCCTG-G-TTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
* *
15127518 A-ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGAT
1 AGATTCTACCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT
15127558 TCTAGATTCT
Statistics
Matches: 139, Mismatches: 25, Indels: 38
0.69 0.12 0.19
Matches are distributed among these distances:
42 4 0.03
43 33 0.24
44 24 0.17
45 3 0.02
47 3 0.02
48 6 0.04
50 3 0.02
51 26 0.19
52 33 0.24
53 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (51 bp):
AGATTCTACCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGAC
Found at i:15127440 original size:95 final size:95
Alignment explanation
Indices: 15127329--15127557 Score: 440
Period size: 95 Copynumber: 2.4 Consensus size: 95
15127319 ATCGTATTAG
*
15127329 ATTCTATCTCCCTGGTTGGCAGTAGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
1 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
15127394 TGATTACAGTGGAGTACATTGAAGCCAATA
66 TGATTACAGTGGAGTACATTGAAGCCAATA
15127424 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
1 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
15127489 TGATTACAGTGGAGTACATTGAAGCCAATA
66 TGATTACAGTGGAGTACATTGAAGCCAATA
*
15127519 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTAAAGAT
1 ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGAT
15127558 TCTAGATTCT
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 132 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (95 bp):
ATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATCGAAAATGACAGATTTTACCTCCCTG
TGATTACAGTGGAGTACATTGAAGCCAATA
Found at i:15129012 original size:3 final size:3
Alignment explanation
Indices: 15128994--15129042 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
15128984 TAGCATTTTC
* **
15128994 ATT ATT -TT AAT ATT ATT ATT ATT ATT ATT ATT ATT ACC ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15129041 AT
1 AT
15129043 AATTGCTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:15129076 original size:21 final size:21
Alignment explanation
Indices: 15129052--15129092 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15129042 TAATTGCTCT
*
15129052 TATATATATTATATATATATG
1 TATACATATTATATATATATG
* *
15129073 TATACATATTTTTTATATAT
1 TATACATATTATATATATAT
15129093 ACTCACGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TATACATATTATATATATATG
Found at i:15129495 original size:44 final size:42
Alignment explanation
Indices: 15129410--15129499 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
15129400 ATACACAATT
* * * *
15129410 TTTTATAATGTATATACTTATATTATATATATTTTTATTTTA
1 TTTTATAATCTATATACCTATATTATAAATATTTTGATTTTA
* *
15129452 TTTTATAATCTATATACCTATATATGTAAATATTTATGCTTTTA
1 TTTTATAATCTATATACCTATAT-TATAAATATTT-TGATTTTA
15129496 TTTT
1 TTTT
15129500 TTTAAATCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
42 21 0.52
43 9 0.22
44 10 0.25
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (42 bp):
TTTTATAATCTATATACCTATATTATAAATATTTTGATTTTA
Found at i:15133549 original size:20 final size:21
Alignment explanation
Indices: 15133524--15133562 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15133514 TTTTTTTATA
*
15133524 ATATTTTTCATAAT-TATTTC
1 ATATTTTCCATAATATATTTC
15133544 ATATTTTCCATAATATATT
1 ATATTTTCCATAATATATT
15133563 AACAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTCCATAATATATTTC
Found at i:15133600 original size:19 final size:20
Alignment explanation
Indices: 15133553--15133600 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
15133543 CATATTTTCC
15133553 ATAATATATTAACAATATTTT
1 ATAATAT-TTAACAATATTTT
*
15133574 ATAA-ATTTAATAAT-TTTT
1 ATAATATTTAACAATATTTT
*
15133592 TTAATATTT
1 ATAATATTT
15133601 TTCTATAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 2 0.08
21 4 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATATTTAACAATATTTT
Found at i:15133650 original size:30 final size:33
Alignment explanation
Indices: 15133580--15133653 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 33
15133570 TTTTATAAAT
*
15133580 TTAATAATTTTTTTAATATTTTTCTATAACTTC
1 TTAATAATTTTTATAATATTTTTCTATAACTTC
**
15133613 -TAA-AATTTTTATAATA-TTTTC-AT-TTTTC
1 TTAATAATTTTTATAATATTTTTCTATAACTTC
15133641 TTAATAATTTTTA
1 TTAATAATTTTTA
15133654 AATGCTTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 3 0.08
29 5 0.14
30 13 0.36
31 12 0.33
32 3 0.08
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (33 bp):
TTAATAATTTTTATAATATTTTTCTATAACTTC
Found at i:15134183 original size:22 final size:22
Alignment explanation
Indices: 15134158--15134258 Score: 89
Period size: 22 Copynumber: 4.6 Consensus size: 22
15134148 ATCAATATCC
*
15134158 TTCAAAAATTCTCTCAATTAGG
1 TTCAAAAATTCTCTCAATTACG
* *
15134180 TTCAAAAATTCTCTCAAATTCCT
1 TTCAAAAATTCTCTC-AATTACG
*
15134203 TTC-AAAATTCTCTCAAATT-CC
1 TTCAAAAATTCTCTC-AATTACG
* * * *
