Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 120 of 255
Found at i:38357165 original size:13 final size:14
Alignment explanation
Indices: 38357138--38357170 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
38357128 AGGCGAAATT
38357138 ATATACATGGAATA
1 ATATACATGGAATA
38357152 ATATACAT-GAATA
1 ATATACATGGAATA
*
38357165 AAATAC
1 ATATAC
38357171 TCTACAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (14 bp):
ATATACATGGAATA
Found at i:38357830 original size:33 final size:32
Alignment explanation
Indices: 38357767--38357846 Score: 97
Period size: 37 Copynumber: 2.3 Consensus size: 32
38357757 AATAGGGTCC
*
38357767 TTAAAAGAAACAAATTATATACATAAATAAAT
1 TTAAAAGAAAAAAATTATATACATAAATAAAT
*
38357799 TTAAAAGAAAAAAATATATATATATACATAAATAGAT
1 TTAAAAG--AAAAA-A-AT-TATATACATAAATAAAT
38357836 TTAAAAGAAAA
1 TTAAAAGAAAA
38357847 TATTTACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 7 0.17
34 4 0.10
35 5 0.12
36 2 0.05
37 23 0.56
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.28
Consensus pattern (32 bp):
TTAAAAGAAAAAAATTATATACATAAATAAAT
Found at i:38358858 original size:15 final size:14
Alignment explanation
Indices: 38358825--38358859 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
38358815 GCAACAAGAT
38358825 AAAAAATTAAAGGA
1 AAAAAATTAAAGGA
*
38358839 GAAAAATTAAAGGA
1 AAAAAATTAAAGGA
38358853 AAAAAAT
1 AAAAAAT
38358860 AGCCATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAAATTAAAGGA
Found at i:38359768 original size:45 final size:44
Alignment explanation
Indices: 38359719--38359811 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 44
38359709 AGATTCGCTG
* * * * *
38359719 TCTTTGATCTGC-TCCACTGCTATCTCAGGGAGATAAGATCTACAA
1 TCTTTAATCTGCTTCC-CTGCTACCACAGGAAGATAA-AACTACAA
*
38359764 TCTTTAATCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAA
1 TCTTTAATCTGCTTCCCTGCTACCACAGGAAGATAAAACTACAA
38359808 TCTT
1 TCTT
38359812 CAACCTGTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
44 11 0.27
45 27 0.66
46 3 0.07
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (44 bp):
TCTTTAATCTGCTTCCCTGCTACCACAGGAAGATAAAACTACAA
Found at i:38359831 original size:44 final size:45
Alignment explanation
Indices: 38359744--38359831 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
38359734 ACTGCTATCT
* * * * *
38359744 CAGGGAGATAAGATCTACAATCTTTAATCTGCTTCCTTGCTACCA
1 CAGGAAGATAAGAACTACAATCTTCAACCTGCTTCCTTACTACCA
38359789 CAGGAAGATAA-AACTACAATCTTCAACCTG-TTCTCTTACTACC
1 CAGGAAGATAAGAACTACAATCTTCAACCTGCTTC-CTTACTACC
38359832 TCTAAAAGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 3 0.08
44 24 0.65
45 10 0.27
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (45 bp):
CAGGAAGATAAGAACTACAATCTTCAACCTGCTTCCTTACTACCA
Found at i:38359984 original size:177 final size:177
Alignment explanation
Indices: 38359771--38360103 Score: 456
Period size: 177 Copynumber: 1.9 Consensus size: 177
38359761 CAATCTTTAA
38359771 TCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAATCTTCAACCTGTTCTCTTACTACCTCTA
1 TCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAATCTTCAACCTGTTCTCTTACTA-C-CTA
** * * * *
38359836 A-A-AGATAAGGTTGGTGGCTAAAATTTGA-TCCCCTGCTACTTCTGGAAGATAAGAGTCGCCAT
64 AGAGAGATAAGACTGGTGGCTAAAATCT-ACTCCCATGCTACCTCGGGAAGATAAGAGTCGCCAT
* *
38359898 CTTCTATCTGCTCCACTACTGCTTAGGGAAATAATAAATATGATCTTCAG
128 CTTCGATCTGCTCCACTAATGCTTAGGGAAATAATAAATATGATCTTCAG
* * * *
38359948 TCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACTTGTTCTCTTGCTACCTAAG
1 TCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAATCTTCAACCTGTTCTCTTACTACCTAAG
* * * *
38360013 AGAGATAAGACTGGTGGCTAAAATCTACTCTCATGTTACCTCGGGAAGATAAGATTTGCCATCTT
66 AGAGATAAGACTGGTGGCTAAAATCTACTCCCATGCTACCTCGGGAAGATAAGAGTCGCCATCTT
* *
38360078 CGATCTGCTCTATTAATGCTTAGGGA
131 CGATCTGCTCCACTAATGCTTAGGGA
38360104 GGCAAAATCT
Statistics
Matches: 135, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
175 4 0.03
176 3 0.02
177 128 0.95
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (177 bp):
TCTGCTTCCTTGCTACCACAGGAAGATAAAACTACAATCTTCAACCTGTTCTCTTACTACCTAAG
AGAGATAAGACTGGTGGCTAAAATCTACTCCCATGCTACCTCGGGAAGATAAGAGTCGCCATCTT
CGATCTGCTCCACTAATGCTTAGGGAAATAATAAATATGATCTTCAG
Found at i:38373636 original size:50 final size:50
Alignment explanation
Indices: 38373561--38373668 Score: 180
Period size: 50 Copynumber: 2.2 Consensus size: 50
38373551 TAAATGACCA
*
38373561 TGTATATTTGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
38373611 TGTATATTCGGCCATATAGGTATGTATATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
38373661 TGTGTATT
1 TGTATATT
38373669 TGGCTAAATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.46
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:38377084 original size:32 final size:33
Alignment explanation
Indices: 38377048--38377123 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
38377038 GATAAGGCCC
*
38377048 TTAAAAGAAACAAAT-TATATACATAAATAAAT
1 TTAAAAGAAAAAAATATATATACATAAATAAAT
*
38377080 TTAAAAGAAAAAAATATATATACATAAATAGAT
1 TTAAAAGAAAAAAATATATATACATAAATAAAT
38377113 TTAAAAGAAAA
1 TTAAAAGAAAA
38377124 TATTTACATA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 14 0.34
33 27 0.66
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.26
Consensus pattern (33 bp):
TTAAAAGAAAAAAATATATATACATAAATAAAT
Found at i:38377407 original size:23 final size:22
Alignment explanation
Indices: 38377381--38377434 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
38377371 AATTACAAAG
38377381 AAAAAAAACAT-AAGCTGAAATAA
1 AAAAAAAAC-TCAA-CTGAAATAA
*
38377404 AAAAAAAACTCAATTGAAATAA
1 AAAAAAAACTCAACTGAAATAA
*
38377426 AAATAAAAC
1 AAAAAAAAC
38377435 CAAAGAGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.70, C:0.09, G:0.06, T:0.15
Consensus pattern (22 bp):
AAAAAAAACTCAACTGAAATAA
Found at i:38379339 original size:3 final size:3
Alignment explanation
Indices: 38379331--38379362 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
38379321 GAAGTTGAAG
38379331 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38379363 TTTGATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:38382412 original size:23 final size:26
Alignment explanation
Indices: 38382382--38382446 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
38382372 AATACCCCTA
38382382 CTCATTCTC-CATT-TCAATCATC-T
1 CTCATTCTCTCATTCTCAATCATCAT
38382405 CTCATTCTTCTCATCTCTCAATCATCAT
1 CTCATTC-TCTCAT-TCTCAATCATCAT
38382433 -TCATTCTCTCATTC
1 CTCATTCTCTCATTC
38382447 CCTCTTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
23 7 0.19
24 2 0.05
25 5 0.14
26 7 0.19
27 15 0.41
28 1 0.03
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (26 bp):
CTCATTCTCTCATTCTCAATCATCAT
Found at i:38396499 original size:12 final size:12
Alignment explanation
Indices: 38396484--38396513 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
38396474 TTGAGATTCA
38396484 AGATTTACATCG
1 AGATTTACATCG
38396496 AGATTTACATCG
1 AGATTTACATCG
38396508 AGATTT
1 AGATTT
38396514 TGGAGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (12 bp):
AGATTTACATCG
Found at i:38400511 original size:32 final size:32
Alignment explanation
Indices: 38400474--38400537 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
38400464 AACCTTGGAA
*
38400474 ATCAAAATGATGGACAAGGAAATAGAGCCAAT
1 ATCAAAATGACGGACAAGGAAATAGAGCCAAT
*
38400506 ATCAAATTGACGGACAAGGAAATAGAGCCAAT
1 ATCAAAATGACGGACAAGGAAATAGAGCCAAT
38400538 CATATGCACA
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:0.48, C:0.14, G:0.22, T:0.16
Consensus pattern (32 bp):
ATCAAAATGACGGACAAGGAAATAGAGCCAAT
Found at i:38404493 original size:59 final size:58
Alignment explanation
Indices: 38404380--38404495 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 58
38404370 ATTTTTTAAT
*
38404380 AAAAATTATAAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGAAATATAG
1 AAAAAATATAAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGAAATATAG
* * *
38404438 AAAAAATAT-AAAATTTTATAA-ATTCGTAAGAAAATGATAAAATATATAAAGAAATATA
1 AAAAAATATAAAAATATTATAATAATCGTAAAAAAAT-AT-AAA-ATATAAAGAAATATA
38404496 AAATTCATAA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
56 12 0.24
57 13 0.25
58 11 0.22
59 15 0.29
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (58 bp):
AAAAAATATAAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGAAATATAG
Found at i:38404506 original size:57 final size:54
Alignment explanation
Indices: 38404377--38404516 Score: 140
Period size: 57 Copynumber: 2.5 Consensus size: 54
38404367 TTAATTTTTT
38404377 AATA-AAAATTATAAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGA
1 AATATAAAATTAT-AAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGA
* * * *
38404431 AATATAGAAAAAATATAAAATTTTATAA-ATTCGTAAGAAAATGATAAAATATATAAAGA
1 AATAT---AAAATTATAAAATATTATAATAATCGTAAAAAAAT-AT-AAA-ATATAAAGA
*
38404490 AATATAAAATTCATAAAAGAATTATAA
1 AATATAAAATT-ATAAAA-TATTATAA
38404517 AAATTATCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
54 4 0.06
56 17 0.24
57 19 0.27
58 16 0.23
59 14 0.20
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.29
Consensus pattern (54 bp):
AATATAAAATTATAAAATATTATAATAATCGTAAAAAAATATAAAATATAAAGA
Found at i:38404537 original size:17 final size:17
Alignment explanation
Indices: 38404515--38404549 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38404505 AAAGAATTAT
38404515 AAAAATTATCATACCAA
1 AAAAATTATCATACCAA
38404532 AAAAATTATCATACCAA
1 AAAAATTATCATACCAA
38404549 A
1 A
38404550 GGGAGCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (17 bp):
AAAAATTATCATACCAA
Found at i:38404729 original size:21 final size:22
Alignment explanation
Indices: 38404704--38404748 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
38404694 TTAAATGGCC
* *
38404704 TTTTTGATG-TATTT-TATAAT
1 TTTTTTATGATATTTATAAAAT
38404724 TTTTTTATGATATTTATAAAAT
1 TTTTTTATGATATTTATAAAAT
38404746 TTT
1 TTT
38404749 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 5 0.24
22 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TTTTTTATGATATTTATAAAAT
Found at i:38408833 original size:16 final size:17
Alignment explanation
Indices: 38408797--38408835 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
38408787 ATATTTTTAA
38408797 AAAATAAATAAAACTTT
1 AAAATAAATAAAACTTT
*
38408814 -AAATAAAT-AAATTTT
1 AAAATAAATAAAACTTT
38408829 AAAATAA
1 AAAATAA
38408836 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAAATAAAACTTT
Found at i:38409061 original size:27 final size:27
Alignment explanation
Indices: 38409029--38409080 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
38409019 TGTTAAATTT
