Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 62 of 218
Found at i:18807796 original size:28 final size:28
Alignment explanation
Indices: 18807754--18810057 Score: 1599
Period size: 28 Copynumber: 86.6 Consensus size: 28
18807744 CTTAATTAAA
*
18807754 AACCTTAATTTAATTAAATTAAAAACCCT
1 AACC-TAACTTAATTAAATTAAAAACCCT
* *
18807783 AACCTAACCTAATTAAATTTAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* **
18807811 AATCTTATTTTAATTAAATTAAAAACCCT
1 AA-CCTAACTTAATTAAATTAAAAACCCT
*
18807840 AACCTAACCTAATT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18807867 AACCTAACCTAATTAAATTAAAAA-CCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18807894 AACCTTATTTAATT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18807921 AACC---C-TACTT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18807944 AA--T---TT--TT-AATTAAAAAACCCT
1 AACCTAACTTAATTAAATT-AAAAACCCT
*
18807965 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18807993 AAACCCT-ACTTAA-TAAA--AACCTAACCCT
1 -AA-CCTAACTTAATTAAATTAA--AAACCCT
* *
18808021 AACCT-ACCTAATTTAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808048 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18808076 AACCTAACCTACTTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18808104 AACCTAACCTAATTAAATTAAAAACTCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18808132 AACCTAATTTTAATTAAATTTAAAACCCT
1 AACCTAA-CTTAATTAAATTAAAAACCCT
18808161 AACCT-AC----TT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18808183 AA--T---TTAAATTAAATTAAAAACCCT
1 AACCTAACTT-AATTAAATTAAAAACCCT
*
18808207 AACCT-ATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808234 AAAACCT-ACTTTAATTAAA--AACCCTAACCCT
1 --AACCTAAC-TTAATTAAATTAA---AAACCCT
* *
18808265 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18808293 AACCTAA-TTAATTAAATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808319 AACCTAACCTAATT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808346 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808374 AACCTTA-TTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808401 AACCCT-ACTTAATTAAA--AACCCTAACCCT
1 AA-CCTAACTTAATTAAATTAA---AAACCCT
* *
18808430 AACCTAACCTAATTTTAATTAAAAACCCT
1 AACCTAACTTAA-TTAAATTAAAAACCCT
* *
18808459 AACCTAATTTTAATTAAATTAAAAAACCTT
1 AACCTAA-CTTAATTAAATT-AAAAACCCT
*
18808489 AACCTTA-TTAATTAAATTAAAAA-CCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18808515 AACC--ACCTACTT-AATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808539 AACCCTAACCTAACTCT-AATTAATTAAACCCT
1 AA-CCTAACTTAA-T-TAAATTAA--AAACCCT
*
18808571 AACCTAATTTTAATTAAA-TAAAAACCCT
1 AACCTAA-CTTAATTAAATTAAAAACCCT
*
18808599 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808627 AAACC---C-TACTT-AATTAAAAA-CCT
1 -AACCTAACTTAATTAAATTAAAAACCCT
*
18808650 AACCTAATAACCTAATT-AATTAAAAA-CCT
1 AACC---TAACTTAATTAAATTAAAAACCCT
*
18808679 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808707 AACC---C-TACTT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18808730 AACCTTATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808758 AAACCCT-ACTTAATTAAA--AACCCTAACCCT
1 -AA-CCTAACTTAATTAAATTAA---AAACCCT
* *
18808788 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808816 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808844 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18808872 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18808900 AACCTAA--T--TT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18808923 AACCTAA--T--TT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18808946 AACCT-AC----TTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18808969 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* * *
18808997 AACCTTATTTAATTAAATTAAACACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18809025 AAACCCT-ACTTAATTAAA--AACCCAACCCCA
1 -AA-CCTAACTTAATTAAATTAA---AAACCCT
*
18809055 ACCCAACCTAACCTATTTAATTTAATT-AAAACCTCT
1 A----ACCTAA-C---TTAATTAAATTAAAAACC-CT
* *
18809091 AACCTAATTTAATTTAATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809118 AACC---C-TACTT-AATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809141 AACCTACTAACCTTAATTTAATTAAAAACCCT
1 AA-C--CTAA-CTTAATTAAATTAAAAACCCT
*
18809173 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18809201 AACCT-AC----TT--ATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
** *
18809221 AATTTAAATT-A--AA-TTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18809245 AACCTTATTTAATTAAA--AAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809271 AAACCCT-ACTTAATTAAA--AACCTAACCCT
1 -AA-CCTAACTTAATTAAATTAA--AAACCCT
*
18809300 AACCTAACCT-A-T-AATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809324 AACCT-ATTTAATTAAATT--AAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809349 AACCTAATTTAATTAAATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18809376 AA-CTAACCTAATTTAATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18809402 AACCTAA--T--TT-AATTAAAAA--CT
1 AACCTAACTTAATTAAATTAAAAACCCT
18809423 AACCTAA-TTAA-T----TAAAAA-CCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809444 AA-C--ATTTAATTAAA------ACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809463 AACCTAATTTAA-TAAATT-AAAA-CCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18809488 -ACCTTATTTAATT--ATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* ** *
18809512 AACC-ATACTT-ATTAAAACTCCAACCCTAACT
1 AACCTA-ACTTAATT-AAATTAAAAACC---CT
* * *
18809543 AACCTAACCTAATTTAATT-TAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809570 AA-CTAATTTAATTAAATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18809596 AACCTAA-TTTATTTAATT--AAA-CCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*****
18809620 AACCCT-ACTTAA-TAAAACCCTAA-CCT
1 AA-CCTAACTTAATTAAATTAAAAACCCT
* *
18809646 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18809674 AACCTAA-TTAATTAAATT--AAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18809699 AACCT-ACTTAATT-AATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809724 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18809752 AACCTTA-TTTATTAAATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809778 AAACCCT-ACTTAATTAAA--AACCTTAACCCT
1 -AA-CCTAACTTAATTAAATTAA---AAACCCT
* *
18809808 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809836 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18809864 AACCTAACCTAATTTAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* *
18809892 AACCTTATTTAATT-AATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18809918 AACCTAA--T--TT-AATT-AAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
18809940 AA-C-----TAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
* * *
18809962 AACCTTATTTAATTAAATTAAAAACTCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18809990 AACC---C-T-ACTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18810013 AACCTAATTTAATTAAATTAAAAACCCT
1 AACCTAACTTAATTAAATTAAAAACCCT
*
18810041 AACCCT-ATTTAATTAAA
1 AA-CCTAACTTAATTAAA
18810058 ACCCTAATTA
Statistics
Matches: 1884, Mismatches: 170, Indels: 443
0.75 0.07 0.18
Matches are distributed among these distances:
18 3 0.00
19 9 0.00
20 29 0.02
21 37 0.02
22 63 0.03
23 161 0.09
24 100 0.05
25 79 0.04
26 183 0.10
27 263 0.14
28 592 0.31
29 201 0.11
30 67 0.04
31 37 0.02
32 42 0.02
33 2 0.00
34 1 0.00
35 4 0.00
36 2 0.00
37 8 0.00
38 1 0.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.31
Consensus pattern (28 bp):
AACCTAACTTAATTAAATTAAAAACCCT
Found at i:18808063 original size:23 final size:23
Alignment explanation
Indices: 18807720--18807981 Score: 122
Period size: 23 Copynumber: 10.5 Consensus size: 23
18807710 TTTTGACATT
* *
18807720 ATTTGATTAAAATCCCTAACCCT-
1 ATTTAATTAAAAACCCTAA-CCTA
* * **
18807743 ACTTAATTAAAAACCTTAATTTA
1 ATTTAATTAAAAACCCTAACCTA
*
18807766 ATTAAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
* *
18807789 ACCTAATTAAATTTAAAACCCTAATCTTATTTTA
1 A--T--TT-AATTAAAAACCCTAA-C-----CTA
*
18807823 ATTAAATTAAAAACCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTA
18807846 ACCTAATTAATTAAAAACCCTAACCTA
1 A--T--TTAATTAAAAACCCTAACCTA
18807873 ACCTAATTAAATTAAAAA-CCTAACCTTA
1 A--T--TT-AATTAAAAACCCTAACC-TA
*
18807901 TTTAATTAATTAAAAACCCTAACCCT-
1 ---ATTTAATTAAAAACCCTAA-CCTA
*
18807927 ACTTAATTAAAAACCCTAA--T-
1 ATTTAATTAAAAACCCTAACCTA
*
18807947 TTTTAATTAAAAAACCCTAACCTA
1 ATTTAATT-AAAAACCCTAACCTA
18807971 ATTTAATTAAA
1 ATTTAATTAAA
18807982 TTAAAAACCC
Statistics
Matches: 189, Mismatches: 23, Indels: 54
0.71 0.09 0.20
Matches are distributed among these distances:
20 7 0.04
21 11 0.06
22 1 0.01
23 59 0.31
24 7 0.04
25 2 0.01
26 9 0.05
27 44 0.23
28 28 0.15
29 15 0.08
30 1 0.01
31 1 0.01
32 1 0.01
34 3 0.02
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTTAATTAAAAACCCTAACCTA
Found at i:18808430 original size:23 final size:23
Alignment explanation
Indices: 18807906--18808021 Score: 98
Period size: 23 Copynumber: 5.0 Consensus size: 23
18807896 CCTTATTTAA
18807906 TTAATTAAAAACCCTAACCCTAC
1 TTAATTAAAAACCCTAACCCTAC
**
18807929 TTAATTAAAAACCCTAA---TTT
1 TTAATTAAAAACCCTAACCCTAC
* *
18807949 TTAATTAAAAAACCCTAACCTAATTTAA
1 TTAATT-AAAAACCCTAACC----CTAC
18807977 TTAAATTAAAAACCCTAAACCCTAC
1 TT-AATTAAAAACCCT-AACCCTAC
18808002 TTAA-TAAAAA-CCTAACCCTA
1 TTAATTAAAAACCCTAACCCTA
18808022 ACCTACCTAA
Statistics
Matches: 77, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
20 7 0.09
21 18 0.23
22 3 0.04
23 23 0.30
24 2 0.03
25 4 0.05
28 12 0.16
29 8 0.10
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
TTAATTAAAAACCCTAACCCTAC
Found at i:18808736 original size:19 final size:21
Alignment explanation
Indices: 18808694--18808785 Score: 67
Period size: 23 Copynumber: 3.8 Consensus size: 21
18808684 AATTTAATTA
18808694 AATTAAAAACCCTAACCCTACTT
1 AATTAAAAACCCTAA-CC-ACTT
*
18808717 AATTAAAAACCCTAACCTTATTTAATT
1 AATTAAAAACCCTAACC------ACTT
18808744 AAATTAAAAACCCTAAACCCTACTT
1 -AATTAAAAACCCT-AA-CC-ACTT
18808769 AATTAAAAACCCTAACC
1 AATTAAAAACCCTAACC
18808786 CTAACCTAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
22 4 0.07
23 17 0.29
24 13 0.22
25 4 0.07
27 4 0.07
28 13 0.22
29 2 0.03
30 2 0.03
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (21 bp):
AATTAAAAACCCTAACCACTT
Found at i:18808817 original size:23 final size:23
Alignment explanation
Indices: 18808790--18809515 Score: 289
Period size: 23 Copynumber: 29.3 Consensus size: 23
18808780 CTAACCCTAA
18808790 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
18808813 CCTAACCTAATTTAATTAAATTAAAAAC
1 CCTAACCTAA--T--TT-AATTAAAAAC
18808841 CCTAACCTAATTTAATTAAATTAAAAACCC
1 CCTAACCTAA--T--TT-AATTAAAAA--C
18808871 TAACCTAACCTAATTTAATTAAAAAC
1 ---CCTAACCTAATTTAATTAAAAAC
18808897 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
18808920 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
* *
18808943 CCTAACCTACTTAAATTAAAAAC
1 CCTAACCTAATTTAATTAAAAAC
18808966 CCTAACCTAATTTAATTAAATTAAAAAC
1 CCTAACCTAA--T--TT-AATTAAAAAC
*
18808994 CCTAACCTTATTTAATTAAATTAAACAC
1 CCTAACCTAATTTAATT--A--AAA-AC
*
18809022 CCTAAACCCT-ACTTAATTAAAAAC