15134224 TTCTAAAATCCTCTCAATTTCC
1 TTCAAAAATTCTCTCAATTACG
*
15134246 TTCAAAAAATCTC
1 TTCAAAAATTCTC
15134259 CAAATCCATA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.12
22 53 0.78
23 7 0.10
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.38
Consensus pattern (22 bp):
TTCAAAAATTCTCTCAATTACG
Found at i:15134210 original size:44 final size:43
Alignment explanation
Indices: 15134155--15134252 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 43
15134145 AATATCAATA
** *
15134155 TCCTTCAAAAATTCTCTC-AATTAGGTTCAAAAATTCTCTCAAAT
1 TCCTTC-AAAATTCTCTCAAATT-CCTTCAAAAATCCTCTCAAAT
* *
15134199 TCCTTTCAAAATTCTCTCAAATTCCTTCTAAAATCCTCTCAATT
1 TCC-TTCAAAATTCTCTCAAATTCCTTCAAAAATCCTCTCAAAT
15134243 TCCTTCAAAA
1 TCCTTCAAAA
15134253 AATCTCCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 7 0.15
44 33 0.70
45 7 0.15
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.38
Consensus pattern (43 bp):
TCCTTCAAAATTCTCTCAAATTCCTTCAAAAATCCTCTCAAAT
Found at i:15134349 original size:29 final size:29
Alignment explanation
Indices: 15134289--15134349 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
15134279 TTTTCCATTA
* *
15134289 TTTTAAGAAAATTTTAAAATTTTTTATTT
1 TTTTAAGAAAATTTTAAAATTTTTAATAT
15134318 TTTTAA-AATAATTTTAAAATTTTTAATAT
1 TTTTAAGAA-AATTTTAAAATTTTTAATAT
15134347 TTT
1 TTT
15134350 CAACAATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTAAGAAAATTTTAAAATTTTTAATAT
Found at i:15134469 original size:14 final size:15
Alignment explanation
Indices: 15134440--15134473 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15134430 AAATTTTAAA
15134440 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
15134455 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
15134469 TTTTA
1 TTTTA
15134474 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:15136139 original size:18 final size:18
Alignment explanation
Indices: 15136106--15136140 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15136096 AGGTATGTTT
* *
15136106 CCTAACCCTTATATGTAC
1 CCTAACCCGTACATGTAC
15136124 CCTAACCCGTACATGTA
1 CCTAACCCGTACATGTA
15136141 TCCTTTTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.29
Consensus pattern (18 bp):
CCTAACCCGTACATGTAC
Found at i:15136695 original size:28 final size:28
Alignment explanation
Indices: 15136642--15137004 Score: 468
Period size: 28 Copynumber: 13.8 Consensus size: 28
15136632 NNNNNNNNCC
15136642 TAATTTAATT-AAAACCCTAACCTAATT
1 TAATTTAATTAAAAACCCTAACCTAATT
15136669 TAATTTAATTAAAAACCCTAA-C--A--
1 TAATTTAATTAAAAACCCTAACCTAATT
**
15136692 TAATTTAATTAAAAACCCTAACCTAACC
1 TAATTTAATTAAAAACCCTAACCTAATT
15136720 TAATTTAATTAAAAACCCTAA-C----T
1 TAATTTAATTAAAAACCCTAACCTAATT
*
15136743 TAACTTAATTAAAAACCCTAACCTAATT
1 TAATTTAATTAAAAACCCTAACCTAATT
15136771 TAA-TTAATTAAAAACCCTAACCTAATT
1 TAATTTAATTAAAAACCCTAACCTAATT
**
15136798 TAATTTAATTAAAAACCCTAACCTAACC
1 TAATTTAATTAAAAACCCTAACCTAATT
15136826 TAATTTAATTAAAAACCCTAACCTAATT
1 TAATTTAATTAAAAACCCTAACCTAATT
15136854 TAA-TTAATTAAAAACCCTAA-C----T
1 TAATTTAATTAAAAACCCTAACCTAATT
*
15136876 TAACTTAATTAAAAACCCTAACC-----
1 TAATTTAATTAAAAACCCTAACCTAATT
15136899 TAATTTAATTAAAAACCCTAACCTAATT
1 TAATTTAATTAAAAACCCTAACCTAATT
**
15136927 TAATTTAATTAAAAACCCTAACCTAACC
1 TAATTTAATTAAAAACCCTAACCTAATT
*
15136955 TAATTTAATTAAAATCCCTAACCTAATT
1 TAATTTAATTAAAAACCCTAACCTAATT
15136983 TAA-TTAATGTAAAAACCCTAAC
1 TAATTTAAT-TAAAAACCCTAAC
15137005 ATAACTCAGC
Statistics
Matches: 303, Mismatches: 13, Indels: 39
0.85 0.04 0.11
Matches are distributed among these distances:
22 4 0.01
23 80 0.26
24 3 0.01
25 1 0.00
26 2 0.01
27 61 0.20
28 152 0.50
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.32
Consensus pattern (28 bp):
TAATTTAATTAAAAACCCTAACCTAATT
Found at i:15136907 original size:129 final size:129
Alignment explanation
Indices: 15136640--15137010 Score: 610
Period size: 129 Copynumber: 2.9 Consensus size: 129
15136630 NNNNNNNNNN
15136640 CCTAATTTAATT-AAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAA-C--A--TAATTTA
1 CCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAACCTAATTTA
**
15136699 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACTTAACTTAATTAAAAACCCTAA
66 ATTAAAAACCCTAACCTAATTTAA-TTAATTAAAAACCCTAACTTAACTTAATTAAAAACCCTAA
15136764 CCTAATTTAATTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAACCTAA
1 CCTAA--T--TTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAACCTAA
15136829 TTTAATTAAAAACCCTAACCTAATTTAATTAATTAAAAACCCTAACTTAACTTAATTAAAAACCC
62 TTTAATTAAAAACCCTAACCTAATTTAATTAATTAAAAACCCTAACTTAACTTAATTAAAAACCC
15136894 TAA
127 TAA
15136897 CCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAACCTAATTTA
1 CCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAACCTAATTTA
* *
15136962 ATTAAAATCCCTAACCTAATTTAATTAATGTAAAAACCCTAACATAACT
66 ATTAAAAACCCTAACCTAATTTAATTAAT-TAAAAACCCTAACTTAACT