*
38409029 ATTTAAGGA-ATAAAAAGTACATATTAA
1 ATTTAA-GATATAAAAAATACATATTAA
38409056 ATTTAAGATATAAAAAATACATATT
1 ATTTAAGATATAAAAAATACATATT
38409081 TAAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (27 bp):
ATTTAAGATATAAAAAATACATATTAA
Found at i:38412966 original size:42 final size:42
Alignment explanation
Indices: 38412849--38413012 Score: 202
Period size: 42 Copynumber: 3.9 Consensus size: 42
38412839 TACCATACCA
* * * * *
38412849 ATGCCATTTCCCAGATATGGTCTTACATGTAATCTCGTGTCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
38412891 ATGCCAATAGCCCAGCTATGATCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
38412934 TTGCCATATCCCAGATATGGTTTTACAAGAAATCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
38412976 ATGCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
38413013 GTAACCCTAA
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 69 0.68
43 33 0.32
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:38419587 original size:46 final size:44
Alignment explanation
Indices: 38419445--38419659 Score: 168
Period size: 46 Copynumber: 4.7 Consensus size: 44
38419435 TGTGTGAGCC
** * *
38419445 AGTGTAAGACATGTCT-GGACATGCATCGGCCATATTATGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TACGA-GACGTGCT
* * * *
38419490 ATTGTAAGACCATGTCTAGGACATAGTATCGGC-ATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGAC--GTGCT
*
38419538 AGTGTAAGACATGTCTGGGACATGCTTCTGGCT-CGAGACGTAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGACGT--GCT
* * *
38419584 AGTGTAAGACATGTCTGGGACATGCATCGGCTATGAGATGTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGCT
*
38419628 AGTGTAAGACCATGTCTAGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
38419660 TACAGATATG
Statistics
Matches: 141, Mismatches: 15, Indels: 27
0.77 0.08 0.15
Matches are distributed among these distances:
44 13 0.09
45 28 0.20
46 60 0.43
47 23 0.16
48 17 0.12
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGACGTGCT
Found at i:38424496 original size:40 final size:40
Alignment explanation
Indices: 38424451--38424595 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
38424441 CTCGCACAAG
* * * * *
38424451 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
38424491 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
38424531 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
*
38424572 GCCTTCGGGACTTAGCCCGTATAT
1 GCCTTCGGGACTTAGCCCGGATAT
38424596 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.65
41 26 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:38438062 original size:59 final size:59
Alignment explanation
Indices: 38437995--38438112 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
38437985 CGGGTAAGGG
38437995 GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
1 GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
38438054 GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
1 GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
38438113 TATCCAAGCT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (59 bp):
GGTGTTACATGTTTAGCCATGAGATGTGGCTCGCATAGGTTATGGCTTGTAAGCCTATT
Found at i:38440561 original size:15 final size:15
Alignment explanation
Indices: 38440538--38440580 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38440528 GTACGGTATC
* *
38440538 GTATATTGGGTTTCT
1 GTATCTTGGATTTCT
38440553 GTATCTTGGATTTCT
1 GTATCTTGGATTTCT
38440568 -TCATCTTGGATTT
1 GT-ATCTTGGATTT
38440581 TTCTGTCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 1 0.04
15 24 0.96
ACGTcount: A:0.14, C:0.12, G:0.21, T:0.53
Consensus pattern (15 bp):
GTATCTTGGATTTCT
Found at i:38440589 original size:15 final size:15
Alignment explanation
Indices: 38440555--38440598 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
38440545 GGGTTTCTGT
38440555 ATCTTGGATTTCTTC
1 ATCTTGGATTTCTTC
38440570 ATCTTGGATTT-TTC
1 ATCTTGGATTTCTTC
* *
38440584 TGTCTTGGGTTTCTT
1 -ATCTTGGATTTCTT
38440599 TATTTTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 3 0.12
15 20 0.80
16 2 0.08
ACGTcount: A:0.09, C:0.16, G:0.18, T:0.57
Consensus pattern (15 bp):
ATCTTGGATTTCTTC
Found at i:38441145 original size:23 final size:23
Alignment explanation
Indices: 38441118--38441164 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
38441108 AATAGTCTGA
38441118 ATGAAAAGTGTATATTTCCTAGC
1 ATGAAAAGTGTATATTTCCTAGC
38441141 ATGAAAAGTGTATATTTCCTAGC
1 ATGAAAAGTGTATATTTCCTAGC
38441164 A
1 A
38441165 GACTTTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (23 bp):
ATGAAAAGTGTATATTTCCTAGC
Found at i:38443786 original size:43 final size:43
Alignment explanation
Indices: 38443644--38443808 Score: 152
Period size: 43 Copynumber: 3.9 Consensus size: 43
38443634 TAAGAAATCT
* * * * ** * *
38443644 GAGCTCGTTGAGTGGTCCCAGTTCGTGATATACGTGAGAATCC
1 GAGCTTGTTGAGTGGTCCGAGTTCATAATGGATGTGAGCATCC
* * * * * ** *
38443687 GAACTTGCTGAGTGGTCCAAGTTCGTGATATATGT-AGCATCT
1 GAGCTTGTTGAGTGGTCCGAGTTCATAATGGATGTGAGCATCC
* *
38443729 GAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGTGAGCATCC
1 GAGCTTGTTGAGTGGTCCGAGTTCATAATGGATGTGAGCATCC
*
38443772 GAGCTTGTTTAGTGGTCCGAGTTCATAATGGATGTGA
1 GAGCTTGTTGAGTGGTCCGAGTTCATAATGGATGTGA
38443809 TACATGTAAC
Statistics
Matches: 102, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 32 0.31
43 70 0.69
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (43 bp):
GAGCTTGTTGAGTGGTCCGAGTTCATAATGGATGTGAGCATCC
Found at i:38443786 original size:85 final size:85
Alignment explanation
Indices: 38443640--38443795 Score: 213
Period size: 85 Copynumber: 1.8 Consensus size: 85
38443630 GACTTAAGAA
* *
38443640 ATCTGAGCTCGTTGAGTGGTCCCAGTTCGTGATATACGTGAGAATCCGAACTTGCTGAGTGGTCC
1 ATCTGAGCTCGTTGAGTGGTCCCAGTTCATGATAGACGTGAGAATCCGAACTTGCTGAGTGGTCC
38443705 AAGTTCGTGATATATGTAGC
66 AAGTTCGTGATATATGTAGC
* * * * * * * *
38443725 ATCTGAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGTGAGCATCCGAGCTTGTTTAGTGGTCC
1 ATCTGAGCTCGTTGAGTGGTCCCAGTTCATGATAGACGTGAGAATCCGAACTTGCTGAGTGGTCC
*
38443790 GAGTTC
66 AAGTTC
38443796 ATAATGGATG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 60 1.00
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (85 bp):
ATCTGAGCTCGTTGAGTGGTCCCAGTTCATGATAGACGTGAGAATCCGAACTTGCTGAGTGGTCC
AAGTTCGTGATATATGTAGC
Found at i:38444873 original size:27 final size:27
Alignment explanation
Indices: 38444841--38445046 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
38444831 TTAGAATACT
*
38444841 TTGGTTTACAAAATTACCAAAATACCC
1 TTGGTTTATAAAATTACCAAAATACCC
* * * *
38444868 CTGGTTTGTAAAATTACTAGAATACCC
1 TTGGTTTATAAAATTACCAAAATACCC
* *
38444895 TTGGTTTATAAAATCACTAAAATACCC
1 TTGGTTTATAAAATTACCAAAATACCC
* *
38444922 TTGATTTACAAAATTACCAAAATACCC
1 TTGGTTTATAAAATTACCAAAATACCC
* *
38444949 TTGGTTTGTAAAATTACTAAAATACCC
1 TTGGTTTATAAAATTACCAAAATACCC
*
38444976 TTTGTTTATAAAATTACCAAAATACCC
1 TTGGTTTATAAAATTACCAAAATACCC
* * *
38445003 CTGGTTTGTAAAATTACCAAAGTACCC
1 TTGGTTTATAAAATTACCAAAATACCC
* * *
38445030 TCGATTTATAGAATTAC
1 TTGGTTTATAAAATTAC
38445047 TGTTTTACCC
Statistics
Matches: 150, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TTGGTTTATAAAATTACCAAAATACCC
Found at i:38444983 original size:81 final size:81
Alignment explanation
Indices: 38444845--38445030 Score: 282
Period size: 81 Copynumber: 2.3 Consensus size: 81
38444835 AATACTTTGG
* *
38444845 TTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATC
1 TTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
* *
38444910 ACTAAAATACCCTTGA
66 ACCAAAATACCCCTGA
* *
38444926 TTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
*
38444991 ACCAAAATACCCCTGG
66 ACCAAAATACCCCTGA
** *
38445007 TTTGTAAAATTACCAAAGTACCCT
1 TTTACAAAATTACCAAAATACCCT
38445031 CGATTTATAG
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATC
ACCAAAATACCCCTGA
Found at i:38445055 original size:27 final size:27
Alignment explanation
Indices: 38445025--38445099 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
38445015 ATTACCAAAG
*
38445025 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
38445052 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
38445079 TACCTTCAATTTACAAAATTA
1 TACCCTCGATTTACAGAATTA
38445100 TTGAAATACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:38445260 original size:27 final size:27
Alignment explanation
Indices: 38445162--38445292 Score: 140
Period size: 27 Copynumber: 4.9 Consensus size: 27
38445152 TTAGTTTACC
* * *
38445162 AAATCACTAAAATACCC-CTAGTTTGTT
1 AAATTACTAAAATACCCTCGA-TTTGTA
* *
38445189 AAATGACTAAAATACCCTC-AGTTTGCA
1 AAATTACTAAAATACCCTCGA-TTTGTA
*
38445216 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
38445243 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * *
38445270 AAATTACCAAAGTACCCCCGATT
1 AAATTACTAAAATACCCTCGATT
38445293 CATAGAATTA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
27 88 0.98
28 2 0.02
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:38445362 original size:27 final size:26
Alignment explanation
Indices: 38445343--38445473 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 26
38445333 AATAGACCTA
*
38445343 TAGGGTAGAATTACCAAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCC-TG
38445370 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATA-CCCTG
*
38445397 TAGGGTAGAATTACTGAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCC-TG
* *
38445424 TAGGGTAGAAATACCGAAATACCCTTA
1 TAGGGTAGAATTACCGAAATACCC-TG
* *
38445451 TAGGGTAGAAATACCAAAATACC
1 TAGGGTAGAATTACCGAAATACC
38445474 GAAATACTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
26 3 0.03
27 90 0.94
28 3 0.03
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (26 bp):
TAGGGTAGAATTACCGAAATACCCTG
Found at i:38445401 original size:54 final size:54
Alignment explanation
Indices: 38445343--38445894 Score: 556
Period size: 54 Copynumber: 10.3 Consensus size: 54
38445333 AATAGACCTA
38445343 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
** * * *
38445397 TAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTA
1 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
* ** * *
38445451 TAGGGTAGAAATACCAAAATACCGAAATACTTTTGTAGGGTAGAATTACTAAAATATCCTTG
1 TAGGGTAGAATTACCAAAATACC------C--TTGTAGGGTAGAATTACCGAAATACCCCTG
* ** * * *
38445513 TAAGGTAGAATTA-CTGAATACCCCTGTAGTGTAGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
* * * * *
38445566 TAGGGTAGAATTACCGAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTG
1 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
* ** *
38445620 TAGGGTAGAATTATCGCAATACCGC-TGTAGGGTAGAATTACCGAAATACCCCTA
1 TAGGGTAGAATTACCAAAATACC-CTTGTAGGGTAGAATTACCGAAATACCCCTG