1 CCT-AA-CCTAATTTAATTAAAAAC
* *** *
18809046 CC-AACCCCAACCCAACCT---AA-
1 CCTAA-CCTAATTTAA-TTAAAAAC
**
18809066 CCT-ATTTAATTTAATT-AAAAC
1 CCTAACCTAATTTAATTAAAAAC
18809087 CTCTAACCTAATTTAATTTAATTAAAAC
1 C-CTAACCTAATTTAA-TT-A--AAAAC
*
18809115 CCTAACCCT-ACTTAATTAAAAAC
1 CCTAA-CCTAATTTAATTAAAAAC
*
18809138 CCTAACCTACTAACCTTAATTTAATTAAA-
1 CCTAA-C--CTAA-TTTAA-TTAA--AAAC
** *
18809167 ---AACCCTAACCTAATTTAATTAAATT
1 CCTAA-CCTAATTTAA-TTAA--AAA-C
*** ** *
18809192 AAAAACCCTAACCTACTTATTAAAAC
1 CCTAA-CCTAATTTAATTA--AAAAC
** *
18809218 CCTAATTTAAATTAAATTAAAAAC
1 CCTAACCT-AATTTAATTAAAAAC
*
18809242 CCTAACCTTATTTAATTAAAAAAAAC
1 CCTAACCTAATTTAATT---AAAAAC
*
18809268 CCTAAACCCT-ACTTAATTAAAAACCTAAC
1 CCT-AA-CCTAATTTAATT--AAA---AAC
*
18809297 CCTAACCTAACCTATAATT-AAAAC
1 CCTAACCTAA--TTTAATTAAAAAC
18809321 CCTAACCT-ATTTAATTAAATTAAAC
1 CCTAACCTAATTTAATT-AA--AAAC
18809346 CCTAACCTAATTTAATTAAATTAAAACC
1 CCTAACCTAATTTAATT--A--AAAA-C
18809374 CTAACTAACCTAATTTAATT-AAAAC
1 C---CTAACCTAATTTAATTAAAAAC
18809399 CCTAACCTAATTTAATTAAAAA-
1 CCTAACCTAATTTAATTAAAAAC
18809421 -CTAACCTAA-TTAATTAAAAA-
1 CCTAACCTAATTTAATTAAAAAC
18809441 CCTAA-C--ATTTAATT-AAAAC
1 CCTAACCTAATTTAATTAAAAAC
* *
18809460 CCTAACCTAATTTAATAAATTAAAA
1 CCTAACCTAATTTAATTAA--AAAC
*
18809485 CCT-ACCTTATTTAATTATTAAAAC
1 CCTAACCTAATTTAATTA--AAAAC
18809509 CCTAACC
1 CCTAACC
18809516 ATACTTATTA
Statistics
Matches: 571, Mismatches: 45, Indels: 172
0.72 0.06 0.22
Matches are distributed among these distances:
18 6 0.01
19 15 0.03
20 18 0.03
21 22 0.04
22 30 0.05
23 143 0.25
24 53 0.09
25 33 0.06
26 44 0.08
27 46 0.08
28 103 0.18
29 19 0.03
30 12 0.02
31 17 0.03
33 10 0.02
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.31
Consensus pattern (23 bp):
CCTAACCTAATTTAATTAAAAAC
Found at i:18809151 original size:31 final size:32
Alignment explanation
Indices: 18809116--18809178 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
18809106 AATTAAAACC
18809116 CTAACCCT-ACTTAATTAAAAACCCTAACCTA
1 CTAACCCTAACTTAATTAAAAACCCTAACCTA
* *
18809147 CTAACCTTAATTTAATTAAAAACCCTAACCTA
1 CTAACCCTAACTTAATTAAAAACCCTAACCTA
18809179 ATTTAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 7 0.24
32 22 0.76
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (32 bp):
CTAACCCTAACTTAATTAAAAACCCTAACCTA
Found at i:18809236 original size:72 final size:74
Alignment explanation
Indices: 18809073--18810064 Score: 357
Period size: 79 Copynumber: 12.9 Consensus size: 74
18809063 TAACCTATTT
* *
18809073 AATTTAATT-AAAACCTCTAACCTAATTTAATTTAATT-AAAACCCTAACCCTACTTAATTAAA-
1 AATTAAATTAAAAACC-CTAACCT-ATTTAATTAAATTAAAAACCCTAA-CCTACTTAATTAAAC
18809135 AACCCTAACCTA
63 AACCCTAACCTA
18809147 CTAACCTTAATTTAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCTACTT-A
1 --AA--TT-A---AATTAAAAACCCTAACCT-ATTTAATTAAATTAAAAACCCTAACCTACTTAA
**
18809211 TT-AA-AACCCTAATTTA
57 TTAAACAACCCTAACCTA
18809227 AATTAAATTAAAAACCCTAACCTTATTTAATTAAA--AAAAACCCTAAACCCTACTTAATTAAAA
1 AATTAAATTAAAAACCCTAACC-TATTTAATTAAATTAAAAACCCT-AA-CCTACTTAATT--AA
18809290 ACCTAACCCTAACCTA
61 A-C-AACCCTAACCTA
** *
18809306 ACCTATAATT-AAAACCCTAACCTATTTAATTAAATT--AAACCCTAACCTAATTTAATTAAATT
1 AATTA-AATTAAAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCT-ACTTAATT-AA--
*
18809368 AAAACCCTAA-CTAA
61 ACAACCCTAACCT-A
* * *
18809382 CCTAATTTAATT-AAAACCCTAACC----TAATTTAATTAAAAA--CTAACCTAATTAATTAAA-
1 ---AATTAAATTAAAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTACTTAATTAAAC
18809439 AA-CCTAA-C--
63 AACCCTAACCTA
* *
18809447 -ATTTAATT-AAAACCCTAACCTAATTTAA-TAAATT-AAAA-CCT-ACCTTATTTAATTATTAA
1 AATTAAATTAAAAACCCTAACCT-ATTTAATTAAATTAAAAACCCTAACC-TACTTAATTA--AA
18809506 -AACCCTAACCATA
62 CAACCCTAACC-TA
* * ** * ** * * *
18809519 CTTATTAAAACTCCAACCCTAACTAACCTAACCTAATTTAATT-TAAACCCTAA-CTAATTTAAT
1 --AATT-AAATTAAAAACC---CTAACCT-ATTTAATTAAATTAAAAACCCTAACCT-ACTTAAT
*
18809582 TAAATTAAAACCCTAACCT-
58 T-AA--ACAACCCTAACCTA
* * * * * * *
18809601 AATTTATTTAATTAAA-CCTAACCCTACTTAATAAAACCCTAACCTAA-CCTAACCTAATTTAAT
1 AATTAAATTAA--AAACCCTAA-CCTATTTAATTAAA--TTAA--AAACCCTAACCT-ACTTAAT
18809664 TAAA-AACCCTAACCT-
58 TAAACAACCCTAACCTA
* *
18809679 AATT-AATTAAATTAAACCCTAACCTACTTAATT-AATT-AAAACCCTAACCTAATTTAATTAAA
1 AATTAAATT-AA--AAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCT-ACTTAATT--A
*
18809741 TTAAAAACCCTAACCTTA
60 --AACAACCCTAACC-TA
* * * *
18809759 TTTATTAAATT-AAAACCCTAAACCCTACTTAATTAAAAACCTTAACCCTAA-CCTAACCTAATT
1 --AATTAAATTAAAAACCCT-AA-CCTATTTAATT--AAA--TTAA---AAACCCTAACCT-ACT
18809822 TAATTAAA-AACCCTAACCTAA
54 TAATTAAACAACCCTAACCT-A
** * *
18809843 TTTAATTAAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCTTATTTAATTAA
1 ---AATTAAATTAAAAACCCTAACCT-ATTTAATTAAATTAAAAACCCTAACC-TACTTAATTAA
*
18809908 TTAAAACCCTAACCT-
61 --ACAACCCTAACCTA
* *
18809923 AATTTAATT-AAAACCCTAA-C----TAATTAAATTAAAAACCCTAACCTTATTTAATTAAATTA
1 AATTAAATTAAAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACC-TACTTAATT--A--A
* *
18809982 AAAACTCTAACCCT-
61 ACAACCCTAA-CCTA
* *
18809996 -ACTAAATTAAAAACCCTAACCTAATTTAATTAAATTAAAAACCCTAACCCTATTTAATT-AA-A
1 AATTAAATTAAAAACCCTAACCT-ATTTAATTAAATTAAAAACCCTAA-CCTACTTAATTAAACA
18810058 ACCCTAA
64 ACCCTAA
18810065 TTAAATTGTA
Statistics
Matches: 747, Mismatches: 54, Indels: 233
0.72 0.05 0.23
Matches are distributed among these distances:
61 20 0.03
64 7 0.01
65 16 0.02
66 3 0.00
67 4 0.01
68 11 0.01
69 3 0.00
70 42 0.06
71 2 0.00
72 55 0.07
73 48 0.06
74 21 0.03
75 9 0.01
76 37 0.05
77 40 0.05
78 87 0.12
79 91 0.12
80 37 0.05
81 39 0.05
82 70 0.09
83 27 0.04
84 26 0.03
85 21 0.03
86 10 0.01
87 2 0.00
89 17 0.02
90 2 0.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (74 bp):
AATTAAATTAAAAACCCTAACCTATTTAATTAAATTAAAAACCCTAACCTACTTAATTAAACAAC
CCTAACCTA
Found at i:18809337 original size:21 final size:21
Alignment explanation
Indices: 18809302--18809646 Score: 139
Period size: 21 Copynumber: 15.4 Consensus size: 21
18809292 CTAACCCTAA
18809302 CCTAACCTA--TAATTAAAAC
1 CCTAACCTATTTAATTAAAAC
18809321 CCTAACCTATTTAATTAAATTAAAC
1 CCTAACCTATTTAATT--A--AAAC
18809346 CCTAACCTAATTTAATTAAATTAAAAC
1 CCTAACCT-A--T--TT-AATTAAAAC
18809373 CCTAACTAACCTAATTTAATTAAAAC
1 CCT----AACCT-ATTTAATTAAAAC
18809399 CCTAACCTAATTTAATTAAAA-
1 CCTAACCT-ATTTAATTAAAAC
* * *
18809420 ACTAACCTAATTAATTAAAAA
1 CCTAACCTATTTAATTAAAAC
18809441 CCTAA-C-ATTTAATTAAAAC
1 CCTAACCTATTTAATTAAAAC
18809460 CCTAACCTAATTTAATAAATTAAAA-
1 CCTAACCT-A-TT--T-AATTAAAAC
18809485 CCT-ACCTTATTTAATTATTAAAAC
1 CCTAACC-TATTT-A--ATTAAAAC
*
18809509 CCTAACCATACTT-ATTAAAAC
1 CCTAACC-TATTTAATTAAAAC
* *
18809530 TCC-AACC---CTAACT--AA-
1 -CCTAACCTATTTAATTAAAAC
*
18809545 CCTAACCTAATTTAATTTAAAC
1 CCTAACCT-ATTTAATTAAAAC
18809567 CCTAA-CTAATTTAATTAAATTAAAAC
1 CCTAACCT-A--T--TT-AATTAAAAC
* *
18809593 CCTAACCTAATTTATTTAATTAAA
1 CCTAACCT-ATTTAATTAA--AAC
*
18809617 CCTAACCCTACTTAA-TAAAAC
1 CCTAA-CCTATTTAATTAAAAC
18809638 CCTAACCTA
1 CCTAACCTA
18809647 ACCTAACCTA
Statistics
Matches: 261, Mismatches: 17, Indels: 95
0.70 0.05 0.25
Matches are distributed among these distances:
14 2 0.01
15 4 0.02
16 2 0.01
17 1 0.00
18 2 0.01
19 29 0.11
20 17 0.07
21 44 0.17
22 31 0.12
23 18 0.07
24 18 0.07
25 30 0.11
26 34 0.13
27 13 0.05
28 1 0.00
29 2 0.01
30 2 0.01
31 11 0.04
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (21 bp):
CCTAACCTATTTAATTAAAAC
Found at i:18809441 original size:43 final size:38
Alignment explanation
Indices: 18809376--18809471 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 38
18809366 TTAAAACCCT
18809376 AACTAACCTAATTTAATTAAAACCCTAACCTAATTTAATTAAA
1 AACTAACCTAA-TTAATTAAAA-CCTAA-C--ATTTAATTAAA
18809419 AACTAACCTAATTAATTAAAAACCTAACATTTAATTAAA
1 AACTAACCTAATTAATT-AAAACCTAACATTTAATTAAA
*
18809458 ACCCTAACCTAATT
1 A-ACTAACCTAATT
18809472 TAATAAATTA
Statistics
Matches: 50, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
39 12 0.24
40 11 0.22
41 1 0.02
42 11 0.22
43 15 0.30
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (38 bp):
AACTAACCTAATTAATTAAAACCTAACATTTAATTAAA
Found at i:18813422 original size:124 final size:124
Alignment explanation
Indices: 18813202--18813430 Score: 372
Period size: 124 Copynumber: 1.8 Consensus size: 124
18813192 CCACGAGGGC
*
18813202 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* *
18813267 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCTTGGTACA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCATATAGCATCTTGGTACA
* *
18813326 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTGACACTATTTCCTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
*
18813389 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCT
64 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCT
18813431 TAAATAACAT
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
124 67 0.69
125 30 0.31
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (124 bp):
GCGATTTGACACTATTTCCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCATATAGCATCTTGGTACA
Found at i:18813478 original size:124 final size:124
Alignment explanation
Indices: 18813202--18813482 Score: 370
Period size: 124 Copynumber: 2.3 Consensus size: 124
18813192 CCACGAGGGC
* *
18813202 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
1 GCGATTTCACACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
* * * * * * *
18813267 GAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCTTGGTACA
66 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAACATCCTAGTAAA
* * *
18813326 GCGATTTTATACTATTTCCTCAGAAAACGTCAAAAAAAAATTATTT-CTCACATGACC-ACTGTA
1 GCGATTTCACACTATTTACTCAG-AAACGTCAAAAAAAAATTATTTCCT-ACATGACCAACTGTA
* *
18813389 GCGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAACATCCTAGTAGAA
64 GCGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAACATCCTAGTA-AA
*
18813451 GCGATTTCCCACTATTTAAC-CAGAAACGTCAA
1 GCGATTTCACACTATTT-ACTCAGAAACGTCAA
18813483 CTCGAAAAAA
Statistics
Matches: 137, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
124 88 0.64
125 48 0.35
126 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.28
Consensus pattern (124 bp):
GCGATTTCACACTATTTACTCAGAAACGTCAAAAAAAAATTATTTCCTACATGACCAACTGTAGC
GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAACATCCTAGTAAA
Found at i:18814240 original size:17 final size:18
Alignment explanation
Indices: 18814218--18814251 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18814208 AATCTCTTCT
18814218 TTTTTAG-TTTTACTTTA
1 TTTTTAGTTTTTACTTTA
18814235 TTTTTAGTTTTTACTTT
1 TTTTTAGTTTTTACTTT
18814252 TAAAAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TTTTTAGTTTTTACTTTA
Found at i:18814434 original size:28 final size:28
Alignment explanation
Indices: 18814394--18814461 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
18814384 ATTGATATAA
* *
18814394 CTTTTAAGTTTGAGATGCAATTAGATTG
1 CTTTGAAGTTTGAGATGCAATTAGAATG
*
18814422 CTTTGAAGTTTGAGATGTAATTAGAATG
1 CTTTGAAGTTTGAGATGCAATTAGAATG
*
18814450 TTTTGAAGTTTG
1 CTTTGAAGTTTG
18814462 TGAACCAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.44
Consensus pattern (28 bp):
CTTTGAAGTTTGAGATGCAATTAGAATG