15137011 CAGCGGATTT
Statistics
Matches: 232, Mismatches: 4, Indels: 16
0.92 0.02 0.06
Matches are distributed among these distances:
124 5 0.02
126 1 0.00
128 6 0.03
129 125 0.54
130 19 0.08
131 1 0.00
132 1 0.00
133 45 0.19
134 29 0.12
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (129 bp):
CCTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAACCTAATTTA
ATTAAAAACCCTAACCTAATTTAATTAATTAAAAACCCTAACTTAACTTAATTAAAAACCCTAA
Found at i:15140449 original size:125 final size:125
Alignment explanation
Indices: 15140222--15140468 Score: 397
Period size: 125 Copynumber: 2.0 Consensus size: 125
15140212 GCAATTTGAC
15140222 ACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAACGAAATCGCGT
1 ACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAACGAAATCGCGT
* * * **
15140287 CCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTATCAGCGATTTTAT
66 CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTTTAT
* * *
15140347 ACTATTTGCTCAGTAAATGTCAAAAAAAAATTATTTCTTACATGACC-ACTGTAGCGAAATCGCG
1 ACTATTTGCTCAG-AAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAACGAAATCGCG
*
15140411 TTCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTT
65 TCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTT
15140469 CCCACTATTT
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
125 81 0.72
126 31 0.28
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (125 bp):
ACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAACGAAATCGCGT
CCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAGCGATTTTAT
Found at i:15140786 original size:29 final size:28
Alignment explanation
Indices: 15140720--15140783 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
15140710 AATTTCCCAG
15140720 AAAATGGCCCATTCCGGTAAATAATTAA
1 AAAATGGCCCATTCCGGTAAATAATTAA
* * **
15140748 AAAATCGGCCCATTTCGGTAATTTTTTAA
1 AAAAT-GGCCCATTCCGGTAAATAATTAA
15140777 AAAATGG
1 AAAATGG
15140784 GCCTTTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 7 0.23
29 24 0.77
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (28 bp):
AAAATGGCCCATTCCGGTAAATAATTAA
Found at i:15143410 original size:4 final size:4
Alignment explanation
Indices: 15143368--15143403 Score: 54
Period size: 4 Copynumber: 8.8 Consensus size: 4
15143358 AATTGTATGG
*
15143368 AAAT AATAT AAAT AGAT AAAT AAAT AAAT AAAT AAA
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAA
15143404 AATAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:15143519 original size:16 final size:18
Alignment explanation
Indices: 15143486--15143519 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
15143476 ATTAATAAAC
15143486 AAATGAAAGAACTAAAAA
1 AAATGAAAGAACTAAAAA
15143504 AAAT-AAAGAA-TAAAAA
1 AAATGAAAGAACTAAAAA
15143520 GGTATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.76, C:0.03, G:0.09, T:0.12
Consensus pattern (18 bp):
AAATGAAAGAACTAAAAA
Found at i:15143835 original size:20 final size:20
Alignment explanation
Indices: 15143810--15143894 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 20
15143800 ACTTACGAAC
15143810 ATAAAATATATATATAAATT
1 ATAAAATATATATATAAATT
* *
15143830 ATAAAATATGTAT-TAAAATC
1 ATAAAATATATATAT-AAATT
** * * *
15143850 AT-ATGTACATATGTAAGTT
1 ATAAAATATATATATAAATT
* *
15143869 ATAAAATAAATATACAAATT
1 ATAAAATATATATATAAATT
15143889 ATAAAA
1 ATAAAA
15143895 ATAATGGTTG
Statistics
Matches: 48, Mismatches: 14, Indels: 6
0.71 0.21 0.09
Matches are distributed among these distances:
19 12 0.25
20 36 0.75
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAAAATATATATATAAATT
Found at i:15145585 original size:15 final size:15
Alignment explanation
Indices: 15145565--15145601 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
15145555 AGACACTGCT
15145565 AGAAGCACAAAATCG
1 AGAAGCACAAAATCG
*
15145580 AGAAGCATAAAATCG
1 AGAAGCACAAAATCG
15145595 AGAAGCA
1 AGAAGCA
15145602 ATTTTGAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.16, G:0.22, T:0.08
Consensus pattern (15 bp):
AGAAGCACAAAATCG
Found at i:15152263 original size:7 final size:7
Alignment explanation
Indices: 15152251--15152275 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15152241 ATAGGCATTA
15152251 TATTAAT
1 TATTAAT
15152258 TATTAAT
1 TATTAAT
15152265 TATTAAT
1 TATTAAT
15152272 TATT
1 TATT
15152276 GTTAACTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TATTAAT
Found at i:15154402 original size:43 final size:43
Alignment explanation
Indices: 15154324--15154480 Score: 235
Period size: 43 Copynumber: 3.7 Consensus size: 43
15154314 TGTCCCAGAC
* ** * *
15154324 ATGGTCTTACATGAAAGTCTCGTATCGATGTCAATAGCCCAACT
1 ATGGTCTTACACGAAA-TCTCAAATCGATGCCAATAGCCCAGCT
*
15154368 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCTAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
*
15154411 ATGGTCTTACACGAAATCTCAAATCGATGCTAATAGCCCAGCT