**
38445674 TAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATT------AT-----TG
1 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
38445717 ATAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
1 -TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
* * ** *
38445772 TAAGGTAGAATTATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
* * * * * *
38445826 TAGGGTAGAATTACTAAAATACCCCTATAGGGTGGAATTACCGAGATA-CCTTG
1 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
* *
38445879 TGGGGTAAAATTACCA
1 TAGGGTAGAATTACCA
38445895 TTTTGGCCCT
Statistics
Matches: 418, Mismatches: 57, Indels: 47
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.00
44 37 0.09
48 2 0.00
50 2 0.00
53 55 0.13
54 273 0.65
55 4 0.01
60 1 0.00
61 7 0.02
62 36 0.09
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (54 bp):
TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
Found at i:38445444 original size:81 final size:81
Alignment explanation
Indices: 38445343--38445893 Score: 579
Period size: 81 Copynumber: 6.9 Consensus size: 81
38445333 AATAGACCTA
** *
38445343 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
* *
38445408 TACTGAAATACCCTTG
66 TACCGAAATACCCCTG
* * * * ***
38445424 TAGGGTAGAAATACCGAAATACCCTTATAGGGTAGAAATACCAAAATACCGAAATACTTTTGTAG
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG-AAT-------TACCGAAATACCCCTGTAG
** * *
38445489 GGTAGAATTACTAAAATATCCTTG
58 GGTAGAATTACCGAAATACCCCTG
* * *
38445513 TAAGGTAGAATTACTG-AATACCCCTGTAGTGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
*
38445577 TACCGAAATACCCCTA
66 TACCGAAATACCCCTG
* * * *
38445593 TAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGCAATACCGCTGTAGGGTAGAAT
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
*
38445658 TACCGAAATACCCCTA
66 TACCGAAATACCCCTG
*
38445674 TAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATT------AT-----TGATAGGGTAGAA
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTG-TAGGGTAGAA
* *
38445728 TTACCAAAATACCCTTG
65 TTACCGAAATACCCCTG
* * * *
38445745 TAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTATCGCAATACCCCTGTAGGGTAGAAT
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
38445810 TACCGAAATACCCCTG
66 TACCGAAATACCCCTG
* * * * * * *
38445826 TAGGGTAGAATTACTAAAATACCCCTATAGGGTGGAATTACCGAGATA-CCTTGTGGGGTAAAAT
1 TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
38445890 TACC
66 TACC
38445894 ATTTTGGCCC
Statistics
Matches: 400, Mismatches: 49, Indels: 43
0.81 0.10 0.09
Matches are distributed among these distances:
70 2 0.00
71 60 0.15
75 2 0.00
77 2 0.00
80 67 0.17
81 193 0.48
82 5 0.01
87 3 0.01
88 15 0.04
89 51 0.13
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (81 bp):
TAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAT
TACCGAAATACCCCTG
Found at i:38445478 original size:35 final size:35
Alignment explanation
Indices: 38445432--38445506 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
38445422 TGTAGGGTAG
38445432 AAATACCGAAATACCCTTATAGGGTAGAAATACCA
1 AAATACCGAAATACCCTTATAGGGTAGAAATACCA
** * * *
38445467 AAATACCGAAATACTTTTGTAGGGTAGAATTACTA
1 AAATACCGAAATACCCTTATAGGGTAGAAATACCA
38445502 AAATA
1 AAATA
38445507 TCCTTGTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (35 bp):
AAATACCGAAATACCCTTATAGGGTAGAAATACCA
Found at i:38445513 original size:27 final size:27
Alignment explanation
Indices: 38445484--38445713 Score: 320
Period size: 27 Copynumber: 8.6 Consensus size: 27
38445474 GAAATACTTT
* * *
38445484 TGTAGGGTAGAATTACTAAAATATCCT
1 TGTAGGGTAGAATTACTGAAATACCCC
*
38445511 TGTAAGGTAGAATTACTG-AATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
*
38445537 TGTAGTGTAGAATTACTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
*
38445564 TGTAGGGTAGAATTACCGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
38445591 TATAAGGTAGAATTACTGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
38445618 TGTAGGGTAGAATTA-TCGCAATACCGC
1 TGTAGGGTAGAATTACT-GAAATACCCC
*
38445645 TGTAGGGTAGAATTACCGAAATACCCC
1 TGTAGGGTAGAATTACTGAAATACCCC
* *
38445672 TATAGGGTAGAATTACTGAAATACCCT
1 TGTAGGGTAGAATTACTGAAATACCCC
38445699 TGTAGGGTAGAATTA
1 TGTAGGGTAGAATTA
38445714 TTGATAGGGT
Statistics
Matches: 178, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
26 23 0.13
27 155 0.87
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
TGTAGGGTAGAATTACTGAAATACCCC
Found at i:38445738 original size:44 final size:44
Alignment explanation
Indices: 38445673--38445757 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
38445663 AAATACCCCT
**
38445673 ATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTATTG
1 ATAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTATTG
38445717 ATAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTA
1 ATAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTA
38445758 CCGAAATACC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (44 bp):
ATAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTATTG
Found at i:38445756 original size:27 final size:27
Alignment explanation
Indices: 38445718--38445893 Score: 228
Period size: 27 Copynumber: 6.6 Consensus size: 27
38445708 GAATTATTGA
* *
38445718 TAGGGTAGAATTACCAAAATACCCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
38445745 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
38445772 TAAGGTAGAATTATCGCAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
38445799 TAGGGTAGAATTACCGAAATACCCCTG
1 TAGGGTAGAATTACCGAAATACCCCTG
** *
38445826 TAGGGTAGAATTACTAAAATACCCCTA
1 TAGGGTAGAATTACCGAAATACCCCTG
* * *
38445853 TAGGGTGGAATTACCGAGATA-CCTTG
1 TAGGGTAGAATTACCGAAATACCCCTG
* *
38445879 TGGGGTAAAATTACC
1 TAGGGTAGAATTACC
38445894 ATTTTGGCCC
Statistics
Matches: 129, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 15 0.12
27 114 0.88
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
TAGGGTAGAATTACCGAAATACCCCTG
Found at i:38445764 original size:71 final size:71
Alignment explanation
Indices: 38445647--38445785 Score: 224
Period size: 71 Copynumber: 2.0 Consensus size: 71
38445637 AATACCGCTG
* * * *
38445647 TAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAT
1 TAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAT
38445712 TATTGA
66 TATTGA
* *
38445718 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAT
1 TAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAT
38445783 TAT
66 TAT
38445786 CGCAATACCC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (71 bp):
TAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAT
TATTGA
Found at i:38445793 original size:98 final size:98
Alignment explanation
Indices: 38445620--38445811 Score: 289
Period size: 98 Copynumber: 2.0 Consensus size: 98
38445610 AATACCCCTG
* ** *
38445620 TAGGGTAGAATTATCGCAATACCGCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAAT
1 TAGGGTAGAATTACCAAAATACCGCTGTAGGGTAGAATTACCGAAATACCCCTATAAGGTAGAAT
*
38445685 TACTGAAATACCCTTGTAGGGTAGAATTATTGA
66 TACTGAAATACCCCTGTAGGGTAGAATTATTGA
*
38445718 TAGGGTAGAATTACCAAAATACC-CTTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAA
1 TAGGGTAGAATTACCAAAATACCGC-TGTAGGGTAGAATTACCGAAATACCCCTATAAGGTAGAA
*
38445782 TTA-TCGCAATACCCCTGTAGGGTAGAATTA
65 TTACT-GAAATACCCCTGTAGGGTAGAATTA
38445812 CCGAAATACC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
97 2 0.02
98 83 0.98
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (98 bp):
TAGGGTAGAATTACCAAAATACCGCTGTAGGGTAGAATTACCGAAATACCCCTATAAGGTAGAAT
TACTGAAATACCCCTGTAGGGTAGAATTATTGA
Found at i:38445818 original size:125 final size:125
Alignment explanation
Indices: 38445596--38445838 Score: 378
Period size: 125 Copynumber: 1.9 Consensus size: 125
38445586 ACCCCTATAA
** * * * *
38445596 GGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGCAATACCGCTGTAGGGTAGAATTAC
1 GGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTAC
* *
38445661 CGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTATTGATAG
66 CGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTGATAG
* *
38445721 GGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTAT
1 GGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTAC
* *
38445786 CGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA
66 CGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTA
38445839 CTAAAATACC
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
125 106 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (125 bp):
GGTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAATTAC
CGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATTGATAG
Found at i:38445846 original size:152 final size:152
Alignment explanation
Indices: 38445566--38445865 Score: 492
Period size: 152 Copynumber: 2.0 Consensus size: 152
38445556 AATACCCCTG
* * *
38445566 TAGGGTAGAATTACCGAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTGTAGGGTAGAAT
1 TAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAT
* *
38445631 TATCGCAATACCGCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTGAAATAC
66 TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAATAC
* *
38445696 CCTTGTAGGGTAGAATTATTGA
131 CCCTATAGGGTAGAATTATTGA
* * *
38445718 TAGGGTAGAATTACCAAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAT
1 TAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAT
*
38445783 TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATAC
66 TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAATAC
*
38445848 CCCTATAGGGTGGAATTA
131 CCCTATAGGGTAGAATTA
38445866 CCGAGATACC
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
152 136 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (152 bp):
TAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAATTACCGAAATACCCCTGTAAGGTAGAAT
TATCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACTAAAATAC
CCCTATAGGGTAGAATTATTGA
Found at i:38446369 original size:22 final size:22
Alignment explanation
Indices: 38446317--38446383 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
38446307 TTAAATCCTT
* * *
38446317 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAA
*
38446339 CT-ACATATGGCTCTGTGCCAAA
1 CTGA-TTATGGCTCTGTGCCAAA
*
38446361 CTGATTATGGCTGTGTGCCAAA
1 CTGATTATGGCTCTGTGCCAAA
38446383 C
1 C
38446384 GTATTTGCCG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAA
Found at i:38446570 original size:27 final size:27
Alignment explanation
Indices: 38446540--38446641 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
38446530 ATTCTGTTAA
* *
38446540 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
38446567 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