Found at i:18814471 original size:28 final size:28
Alignment explanation
Indices: 18814394--18814471 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 28
18814384 ATTGATATAA
* ** *
18814394 CTTTTAAGTTTGAGATGCAATTAGATTG
1 CTTTGAAGTTTGAGAACCAATTAGAATG
***
18814422 CTTTGAAGTTTGAGATGTAATTAGAATG
1 CTTTGAAGTTTGAGAACCAATTAGAATG
* *
18814450 TTTTGAAGTTTGTGAACCAATT
1 CTTTGAAGTTTGAGAACCAATT
18814472 TAAAATGATA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.42
Consensus pattern (28 bp):
CTTTGAAGTTTGAGAACCAATTAGAATG
Found at i:18814944 original size:16 final size:16
Alignment explanation
Indices: 18814904--18814938 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
18814894 ATTAAAATAT
*
18814904 AATAAA-ATATTAAAA
1 AATAAATATTTTAAAA
18814919 AATAAATATTTTAAAA
1 AATAAATATTTTAAAA
18814935 AATA
1 AATA
18814939 CTTATTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAAATATTTTAAAA
Found at i:18833318 original size:40 final size:40
Alignment explanation
Indices: 18833242--18833320 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
18833232 TATACTTTTT
* * *
18833242 TTAGCACTACGGTGCTTTTGACGGCACATTCGTGCTCCTA
1 TTAGCACTACAGTGCTCTTGACAGCACATTCGTGCTCCTA
* *
18833282 TTAGCACTACAGTGCTCTTGATAGCATATT-GATGCTCCT
1 TTAGCACTACAGTGCTCTTGACAGCACATTCG-TGCTCCT
18833321 CTTTCCTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (40 bp):
TTAGCACTACAGTGCTCTTGACAGCACATTCGTGCTCCTA
Found at i:18833546 original size:17 final size:17
Alignment explanation
Indices: 18833524--18833559 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
18833514 CTTGGGCTGA
18833524 ATTGATTGAA-ATGTTAT
1 ATTGATT-AACATGTTAT
18833541 ATTGATTAACATGTTAT
1 ATTGATTAACATGTTAT
18833558 AT
1 AT
18833560 GGTTTTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (17 bp):
ATTGATTAACATGTTAT
Found at i:18835061 original size:15 final size:15
Alignment explanation
Indices: 18835041--18835071 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
18835031 AATGGCATGA
*
18835041 TTGAATAAGTTGAAT
1 TTGAATAAATTGAAT
18835056 TTGAATAAATTGAAT
1 TTGAATAAATTGAAT
18835071 T
1 T
18835072 GATATCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (15 bp):
TTGAATAAATTGAAT
Found at i:18852173 original size:42 final size:41
Alignment explanation
Indices: 18852071--18852256 Score: 160
Period size: 42 Copynumber: 4.5 Consensus size: 41
18852061 CGAAGGCTGT
* * * * **
18852071 ACTGAAGCACATAAGTGCTAAACAGAAACCTGTAAGGGTTGA
1 ACTGAAGCTCAGAAGAGCTGAACAGAAACCCATAAGGGTT-A
* * *
18852113 ACGGAAGCTCATAGGAGCTGAACAGAAACCCATAAGGGTTA
1 ACTGAAGCTCAGAAGAGCTGAACAGAAACCCATAAGGGTTA
* * *
18852154 ATCTGAAGCTCAGAAGAGCT-AAAATAAAACCCATTAGGGTTAA
1 A-CTGAAGCTCAGAAGAGCTGAACA-GAAACCCATAAGGGTT-A
* * * * *
18852197 ACTGAAGCTCAAAAGAGCTGAACTGAAACTCATATGAGTTA
1 ACTGAAGCTCAGAAGAGCTGAACAGAAACCCATAAGGGTTA
18852238 ACTGAAGCTCATG-AGAGCT
1 ACTGAAGCTCA-GAAGAGCT
18852257 AAATGGAAAG
Statistics
Matches: 117, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
41 23 0.20
42 90 0.77
43 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
ACTGAAGCTCAGAAGAGCTGAACAGAAACCCATAAGGGTTA
Found at i:18852215 original size:84 final size:83
Alignment explanation
Indices: 18852105--18852259 Score: 213
Period size: 84 Copynumber: 1.9 Consensus size: 83
18852095 GAAACCTGTA
* * * *
18852105 AGGGTTGAACGGAAGCTCATAGGAGCTGAACAGAAACCCATAAGGGTTAATCTGAAGCTCA-GAA
1 AGGGTTAAACGGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGTTAA-CTGAAGCTCATG-A
18852169 GAGCTAAAATAAAACCCATT
64 GAGCTAAAATAAAACCCATT
* * * *
18852189 AGGGTTAAACTGAAGCTCAAAAGAGCTGAACTGAAACTCATATGAGTTAACTGAAGCTCATGAGA
1 AGGGTTAAACGGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGTTAACTGAAGCTCATGAGA
18852254 GCTAAA
66 GCTAAA
18852260 TGGAAAGCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 19 0.31
84 43 0.69
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.19
Consensus pattern (83 bp):
AGGGTTAAACGGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGAGTTAACTGAAGCTCATGAGA
GCTAAAATAAAACCCATT
Found at i:18852222 original size:21 final size:20
Alignment explanation
Indices: 18852196--18852248 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
18852186 ATTAGGGTTA
18852196 AACTGAAGCTCAAAAGAGCTG
1 AACTGAAGCTCAAAAGAG-TG
* * * *
18852217 AACTGAAACTCATATGAGTT
1 AACTGAAGCTCAAAAGAGTG
18852237 AACTGAAGCTCA
1 AACTGAAGCTCA
18852249 TGAGAGCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (20 bp):
AACTGAAGCTCAAAAGAGTG
Found at i:18852619 original size:15 final size:15
Alignment explanation
Indices: 18852599--18852633 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
18852589 ACAAACCCAC
*
18852599 CAGAACAGGATAGAG
1 CAGAACAGGATAGAA
*
18852614 CAGAACATGATAGAA
1 CAGAACAGGATAGAA
18852629 CAGAA
1 CAGAA
18852634 TAGAGCAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.26, T:0.09
Consensus pattern (15 bp):
CAGAACAGGATAGAA
Found at i:18859674 original size:13 final size:13
Alignment explanation
Indices: 18859656--18859681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18859646 TAAAACAAAA
18859656 ATTTTAAAAATAT
1 ATTTTAAAAATAT
18859669 ATTTTAAAAATAT
1 ATTTTAAAAATAT
18859682 TTTAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTTAAAAATAT
Found at i:18859724 original size:18 final size:16
Alignment explanation
Indices: 18859673--18859747 Score: 64
Period size: 16 Copynumber: 4.7 Consensus size: 16
18859663 AAATATATTT
18859673 TAAAAATATTTTAAAA
1 TAAAAATATTTTAAAA
* * *
18859689 TTAAAACAATTT-AAA
1 TAAAAATATTTTAAAA
*
18859704 -AAAATTATTTTAAAA
1 TAAAAATATTTTAAAA
* *
18859719 TGAAAAAAAAATTTAAAA
1 T--AAAAATATTTTAAAA
18859737 TAAAAATATTT
1 TAAAAATATTT
18859748 ATTATATTCG
Statistics
Matches: 43, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
14 7 0.16
15 6 0.14
16 17 0.40
18 13 0.30
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (16 bp):
TAAAAATATTTTAAAA
Found at i:18861414 original size:25 final size:26
Alignment explanation
Indices: 18861367--18861433 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 26
18861357 CGTTACAGGA
* *
18861367 TTCACCATATAGA-CTTTCTAGATAAC
1 TTCACCATA-AGAGCTTACCAGATAAC
18861393 -TCACCATAAGAGCTTACCAGATAAC
1 TTCACCATAAGAGCTTACCAGATAAC
18861418 TTCACCACTAAG-GCTT
1 TTCACCA-TAAGAGCTT
18861434 TTCGAATAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 3 0.08
25 19 0.53
26 10 0.28
27 4 0.11
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.28
Consensus pattern (26 bp):
TTCACCATAAGAGCTTACCAGATAAC
Found at i:18862563 original size:16 final size:16
Alignment explanation
Indices: 18862539--18862570 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18862529 CAAAACTCTA
*
18862539 GGGCTTAGTCTTTCTT
1 GGGCGTAGTCTTTCTT
18862555 GGGCGTAGTCTTTCTT
1 GGGCGTAGTCTTTCTT
18862571 CACTTGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.19, G:0.28, T:0.47
Consensus pattern (16 bp):
GGGCGTAGTCTTTCTT
Found at i:18864263 original size:30 final size:30
Alignment explanation
Indices: 18864217--18864288 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
18864207 ATATTTTTTA
*
18864217 TTTTTTTATTTAAAAATATTTTGAAAATAC
1 TTTTTTTATTTTAAAATATTTTGAAAATAC
* *
18864247 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTATTTTAAAATATTTTGAAAATAC
18864277 TTTTTTTATTTT
1 TTTTTTTATTTT
18864289 TTATTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (30 bp):
TTTTTTTATTTTAAAATATTTTGAAAATAC
Found at i:18867296 original size:27 final size:27
Alignment explanation
Indices: 18867243--18867319 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
18867233 CCCTCCACAA
* * *
18867243 TTCACCACAAAGGC-ATTCATTTGATA-
1 TTCAACACAAAGGCTCTTC-TTTCATAT
*
18867269 TTCAAACACGAAGGCTCTTCTTTCATAT
1 TTC-AACACAAAGGCTCTTCTTTCATAT
* *
18867297 TTCACCACAAAGGCTTTTCTTTC
1 TTCAACACAAAGGCTCTTCTTTC
18867320 CTGTCGTGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
26 3 0.07
27 32 0.78
28 6 0.15
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (27 bp):
TTCAACACAAAGGCTCTTCTTTCATAT
Found at i:18887610 original size:16 final size:17
Alignment explanation
Indices: 18887589--18887621 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
18887579 TATATTTATT
18887589 TTTTAAAAT-TTTTTAA
1 TTTTAAAATATTTTTAA
18887605 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
18887622 AATACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:18887619 original size:11 final size:11
Alignment explanation
Indices: 18887605--18887671 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
18887595 AATTTTTTAA
18887605 TTTTAAAATAT
1 TTTTAAAATAT
18887616 TTTTAAAATACT
1 TTTTAAAATA-T
* *
18887628 TTTT-TATTAT
1 TTTTAAAATAT
*
18887638 TTTT----TAA
1 TTTTAAAATAT
18887645 TTTTAAAATAT
1 TTTTAAAATAT
18887656 TTTTAAAATACT
1 TTTTAAAATA-T
18887668 TTTT
1 TTTT
18887672 TTAATTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
7 6 0.13
10 5 0.11
11 25 0.54
12 10 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:18887642 original size:40 final size:40
Alignment explanation
Indices: 18887587--18887680 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
18887577 AATATATTTA
*
18887587 TTTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTATAATTTTTTAATTTTAAAATATTTTTAAAATAC
*
18887627 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTATAATTTTTTAATTTTAAAATATTTTTAAAATAC
18887667 TTTTTT-TAATTTTT
1 TTTTTTATAATTTTT
18887681 AAAATAAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 7 0.14
40 44 0.86
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTTATAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:18887692 original size:21 final size:21
Alignment explanation
Indices: 18887654--18887693 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18887644 ATTTTAAAAT
**
18887654 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
18887675 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
18887694 AGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:18898302 original size:15 final size:14
Alignment explanation
Indices: 18898271--18898317 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
18898261 ATATTTTTCT
* *
18898271 TTATTTTTATTTTC
1 TTATTTTTATATAC
18898285 TTAGTTTTTATATAC
1 TTA-TTTTTATATAC
*
18898300 TTA-TTATATATAC
1 TTATTTTTATATAC
18898313 TTATT
1 TTATT
18898318 CATTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 12 0.43
14 4 0.14
15 12 0.43
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATTTTTATATAC
Found at i:18898522 original size:12 final size:12
Alignment explanation
Indices: 18898505--18898533 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
18898495 TATGCATACC
18898505 TACATATTTTAA
1 TACATATTTTAA
18898517 TACATATTTTAA
1 TACATATTTTAA
18898529 TACAT
1 TACAT
18898534 TCATTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.48
Consensus pattern (12 bp):
TACATATTTTAA
Found at i:18903010 original size:32 final size:32
Alignment explanation
Indices: 18902969--18903032 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
18902959 AAATCTCATT
*
18902969 TCCCTTGTTTTCTTAAGCAATGTGGCATGTGG
1 TCCCTTGTTTTCTTAAACAATGTGGCATGTGG
*
18903001 TCCCTTGTTTTCTTAAACAATGTGGGATGTGG
1 TCCCTTGTTTTCTTAAACAATGTGGCATGTGG