1 ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
15154454 ATGGTCTTACACG-AATCTCAAATCGAT
1 ATGGTCTTACACGAAATCTCAAATCGAT
15154481 ATTGGAACAT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 14 0.13
43 76 0.72
44 15 0.14
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:15155919 original size:17 final size:17
Alignment explanation
Indices: 15155899--15155950 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
15155889 AAATGCTCAT
15155899 GAAAAAAAAAAAGAAAA
1 GAAAAAAAAAAAGAAAA
* *
15155916 GAAAGAAGAAAAGAAAA
1 GAAAAAAAAAAAGAAAA
* *
15155933 GAAAAGAAATAA-AAAA
1 GAAAAAAAAAAAGAAAA
15155949 GA
1 GA
15155951 GAAGAGCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 6 0.21
17 23 0.79
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (17 bp):
GAAAAAAAAAAAGAAAA
Found at i:15155932 original size:22 final size:21
Alignment explanation
Indices: 15155899--15155955 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
15155889 AAATGCTCAT
*
15155899 GAAAAAAAAAAAGAAAAGAAA
1 GAAAAAAGAAAAGAAAAGAAA
15155920 GAAGAAAAGAAAAGAAAAGAAA
1 GAA-AAAAGAAAAGAAAAGAAA
* *
15155942 TAAAAAAGAGAAGA
1 GAAAAAAGAAAAGA
15155956 GCATATGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 13 0.41
22 19 0.59
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (21 bp):
GAAAAAAGAAAAGAAAAGAAA
Found at i:15163770 original size:23 final size:23
Alignment explanation
Indices: 15163723--15163776 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
15163713 GCTGAAAATA
15163723 AAAACCCT--AGAAAAGGAAGAG
1 AAAACCCTAAAGAAAAGGAAGAG
*
15163744 AAAACTCCTAAAGAAAATGAA-AG
1 AAAAC-CCTAAAGAAAAGGAAGAG
15163767 AAAACCCTAA
1 AAAACCCTAA
15163777 GCTAAACGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 5 0.17
22 8 0.28
23 7 0.24
24 9 0.31
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.09
Consensus pattern (23 bp):
AAAACCCTAAAGAAAAGGAAGAG
Found at i:15168310 original size:52 final size:51
Alignment explanation
Indices: 15168191--15168320 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 51
15168181 ACAAATACCC
* * *
15168191 AGTGGCCTACACATAATACCACCCTTGTAGCCAAAGCTACCTTTTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACCTTTTTCACAA
*
15168242 AGTGGCCTTCACATAGTACCACACTTGT-GACCAAAGCTATCTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTACCTTT-TTCACAA
**
15168294 AGTGGCCTTCTTATAGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
15168321 AGTCACTAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
50 1 0.01
51 38 0.54
52 32 0.45
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACCTTTTTCACAA
Found at i:15175221 original size:43 final size:44
Alignment explanation
Indices: 15175162--15175246 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 44
15175152 TGTTATAATT
15175162 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTC
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTC
* * *
15175206 ATAT-CGATGCTAATGTCCCAGACTTGGTCTTACTCGAAATC
1 ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATC
15175247 ATACCTCAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
ATATACGATGCCAATGTCCCAGACATGGTCTTACACGAAATCTC
Found at i:15175418 original size:2 final size:2
Alignment explanation
Indices: 15175382--15175409 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15175372 ATTTGAAAAC
15175382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15175410 TTGTATATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15180090 original size:21 final size:22
Alignment explanation
Indices: 15180050--15180090 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15180040 AAAAAACAAA
* *
15180050 AAGTAAATTGAAATAAAAAATG
1 AAGTAAACTGAAACAAAAAATG
15180072 AAGTAAACT-AAACAAAAAA
1 AAGTAAACTGAAACAAAAAA
15180091 GTATTAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (22 bp):
AAGTAAACTGAAACAAAAAATG
Found at i:15189807 original size:10 final size:10
Alignment explanation
Indices: 15189792--15189816 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15189782 CTTAGGCTGA
15189792 AAAATAAATC
1 AAAATAAATC
15189802 AAAATAAATC
1 AAAATAAATC
15189812 AAAAT
1 AAAAT
15189817 TTTTGCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:15190437 original size:16 final size:17
Alignment explanation
Indices: 15190418--15190449 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15190408 TCTTCTCTTC
15190418 TTCTTT-TCTTTTTTTA
1 TTCTTTCTCTTTTTTTA
15190434 TTCTTTCTCTTTTTTT
1 TTCTTTCTCTTTTTTT
15190450 TTTCATGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (17 bp):
TTCTTTCTCTTTTTTTA
Found at i:15198174 original size:23 final size:22
Alignment explanation
Indices: 15198127--15198172 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
15198117 AAATATTAGT
15198127 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
15198150 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