38446594 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
38446621 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
38446642 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 7 0.11
27 51 0.78
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:38446818 original size:6 final size:6
Alignment explanation
Indices: 38446807--38446866 Score: 61
Period size: 6 Copynumber: 9.8 Consensus size: 6
38446797 TTACCTAATA
* *
38446807 CTGATT CTGATT CTGATT CTG-TCAC CTGATT CTGGTT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT
38446856 CT-AGTT CTGAT
1 CTGA-TT CTGAT
38446867 AATGTTTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
5 2 0.04
6 38 0.84
7 4 0.09
8 1 0.02
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:38446827 original size:31 final size:31
Alignment explanation
Indices: 38446778--38446857 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
38446768 TTGCATTCAC
* *
38446778 ATTCTGATTTTTGATTCTGTTACCTAATACTG
1 ATTCTGA-TTCTGATTCTGTCACCTAATACTG
* *
38446810 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
38446841 GTTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
38446858 AGTTCTGATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 36 0.84
32 7 0.16
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:38458286 original size:47 final size:47
Alignment explanation
Indices: 38458199--38458413 Score: 340
Period size: 47 Copynumber: 4.6 Consensus size: 47
38458189 CCCTTCGGGA
* * * * * *
38458199 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38458246 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38458293 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38458340 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38458387 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
38458414 ACCAACCCTT
Statistics
Matches: 155, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 155 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38458709 original size:39 final size:40
Alignment explanation
Indices: 38458619--38458778 Score: 168
Period size: 40 Copynumber: 4.0 Consensus size: 40
38458609 TGGAATTTAA
** *
38458619 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
38458659 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38458698 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38458738 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38458778 C
1 C
38458779 TAGACATTAT
Statistics
Matches: 101, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.32
40 54 0.53
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38467367 original size:37 final size:37
Alignment explanation
Indices: 38467317--38467419 Score: 197
Period size: 37 Copynumber: 2.8 Consensus size: 37
38467307 CGAATAGTCC
38467317 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
38467354 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
38467391 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
38467420 ATATATTTCC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:38467646 original size:48 final size:48
Alignment explanation
Indices: 38467592--38467993 Score: 648
Period size: 48 Copynumber: 8.4 Consensus size: 48
38467582 GCCGAATCAC
*
38467592 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
38467640 TAGCCATTCGGCTTT---ACATATACATATCTCATACATATTTCGCAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* * *
38467685 TAGCCATTCGGCTTTACCACATATACGTATCTCCTACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* ** * *
38467733 TAGCCATTCGGCTTTACCACGTATACATATAGCATACATAGTTCACAC
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
38467781 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
38467829 TAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
38467877 TAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
*
38467925 CAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
* *
38467973 TAGCCATTCAGCTTGACCACA
1 TAGCCATTCGGCTTTACCACA
38467994 CACATATATA
Statistics
Matches: 330, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
45 45 0.14
48 285 0.86
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAT
Found at i:38471588 original size:29 final size:29
Alignment explanation
Indices: 38471529--38471626 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
38471519 CAGACTGATT
* * *
38471529 TCGCACACATAGCG-CTCGATTATAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
38471557 TCGCACACATAGTGCCTCAATTAAAGAAC
1 TCGCACACATAGTGCCTCAATTAAAGAAC
* * *
38471586 TCGTACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTGCCTCAATTA-AAGAAC
38471615 TCGCACACATAG
1 TCGCACACATAG
38471627 CGCTCGTGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
28 13 0.21
29 47 0.77
30 1 0.02
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (29 bp):
TCGCACACATAGTGCCTCAATTAAAGAAC
Found at i:38473067 original size:93 final size:92
Alignment explanation
Indices: 38472954--38473123 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 92
38472944 GCCCCTAAGT
* **
38472954 GAACTCGGAGTCAACTCAACGAGCTCAGGTGC-TCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC--GAACATCGCATCCATAAGTGAACTCGGACTCAACTCA
38473018 ACGAGTTCGGATGCCTAGTTACATTTCAC
64 ACGAGTTCGGATGCCTAGTTACATTTCAC
*
38473047 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACA-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
38473112 CGAGTTCGGATG
65 CGAGTTCGGATG
38473124 GTCAACCATC
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
91 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:38473140 original size:46 final size:46
Alignment explanation
Indices: 38472949--38473126 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
38472939 AACCCGCCCC
* * *
38472949 TAAGTGAACTCGGAGTCAACTCAACGAGCTCAGG-TGCTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGGTCGCATCCA
* * * *
38472995 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-GTCGCATCCA
* * * ***
38473041 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGGTCGCATCCA
38473088 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGGTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGGTC
38473127 AACCATCCTA
Statistics
Matches: 106, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 4 0.04
46 66 0.62
47 34 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGGTCGCATCCA
Found at i:38473581 original size:30 final size:30
Alignment explanation
Indices: 38473547--38473606 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
38473537 ATTTAATACG
38473547 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
38473577 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
38473607 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:38474530 original size:40 final size:40
Alignment explanation
Indices: 38474458--38474738 Score: 350
Period size: 40 Copynumber: 7.0 Consensus size: 40
38474448 CCTCATAATT
*
38474458 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCA
* *
38474497 CTAGCACGAATGCTCTTTGGGACTTAGCCCGGATATAGATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGG--AT--ATATCA
* * *
38474541 CTAGCATGAATGCTCTTGGGGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* * * *
38474581 CTAGCACGAATACTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
38474621 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* * *
38474661 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGACATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
* *
38474701 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGCTATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
38474739 AACTCTCAAT
Statistics
Matches: 220, Mismatches: 16, Indels: 11
0.89 0.06 0.04
Matches are distributed among these distances:
39 14 0.06
40 166 0.75
42 4 0.02
44 36 0.16
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCA
Found at i:38474677 original size:80 final size:80
Alignment explanation
Indices: 38474458--38474738 Score: 386
Period size: 80 Copynumber: 3.5 Consensus size: 80
38474448 CCTCATAATT
* *
38474458 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCACTAGCACGAATGCTCTTTGGGACT
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACT
*
38474521 TAGCCCGGATATAGATATCA
65 TAGCCCGGACAT--A-A-CA
* * * *
38474541 CTAGCATGAATGCTCTTGGGGACTTAGCCCGGATATATCACTAGCACGAATACTCTTCGGGACTT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
38474606 AGCCCGGACATAACA
66 AGCCCGGACATAACA
* * * *
38474621 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATGCTCTTCGAGACTT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
38474686 AGCCCGGACATAACA
66 AGCCCGGACATAACA
* *
38474701 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGCTATAT
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
38474739 AACTCTCAAT
Statistics
Matches: 177, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
80 108 0.61
81 1 0.01
82 1 0.01
83 13 0.07
84 54 0.31
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (80 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTT
AGCCCGGACATAACA
Found at i:38476065 original size:37 final size:37
Alignment explanation
Indices: 38476012--38476114 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
38476002 CGAATAGTCC
* *
38476012 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
38476049 CCACACGTGGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
38476086 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
38476115 ATATATTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:38477036 original size:48 final size:48
Alignment explanation
Indices: 38476284--38477020 Score: 1240
Period size: 48 Copynumber: 15.4 Consensus size: 48
38476274 CTAGCCGAAT
* *
38476284 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
* * * * *
38476332 CATTAGCCATTCAGCTTTACCACGTATACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
* * *
38476380 CACTAGCCATTCGGCTTTACCGCGTGTACATATCTCATACATAGTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
*
38476428 CACTAGCCATTCGGCTTTACCGCGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
* *
38476476 CACTAGCCATTCGACTTTACCGCATATGCATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
*
38476524 CACTAGCCATTCGGCTTTACCGCATATGCATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
*
38476572 CACTAGCCATTCGGCTTTACCGCATATGCATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
*
38476620 CACTAGCCATTCGGCTTTACCGCATATGCATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
*
38476668 CACTAGCCATTCGGCTTTACCGCATATGCATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
*
38476716 CACTAGCCATTCGGCTTTACCGCATATGCATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