18903033 GATGTGGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (32 bp):
TCCCTTGTTTTCTTAAACAATGTGGCATGTGG
Found at i:18903341 original size:24 final size:21
Alignment explanation
Indices: 18903286--18903341 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
18903276 GCAACACATA
*
18903286 ATATTTTATATATAAAATATT
1 ATATTTTAAATATAAAATATT
*
18903307 ATAATTATAAATATAAAAATTCATT
1 AT-ATTTTAAATAT-AAAA-T-ATT
18903332 ATATTTTAAA
1 ATATTTTAAA
18903342 CTTTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 9 0.32
23 4 0.14
24 8 0.29
25 5 0.18
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATTTTAAATATAAAATATT
Found at i:18903404 original size:5 final size:5
Alignment explanation
Indices: 18903348--18903483 Score: 183
Period size: 5 Copynumber: 27.6 Consensus size: 5
18903338 TAAACTTTTT
* *
18903348 TATTA TA-TA TA-TA TATT- TATTA T-TTA TCTATA TATTAAA TATTC
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA TATT--A TATTA
*
18903392 TTTTA TATTA TATTA TA-TA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
18903441 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TAT
18903484 GTTATATTGA
Statistics
Matches: 119, Mismatches: 5, Indels: 14
0.86 0.04 0.10
Matches are distributed among these distances:
4 20 0.17
5 90 0.76
6 4 0.03
7 5 0.04
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:18903577 original size:17 final size:17
Alignment explanation
Indices: 18903555--18903593 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
18903545 CTACCTCCAT
* *
18903555 TTTTATTTTTTAGTTTA
1 TTTTATATTTTAGTATA
18903572 TTTTATATTTTAGTATA
1 TTTTATATTTTAGTATA
18903589 TTTTA
1 TTTTA
18903594 CATCTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTTATATTTTAGTATA
Found at i:18905790 original size:43 final size:43
Alignment explanation
Indices: 18905733--18905831 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
18905723 TCTTTCACAT
18905733 AAACGCCGCTAAAGAACATGACCTTTAGCGGCG-CTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTT-TCAC
* * *
18905776 AAACACCGCTAAAGAACATGACTTTTAGTGGCGCCTTTTTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTTTCAC
*
18905819 AAACGCTGCTAAA
1 AAACGCCGCTAAA
18905832 AGCATCGTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
43 45 0.90
44 5 0.10
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCCTTTTTCAC
Found at i:18911659 original size:9 final size:9
Alignment explanation
Indices: 18911607--18911676 Score: 65
Period size: 9 Copynumber: 8.0 Consensus size: 9
18911597 CAAGTATAAA
*
18911607 TAAGTTCTG
1 TAAGTTATG
18911616 TAAGTTATG
1 TAAGTTATG
* * *
18911625 ATATGATATA
1 -TAAGTTATG
*
18911635 T-ATTTATG
1 TAAGTTATG
18911643 T-A-TTATG
1 TAAGTTATG
18911650 TAAGTTATG
1 TAAGTTATG
18911659 TAAGTTATG
1 TAAGTTATG
18911668 TAAGTTATG
1 TAAGTTATG
18911677 ATATGATATA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 32 0.64
10 6 0.12
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:18911824 original size:21 final size:21
Alignment explanation
Indices: 18911800--18911839 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
18911790 TCAAATTTTG
18911800 AATAATAATACAAAGTTGTAA
1 AATAATAATACAAAGTTGTAA
18911821 AATAATAATACAAAGTTGT
1 AATAATAATACAAAGTTGT
18911840 CTTCAAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
AATAATAATACAAAGTTGTAA
Found at i:18913747 original size:113 final size:114
Alignment explanation
Indices: 18913604--18913824 Score: 284
Period size: 114 Copynumber: 1.9 Consensus size: 114
18913594 TTTATCCACA
* ** *
18913604 AGCGCCGCTAAATCCCTACATATTGCGGCG-TTTAACGAAAATGCCACTAAAAAACCTACA-AAA
1 AGCGCCGCTAAATCCCGACATATTGCGGCGTTTTAACGAAAACACCACTAAAAAACC-AAATAAA
* *
18913667 ACGGCACCATTTTTATTAAAACAAAATAACATGTTGCGGCGTTTTTTGGT
65 ACGACACCATTTTGATTAAAACAAAATAACATGTTGCGGCGTTTTTTGGT
* * * *
18913717 AGCGTCGCTAAATCCCGACCTATTGCGGCGTTTTGACGAAAACACCACTAAAAAATCAAATAAAA
1 AGCGCCGCTAAATCCCGACATATTGCGGCGTTTTAACGAAAACACCACTAAAAAACCAAATAAAA
* * * * *
18913782 CGACTCTATTTTGATTAAAACAAATTAACCTTTTGCGGCGTTT
66 CGACACCATTTTGATTAAAACAAAATAACATGTTGCGGCGTTT
18913825 CACCAAAAAC
Statistics
Matches: 91, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
113 29 0.32
114 62 0.68
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (114 bp):
AGCGCCGCTAAATCCCGACATATTGCGGCGTTTTAACGAAAACACCACTAAAAAACCAAATAAAA
CGACACCATTTTGATTAAAACAAAATAACATGTTGCGGCGTTTTTTGGT
Found at i:18914404 original size:7 final size:7
Alignment explanation
Indices: 18914392--18914640 Score: 67
Period size: 7 Copynumber: 34.9 Consensus size: 7
18914382 ACTAATTAAT
18914392 CTAAACC
1 CTAAACC
18914399 CTAAACCC
1 CTAAA-CC
18914407 CT-AACTC
1 CTAAAC-C
18914414 CT-AACC
1 CTAAACC
18914420 CTTAAACC
1 C-TAAACC
**
18914428 CTAAATT
1 CTAAACC
** *
18914435 AAAAAAC
1 CTAAACC
*
18914442 ATAAACC
1 CTAAACC
18914449 CTAAACCC
1 CTAAA-CC
*
18914457 CTAACCC
1 CTAAACC
*
18914464 CCAAACC
1 CTAAACC
*
18914471 TTAAACC
1 CTAAACC
18914478 CT-AACC
1 CTAAACC
18914484 CTTAAACC
1 C-TAAACC
*
18914492 ATAAACC
1 CTAAACC
*
18914499 ATAAACC
1 CTAAACC
*
18914506 TTAAA--
1 CTAAACC
*
18914511 ATAGTAACTC
1 CTA--AAC-C
18914521 CTAAACC
1 CTAAACC
*
18914528 TTAAACC
1 CTAAACC
*
18914535 ATAAACC
1 CTAAACC
* *
18914542 ATAAATC
1 CTAAACC
* *
18914549 ATAATCC
1 CTAAACC
18914556 CTAAACC
1 CTAAACC
*
18914563 CATAATCC
1 C-TAAACC
* *
18914571 ATCAACC
1 CTAAACC
* **
18914578 TTAAAATA
1 CT-AAACC
* **
18914586 GTAATTC
1 CTAAACC
18914593 CTAAACC
1 CTAAACC
* *
18914600 TTAAACT
1 CTAAACC
18914607 CTAAACC
1 CTAAACC
* *
18914614 ATATACC
1 CTAAACC
*
18914621 CTTAACC
1 CTAAACC
*
18914628 ATAAACC
1 CTAAACC
18914635 CTAAAC
1 CTAAAC
18914641 TATAATGGTA
Statistics
Matches: 176, Mismatches: 52, Indels: 28
0.69 0.20 0.11
Matches are distributed among these distances:
5 2 0.01
6 8 0.05
7 134 0.76
8 30 0.17
10 2 0.01
ACGTcount: A:0.45, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
CTAAACC
Found at i:18914633 original size:72 final size:72
Alignment explanation
Indices: 18914466--18914645 Score: 206
Period size: 72 Copynumber: 2.5 Consensus size: 72
18914456 CCTAACCCCC
* * * *
18914466 AAACCTTAAACCCTAACCCTTAAA-CCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTT
1 AAACCATAAACCATAATCCATAAACCCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTT
18914530 AAACCAT
66 AAACCAT
* * * * *
18914537 AAACCATAAATCATAATCCCTAAACCCATAATCCATCAACCTTAAAATAGTAATTCCTAAACCTT
1 AAACCATAAACCATAATCCATAAACCCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTT
18914602 AAACTC-T
66 AAAC-CAT
* * *
18914609 AAACCATATACCCTTAA-CCATAAACCC-TAAACTATAA
1 AAACCATA-AACCATAATCCATAAACCCATAAACCATAA
18914646 TGGTAATTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
71 26 0.29
72 59 0.65
73 6 0.07
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (72 bp):
AAACCATAAACCATAATCCATAAACCCATAAACCATAAACCTTAAAATAGTAACTCCTAAACCTT
AAACCAT
Found at i:18914645 original size:14 final size:14
Alignment explanation
Indices: 18914441--18914645 Score: 108
Period size: 14 Copynumber: 14.4 Consensus size: 14
18914431 AATTAAAAAA
18914441 CATAAACCCTAAACC
1 CATAAACCCTAAA-C
* * *
18914456 CCTAACCCCCAAAC
1 CATAAACCCTAAAC
* *
18914470 CTTAAACCCTAACC
1 CATAAACCCTAAAC
* *
18914484 CTTAAACCATAAAC
1 CATAAACCCTAAAC
*
18914498 CATAAACCTTAAA-
1 CATAAACCCTAAAC
18914511 -ATAGTAACTCCTAAAC
1 CATA--AAC-CCTAAAC
* *
18914527 CTTAAACCATAAAC
1 CATAAACCCTAAAC
* * *
18914541 CATAAATCATAATC
1 CATAAACCCTAAAC
* *
18914555 CCTAAACCCATAATC
1 CATAAACCC-TAAAC
* * *
18914570 CATCAACCTTAAAA
1 CATAAACCCTAAAC
* **
18914584 TAGTAATTCCTAAAC
1 CA-TAAACCCTAAAC
* *
18914599 CTTAAACTCTAAAC
1 CATAAACCCTAAAC
* *
18914613 CATATACCCTTAAC
1 CATAAACCCTAAAC
18914627 CATAAACCCTAAAC
1 CATAAACCCTAAAC
*
18914641 TATAA
1 CATAA
18914646 TGGTAATTAA
Statistics
Matches: 140, Mismatches: 43, Indels: 15
0.71 0.22 0.08
Matches are distributed among these distances:
12 3 0.02
14 99 0.71
15 36 0.26
17 2 0.01
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (14 bp):
CATAAACCCTAAAC
Found at i:18915325 original size:40 final size:40
Alignment explanation
Indices: 18915229--18915325 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
18915219 AATTGTTGAC
** * * *
18915229 CTATAGCGGCGTTTTCCAAGAAGCACCGCTAATGGTCTAT
1 CTATAGCGGCGTTTTTTAAAAAGCACCGCTAATGCTCGAT
* * ** *
18915269 CTATAGTGGCGATTTTTAAAAAGTGCTGCTAATGCTCGAT
1 CTATAGCGGCGTTTTTTAAAAAGCACCGCTAATGCTCGAT
18915309 CTATAGCGGCGTTTTTT
1 CTATAGCGGCGTTTTTT
18915326 GTCCGCCGCT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.34
Consensus pattern (40 bp):
CTATAGCGGCGTTTTTTAAAAAGCACCGCTAATGCTCGAT
Found at i:18915710 original size:20 final size:20
Alignment explanation
Indices: 18915685--18915727 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
18915675 TTATTTTTTT
*
18915685 ATTTTATGAGAGTTTAATTG
1 ATTTTACGAGAGTTTAATTG
*
18915705 ATTTTACGAGGGTTTAATTG
1 ATTTTACGAGAGTTTAATTG
18915725 ATT
1 ATT
18915728 ATTTAAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.21, T:0.49
Consensus pattern (20 bp):
ATTTTACGAGAGTTTAATTG
Found at i:18916294 original size:11 final size:11
Alignment explanation
Indices: 18916278--18916311 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
18916268 TCGCCCATAT
18916278 TATTATTTTTA
1 TATTATTTTTA
18916289 TATTATTTTTTA
1 TATTA-TTTTTA
*
18916301 TATAATTTTTA
1 TATTATTTTTA
18916312 AAAAATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:18916300 original size:12 final size:12
Alignment explanation
Indices: 18916278--18916310 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18916268 TCGCCCATAT
18916278 TATTA-TTTTTA
1 TATTATTTTTTA
18916289 TATTATTTTTTA
1 TATTATTTTTTA
*
18916301 TATAATTTTT
1 TATTATTTTT
18916311 AAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:18917744 original size:20 final size:20
Alignment explanation
Indices: 18917719--18917757 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
18917709 TATTTTTTTC
18917719 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
18917739 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
18917758 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:18918100 original size:50 final size:50
Alignment explanation
Indices: 18918046--18918148 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 50
18918036 ACATGAGAGT
* * * *
18918046 TCTCATATCGGTGCCCATGCCATGTCCCATACATGGTCTTACGGGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
* ** *
18918096 TCTCATCTCGGTACCAACGCCATGTCTTAGACATGGTCTTACGTGGGACC
1 TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
18918146 TCT
1 TCT
18918149 TATAACCTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.18, C:0.31, G:0.22, T:0.28
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCCATGTCCCAGACATGGTCTTACGGGGGACC
Found at i:18919479 original size:32 final size:32
Alignment explanation
Indices: 18919439--18919502 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
18919429 TGTGAAATGG
*
18919439 TAGCAAAATAGTGAA-AAAAAACAACAAGAAAA
1 TAGCAAAATAAT-AATAAAAAACAACAAGAAAA
* *
18919471 TAGCAAAATAATAATAATAAACAACAATAAAA
1 TAGCAAAATAATAATAAAAAACAACAAGAAAA
18919503 CAGTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.69, C:0.09, G:0.08, T:0.14
Consensus pattern (32 bp):