15198171 TA
1 TA
15198173 TATATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:15199772 original size:128 final size:128
Alignment explanation
Indices: 15199586--15199828 Score: 312
Period size: 128 Copynumber: 1.9 Consensus size: 128
15199576 TGACGCGATT
* * * * *
15199586 TGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTTTAATCCACTCCGCTACAACTTTAGGG
1 TGCTCTACTGCAATTTCAGAGAGATAAGATCCAACATTTTAATCCACTCCACTACAACTTCAAGG
* * *
15199651 AGATAGGATTTGTTTA-TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAACACTAGATGCGTTC
66 AGATAGGA-TT-ATCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAACACTAGATGCGTTC
** * * *
15199715 TGCTCT-CTGCAACTTT-AGAGAGATAAGATCCAAGGTTTTAATTCGCTCCACTGCAACTTCAAG
1 TGCTCTACTGCAA-TTTCAGAGAGATAAGATCCAACATTTTAATCCACTCCACTACAACTTCAAG
15199778 GAGATAGGATTATCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
65 GAGATAGGATTATCA-CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
15199829 AATTTGCCAT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
126 2 0.02
127 2 0.02
128 85 0.87
129 9 0.09
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (128 bp):
TGCTCTACTGCAATTTCAGAGAGATAAGATCCAACATTTTAATCCACTCCACTACAACTTCAAGG
AGATAGGATTATCACTTTAATCTGCTCCACTGCAACTTCAGGGAGATAACACTAGATGCGTTC
Found at i:15200034 original size:44 final size:44
Alignment explanation
Indices: 15199667--15200047 Score: 168
Period size: 44 Copynumber: 8.8 Consensus size: 44
15199657 GATTTGTTTA
* * * ***
15199667 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAACACTAGATGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* * * * * * *
15199711 -GT--TCTGCT-CTCTGCAACTTTAGAGAGATAAGATCCA-AGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGC
* * *
15199751 TTTAAT-TCGCTCCACTGCAACTTCAAGGAGATAGGATTATCAGC
1 TTTAATCT-GCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* *
15199795 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAAATT-T-GCC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* * * * ***
15199837 ATCTTCAGTCTAC-CTCACTGCAACTTCA-GAAGGATAAGACTTGTTTAC
1 -T-TT-AATCTGCTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGC
* * * *
15199885 -TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG---ACCAGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
*** * * *
15199925 TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAAG-TTCCA-AGG-
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT--ATCGGC
* * * *
15199967 TTTCAATCCGCTCTACTGTAACTTCAGGGAGATAGGATTATCGGC
1 TTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
* *
15200012 TTTAATCTGCTCCACTGCAACTTGAGTGAGATAAGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
15200048 CTAGATGTGA
Statistics
Matches: 247, Mismatches: 62, Indels: 56
0.68 0.17 0.15
Matches are distributed among these distances:
40 43 0.17
41 14 0.06
42 3 0.01
43 16 0.06
44 132 0.53
45 35 0.14
46 2 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCGGC
Found at i:15200043 original size:128 final size:127
Alignment explanation
Indices: 15199889--15200132 Score: 346
Period size: 128 Copynumber: 1.9 Consensus size: 127
15199879 GTTTACTTAG
* *
15199889 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGACCTGCTCTCTGCAACTTCAGAGAA
* * *
15199954 ATAAGTTCCAAGGTTTCAATCCGC-TCTACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAA
66 ATAAGATCCAAGGTTTCAATCCGCTTCGA-TCT-ACTTCAGGGAGATAGGATTATCGGCTTTAA
* * * *
15200017 TCTGCTCCACTGCAACTTGAGTGAGATAAGACTAGATGTGACCTGCTCTCTGCAACTTCAGAGAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGACCTGCTCTCTGCAACTTCAGAGAA
* * **
15200082 ATAAGATCTAAGGTTTTAATTTGCTTCGATCTACTTCAGGGAGATAGGATT
66 ATAAGATCCAAGGTTTCAATCCGCTTCGATCTACTTCAGGGAGATAGGATT
15200133 GGGGTCATTG
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
127 19 0.19
128 80 0.78
129 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (127 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCAGATGCGACCTGCTCTCTGCAACTTCAGAGAA
ATAAGATCCAAGGTTTCAATCCGCTTCGATCTACTTCAGGGAGATAGGATTATCGGCTTTAA
Found at i:15200243 original size:88 final size:88
Alignment explanation
Indices: 15200142--15200539 Score: 645
Period size: 88 Copynumber: 4.5 Consensus size: 88
15200132 TGGGGTCATT
* * *
15200142 GATCTGCTTCGCTGTCGGTGCAGGAATGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
**
15200207 AAAGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* *
15200230 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTA-TTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
15200294 AGGGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * * *
15200317 GATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
15200382 AGGGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * *
15200405 GATCTGCTTCGCTGTAGGTGCAGGAAGGCAAGATCTGCTATTTTTAACTTGCTCCACTGCAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