38476764 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
38476812 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
38476860 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
* * *
38476908 CACTAGCCATTCGGCTTGACCACATATACATATATCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
* * * *
38476956 CATTAGCCATTCGGCTTGACCACATATATATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
*
38477004 CATTAGCCATTCGGCTT
1 CACTAGCCATTCGGCTT
38477021 GACCACACAC
Statistics
Matches: 667, Mismatches: 22, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 667 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCGCATATACATATCTCATACATATTTCA
Found at i:38483940 original size:28 final size:28
Alignment explanation
Indices: 38483900--38484023 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
38483890 ATATTAAGTC
* *
38483900 CGCACACTCAGTGCTATGTAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
38483928 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
38483956 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38483984 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38484013 CGCACACTTAG
1 CGCACACTTAG
38484024 CGCCAATCTC
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 73 0.82
29 16 0.18
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:38491624 original size:46 final size:46
Alignment explanation
Indices: 38491533--38491699 Score: 144
Period size: 46 Copynumber: 3.6 Consensus size: 46
38491523 CATTGGTATG
* * *
38491533 AGCCAGTGTAAAACCATGTCTGGGACATGGCATTGGCATTGAGACG-A
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTAGCATCGAGACGTA
* * * *
38491580 GTGCTAGTGTAAGACATATCTGGGACATGCATTAGCCTCGAGACGTA
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATTAGCATCGAGACGTA
* ** *
38491627 AGCCAGTGTAAGACATGTCTGAGACATGCATCGGC-TACGAGATGT-
1 AGCCAGTGTAAGACATGTCTGGGACATGCATTAGCAT-CGAGACGTA
* *
38491672 -GTCAGTGTAAGACCATGTTTGGGACATG
1 AGCCAGTGTAAGA-CATGTCTGGGACATG
38491700 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
44 11 0.11
45 14 0.14
46 50 0.51
47 14 0.14
48 10 0.10
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATTAGCATCGAGACGTA
Found at i:38498960 original size:47 final size:47
Alignment explanation
Indices: 38498833--38499058 Score: 281
Period size: 48 Copynumber: 4.8 Consensus size: 47
38498823 AGAATGAAAA
*
38498833 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAAGT
1 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATAC-ATT
* * * * * *
38498881 AACGTGGTGCTAAGTGAATATGCCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATT
*
38498928 AACATGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT-T
* * * * *
38498976 AACGTGGTGCTAAGTGCATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATT
* * * *
38499023 AACGTGGTGCTACGTCGATATACCACGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCACGATTACACAT
38499059 GTAACGTGGT
Statistics
Matches: 151, Mismatches: 26, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
47 72 0.48
48 79 0.52
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACATT
Found at i:38499000 original size:95 final size:95
Alignment explanation
Indices: 38498837--38499058 Score: 372
Period size: 95 Copynumber: 2.3 Consensus size: 95
38498827 TGAAAAAACG
38498837 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACAAGTAACGTGGTGCTAAGTGAATAT
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACAAGTAACGTGGTGCTAAGTGAATAT
*
38498902 GCCATGGTTACATATATTGATTCATTAACA
66 GCCACGGTTACATATATTGATTCATTAACA
* *
38498932 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACGTGGTGCTAAGTGCATAT
1 TGGTGCTAAGTGGATATACCACGATTACACATATTGATACAAGTAACGTGGTGCTAAGTGAATAT
*
38498997 GCCACGGTTACATATATTGATTCATTAACG
66 GCCACGGTTACATATATTGATTCATTAACA
* * * *
38499027 TGGTGCTACGTCGATATACCACGGTTAAACAT
1 TGGTGCTAAGTGGATATACCACGATTACACAT
38499059 GTAACGTGGT
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 119 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (95 bp):
TGGTGCTAAGTGGATATACCACGATTACACATATTGATACAAGTAACGTGGTGCTAAGTGAATAT
GCCACGGTTACATATATTGATTCATTAACA
Found at i:38499081 original size:38 final size:38
Alignment explanation
Indices: 38499022--38499098 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
38499012 ATTGATTCAT
*
38499022 TAACGTGGTGCTACGTCGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTCGATATACCACGGTTAAACATG
* * *
38499060 TAACGTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTCGATATACCACGGTTAAACATG
38499098 T
1 T
38499099 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTCGATATACCACGGTTAAACATG
Found at i:38504541 original size:11 final size:11
Alignment explanation
Indices: 38504525--38504550 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
38504515 GTAATAAAAT
38504525 AAAATAAATTC
1 AAAATAAATTC
38504536 AAAATAAATTC
1 AAAATAAATTC
38504547 AAAA
1 AAAA
38504551 AATGTAAAAA
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAATAAATTC
Found at i:38504553 original size:20 final size:19
Alignment explanation
Indices: 38504530--38504583 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
38504520 AAAATAAAAT
38504530 AAATTCAAAATAAATTCAA-A
1 AAATT-AAAATAAATT-AAGA
*
38504550 AAATGTAAAAAAAATTAAGA
1 AAAT-TAAAATAAATTAAGA
38504570 AAA-TAAAATAAATT
1 AAATTAAAATAAATT
38504584 GGTAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 10 0.33
19 2 0.07
20 17 0.57
21 1 0.03
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (19 bp):
AAATTAAAATAAATTAAGA
Found at i:38517839 original size:13 final size:13
Alignment explanation
Indices: 38517796--38517840 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
38517786 TAGATTTTTC
*
38517796 CTAAATATTATCA
1 CTAAATAATATCA
38517809 CTAAATAAT-T--
1 CTAAATAATATCA
38517819 CTAAATAATATCA
1 CTAAATAATATCA
38517832 CTAAATAAT
1 CTAAATAAT
38517841 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 9 0.32
11 1 0.04
12 1 0.04
13 17 0.61
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATAATATCA
Found at i:38517847 original size:23 final size:23
Alignment explanation
Indices: 38517796--38517845 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
38517786 TAGATTTTTC
*
38517796 CTAAATATTATCACTAAATAATT
1 CTAAATAATATCACTAAATAATT
38517819 CTAAATAATATCACTAAATAATT
1 CTAAATAATATCACTAAATAATT
38517842 -TAAA
1 CTAAA
38517846 ATTTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (23 bp):
CTAAATAATATCACTAAATAATT
Found at i:38521940 original size:16 final size:16
Alignment explanation
Indices: 38521921--38521967 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
38521911 TAAAAATTGC
38521921 AAAACACTAAAGAGAA
1 AAAACACTAAAGAGAA
*
38521937 AAAAGACCTAAA-AGAA
1 AAAACA-CTAAAGAGAA
* *
38521953 TAAGCACTAAAGAGA
1 AAAACACTAAAGAGA
38521968 GAAAGACCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 5 0.20
16 15 0.60
17 5 0.20
ACGTcount: A:0.64, C:0.13, G:0.15, T:0.09
Consensus pattern (16 bp):
AAAACACTAAAGAGAA
Found at i:38521981 original size:31 final size:32
Alignment explanation
Indices: 38521925--38521993 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 32
38521915 AATTGCAAAA
*
38521925 CACTAAAGAGAAAAAAGACCTAAAAGAATAAG
1 CACTAAAGAGAAAAAAGACCCAAAAGAATAAG
*
38521957 CACTAAAGAG-AGAAAGACCCAAAAGAATAAG
1 CACTAAAGAGAAAAAAGACCCAAAAGAATAAG
38521988 CACTAA
1 CACTAA
38521994 CCGACCTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.09
Consensus pattern (32 bp):
CACTAAAGAGAAAAAAGACCCAAAAGAATAAG
Found at i:38525900 original size:40 final size:40
Alignment explanation
Indices: 38525817--38526039 Score: 204
Period size: 40 Copynumber: 5.6 Consensus size: 40
38525807 TTGAATGCTG
* * * * *
38525817 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
38525857 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
* **
38525897 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* **
38525937 TCCGGGTTAAGTCCCGAAGGCATTCATGCGA-ATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGA-TACTAAA
* * *
38525977 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* *
38526016 TCCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38526040 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 20, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
39 33 0.21
40 113 0.72
41 10 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:38525954 original size:80 final size:79
Alignment explanation
Indices: 38525817--38526041 Score: 233
Period size: 80 Copynumber: 2.8 Consensus size: 79
38525807 TTGAATGCTG
* * * * * *
38525817 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
38525880 TTGTGCGAGA-TACTAAA
63 TTGTGCGA-ATTACTAAA
* *
38525897 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTT
* **
38525962 ATGCGAATTGTTAAA
65 GTGCGAATTACTAAA
* * * *
38525977 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAATCCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATTT
38526041 G
65 G
38526042 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
79 36 0.30
80 80 0.66
81 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTTG
TGCGAATTACTAAA
Found at i:38543343 original size:47 final size:47
Alignment explanation
Indices: 38543279--38543400 Score: 199
Period size: 47 Copynumber: 2.6 Consensus size: 47
38543269 GCATTGGCAC
*
38543279 TAAGACAAGGATCCCATGTAAGACCATGTTTGGAACATGGCATTTGA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
*
38543326 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
* * *
38543373 TAAGATAAGAATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
38543401 CCAGGGCATG
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
Found at i:38543448 original size:54 final size:54
Alignment explanation
Indices: 38543387--38543575 Score: 213
Period size: 55 Copynumber: 3.5 Consensus size: 54
38543377 ATAAGAATAT
* * * * * *
38543387 CATGTAAGACCATGCCAGGGCATGACATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCTAAGGCATGGCATTGATGAGTTCTATAAGGCAAGGATAC
* * * *
38543441 CATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTATATGGCAAAGG-TCC
1 CATGTAAGACCATGCTAAGGCATGGCATTGATGAGTT-CTATAAGGC-AAGGATAC
* *
38543496 CATGTAAGACCATGCTAAGGCAAGGCATTGATGAGTTC-ATAAGACAAGGATAC
1 CATGTAAGACCATGCTAAGGCATGGCATTGATGAGTTCTATAAGGCAAGGATAC
*
38543549 CATGTAAGACCATG-TCAAGACATGGCA
1 CATGTAAGACCATGCT-AAGGCATGGCA
38543576 ATGGTAAGTT
Statistics
Matches: 113, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
52 5 0.04
53 30 0.27
54 32 0.28
55 42 0.37
56 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
CATGTAAGACCATGCTAAGGCATGGCATTGATGAGTTCTATAAGGCAAGGATAC
Found at i:38543508 original size:55 final size:53
Alignment explanation