TAGCAAAATAATAATAAAAAACAACAAGAAAA
Found at i:18919848 original size:62 final size:63
Alignment explanation
Indices: 18919775--18919900 Score: 168
Period size: 62 Copynumber: 2.0 Consensus size: 63
18919765 GTTTGAATAA
** ** *
18919775 TTTTAATAAAATT-TATATATTATTC-TAAAATCTTTATAACATTTAAAACTTTTCTATACTTTT
1 TTTTAATAAAATTCTATAT-TT-TTCTTAAAAAATTTATAACATTTAAAAAATTTCTATAATTTT
18919838 TTTTAA-AAAATTCTATATTTTTCTTAAAAAATTTATAACATTTAAAAAATTTCTATAATTTT
1 TTTTAATAAAATTCTATATTTTTCTTAAAAAATTTATAACATTTAAAAAATTTCTATAATTTT
18919900 T
1 T
18919901 AATAATTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
61 3 0.05
62 42 0.75
63 11 0.20
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (63 bp):
TTTTAATAAAATTCTATATTTTTCTTAAAAAATTTATAACATTTAAAAAATTTCTATAATTTT
Found at i:18919854 original size:22 final size:21
Alignment explanation
Indices: 18919826--18919874 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
18919816 TTTAAAACTT
*
18919826 TTCTATACTTTTTTTTAAAAAA
1 TTCTATA-TTTTTCTTAAAAAA
18919848 TTCTATATTTTTCTTAAAAAA
1 TTCTATATTTTTCTTAAAAAA
18919869 TT-TATA
1 TTCTATA
18919875 ACATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 4 0.15
21 15 0.58
22 7 0.27
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (21 bp):
TTCTATATTTTTCTTAAAAAA
Found at i:18919901 original size:20 final size:19
Alignment explanation
Indices: 18919837--18919902 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
18919827 TCTATACTTT
*
18919837 TTTTTAAAAAATTCTATATT
1 TTTTTAAAAAATTCTATA-A
18919857 TTTCTTAAAAAATT-TATAA
1 TTT-TTAAAAAATTCTATAA
**
18919876 CATTTAAAAAATTTCTATAA
1 TTTTTAAAAAA-TTCTATAA
18919896 TTTTTAA
1 TTTTTAA
18919903 TAATTTGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 8 0.21
19 3 0.08
20 17 0.45
21 10 0.26
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTTAAAAAATTCTATAA
Found at i:18923273 original size:26 final size:26
Alignment explanation
Indices: 18923244--18923294 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
18923234 ATATTTTCAA
* * *
18923244 TTATTTCAATTTTATTTTATTTTATT
1 TTATTTCAATGTTATGTTATCTTATT
*
18923270 TTATTTTAATGTTATGTTATCTTAT
1 TTATTTCAATGTTATGTTATCTTAT
18923295 AAAAACTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.69
Consensus pattern (26 bp):
TTATTTCAATGTTATGTTATCTTATT
Found at i:18923284 original size:16 final size:15
Alignment explanation
Indices: 18923252--18923294 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
18923242 AATTATTTCA
*
18923252 ATTTTATTTTATTTT
1 ATTTTATTTTATGTT
18923267 ATTTTATTTTAATGTT
1 ATTTTATTTT-ATGTT
* *
18923283 ATGTTATCTTAT
1 ATTTTATTTTAT
18923295 AAAAACTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (15 bp):
ATTTTATTTTATGTT
Found at i:18923284 original size:21 final size:20
Alignment explanation
Indices: 18923252--18923294 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
18923242 AATTATTTCA
* * *
18923252 ATTTTATTTTATTTTATTTT
1 ATTTTATGTTATGTTATCTT
18923272 ATTTTAATGTTATGTTATCTT
1 ATTTT-ATGTTATGTTATCTT
18923293 AT
1 AT
18923295 AAAAACTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (20 bp):
ATTTTATGTTATGTTATCTT
Found at i:18923289 original size:5 final size:5
Alignment explanation
Indices: 18923252--18923277 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18923242 AATTATTTCA
18923252 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
18923278 ATGTTATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:18929255 original size:19 final size:19
Alignment explanation
Indices: 18929228--18929275 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
18929218 GCACTTATGA
* *
18929228 GCCAAGATGTACTTCGTGT
1 GCCAGGATGTACTTCATGT
18929247 GCCAGGATGTACTTCATGT
1 GCCAGGATGTACTTCATGT
*
18929266 GCCAGTATGT
1 GCCAGGATGT
18929276 GCTTTGTGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (19 bp):
GCCAGGATGTACTTCATGT
Found at i:18932599 original size:13 final size:13
Alignment explanation
Indices: 18932583--18932607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18932573 AAAATGCATA
18932583 AGTAAATACAACG
1 AGTAAATACAACG
18932596 AGTAAATACAAC
1 AGTAAATACAAC
18932608 TACAATGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (13 bp):
AGTAAATACAACG
Found at i:18940197 original size:6 final size:6
Alignment explanation
Indices: 18940195--18940227 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
18940185 TAAATATTTA
18940195 TATATT TATATT TATATT TATATT TATATT TAT
1 TATATT TATATT TATATT TATATT TATATT TAT
18940228 TTCAATGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:18944316 original size:66 final size:66
Alignment explanation
Indices: 18944209--18944346 Score: 181
Period size: 66 Copynumber: 2.1 Consensus size: 66
18944199 TCATATTTTG
* * *
18944209 AAGTTGTAGTTGGAGTTCGTCATATTTTCTTGTTGCATCTACTTCCGTC-ACTGCTGCCTCAACT
1 AAGTTGTAGCTGGAGTTCATCATATTTTCTTGTAGCATCTACTTCCGTCGA-TGCTGCCTCAACT
18944273 TT
65 TT
* ** *
18944275 AAGTTGTAGCTGGAGTTCATCATATTTTCTT-TGAGCCTCTACTTCTTTCGATGCTGCCTCCACT
1 AAGTTGTAGCTGGAGTTCATCATATTTTCTTGT-AGCATCTACTTCCGTCGATGCTGCCTCAACT
18944339 TT
65 TT
18944341 AAGTTG
1 AAGTTG
18944347 AGCAATTTGC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
65 1 0.02
66 61 0.97
67 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.42
Consensus pattern (66 bp):
AAGTTGTAGCTGGAGTTCATCATATTTTCTTGTAGCATCTACTTCCGTCGATGCTGCCTCAACTT
T
Found at i:18945402 original size:45 final size:45
Alignment explanation
Indices: 18945338--18945427 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
18945328 GAAAGTAAAT
* *
18945338 ATAAATTAAACTTAAACCAAAGTATTGTAAATTACATTCACGTTA
1 ATAAATGAAACTTAAACCAAAGTATTATAAATTACATTCACGTTA
18945383 ATAAATGAAACTTAAACCAAAGTATTATAAATTACATTCACGTTA
1 ATAAATGAAACTTAAACCAAAGTATTATAAATTACATTCACGTTA
18945428 TTACCTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.32
Consensus pattern (45 bp):
ATAAATGAAACTTAAACCAAAGTATTATAAATTACATTCACGTTA
Found at i:18950531 original size:5 final size:5
Alignment explanation
Indices: 18950507--18950549 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
18950497 ATAAACTATT
*
18950507 ATTTA ATTATA TAATTA ATTTA ATTTA ATTTA ATTTA ATTTA A
1 ATTTA ATT-TA -ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA A
18950550 AAATAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 28 0.82
6 4 0.12
7 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATTTA
Found at i:18959006 original size:11 final size:11
Alignment explanation
Indices: 18958986--18959018 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18958976 GTTAAATTCG
18958986 TAATTGGTTGT
1 TAATTGGTTGT
*
18958997 TAATTTGTTGT
1 TAATTGGTTGT
18959008 TAATTGGTTGT
1 TAATTGGTTGT
18959019 GGTAATACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (11 bp):
TAATTGGTTGT
Found at i:18960497 original size:37 final size:38
Alignment explanation
Indices: 18960423--18960518 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 38
18960413 ACCCCTTCGA
* *
18960423 CCACCCTACACACCACAATTGGGCTATGGTAGGCCCAT
1 CCACCCTACACACCACAATAGGGCTATGGTAGACCCAT
*
18960461 CCACTCTACACACCACAA-AGGGCTATGGTAGACCCAT
1 CCACCCTACACACCACAATAGGGCTATGGTAGACCCAT
*
18960498 CCACCCTACACACCACGATAG
1 CCACCCTACACACCACAATAG
18960519 TGGATCTAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
37 33 0.63
38 19 0.37
ACGTcount: A:0.30, C:0.39, G:0.16, T:0.16
Consensus pattern (38 bp):
CCACCCTACACACCACAATAGGGCTATGGTAGACCCAT
Found at i:18963409 original size:19 final size:18
Alignment explanation
Indices: 18963385--18963427 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
18963375 TATATGTTGA
18963385 ATAAAATGAACAAAAATAG
1 ATAAAATG-ACAAAAATAG
* *
18963404 ATAAAAATGATAAAATTAG
1 AT-AAAATGACAAAAATAG
18963423 ATAAA
1 ATAAA
18963428 TAGATTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 3 0.14
19 12 0.57
20 6 0.29
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.21
Consensus pattern (18 bp):
ATAAAATGACAAAAATAG
Found at i:18965492 original size:3 final size:3
Alignment explanation
Indices: 18965479--18965519 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
18965469 TTTAATTATG
**
18965479 TTA TATA TTA TTA TTA TTA TTA TTA TTA CCA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18965520 ATACACAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:18970529 original size:6 final size:6
Alignment explanation
Indices: 18970515--18970551 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
18970505 GTTTGAGTCC
18970515 AAAAA- AAAAAG AAAAAAG AAAAAG -AAAAG AAAAAG AA
1 AAAAAG AAAAAG -AAAAAG AAAAAG AAAAAG AAAAAG AA
18970552 GTGATGTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 10 0.34
6 13 0.45
7 6 0.21
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:18971976 original size:50 final size:50
Alignment explanation
Indices: 18971846--18972096 Score: 229
Period size: 50 Copynumber: 5.0 Consensus size: 50
18971836 ACCATAGATT
*
18971846 TTACTTCCTTAGCAGTGCAGT-AGAACAGATTGAAGCTACGACGGCGGATC
1 TTACTTCCTTAGCAGTGCAGTGA-AACAGATTGAAGCTACAACGGCGGATC
*** * * * * * * *
18971896 TGGTTTCCCT-GATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
1 TTACTTCCTTAG-CAGTGCAGTGAAACAGATTGAAGCTACAACGGCGGATC
* *
18971946 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACAGCGGCGGATC
1 TTACTTCCTTAGCAGTGCAGTGAAACAGATTGAAGCTACAACGGCGGATC
*** * * * * * * *
18971996 TGGTTTCCCT-GATATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
1 TTACTTCCTTAG-CAGTGCAGTGAAACAGATTGAAGCTACAACGGCGGATC
* *
18972046 TTACTTCCTTAGCAGTACAGTGAAACAGATTGAAGCTACGACGGCGGATC
1 TTACTTCCTTAGCAGTGCAGTGAAACAGATTGAAGCTACAACGGCGGATC
18972096 T
1 T
18972097 GGTTTCCCCG
Statistics
Matches: 150, Mismatches: 46, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
49 2 0.01
50 145 0.97
51 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (50 bp):
TTACTTCCTTAGCAGTGCAGTGAAACAGATTGAAGCTACAACGGCGGATC
Found at i:18972019 original size:100 final size:100
Alignment explanation
Indices: 18971846--18972104 Score: 475
Period size: 100 Copynumber: 2.6 Consensus size: 100
18971836 ACCATAGATT
*
18971846 TTACTTCCTTAGCAGTGCAGTAGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
18971911 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
66 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
18971946 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTAC-AGCGGCGGATCTGGTTTCCCTGATA
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGA-CGGCGGATCTGGTTTCCCTGATA
18972010 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
65 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
* *
18972046 TTACTTCCTTAGCAGTACAGTGAAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
1 TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCC
18972105 CGACATTACA
Statistics
Matches: 154, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
99 1 0.01
100 152 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (100 bp):
TTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
TGCAATTAAAAAGATTGAAGCCACAACGGCGGATC
Found at i:18972115 original size:50 final size:50
Alignment explanation
Indices: 18971861--18972130 Score: 224
Period size: 50 Copynumber: 5.4 Consensus size: 50
18971851 TCCTTAGCAG