*
15200470 AGGGAGACAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
15200493 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTTATTTTTA
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGC-TATTTTTA
15200540 CTAATCTATT
Statistics
Matches: 289, Mismatches: 19, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
87 80 0.28
88 201 0.70
89 8 0.03
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (88 bp):
GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCC
AGGGAGGCAAGGCTGGTGTCTTC
Found at i:15200259 original size:44 final size:44
Alignment explanation
Indices: 15200211--15200524 Score: 154
Period size: 44 Copynumber: 7.2 Consensus size: 44
15200201 CAACCCAAAG
15200211 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* ** * ** * * * **** *
15200255 AGGCAAGATCTACTAT-TTTAACCTGCTCCGCT-ACAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
*
15200298 AGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* * ** * * * * **** *
15200342 AGGCAAGATCTGCT-AATTCTAACCTGCTCCGCT-ACAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTC-GATCTGCTTCGCTGTCGGTGCAGGA
*
15200386 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTAGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* * * ** * * * **** *
15200430 AGGCAAGATCTGCTAT-TTTTAACTTGCTCCACTG-CAACCCAGGG
1 AGGCAAG-GCTGGTGTCTTCGATC-TGCTTCGCTGTCGGTGCAGGA
*
15200474 AGACAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
15200518 AGGCAAG
1 AGGCAAG
15200525 ATCTGCTTAT
Statistics
Matches: 173, Mismatches: 86, Indels: 22
0.62 0.31 0.08
Matches are distributed among these distances:
42 4 0.02
43 50 0.29
44 89 0.51
45 30 0.17
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
Found at i:15200382 original size:175 final size:176
Alignment explanation
Indices: 15200142--15200531 Score: 638
Period size: 175 Copynumber: 2.2 Consensus size: 176
15200132 TGGGGTCATT
* * * * *
15200142 GATCTGCTTCGCTGTCGGTGCAGGAATGCAAGATCTGCTATTTTTAACCTGCTCTACTGCAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCACTACAACCC
*
15200207 AAAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTACTA-T
66 AAAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTAGGTGCAGGAAGGCAAGATCTACTATT
* *
15200271 TTTAACCTGCTCCGCTACAACCCAGGGAGGCAAGGCTGGTGTCTTC
131 TTTAACCTGCTCCACTACAACCCAGGGAGACAAGGCTGGTGTCTTC
* *
15200317 GATCTACTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCACTACAACCC
** *
15200382 AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTAGGTGCAGGAAGGCAAGATCTGCTATT
66 AAAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTAGGTGCAGGAAGGCAAGATCTACTATT
* *
15200447 TTTAACTTGCTCCACTGCAACCCAGGGAGACAAGGCTGGTGTCTTC
131 TTTAACCTGCTCCACTACAACCCAGGGAGACAAGGCTGGTGTCTTC
15200493 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
1 GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCT
15200532 TATTTTTACT
Statistics
Matches: 198, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
175 117 0.59
176 81 0.41
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.26
Consensus pattern (176 bp):
GATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTAATTCTAACCTGCTCCACTACAACCC
AAAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTAGGTGCAGGAAGGCAAGATCTACTATT
TTTAACCTGCTCCACTACAACCCAGGGAGACAAGGCTGGTGTCTTC
Found at i:15212440 original size:20 final size:20
Alignment explanation
Indices: 15212385--15212440 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
15212375 GCAAAGTATC
*
15212385 AAATAAATAAAAATATGAAA
1 AAATAAATAAAAAAATGAAA
* *
15212405 ACATAAATCAACAAAAT-AAA
1 AAATAAAT-AAAAAAATGAAA
15212425 AAATAAATAAAGAAAA
1 AAATAAATAAA-AAAA
15212441 GAGAGCGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 2 0.07
20 21 0.72
21 6 0.21
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (20 bp):
AAATAAATAAAAAAATGAAA
Found at i:15212818 original size:23 final size:22
Alignment explanation
Indices: 15212771--15212816 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
15212761 AAATATTAGT
15212771 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
15212794 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
15212815 TA
1 TA
15212817 TATATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:15216938 original size:20 final size:19
Alignment explanation
Indices: 15216905--15216948 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
15216895 TGAAACAAAC
*
15216905 ACCCAACCAAACCAGAACTA
1 ACCCAACCAAACCA-AACCA
**
15216925 ACCCAACCCGACCAAACCA
1 ACCCAACCAAACCAAACCA
15216944 ACCCA
1 ACCCA
15216949 CCCTATCCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.45, C:0.48, G:0.05, T:0.02
Consensus pattern (19 bp):
ACCCAACCAAACCAAACCA
Found at i:15220849 original size:8 final size:9
Alignment explanation
Indices: 15220826--15220857 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