Indices: 38543373--38543575 Score: 192
Period size: 54 Copynumber: 3.8 Consensus size: 53
38543363 TGGCATTTGG
* * * ** * * * *
38543373 TAAGATAAGAATATCATGTAAGACCATGCCAGGGCATGACATTGATAAGTTCTA
1 TAAGACAAGGATACCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTC-A
* * *
38543427 TAAGGCAAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTACTA
1 TAAGACAAGGATACCATGTAAGACCATGTTAAGACATGGCATTGATGAGTT-C-A
* * * * * *
38543482 TATGGCAAAGG-TCCCATGTAAGACCATGCTAAGGCAAGGCATTGATGAGTTCA
1 TAAGAC-AAGGATACCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTCA
*
38543535 TAAGACAAGGATACCATGTAAGACCATGTCAAGACATGGCA
1 TAAGACAAGGATACCATGTAAGACCATGTTAAGACATGGCA
38543576 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
52 4 0.03
53 30 0.25
54 42 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (53 bp):
TAAGACAAGGATACCATGTAAGACCATGTTAAGACATGGCATTGATGAGTTCA
Found at i:38548572 original size:40 final size:40
Alignment explanation
Indices: 38548495--38548710 Score: 312
Period size: 40 Copynumber: 5.4 Consensus size: 40
38548485 AAACCAAGTA
* * *
38548495 CCTTCGGGATTTAG-CCGAATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
38548534 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
38548574 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
38548614 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
38548654 CCTACGGGACATAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
38548694 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
38548711 AGTTATCATC
Statistics
Matches: 161, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.09
40 146 0.91
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:38550902 original size:29 final size:30
Alignment explanation
Indices: 38550851--38550908 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
38550841 CTTTTGAAAA
* *
38550851 TATTTACAAAAAAAGGAATCTAAGTTTTAT
1 TATTTACAAAAAAAGCAATCTAAATTTTAT
*
38550881 TATTTACAAAAAGAGCAA-CTAAATTTTA
1 TATTTACAAAAAAAGCAATCTAAATTTTA
38550909 AAAATAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAAAGCAATCTAAATTTTAT
Found at i:38560595 original size:27 final size:27
Alignment explanation
Indices: 38560565--38560742 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
38560555 ATATTGAGTC
* *
38560565 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
38560592 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
38560619 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
38560647 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
38560674 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
38560701 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
38560728 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38560743 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:38568695 original size:27 final size:27
Alignment explanation
Indices: 38568665--38568842 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
38568655 ATATTGAGTC
*
38568665 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
38568692 CGCACACTTAGTGCTATGTAATCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
* *
38568719 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
*** ** *
38568747 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATATAATCAACT
* ***
38568774 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTAT-ATAATCAACT
* * * *
38568801 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTATATAATCAACT
38568828 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38568843 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:38570937 original size:18 final size:18
Alignment explanation
Indices: 38570914--38570951 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
38570904 GGCTAATATG
38570914 TTGAATCTGATTCATGAT
1 TTGAATCTGATTCATGAT
*
38570932 TTGAATTTGATTCATGAT
1 TTGAATCTGATTCATGAT
38570950 TT
1 TT
38570952 CATACATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (18 bp):
TTGAATCTGATTCATGAT
Found at i:38571420 original size:40 final size:40
Alignment explanation
Indices: 38571341--38571504 Score: 195
Period size: 40 Copynumber: 4.1 Consensus size: 40
38571331 CGGATGATAA
* * ** *
38571341 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
* * *
38571381 CCGGGCTATGACCCGAAGGCATTTATGCTAG-CGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCG-CTATAT
* *
38571421 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
* * *
38571461 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
38571501 CCGG
1 CCGG
38571505 TTAAATCCCG
Statistics
Matches: 108, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 1 0.01
40 106 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTCGCTATAT
Found at i:38571499 original size:80 final size:80
Alignment explanation
Indices: 38571341--38571504 Score: 249
Period size: 80 Copynumber: 2.0 Consensus size: 80
38571331 CGGATGATAA
* *
38571341 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGACCCGAAGGCATTTA
1 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
38571406 TGCTAGCGATTATAT
66 TGCGAGCGATTATAT
* * *
38571421 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
38571486 TGCGAGTTG-TTATAT
66 TGCGAG-CGATTATAT
38571501 CCGG
1 CCGG
38571505 TTAAATCCCG
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
80 75 0.99
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGCGATTATAT
Found at i:38574451 original size:27 final size:25
Alignment explanation
Indices: 38574392--38574456 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
38574382 TAATAAATTT
*
38574392 GCACACATAGTGCATATATTCATTC
1 GCACACATAGTGCATATATTCATAC
* *
38574417 GCAGACATAGTG-ATAGCTTTTCCATAC
1 GCACACATAGTGCATA--TATT-CATAC
38574444 GCACACATAGTGC
1 GCACACATAGTGC
38574457 GGCCCCATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
24 3 0.09
25 11 0.34
26 3 0.09
27 15 0.47
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (25 bp):
GCACACATAGTGCATATATTCATAC
Found at i:38577251 original size:25 final size:26
Alignment explanation
Indices: 38577217--38577286 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
38577207 CGGTTAATAA
*
38577217 ATTCACACACATAGTGCATA-TATT-C
1 ATTCGCACACATAGTGC-TACTATTCC
*
38577242 ATTCGCACACATAGTGCTAGCTTTTCC
1 ATTCGCACACATAGTGCTA-CTATTCC
*
38577269 ATACGCACACATAGTGCT
1 ATTCGCACACATAGTGCT
38577287 GCCCCATTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 16 0.41
26 3 0.08
27 18 0.46
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (26 bp):
ATTCGCACACATAGTGCTACTATTCC
Found at i:38586693 original size:48 final size:48
Alignment explanation
Indices: 38586545--38586868 Score: 246
Period size: 48 Copynumber: 6.6 Consensus size: 48
38586535 TATGTGTGCT
* * * * * *
38586545 AGTGTAAGACTAAGTCTGAGACATGGCGTCGGCCA-CGATATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGATATGAGAGCC
* * * * *
38586593 AGTGTAAGACCATG-TTGGTACATAGCATCGGCAGTG-TAATGAAATCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAT-ATGAGAGCC
* * * * * *
38586640 AGTGTAAGACGATGTCTGGGACATGGCATCGTCATTGATATGTGCGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCC
** * *
38586688 AGTGTAAGACCATGTTTTAGACATGGCATTGGCCA--CATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CATTGA-TATGAGAGCC
* *
38586736 AGTGTAAGACCTTGTTTGGGACATGGCATCGGCATTGGCAT-TGAGACAAGAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATT-G-ATAT--G---AGAGCC
* * * * *
38586790 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCC
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCC
*
38586838 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
38586869 ACAATTCACC
Statistics
Matches: 214, Mismatches: 46, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
46 3 0.01
47 36 0.17
48 127 0.59
49 4 0.02
50 1 0.00
51 3 0.01
52 1 0.00
53 2 0.01
54 37 0.17
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGATATGAGAGCC
Found at i:38586813 original size:102 final size:102
Alignment explanation
Indices: 38586685--38586868 Score: 271
Period size: 102 Copynumber: 1.8 Consensus size: 102
38586675 TGATATGTGC
* * * * *
38586685 GCTAGTGTAAGACCATGTTTTAGACATGGCATTGGCCAC-ATTATGAGAGCCAGTGTAAGACCTT
1 GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCACGA-CATGAGAGCCAGTGTAAGACCAT
*
38586749 GTTTGGGACATGGCATCGGCATTGGCATTGAGACAAGA
65 GTTTGGAACATGGCATCGGCATTGGCATTGAGACAAGA
* * *
38586787 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATG
38586852 TTTGGAACATGGCATCG
66 TTTGGAACATGGCATCG
38586869 ACAATTCACC
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
102 71 0.99
103 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (102 bp):
GCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCGGCATTGGCATTGAGACAAGA
Found at i:38590617 original size:30 final size:30
Alignment explanation
Indices: 38590583--38590643 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
38590573 TCCTTAACTC
*
38590583 AAACTTTTGGAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
38590613 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
38590643 A
1 A
38590644 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:38592205 original size:18 final size:18
Alignment explanation
Indices: 38592182--38592224 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
38592172 CGTTATATGA
38592182 ACTTACTAAGCATGTAAT
1 ACTTACTAAGCATGTAAT
38592200 ACTTACTAAGCATGTAAT
1 ACTTACTAAGCATGTAAT
*
38592218 GCTTACT
1 ACTTACT
38592225 CCGTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (18 bp):
ACTTACTAAGCATGTAAT
Found at i:38594913 original size:43 final size:43
Alignment explanation
Indices: 38594864--38594997 Score: 180
Period size: 43 Copynumber: 3.1 Consensus size: 43
38594854 GATTACCGAG
38594864 ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATTG-T
1 ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATTGTT
* *
38594906 ATTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATATAAGACCATGTCTGGGACATTGGCATTGTT
* * * * * *
38594950 ATATGATTTCTTATAAGACCCTGTCTGGGACAATGGCATTGAT
1 ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATTGTT
38594993 ATGTG
1 ATGTG
38594998 GTAACATGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.01
43 76 0.96
44 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (43 bp):
ATGTGATTACATATAAGACCATGTCTGGGACATTGGCATTGTT
Found at i:38596901 original size:33 final size:34
Alignment explanation
Indices: 38596863--38596928 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
38596853 TTTCAATTGA
*
38596863 GATTTAGCCTGGACTAGTAATCCTAAT-TGACTG
1 GATTTAGCCTGGACTAGTAATCCAAATATGACTG
*
38596896 GATTTAGCCTGGACTGGTAATCCAAATATGACT
1 GATTTAGCCTGGACTAGTAATCCAAATATGACT