* *
18971861 TGCAGT-AGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
1 TGCAGTGA-AACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGACAT
* * * * *** * *
18971911 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAG
1 TGCAGTGAAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGA-CAT
* * *
18971961 TGCAGTGGAACAGATTGAAGCTACAGCGGCGGATCTGGTTTCCCTGATAT
1 TGCAGTGAAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGACAT
* * * * *** * *
18972011 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAG
1 TGCAGTGAAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGA-CAT
* * *
18972061 TACAGTGAAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACAT
1 TGCAGTGAAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGACAT
* *
18972111 TACAGTTG-AACAAATTGAAG
1 TGCAG-TGAAACAGATTGAAG
18972131 ATTTCAGATC
Statistics
Matches: 167, Mismatches: 47, Indels: 12
0.74 0.21 0.05
Matches are distributed among these distances:
49 8 0.05
50 149 0.89
51 10 0.06
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
TGCAGTGAAACAGATTGAAGCTACAACGGCGGATCTGGTTTCCCTGACAT
Found at i:18972293 original size:132 final size:132
Alignment explanation
Indices: 18972124--18972571 Score: 673
Period size: 132 Copynumber: 3.4 Consensus size: 132
18972114 AGTTGAACAA
* * **
18972124 ATTGAAGATTTCAGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATTGAAGATGGCGGATTTTAC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTAC
* *
18972189 CTCCCTGAGGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAGCAGCGAAAT
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGAAAT
18972254 AG
131 AG
* * * *
18972256 ATTGAAGATTTCAAATCTTGTCTCCCTAAGCAATAGTGGAGCAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTAC
* * *
18972321 CTCCCCGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGAAAT
18972386 AG
131 AG
* *
18972388 ATTGAAGATTTCAGATCTTATCTCTCTAGGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTAC
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTAC
* * *
18972453 CTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-TCTCCTTGGGCAGCAGTGAAA
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGCGAAA
18972517 TAG
130 TAG
* * * * *
18972520 ATTGAAGATTACAGATCTTACCTCCCTAGGCAGTAATGGAGCAGATCGAAGA
1 ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGA
18972572 CCCCAGTCTT
Statistics
Matches: 287, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
131 1 0.00
132 286 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
ATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTTAC
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGAAAT
AG
Found at i:18972604 original size:44 final size:44
Alignment explanation
Indices: 18972556--18972695 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
18972546 TAGGCAGTAA
*
18972556 TGGAGCAGATCGAAGACCCCAGTCTTATCTCTCTGAAGTTGCAG
1 TGGAGCAGATCGAAGACCGCAGTCTTATCTCTCTGAAGTTGCAG
* ** * * * * *
18972600 TGGAGCA-AACAGAAGAAAGTAATCCTATCTCCCTAAAGTTGCAG
1 TGGAGCAGATC-GAAGACCGCAGTCTTATCTCTCTGAAGTTGCAG
* * * * *
18972644 TGGAGCGGAT-TAAAACCGCAGGTCTCATCTCTCTGAAGTTGTAG
1 TGGAGCAGATCGAAGACCGCA-GTCTTATCTCTCTGAAGTTGCAG
*
18972688 TAGAGCAG
1 TGGAGCAG
18972696 GTTGCGTCAA
Statistics
Matches: 69, Mismatches: 24, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
43 7 0.10
44 61 0.88
45 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
TGGAGCAGATCGAAGACCGCAGTCTTATCTCTCTGAAGTTGCAG
Found at i:18974147 original size:3 final size:3
Alignment explanation
Indices: 18974134--18974177 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
18974124 TTTAATTATG
**
18974134 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA CCA TTA TTA TTA T
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
18974178 ATACACAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:18980698 original size:22 final size:22
Alignment explanation
Indices: 18980658--18980724 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
18980648 CGGAACAAAT
*
18980658 ACAGAGAGCACAAATGTGCTGA
1 ACAGAGAGCACAAACGTGCTGA
** *
18980680 ACAGAGAGCACTGACGTGCTAAA
1 ACAGAGAGCACAAACGTGCT-GA
*
18980703 TATCAGAGAGCACCAACGTGCT
1 -A-CAGAGAGCACAAACGTGCT
18980725 AATAATCAGA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 17 0.47
23 1 0.03
24 1 0.03
25 17 0.47
ACGTcount: A:0.37, C:0.22, G:0.25, T:0.15
Consensus pattern (22 bp):
ACAGAGAGCACAAACGTGCTGA
Found at i:18980712 original size:25 final size:25
Alignment explanation
Indices: 18980681--18980788 Score: 155
Period size: 25 Copynumber: 4.3 Consensus size: 25
18980671 ATGTGCTGAA
**
18980681 CAGAGAGCACTGACGTGCTAA-ATAT
1 CAGAGAGCACCAACGTGCTAATA-AT
18980706 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
*
18980731 CAGAGAGCATCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
* *
18980756 TAGAGAGCACCAACGTACTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
18980781 CAGAGAGC
1 CAGAGAGC
18980789 GCGCTAAAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 74 0.99
26 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (25 bp):
CAGAGAGCACCAACGTGCTAATAAT
Found at i:18981116 original size:11 final size:11
Alignment explanation
Indices: 18981089--18981122 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
18981079 GGTTCCATAA
18981089 TATTTTA-TTT
1 TATTTTATTTT
*
18981099 TACTTTATTTT
1 TATTTTATTTT
18981110 TATTTTATTTT
1 TATTTTATTTT
18981121 TA
1 TA
18981123 AATAAATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:18981838 original size:11 final size:11
Alignment explanation
Indices: 18981822--18981847 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
18981812 TCTTTCTTTC
18981822 TTTCTCCCCTG
1 TTTCTCCCCTG
18981833 TTTCTCCCCTG
1 TTTCTCCCCTG
18981844 TTTC
1 TTTC
18981848 GTTTCAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:18981917 original size:5 final size:5
Alignment explanation
Indices: 18981907--18981941 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
18981897 TATATATATA
*
18981907 ATAAT ATAAT ATAAT ATTAT AATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAA
18981942 CAACTCACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:18981927 original size:21 final size:22
Alignment explanation
Indices: 18981898--18981941 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
18981888 CTTTTGCTTT
18981898 ATATATATAATAATATAATATA
1 ATATATATAATAATATAATATA
18981920 ATAT-TATAATAATATAATATA
1 ATATATATAATAATATAATATA
18981941 A
1 A
18981942 CAACTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATATATAATAATATAATATA
Found at i:18982770 original size:64 final size:64
Alignment explanation
Indices: 18982696--18982906 Score: 182
Period size: 64 Copynumber: 3.3 Consensus size: 64
18982686 GCTATTCAGA
*
18982696 GTTGCGATCTTAAATCAACTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
1 GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
* * * * * * * **
18982760 GTTGCGATCTTAAATCAGCGAAC-CTTAATAATATGAATT-GTGATCTTAAATC-AGCT-AGTTG
1 GTTGCGATCTTAAATCAGCTAACTC-AAATAAAAT-TATTCATGATCTGAAATCGA-ATGAACT-
*
18982821 TCGG
62 T-AG
* * * *
18982825 AGTTGTGATCTTAAATTAGCTAACTCAAATAAAATTGTTCATGAACTGAAA-CTGAATGAACTTA
1 -GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATC-GAATGAACTTA
18982889 G
64 G
18982890 GTTGCGAT-TTAAATCAG
1 GTTGCGATCTTAAATCAG
18982907 TGAACCTTAA
Statistics
Matches: 109, Mismatches: 27, Indels: 23
0.69 0.17 0.14
Matches are distributed among these distances:
63 12 0.11
64 48 0.44
65 8 0.07
66 37 0.34
67 4 0.04
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (64 bp):
GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
Found at i:18982882 original size:130 final size:130
Alignment explanation
Indices: 18982584--18982997 Score: 548
Period size: 130 Copynumber: 3.2 Consensus size: 130
18982574 GTGAAAAAAT
* * * * * *
18982584 TAACTCCAATAAAATTGTTAATGATTTTAAATCGAATGAA-TGTAAGTTGCTATCTTAAATCAGT
1 TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACT-TAGGTTGCGATCTTAAATCAGT
* * * * * * * *
18982648 GAACCTTAACAATATCAGCTGCGATATTAAATGAGCGAGCTAT-TCAGAGTTGCGATCTTAAATC
65 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAG-T-TGTCGGAGTTGCGATCTTAAATT
*
18982712 AAC
128 AGC
* *
18982715 TAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCAGCG
1 TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCAGTG
* * * *
18982780 AACCTTAATAATATGAATTGTGATCTTAAATCAGCTAGTTGTCGGAGTTGTGATCTTAAATTAGC
66 AACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTCGGAGTTGCGATCTTAAATTAGC
*
18982845 TAACTCAAATAAAATTGTTCATGAACTGAAA-CTGAATGAACTTAGGTTGCGAT-TTAAATCAGT
1 TAACTCAAATAAAATTGTTCATGATCTGAAATC-GAATGAACTTAGGTTGCGATCTTAAATCAGT
18982908 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATTA
65 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTG-TCGGAGTTGCGATCTTAAATTA
18982973 GC
129 GC
*
18982975 AAACTCAAATAAAATTGTTCATG
1 TAACTCAAATAAAATTGTTCATG
18982998 TTAAATAAAG
Statistics
Matches: 251, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
129 50 0.20
130 115 0.46
131 85 0.34
132 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (130 bp):
TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCAGTG
AACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTCGGAGTTGCGATCTTAAATTAGC
Found at i:18986241 original size:24 final size:24
Alignment explanation
Indices: 18986214--18986262 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
18986204 CAGAAACAGG
* *
18986214 TTCAGTTACAGATGCAAATACAAA
1 TTCAATTACAGATACAAATACAAA
*
18986238 TTCAATTACAGATACAAATGCAAA
1 TTCAATTACAGATACAAATACAAA
18986262 T
1 T
18986263 GCAAACACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (24 bp):
TTCAATTACAGATACAAATACAAA
Found at i:18987550 original size:40 final size:41
Alignment explanation
Indices: 18987506--18987582 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
18987496 GGAACACTTG
*
18987506 TGACAAAAATTGAAA-AAAAAAACCAAGCAAACAAAAGTTT
1 TGACAAAAATTGAAAGAAAAAAAACAAGCAAACAAAAGTTT
*
18987546 TGACAAAAATTGAAAGAAAAAAAACAAGCAAAGAAAA
1 TGACAAAAATTGAAAGAAAAAAAACAAGCAAACAAAA
18987583 CTTACAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 15 0.44
41 19 0.56
ACGTcount: A:0.66, C:0.10, G:0.12, T:0.12
Consensus pattern (41 bp):
TGACAAAAATTGAAAGAAAAAAAACAAGCAAACAAAAGTTT
Found at i:18993352 original size:24 final size:24
Alignment explanation
Indices: 18993325--18993374 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
18993315 CACATGATTC
* * *
18993325 AATTTAATTTATAGTGTAAATAAA
1 AATTCAATTAATAGTATAAATAAA
18993349 AATTCAATTAATAGTATAAATAAA
1 AATTCAATTAATAGTATAAATAAA
18993373 AA
1 AA
18993375 AATAATTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
AATTCAATTAATAGTATAAATAAA
Found at i:18993381 original size:24 final size:23
Alignment explanation
Indices: 18993329--18993381 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
18993319 TGATTCAATT
* * *
18993329 TAATTTATAGTGTAAATAAAAAT
1 TAATTAATAGTATAAATAAAAAA
18993352 TCAATTAATAGTATAAATAAAAAAA
1 T-AATTAATAGTATAAAT-AAAAAA
18993377 TAATT
1 TAATT
18993382 TGATACATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 18 0.72
25 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.36