15220816 AATAGTGATT
15220826 AATTTTTAC
1 AATTTTTAC
15220835 AATTTTTAC
1 AATTTTTAC
15220844 AATTTTTAC
1 AATTTTTAC
15220853 AATTT
1 AATTT
15220858 AATTCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTTTAC
Found at i:15223593 original size:16 final size:17
Alignment explanation
Indices: 15223561--15223596 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
15223551 TAAAAAATTA
*
15223561 TTATGCATTTCATTTTT
1 TTATACATTTCATTTTT
15223578 TTATACATTT-ATTTTT
1 TTATACATTTCATTTTT
15223594 TTA
1 TTA
15223597 ATATTTTACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.67
Consensus pattern (17 bp):
TTATACATTTCATTTTT
Found at i:15230258 original size:17 final size:17
Alignment explanation
Indices: 15230232--15230264 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15230222 TCCCATATTT
*
15230232 TGATAGCCATATCTTTC
1 TGATACCCATATCTTTC
15230249 TGATACCCATATCTTT
1 TGATACCCATATCTTT
15230265 GACTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.09, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:15242689 original size:17 final size:17
Alignment explanation
Indices: 15242667--15242701 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
15242657 CTACGAAGTA
15242667 CTTCTCCACAAAATTAC
1 CTTCTCCACAAAATTAC
15242684 CTTCTCCACAAAATTAC
1 CTTCTCCACAAAATTAC
15242701 C
1 C
15242702 ATTCGTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (17 bp):
CTTCTCCACAAAATTAC
Found at i:15248192 original size:50 final size:50
Alignment explanation
Indices: 15248125--15248289 Score: 222
Period size: 50 Copynumber: 3.3 Consensus size: 50
15248115 GGGAATGAGA
*
15248125 TCCCATGTAAGACCATGTCTGGGACATGGCGTTCGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTCGCACCGAGATGAGAGG
* *
15248175 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTCGCACCGAGATGAGAGG
* * ** * * **
15248225 TCCCCTGTAAGACCATGTCTGGGATATGGCATGGGCAACGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTCGCACCGAGATGAGAGG
*
15248275 TCCAATGTAAGACCA
1 TCCCATGTAAGACCA
15248290 ATTTTGGGAT
Statistics
Matches: 102, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 102 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTCGCACCGAGATGAGAGG
Found at i:15248308 original size:100 final size:100
Alignment explanation
Indices: 15248125--15248311 Score: 241
Period size: 100 Copynumber: 1.9 Consensus size: 100
15248115 GGGAATGAGA
* * * ** *
15248125 TCCCATGTAAGACCATGTCTGGGACATGGCGTTCGCACCGAGATGAGAGGTCCCATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGCGCAACGAGATGAGAACTCCAATGTAAGACCA
*
15248190 TGTCTGGGACATGGCATTGGCACTGAGATGAGAGG
66 TGTCTGGGACATGACATTGGCACTGAGATGAGAGG
* * * *
15248225 TCCCCTGTAAGACCATGTCTGGGATATGGCATGGGCAACGATATGAGAACTCCAATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGCGCAACGAGATGAGAACTCCAATGTAAGACC-
* *
15248290 AT-TTTGGGATATGACATTGGCA
65 ATGTCTGGGACATGACATTGGCA
15248312 GTACAGAAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
100 71 0.97
101 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (100 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGCGCAACGAGATGAGAACTCCAATGTAAGACCA
TGTCTGGGACATGACATTGGCACTGAGATGAGAGG
Found at i:15251945 original size:50 final size:50
Alignment explanation
Indices: 15251890--15251995 Score: 142
Period size: 50 Copynumber: 2.1 Consensus size: 50
15251880 CATTGAGATT
* * * *
15251890 ATGAGAGGTGCCATGTAATACCATGTCTAGGACATGGCGTTGG-CACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGC-ATGGACACCGAG
* *
15251940 ATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGACACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAG
15251990 ATGAGA
1 ATGAGA
15251996 ACTCTGATGT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 3 0.06
50 46 0.94
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTAGGACATGGCATGGACACCGAG
Found at i:15252008 original size:50 final size:50
Alignment explanation
Indices: 15251900--15252013 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
15251890 ATGAGAGGTG
* * **
15251900 CCATGTAATACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTAGGACATGGCGATGGCACCGAGATGAGAACTC
** *
15251950 CCCCGTAAGACCATGTCTAGGACATGGC-ATGGACACCGATATGAGAACTC
1 CCATGTAAGACCATGTCTAGGACATGGCGATGG-CACCGAGATGAGAACTC
**
15252000 TGATGTAAGACCAT
1 CCATGTAAGACCAT
15252014 ATCTGGGATA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 3 0.06
50 49 0.94
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTAGGACATGGCGATGGCACCGAGATGAGAACTC
Found at i:15255955 original size:24 final size:24
Alignment explanation
Indices: 15255923--15255976 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
15255913 GCCTTTGTAA
15255923 TTTCTCATTAATGGATCAAATCCT
1 TTTCTCATTAATGGATCAAATCCT
15255947 TTTCTCATTAATGGATCAAATCCT
1 TTTCTCATTAATGGATCAAATCCT
15255971 TGTTCT
1 T-TTCT
15255977 TGGTTGAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.44