38596929 CTATAGGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (34 bp):
GATTTAGCCTGGACTAGTAATCCAAATATGACTG
Found at i:38598381 original size:19 final size:19
Alignment explanation
Indices: 38598357--38598396 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
38598347 TCCTCAAAAC
38598357 ATGAAAAATTTTCTAAGTT
1 ATGAAAAATTTTCTAAGTT
38598376 ATGAAAAATTTTCTAAGTT
1 ATGAAAAATTTTCTAAGTT
38598395 AT
1 AT
38598397 CCTGAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (19 bp):
ATGAAAAATTTTCTAAGTT
Found at i:38604907 original size:28 final size:28
Alignment explanation
Indices: 38604867--38604927 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
38604857 TTGCCTATGT
38604867 GATTGATTCAAAAGTGTCAGAAAAGAAA
1 GATTGATTCAAAAGTGTCAGAAAAGAAA
38604895 GATTGATTCAAAAGTGTCAGAAAAGAAA
1 GATTGATTCAAAAGTGTCAGAAAAGAAA
38604923 G-TTGA
1 GATTGA
38604928 ATCAGTGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.48, C:0.07, G:0.23, T:0.23
Consensus pattern (28 bp):
GATTGATTCAAAAGTGTCAGAAAAGAAA
Found at i:38610207 original size:47 final size:47
Alignment explanation
Indices: 38610138--38610378 Score: 455
Period size: 47 Copynumber: 5.1 Consensus size: 47
38610128 AAGGTTCGTT
*
38610138 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
38610185 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
38610232 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
38610279 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
38610326 TACACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATA
1 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
38610373 TACACT
1 TACACT
38610379 GTCTTGGCTG
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 190 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:38611780 original size:13 final size:13
Alignment explanation
Indices: 38611762--38611786 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38611752 TACTAAATTT
38611762 TCATGGATTCAAA
1 TCATGGATTCAAA
38611775 TCATGGATTCAA
1 TCATGGATTCAA
38611787 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:38613997 original size:80 final size:81
Alignment explanation
Indices: 38613860--38614044 Score: 223
Period size: 80 Copynumber: 2.3 Consensus size: 81
38613850 CCAGCATGAT
* * * **
38613860 TGCTCTTCGGGACCTAGCCTGGACATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
38613925 T-ATCAC-TAGCACGAA
66 TGATCACTTAGCAC-AA
* * * * * *
38613940 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
*
38614005 TGGTCACTTAGCACAA
66 TGATCACTTAGCACAA
*
38614021 AGC-CTTCGGGACTTAGCCCGGACA
1 TGCTCTTCGGGACTTAGCCCGGACA
38614045 TCATTCGAAT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
80 74 0.84
81 8 0.09
82 6 0.07
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (81 bp):
TGCTCTTCGGGACTTAGCCCGGACACAACACCAGCACGAATGCTCTTCGGGACTTAGCACGGATA
TGATCACTTAGCACAA
Found at i:38614039 original size:40 final size:39
Alignment explanation
Indices: 38613860--38614042 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
38613850 CCAGCATGAT
* * * * *
38613860 TGCTCTTCGGGACCTAGCCTGGACATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCAC-AA
** *
38613900 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCAC-AA
* * *
38613940 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCA-CAA
*
38613980 TGCTCTTCGGGACTTAGCCCGGATATGGTCACTTAGCACAA
1 TGCTCTTCGGGACTTAGCCCGGATAT-ATCAC-TAGCACAA
*
38614021 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
38614043 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
40 108 0.89
41 8 0.07
42 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAA
Found at i:38614387 original size:29 final size:29
Alignment explanation
Indices: 38614348--38614426 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
38614338 CTTAATAATC
*
38614348 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
38614378 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38614407 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38614427 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38614469 original size:43 final size:43
Alignment explanation
Indices: 38614408--38614510 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
38614398 TGCATTTCAA
38614408 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38614451 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
38614494 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
38614511 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:38616459 original size:37 final size:37
Alignment explanation
Indices: 38616409--38616487 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38616399 TTATTACGGA
* *
38616409 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
38616446 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
38616483 GTCTT
1 GTCTT
38616488 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:38616684 original size:47 final size:47
Alignment explanation
Indices: 38616606--38617094 Score: 789
Period size: 47 Copynumber: 10.4 Consensus size: 47
38616596 CCCTTCGGGA
* * * * * * *
38616606 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38616653 CCTGTCACATCTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38616700 CTTATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38616747 CTTATTACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38616794 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38616841 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38616888 CTTATCACATATATACACTCTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38616935 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38616982 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38617029 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38617076 CTTATCACATATATACACT
1 CTTATCACATATATACACT
38617095 GTCTTGGCTG
Statistics
Matches: 418, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 418 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38618496 original size:13 final size:13
Alignment explanation
Indices: 38618478--38618502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38618468 TACTAAATTT
38618478 TCATGGATTCAAA
1 TCATGGATTCAAA
38618491 TCATGGATTCAA
1 TCATGGATTCAA
38618503 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:38621305 original size:48 final size:46
Alignment explanation
Indices: 38621219--38621347 Score: 127
Period size: 47 Copynumber: 2.8 Consensus size: 46
38621209 CGTCTTAAGG
* * * * *
38621219 CCGAAGCATGTCCTAGACATGTCTTACACCAACACTCATCACA-AT-A
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-A-ATATGA
* *
38621265 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATATGA
* *
38621313 CCGATGCATGTCCCAAACATGTCTTACACTCGCTC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCTC
38621348 ACACAAGTGA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
46 20 0.29
47 28 0.40
48 22 0.31
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATATGA
Found at i:38627217 original size:40 final size:40
Alignment explanation
Indices: 38627123--38627267 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
38627113 TACTCGAATG
* *
38627123 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAACGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
38627164 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
38627204 ATATCCGGGCTAAGTCCCGAAGGCATTTATGTTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* * *
38627244 ATATCCGAGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
38627268 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.66
41 28 0.31
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:38641698 original size:80 final size:80
Alignment explanation
Indices: 38641560--38641810 Score: 396
Period size: 80 Copynumber: 3.1 Consensus size: 80
38641550 ATTTGAATGA
*
38641560 TATCCGGGCTAAGACCCGAAAGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
38641625 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * *
38641640 TATCTGGGCTAAGACACGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
38641705 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * * *
38641720 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
* * *
38641785 TTGTGCTTGTGGTTA
66 TTGTGCTAGTGATTT
38641800 TATCC-GGCTAA
1 TATCCGGGCTAA
38641811 ATTCCGAAGA
Statistics
Matches: 157, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 6 0.04
80 151 0.96
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAA
TTGTGCTAGTGATTT
Found at i:38641802 original size:40 final size:40
Alignment explanation
Indices: 38641559--38641810 Score: 281
Period size: 40 Copynumber: 6.3 Consensus size: 40
38641549 CATTTGAATG
* * *
38641559 ATATCCGGGCTAAGACCCGAAAGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
38641599 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * * *
38641639 TTATCTGGGCTAAGACACGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
38641679 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * *
38641719 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
**
38641759 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
38641799 ATATCC-GGCTAA
1 ATATCCGGGCTAA
38641811 ATTCCGAAGA
Statistics
Matches: 169, Mismatches: 43, Indels: 1
0.79 0.20 0.00
Matches are distributed among these distances:
39 6 0.04
40 163 0.96
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
Found at i:38649583 original size:203 final size:203
Alignment explanation
Indices: 38649234--38649641 Score: 816
Period size: 203 Copynumber: 2.0 Consensus size: 203
38649224 ATTTAATGAT
38649234 ATGTGATTGCCGAATGTGATAAATAAATTCATATTATTGGTTTAAATATTGAATACTCCTATTTG
1 ATGTGATTGCCGAATGTGATAAATAAATTCATATTATTGGTTTAAATATTGAATACTCCTATTTG
38649299 TATTCTTTAAGCTCAAGAGCAAAGGGGAACTAAATCCGACAAAGGGAAGGAAAAAGTAATTGAAT
66 TATTCTTTAAGCTCAAGAGCAAAGGGGAACTAAATCCGACAAAGGGAAGGAAAAAGTAATTGAAT
38649364 AGCCATTAAAGTTGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATA
131 AGCCATTAAAGTTGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATA
38649429 TTGAAATG
196 TTGAAATG
38649437 ATGTGATTGCCGAATGTGATAAATAAATTCATATTATTGGTTTAAATATTGAATACTCCTATTTG
1 ATGTGATTGCCGAATGTGATAAATAAATTCATATTATTGGTTTAAATATTGAATACTCCTATTTG
38649502 TATTCTTTAAGCTCAAGAGCAAAGGGGAACTAAATCCGACAAAGGGAAGGAAAAAGTAATTGAAT
66 TATTCTTTAAGCTCAAGAGCAAAGGGGAACTAAATCCGACAAAGGGAAGGAAAAAGTAATTGAAT
38649567 AGCCATTAAAGTTGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATA
131 AGCCATTAAAGTTGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATA
38649632 TTGAAATG
196 TTGAAATG
38649640 AT
1 AT
38649642 TAGTCATACT
Statistics
Matches: 205, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