Consensus pattern (23 bp):
TAATTAATAGTATAAATAAAAAA
Found at i:18993695 original size:159 final size:161
Alignment explanation
Indices: 18993412--18993727 Score: 521
Period size: 159 Copynumber: 2.0 Consensus size: 161
18993402 GATTTTAAAT
*
18993412 TAAAGTTTAAATTAAAAATTAATTGAACAGATATATTTTAATTAAAAAATCAATTTAAAGATTAT
1 TAAAGTTTAAATTAAAAACTAATTGAACAGATATATTTTAATTAAAAAATCAATTTAAAGATTAT
* * * *
18993477 AAATAAAATATAATTTAATACATTTTAATTGAATAGATTAAAACTAATTACTGTATAAATTAAAG
66 AAATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAG
18993542 TATAGATAATTTCAAATAAAAAATTAAATACA
131 TATAGATAATTTCAAAT-AAAAATTAAATACA
*
18993574 TAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTT-AA-A-TAT
1 TAAAGTTTAAATTAAAAACTAATTGAACAGATATATTTTAATTAAAAAATCAATTTAAAGATTAT
*
18993636 AAATAAAAAATAATTGAATATATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAG
66 AAATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAG
* *
18993701 TATAGTTAATTTCAAGTAAAAATTAAA
131 TATAGATAATTTCAAATAAAAATTAAA
18993728 AATTAAATAC
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
158 10 0.07
159 78 0.54
160 1 0.01
161 2 0.01
162 54 0.37
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (161 bp):
TAAAGTTTAAATTAAAAACTAATTGAACAGATATATTTTAATTAAAAAATCAATTTAAAGATTAT
AAATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAG
TATAGATAATTTCAAATAAAAATTAAATACA
Found at i:18993761 original size:19 final size:19
Alignment explanation
Indices: 18993739--18993779 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18993729 ATTAAATACA
* *
18993739 TAAAGTTTAACTTAATAAT
1 TAAAGTTTAAATTAAAAAT
*
18993758 TAAATTTTAAATTAAAAAT
1 TAAAGTTTAAATTAAAAAT
18993777 TAA
1 TAA
18993780 TTGAATAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAAGTTTAAATTAAAAAT
Found at i:18993783 original size:184 final size:187
Alignment explanation
Indices: 18993566--18993947 Score: 605
Period size: 189 Copynumber: 2.1 Consensus size: 187
18993556 AATAAAAAAT
18993566 TAAATACA-TAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTT
1 TAAATA-ATTAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTT
* *
18993630 -AA-A-TATAAAT-AAAA-AATAATTGAATATATTTTAATTGAATAGATTAAAACCAATTAATGT
65 AAAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATAT
*
18993690 ATAAATTAAAGTATAGTTAATTTCAAGTAAAAATTAAAAATTAAATACATAAAGTTTAAC
130 ATAAATTAAAGTATAGTTAATTTCAAGTAAAAAATAAAAATTAAATAC--AAAGTTTAAC
* * *
18993750 TTAATAATTAAATTTTAAATTAAAAATTAATTGAATAGATATATTTTAATTAAAAAATCAATTTA
1 TAAATAATTAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTTA
* **
18993815 AAGATTATAAATAAAAATAATAATTTAATATATTTCAATTGAATAGATTAAAATGAATTAATATA
66 AAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATATA
*
18993880 TAAATTAAAGTATAGTTAATTTCAAGTAAAAAATAAAAATTAAATACAAATTTTAAC
131 TAAATTAAAGTATAGTTAATTTCAAGTAAAAAATAAAAATTAAATACAAAGTTTAAC
18993937 TAAATAATTAA
1 TAAATAATTAA
18993948 TTGAAATAAA
Statistics
Matches: 181, Mismatches: 11, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
183 1 0.01
184 59 0.33
185 2 0.01
186 1 0.01
187 26 0.14
188 4 0.02
189 88 0.49
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (187 bp):
TAAATAATTAAAGTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTTA
AAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATATA
TAAATTAAAGTATAGTTAATTTCAAGTAAAAAATAAAAATTAAATACAAAGTTTAAC
Found at i:18996918 original size:90 final size:88
Alignment explanation
Indices: 18996808--18997085 Score: 272
Period size: 90 Copynumber: 3.1 Consensus size: 88
18996798 AGAAAATACA
*
18996808 AACATTCTACAAAACTAATATACGAAAATATATAATTCGACCAACAAATAATACCGACTAAATTT
1 AACATTTTACAAAACTAATATACGAAAATATA-AATTCGACCAACAAATAATA-CGACTAAATTT
*
18996873 TATTTATAGATACAAAACTCATATG
64 TATTTATAGATACAAAACTAATATG
* * ** *
18996898 AACATTTTAGAAAATTAATATACGAAAATATAATATTCGATCGGA-AAATAATACAAGCTAAAAT
1 AACATTTTACAAAACTAATATACGAAAATATAA-ATTCGA-CCAACAAATAATACGA-CT-AAAT
* * * * **
18996962 ATT-TTTACAGATCCAAAAATAATACA
62 TTTATTTATAGATACAAAACTAATATG
* * * * *
18996988 AACATTTTACAGAACTGATATACGAAAATATAAAAATCGACCAACAAATAATATGGACTAAAATT
1 AACATTTTACAAAACTAATATACGAAAATAT-AAATTCGACCAACAAATAATA-CGACTAAATTT
* * *
18997053 GATTTATGGACACAAAACTAATATG
64 TATTTATAGATACAAAACTAATATG
*
18997078 AATATTTT
1 AACATTTT
18997086 GAATAATAGT
Statistics
Matches: 147, Mismatches: 33, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
89 9 0.06
90 127 0.86
91 11 0.07
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (88 bp):
AACATTTTACAAAACTAATATACGAAAATATAAATTCGACCAACAAATAATACGACTAAATTTTA
TTTATAGATACAAAACTAATATG
Found at i:19008380 original size:26 final size:25
Alignment explanation
Indices: 19008351--19008400 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
19008341 CTAATTTTAT
19008351 TAAAAATTATTTAT-ATTATAAAATAA
1 TAAAAATTATTT-TGA-TATAAAATAA
*
19008377 TAAATATTATTTTGATATAAAATA
1 TAAAAATTATTTTGATATAAAATA
19008401 TTAAGGTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAAAAATTATTTTGATATAAAATAA
Found at i:19012724 original size:15 final size:13
Alignment explanation
Indices: 19012699--19012739 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
19012689 TCTTTAAATC
19012699 ATTTTTTATATAA
1 ATTTTTTATATAA
19012712 ATTTATGTTATAT-A
1 ATTT-T-TTATATAA
19012726 ATTTTTTATATAA
1 ATTTTTTATATAA
19012739 A
1 A
19012740 CTTTGGTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.24
13 7 0.28
14 6 0.24
15 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTTTTTATATAA
Found at i:19014757 original size:19 final size:19
Alignment explanation
Indices: 19014716--19014768 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
19014706 AAAATTATCA
*
19014716 TTTAACTTTTTTTTTAATT
1 TTTAACTTTTTTTATAATT
19014735 TTTAACTTTTTTTAT-ATT
1 TTTAACTTTTTTTATAATT
*
19014753 CTTTAAATATTTTTTA
1 -TTTAACT-TTTTTTA
19014769 AAAAAACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 3 0.10
19 20 0.67
20 7 0.23
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTAACTTTTTTTATAATT
Found at i:19014778 original size:22 final size:21
Alignment explanation
Indices: 19014753--19014794 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19014743 TTTTTATATT
19014753 CTTTAAATATTTTTTAAAAAAA
1 CTTTAAA-ATTTTTTAAAAAAA
* *
19014775 CTTTATAATTTTTTCAAAAA
1 CTTTAAAATTTTTTAAAAAA
19014795 TATAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (21 bp):
CTTTAAAATTTTTTAAAAAAA
Found at i:19014827 original size:9 final size:9
Alignment explanation
Indices: 19014815--19014861 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
19014805 GGAATTTTTA
19014815 TAAATATTT
1 TAAATATTT
19014824 T-AA-ATTT
1 TAAATATTT
19014831 TAAATATTT
1 TAAATATTT
19014840 TAAAT-TTT
1 TAAATATTT
*
19014848 TAAAAATTGT
1 TAAATATT-T
19014858 TAAA
1 TAAA
19014862 AAACTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
7 5 0.15
8 11 0.33
9 12 0.36
10 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
TAAATATTT
Found at i:19014836 original size:16 final size:17
Alignment explanation
Indices: 19014810--19014861 Score: 70
Period size: 16 Copynumber: 3.0 Consensus size: 17
19014800 TTTTTGGAAT
19014810 TTTTATAAATATTTTAAA
1 TTTT-TAAATATTTTAAA
19014828 -TTTTAAATATTTTAAA
1 TTTTTAAATATTTTAAA
*
19014844 TTTTTAAAAATTGTTAAA
1 TTTTTAAATATT-TTAAA
19014862 AAACTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 13 0.42
17 13 0.42
18 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTTTAAATATTTTAAA
Found at i:19020313 original size:29 final size:29
Alignment explanation
Indices: 19020281--19020385 Score: 74
Period size: 28 Copynumber: 3.6 Consensus size: 29
19020271 ATTTTTGACC
19020281 AAAATAATATATAATTTATTAAGAAACTA
1 AAAATAATATATAATTTATTAAGAAACTA
* * *
19020310 AAAAAAAT-TATAA-ATA-TAAGTGAAAATGA
1 AAAATAATATATAATTTATTAA--GAAACT-A
* *
19020339 TTTAAAT-ATATATAATTTATCAAGAAACTA
1 --AAAATAATATATAATTTATTAAGAAACTA
*
19020369 AAAATTATACTATAATT
1 AAAATAATA-TATAATT
19020386 ATATATGTGA
Statistics
Matches: 57, Mismatches: 9, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
26 3 0.05
27 2 0.04
28 14 0.25
29 11 0.19
30 10 0.18
31 13 0.23
32 2 0.04
33 2 0.04
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATAATATATAATTTATTAAGAAACTA
Found at i:19020977 original size:15 final size:13
Alignment explanation
Indices: 19020941--19020979 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
19020931 AATATAGTAA
*
19020941 ATTATTAAAAAAT
1 ATTATTAAAATAT
19020954 ATTATTAAAATAT
1 ATTATTAAAATAT
19020967 ATATATATAAAAT
1 AT-TAT-TAAAAT
19020980 TTAAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
14 3 0.13
15 6 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
ATTATTAAAATAT
Found at i:19020996 original size:19 final size:22
Alignment explanation
Indices: 19020958--19020998 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
19020948 AAAAATATTA
19020958 TTAAAATATATATATATAAAAT
1 TTAAAATATATATATATAAAAT
19020980 TTAAAAT-TAT-T-TATAAAAT
1 TTAAAATATATATATATAAAAT
19020999 AAAAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 3 0.16
22 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TTAAAATATATATATATAAAAT
Found at i:19030181 original size:88 final size:87
Alignment explanation
Indices: 19029982--19030224 Score: 230
Period size: 88 Copynumber: 2.8 Consensus size: 87
19029972 AACTTTAAAA
* * *
19029982 AAAAAAACAATTAA-ACCAT-TAATTTTTTTA-CTCAATTGGGTACTTGAACTTTCAAAATGCA-
1 AAAAAAACAATTAAGCCCATGT-ATTTTTTTACCTCAATTGGGTACTTAAACTTTTAAAATGCAT
* ** *
19030043 TAAAAAAACCCTCAATCTTTTTT
65 TAAAAAAACACTCAAAATTTTTC
*** *
19030066 TTTAAAACAATTAGGCCCATGTTATTTTTTTACTCTCAATTGGGTACTTAAACTTTTAAAATGCA
1 AAAAAAACAATTAAGCCCATG-TATTTTTTTAC-CTCAATTGGGTACTTAAACTTTTAAAATGCA
*
19030131 TTAAAAAATCACTCAAAATTTTTC
64 TTAAAAAAACACTCAAAATTTTTC
* * * *
19030155 AAAAAAAGTAATTAAGCTCC-TG-ATTTTTTTACACTCAATTAGGTACTTTAAC-TGTAAAATGC
1 AAAAAAA-CAATTAAGC-CCATGTATTTTTTTAC-CTCAATTGGGTACTTAAACTTTTAAAATGC
*
19030217 ATCAAAAA
63 ATTAAAAA
19030225 GACTATTTGA
Statistics
Matches: 129, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
84 10 0.08
85 4 0.03
86 9 0.07
87 17 0.13
88 56 0.43
89 22 0.17
90 9 0.07
91 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (87 bp):
AAAAAAACAATTAAGCCCATGTATTTTTTTACCTCAATTGGGTACTTAAACTTTTAAAATGCATT
AAAAAAACACTCAAAATTTTTC
Found at i:19030287 original size:20 final size:20
Alignment explanation
Indices: 19030234--19030281 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
19030224 AGACTATTTG
19030234 ACCGTTAACTTTAATAGTTA
1 ACCGTTAACTTTAATAGTTA
19030254 ACCGTTAACTTTAATAGTTA
1 ACCGTTAACTTTAATAGTTA
19030274 ACCGTTAA
1 ACCGTTAA
19030282 AGTTAACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
ACCGTTAACTTTAATAGTTA
Found at i:19030392 original size:28 final size:28
Alignment explanation
Indices: 19030358--19030435 Score: 111
Period size: 28 Copynumber: 2.8 Consensus size: 28
19030348 AAAAAAATAT
**
19030358 AATTAATAAAAGTTATAAAAATATTAAA
1 AATTAATAAAAAATATAAAAATATTAAA
*
19030386 TATTAATAAAAAATATAAAAATATTAAA
1 AATTAATAAAAAATATAAAAATATTAAA
**
19030414 AATTAGGAAAAAATATAAAAAT
1 AATTAATAAAAAATATAAAAAT
19030436 CGTAGAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (28 bp):
AATTAATAAAAAATATAAAAATATTAAA