Consensus pattern (24 bp):
TTTCTCATTAATGGATCAAATCCT
Found at i:15259161 original size:5 final size:5
Alignment explanation
Indices: 15259153--15259185 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
15259143 ATTTCTTGTT
*
15259153 TTTCA TTTCA TTTCA TTTCA TTT-A TTTCC TTTC
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTC
15259186 TTATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTCA
Found at i:15262507 original size:138 final size:138
Alignment explanation
Indices: 15262251--15262781 Score: 721
Period size: 138 Copynumber: 3.9 Consensus size: 138
15262241 AAAAATGAAT
*
15262251 TATATTCTTTCCAAAAGAATATTAATTTTCATG-CATTTTATATTTTGACTTAACA-TAATTAAT
1 TATATTCTTTCCAAAAGAATATTAATTTTCATGTC-TTTTATATTTTGAC-TAAAATTAATTAAT
* * * * *
15262314 ATAACTATTTATATTAATAAATTCAGTAAAATATATACCATTAATACTTTGTATGAATCAAATTA
64 ATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
15262379 ATATATTAAA
129 ATATATTAAA
*
15262389 TATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAATAT
* * * * *
15262454 TA-TCGTTTATAATAATAAAGTCGGTAAAATATATAAAATTAATATTTTTTATGAATCAAATTCA
66 AACT-GTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
*
15262518 TATATTAAC
130 TATATTAAA
* * * *
15262527 TATATTCTTTCCAACAA-AATATTAATTTTCATATCCTTTATATTTTGACAAAAAATAATTAATA
1 TATATTCTTTCCAA-AAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAATA
* * * * * *
15262591 TAATTGTTTATAGTAATAAATTCGGTAAAGTATATACAGTTAATATTTGGTATGAATCAAACTCA
65 TAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
*
15262656 TATATTAAT
130 TATATTAAA
* * * *
15262665 TATATTTTTTCCAAAAGAATATTAATTTTCATCTCTTTTATATTTTAAC-CAAATTAATTAATAT
1 TATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAATAT
* *
15262729 AACTGTTTATATTCATAAATTCGGTAAAATATATACAATTAATATTTTTTATG
66 AACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATG
15262782 TGTTCTCTAT
Statistics
Matches: 346, Mismatches: 41, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
137 65 0.19
138 277 0.80
139 4 0.01
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
TATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACTAAAATTAATTAATAT
AACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATATTAAA
Found at i:15270660 original size:51 final size:51
Alignment explanation
Indices: 15270574--15270916 Score: 294
Period size: 51 Copynumber: 6.8 Consensus size: 51
15270564 TATCGATAAA
* * *
15270574 CACGTGTGTAGTACTGTGTGAAGGCGACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
* * * * * * *
15270625 CACATGTCTAGTACTAAGTGAAGGCTACTATGTGTATCGAGAAGTTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTG-GT
* * * *
15270676 CACGTGTGTAGTATTGTGTGAAAGCTACTACGTGTATCGGTAAACTA-TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATTGGT
* * * * * * *
15270727 TACATGTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-TATC-GATAA-ATATTGGT
* * *
15270778 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGTTG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-TCGATAAATA-TTGGT
* * *
15270828 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACTG-TAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GATAAATATTGGT
15270877 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
15270917 ATGACAAAAA
Statistics
Matches: 230, Mismatches: 47, Indels: 31
0.75 0.15 0.10
Matches are distributed among these distances:
49 39 0.17
50 52 0.23
51 135 0.59
52 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATTGGT
Found at i:15270750 original size:102 final size:102
Alignment explanation
Indices: 15270574--15270916 Score: 346
Period size: 102 Copynumber: 3.4 Consensus size: 102
15270564 TATCGATAAA
*
15270574 CACGTGTGTAGTACTGTGTGAAGGCGACTACGTGTATCGATAAATAATGGTCACATGTCTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTCTAGTAC
* *
15270639 TAAGTGAAGGCTACTATGTG-TATC-GAGAAGTTTTGAG-
66 TAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTG-GT
* * * * * *
15270676 CACGTGTGTAGTATTGTGTGAAAGCTACTACGTGTATCGGTAAACT-ATGGTTACATGTGTGGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTCTAGTA
15270740 CTAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
65 CTAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
* * * * * * *
15270778 CACGTATGTAGTACTATGTGAAGGCTACTACGTG-AGTTG-TAAA-ACTTGATCACGTGTGTAGT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGATAAATA-ATGGTCACATGTCTAGT
* * * * * *
15270840 ACTATGTGAAGGCTACTACGTGA-ACTGTAAAAC--TGAT
64 ACTAAGTGAAGGCTACTATG-GATACCGGAAAGCTTTGGT
*
15270877 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGA
15270917 ATGACAAAAA
Statistics
Matches: 204, Mismatches: 27, Indels: 22
0.81 0.11 0.09
Matches are distributed among these distances:
99 38 0.19
100 1 0.00
101 44 0.22
102 118 0.58
103 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTCTAGTAC
TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
Done.