Found at i:19030462 original size:18 final size:18
Alignment explanation
Indices: 19030402--19030503 Score: 69
Period size: 19 Copynumber: 5.3 Consensus size: 18
19030392 TAAAAAATAT
* *
19030402 AAAAATATTAAAAATTAGGA
1 AAAAATA-TAAAAA-TCGTA
19030422 AAAAATATAAAAATCGTA
1 AAAAATATAAAAATCGTA
*
19030440 GAAAAATATAAAATATTGTA
1 -AAAAATATAAAA-ATCGTA
** *
19030460 AAATTTTATAAAAATCATA
1 AAA-AATATAAAAATCGTA
* *
19030479 AAAACTTATAAAAATGCATA
1 AAAA-ATATAAAAAT-CGTA
19030499 AAAAA
1 AAAAA
19030504 CCCCTTTAAC
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
18 3 0.04
19 38 0.56
20 27 0.40
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (18 bp):
AAAAATATAAAAATCGTA
Found at i:19030492 original size:10 final size:9
Alignment explanation
Indices: 19030358--19030493 Score: 80
Period size: 10 Copynumber: 14.3 Consensus size: 9
19030348 AAAAAAATAT
19030358 AATTAATAAA
1 AATT-ATAAA
*
19030368 AGTTATAAA
1 AATTATAAA
19030377 AA-TATTAAA
1 AATTA-TAAA
*
19030386 TATTAATAAA
1 AATT-ATAAA
*
19030396 AAATATAAA
1 AATTATAAA
19030405 AA-TATTAAA
1 AATTA-TAAA
*
19030414 AATTAGGAAA
1 AATTA-TAAA
*
19030424 AAATATAAA
1 AATTATAAA
*
19030433 AATCGTAGAAA
1 AAT--TATAAA
19030444 AA-TATAAA
1 AATTATAAA
*
19030452 ATATTGTAAA
1 A-ATTATAAA
*
19030462 ATTTTATAAA
1 A-ATTATAAA
*
19030472 AATCATAAA
1 AATTATAAA
19030481 AACTTATAAA
1 AA-TTATAAA
19030491 AAT
1 AAT
19030494 GCATAAAAAA
Statistics
Matches: 98, Mismatches: 18, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
8 10 0.10
9 39 0.40
10 41 0.42
11 8 0.08
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:19031102 original size:90 final size:89
Alignment explanation
Indices: 19030962--19031171 Score: 250
Period size: 90 Copynumber: 2.4 Consensus size: 89
19030952 AATTAAATGC
* *** * *
19030962 AAAAAAAGTAGGGGCTTAATTAC-TTTTTTGAAAAAGTTTCAGGGCCTTTTTTTATGCATTTTGA
1 AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTTTAAAGTTTCAGGGCCTTTTTTGATGCATTGTGA
*
19031026 AAGTTCAAGTAC-CAATTGAGTGCAAA
66 AAGTTCAAGTACTCAAGTGAGTG---A
* * *
19031052 AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTTTAAAGTTTGAGGG-TTTTTTTGATGGATTGTGA
1 AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTTTAAAGTTTCAGGGCCTTTTTTGATGCATTGTGA
*
19031116 AAGTTGAAGTACTCAAGTGAGTGA
66 AAGTTCAAGTACTCAAGTGAGTGA
19031140 AAAAAAAG--GGGGCTTAATTGCTTATTTTTTTT
1 AAAAAAAGTAGGGGCTTAATTGCTT-TTTTTTTT
19031172 TAAAAAAAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
86 15 0.14
87 8 0.08
88 9 0.08
90 48 0.45
91 26 0.25
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.39
Consensus pattern (89 bp):
AAAAAAAGTAGGGGCTTAATTGCTTTTTTTTTTAAAGTTTCAGGGCCTTTTTTGATGCATTGTGA
AAGTTCAAGTACTCAAGTGAGTGA
Found at i:19032784 original size:42 final size:41
Alignment explanation
Indices: 19032720--19032951 Score: 234
Period size: 43 Copynumber: 5.5 Consensus size: 41
19032710 CATGGAATAA
* * ** * *
19032720 AAAGGGGTTGCTAAGTGTTGATTCCCCAAATTATTGAATCT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATGT
* *
19032761 AAAGGTGGTTGCTATGTGCTGATTTCACCC-TATCTTTGATTGT
1 AAAGG-GGTTGCTATGTGCTGA-TTC-CCCGTATCATTGAATGT
*
19032804 GAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATAT
1 -AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATGT
* * *
19032846 AAAGGTGGTTGCTAGGTGCTGATTCCACCGTATCCTTGATTGT
1 AAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGAATGT
* *
19032889 GAAAGGGGTTGCTATGTGCTGATTTCCCGTATCACTGAAT-T
1 -AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATGT
* *
19032930 TAAGGTGGTTGCTAAGTGCTGA
1 AAAGG-GGTTGCTATGTGCTGA
19032952 ATCCACCGAG
Statistics
Matches: 161, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
40 4 0.02
41 29 0.18
42 57 0.35
43 58 0.36
44 13 0.08
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.35
Consensus pattern (41 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATGT
Found at i:19032830 original size:85 final size:84
Alignment explanation
Indices: 19032720--19032958 Score: 334
Period size: 85 Copynumber: 2.8 Consensus size: 84
19032710 CATGGAATAA
* * ** * *
19032720 AAAGGGGTTGCTAAGTGTTGATTCCCCAAATTATTGAATCTAAAGGTGGTTGCTATGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGATT
* *
19032785 TCACCCTATCTTTGATTGTG
65 CCACCCTATCCTTGATTGTG
*
19032805 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAGGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGATT
*
19032870 CCACCGTATCCTTGATTGTG
65 CCACCCTATCCTTGATTGTG
* * * *
19032890 AAAGGGGTTGCTATGTGCTGATTTCCCGTATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATTAAAGGTGGTTGCTAAGTGCTGATTC
19032955 CACC
66 CACC
19032959 GAGTAACGGA
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
84 27 0.19
85 112 0.81
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (84 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAATTAAAGGTGGTTGCTAAGTGCTGATTC
CACCCTATCCTTGATTGTG
Found at i:19035962 original size:34 final size:32
Alignment explanation
Indices: 19035914--19036023 Score: 141
Period size: 34 Copynumber: 3.3 Consensus size: 32
19035904 GGGTTTTTGG
19035914 TAGGTTTAGGGTTTTTTAAAAAATTAATTAAAT
1 TAGGTTTAGGG-TTTTTAAAAAATTAATTAAAT
*
19035947 TAGGTTTTTGGG-TTTTAAATAAATTAATTAAAT
1 TAGG-TTTAGGGTTTTTAAA-AAATTAATTAAAT
*
19035980 TAAGGATTAGGGTTTTTAAGAAAATTAATTAAAT
1 T-AGGTTTAGGGTTTTTAA-AAAATTAATTAAAT
19036014 TATGGTTTAG
1 TA-GGTTTAG
19036024 TTTTTTTTTA
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
32 7 0.10
33 24 0.36
34 35 0.52
35 1 0.01
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (32 bp):
TAGGTTTAGGGTTTTTAAAAAATTAATTAAAT
Found at i:19036291 original size:125 final size:124
Alignment explanation
Indices: 19036094--19036364 Score: 352
Period size: 125 Copynumber: 2.2 Consensus size: 124
19036084 AACTTTTGTT
**
19036094 TTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGACAGTTCTGAAAAGATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACAGTTCTGAAAAGATAATGTAAAAA
*
19036159 GCACTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCACATGGACGCTC
65 G-ACTTCAAGCAGGATACACTGTCAGCAAAATTGA-TGAAAAAAGCTCCCACATGGACGCTC
* **
19036220 TTTTTCTATAGTAGTTCCTAAAAAATAATTTTGAGAAGAC-GATTCTGAACAA-ATGGTGTCAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACAG-TTCTGAA-AAGATAATGT-AAA
* * * * *
19036283 AATG-CTTCAAGCAGGATACATTGTCAGTAAAATTGATGAAAAGAGCTCCCACGTGGACGCTG
63 AA-GACTTCAAGCAGGATACACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTC
19036345 TTTTTCTACAGTAGTTCCTA
1 TTTTTCTACAGTAGTTCCTA
19036365 TTTGGCCTTA
Statistics
Matches: 128, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
124 1 0.01
125 102 0.80
126 24 0.19
127 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACAGTTCTGAAAAGATAATGTAAAAAG
ACTTCAAGCAGGATACACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTC
Found at i:19043335 original size:3 final size:3
Alignment explanation
Indices: 19043322--19043379 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
19043312 AATGAAATTT
*
19043322 GAA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
19043369 GAA GAA AAA GA
1 GAA GAA GAA GA
19043380 GGAGGAGGAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19048356 original size:27 final size:26
Alignment explanation
Indices: 19048307--19048366 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
19048297 GCGAATATCA
**
19048307 GGAAGCTTTGAAGAGCCAATTAATTG
1 GGAAGCTTTGAAGAGCCAATTAACCG
*
19048333 GGAAGCTTATGAAAGAGCC-TTTAACCG
1 GGAAGCTT-TG-AAGAGCCAATTAACCG
19048360 GGAAGCT
1 GGAAGCT
19048367 CCGAAGAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.28
27 14 0.48
28 7 0.24
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.23
Consensus pattern (26 bp):
GGAAGCTTTGAAGAGCCAATTAACCG
Found at i:19049419 original size:21 final size:20
Alignment explanation
Indices: 19049395--19049433 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19049385 TTTTATCATC
*
19049395 TTTAATTATTTCTCTTTTCAG
1 TTTAATCATTT-TCTTTTCAG
*
19049416 TTTAGTCATTTTCTTTTC
1 TTTAATCATTTTCTTTTC
19049434 TTAAATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTAATCATTTTCTTTTCAG
Found at i:19054449 original size:19 final size:18
Alignment explanation
Indices: 19054410--19054446 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19054400 CATTTATATG
19054410 TGTTAAATTGATTTTTTT
1 TGTTAAATTGATTTTTTT
19054428 TGTTAAATTGATTTTTTT
1 TGTTAAATTGATTTTTTT
19054446 T
1 T
19054447 TGTGAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.68
Consensus pattern (18 bp):
TGTTAAATTGATTTTTTT
Found at i:19056272 original size:12 final size:12
Alignment explanation
Indices: 19056254--19056290 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
19056244 TTGGGGCATA
19056254 CGAGCTAGAGCC
1 CGAGCTAGAGCC
*
19056266 TGAGCTAGAGCC
1 CGAGCTAGAGCC
*
19056278 CGAGCTATAGCC
1 CGAGCTAGAGCC
19056290 C
1 C
19056291 AAGCGGTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.30, T:0.14
Consensus pattern (12 bp):
CGAGCTAGAGCC
Found at i:19057088 original size:48 final size:48
Alignment explanation
Indices: 19056743--19057064 Score: 493
Period size: 48 Copynumber: 6.7 Consensus size: 48
19056733 TAATTGCAAT
* * ** * *
19056743 ATTAAAACTCGGAACAAATTTTGTGGTCATAAATTAGATTA-ATTGCAAC
1 ATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTA-AATACATTACAAC
*
19056792 ATTAAAACTTGGAACAAACTTTGTAGTATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
*
19056840 ATTAAAACTTGGAACAAACTTTGTAATATAAGTTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* *
19056888 ATTAAAACTTGGAACAAACTCTATAATATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* *
19056936 ATTAAAACTTGGAACAAACTTTTTAATATAAGTTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* *
19056984 ATTAAAACTTGGAACAAACTCTATAATATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
19057032 ATTAAAACTTGGAACAAACTTTGTAATATAAAT
1 ATTAAAACTTGGAACAAACTTTGTAATATAAAT
19057065 GAGGTACATT
Statistics
Matches: 254, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
47 3 0.01
48 227 0.89
49 24 0.09
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (48 bp):
ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
Found at i:19060277 original size:31 final size:30
Alignment explanation
Indices: 19060242--19060301 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
19060232 GGAGGTGGGA
*
19060242 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
19060273 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
19060302 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:19060529 original size:9 final size:9
Alignment explanation
Indices: 19060515--19060551 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
19060505 TATAGTTTGA
19060515 TATTCGAAT
1 TATTCGAAT
19060524 TATTCGAAT
1 TATTCGAAT
*
19060533 TATTCGAGT
1 TATTCGAAT
*
19060542 TATTCAAAT
1 TATTCGAAT
19060551 T
1 T
19060552 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19060622 original size:9 final size:9
Alignment explanation
Indices: 19060605--19060635 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
19060595 TCGAGTTGAT
19060605 TCGAATAAC
1 TCGAATAAC
*
19060614 TCGATTAAC
1 TCGAATAAC
19060623 TCGAATAAC
1 TCGAATAAC
19060632 TCGA
1 TCGA
19060636 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Done.