203 205 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (203 bp):
ATGTGATTGCCGAATGTGATAAATAAATTCATATTATTGGTTTAAATATTGAATACTCCTATTTG
TATTCTTTAAGCTCAAGAGCAAAGGGGAACTAAATCCGACAAAGGGAAGGAAAAAGTAATTGAAT
AGCCATTAAAGTTGTTCGACAACATCCGAGGTAAGTCTTCGAGTAATGACCCTACTTGAATTATA
TTGAAATG
Found at i:38649899 original size:40 final size:40
Alignment explanation
Indices: 38649838--38650049 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
38649828 CATTTGAATG
* * *
38649838 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
38649878 TTATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* * * *
38649918 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * * *
38649958 TTATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * **
38649998 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
38650038 ATATCC-GGCTAA
1 ATATCCGGGCTAA
38650050 ATTCCGAAGA
Statistics
Matches: 138, Mismatches: 32, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 8 0.06
40 128 0.93
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:38649978 original size:80 final size:79
Alignment explanation
Indices: 38649842--38650058 Score: 301
Period size: 80 Copynumber: 2.7 Consensus size: 79
38649832 TGAATGATAT
* * *
38649842 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCTGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATC-CGGCTAAGATCCGAAGGCATTTG
* *
38649907 TGCGAGTTGCTATAC
65 TGCGAGTTACTAAAC
*
38649922 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGATCCGAAGGCATTTG
*
38649987 TGCGAGTTACTAAAT
65 TGCGAGTTACTAAAC
* * * *
38650002 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
38650059 AAACTTGGGT
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 13 0.11
80 109 0.89
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAAC
Found at i:38653587 original size:43 final size:42
Alignment explanation
Indices: 38653526--38653689 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 42
38653516 CAATACCAAC
* *
38653526 GTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCATT
1 GTCCCAGACAG-GGTCTTACACGAAATCACATATCGATGCCA-T
* * *
38653569 GTCCCAGACAGGGTCTTACACGAACTCATATA-CGATGCTGAT
1 GTCCCAGACAGGGTCTTACACGAAATCACATATCGATGC-CAT
* * * * *
38653611 GTCCCAGACATGGTATTACATGCAAATCACAAATCGATGCCAAA
1 GTCCCAGACAGGGTCTTACACG-AAATCACATATCGATGCC-AT
* *
38653655 GTCCCAGACATGGCCTTACACGAAATCACATATCG
1 GTCCCAGACAGGGTCTTACACGAAATCACATATCG
38653690 GAATTCTATG
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
42 26 0.26
43 46 0.46
44 27 0.27
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
GTCCCAGACAGGGTCTTACACGAAATCACATATCGATGCCAT
Found at i:38655972 original size:37 final size:37
Alignment explanation
Indices: 38655911--38655989 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
38655901 TTCTTACGAA
* * *
38655911 GTCTTACACGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACACGGACAAAATCCCCACACGAAGTCATCGG
* * *
38655948 GTCTTACCCGGATAAAATCCCCACACGTAGTCATCGG
1 GTCTTACACGGACAAAATCCCCACACGAAGTCATCGG
38655985 GTCTT
1 GTCTT
38655990 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACACGGACAAAATCCCCACACGAAGTCATCGG
Found at i:38656382 original size:49 final size:49
Alignment explanation
Indices: 38656108--38656499 Score: 593
Period size: 47 Copynumber: 8.1 Consensus size: 49
38656098 CCCTTCGGGA
* * * * * *
38656108 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGTCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38656155 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38656202 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38656249 CCTATCACATATAGATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
38656300 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38656351 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38656400 CTTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38656447 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38656496 CTTA
1 CTTA
38656500 CTGTCATTTC
Statistics
Matches: 319, Mismatches: 16, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
46 1 0.00
47 132 0.41
49 93 0.29
51 89 0.28
53 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38656440 original size:96 final size:96
Alignment explanation
Indices: 38656108--38656499 Score: 608
Period size: 96 Copynumber: 4.0 Consensus size: 96
38656098 CCCTTCGGGA
* * * * * * * *
38656108 CTTATCACATTTATACACTTTCACATCCATCACGTTGTCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
38656171 ACTTTCACATTCATCACATCGGCCATTAAGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38656202 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATAGATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATAT--ATAT
38656267 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
38656300 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATAT
38656365 ATACACTTTCACATTCATCACATCGGCCATTAGGC
62 ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
38656400 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
38656465 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38656496 CTTA
1 CTTA
38656500 CTGTCATTTC
Statistics
Matches: 279, Mismatches: 11, Indels: 14
0.92 0.04 0.05
Matches are distributed among these distances:
94 47 0.17
96 93 0.33
98 44 0.16
100 45 0.16
102 50 0.18
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38659640 original size:40 final size:40
Alignment explanation
Indices: 38659583--38659739 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
38659573 TGAATACACG
* * *
38659583 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
38659623 ACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
38659663 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
38659703 TCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
38659740 TTAGTAACTC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:38659764 original size:40 final size:41
Alignment explanation
Indices: 38659596--38659857 Score: 179
Period size: 40 Copynumber: 6.6 Consensus size: 41
38659586 CCAGCATGAT
* * *
38659596 TGCTCTTCGGGACCTAGCCCGGA--TA-TAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATTTAGTAAC-TC-GCACAAA
* ** * * **
38659636 TGCTCTTCGGAACTTAGCCCGGATACA-TCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
** * * **
38659676 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* *
38659716 TGCTCTTCGGGACTTAGCCTGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* *
38659757 TGC-CTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
* * * *
38659796 TGC-CTTC-GGATCTTAGTCCGGA-TAAGGTCACTTAGCACAAA
1 TGCTCTTCGGGA-CTTAGCCCGGATTTA-GTAAC-TCGCACAAA
38659837 -GC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
38659858 CATCATTCGA
Statistics
Matches: 189, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 34 0.18
40 126 0.67
41 23 0.12
42 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAA
Found at i:38659764 original size:80 final size:80
Alignment explanation
Indices: 38659596--38659777 Score: 224
Period size: 80 Copynumber: 2.3 Consensus size: 80
38659586 CCAGCATGAT
* *
38659596 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* **
38659661 CATCACTAGCATGAA
66 CATAACTAGCACCAA
* * * * * *
38659676 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCTGGATT
1 TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
* *
38659741 TAGTAACTCGCACCAA
66 CA-TAACTAGCACCAA
38659757 TGC-CTTCGGG-CTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
38659778 ATTAGTATCT
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 11 0.12
80 65 0.74
81 12 0.14
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATACAACACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
CATAACTAGCACCAA
Found at i:38660206 original size:29 final size:28
Alignment explanation
Indices: 38660172--38660245 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
38660162 TAATCAACCA
*
38660172 CGCACACTTAGTGCCATGTACTTT-AAAC
1 CGCACACTTAGTGCCATGCA-TTTCAAAC
*
38660200 TCGCACACTTAGTGCCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAAC
38660229 CTGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
38660246 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAAC
Found at i:38662198 original size:36 final size:37
Alignment explanation
Indices: 38662151--38662228 Score: 113
Period size: 36 Copynumber: 2.1 Consensus size: 37
38662141 TTATTACGAA
* * *
38662151 GTCTTACCCGGACATAATCTCCACACG-AGTTAGCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCAGCGG
*
38662187 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGTAGTCAGCGG
38662224 GTCTT
1 GTCTT
38662229 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 25 0.68
37 12 0.32
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGTAGTCAGCGG
Found at i:38662602 original size:49 final size:49
Alignment explanation
Indices: 38662347--38662738 Score: 593
Period size: 47 Copynumber: 8.1 Consensus size: 49
38662337 CCCTTCGGGA
* * * * *
38662347 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38662394 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38662441 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38662488 CCTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38662539 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38662590 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38662639 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38662688 CTTATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38662735 CTTA
1 CTTA
38662739 CTGTCATTTC
Statistics
Matches: 323, Mismatches: 16, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 128 0.40
49 97 0.30
51 97 0.30
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38671252 original size:48 final size:48
Alignment explanation
Indices: 38671173--38671307 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
38671163 ATTATGATTA
* * * * *
38671173 ATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGGGGTTGAT
1 ATGATAGCCAATGTAAGACCATATCTGGGACATGGCATCGGGATTGAT
* * * *
38671221 ATGATAGCCACTGTAAGACCATATTTAGGACATGGCATCGGTATTGAT
1 ATGATAGCCAATGTAAGACCATATCTGGGACATGGCATCGGGATTGAT
* *
38671269 ATG-TGTGCCAATGTAAGACCATATCTGGGATATGGCATC
1 ATGAT-AGCCAATGTAAGACCATATCTGGGACATGGCATC
38671308 CGAAGACCAT
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
47 1 0.01
48 72 0.99
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (48 bp):
ATGATAGCCAATGTAAGACCATATCTGGGACATGGCATCGGGATTGAT
Found at i:38671324 original size:27 final size:27
Alignment explanation
Indices: 38671283--38671334 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
38671273 GTGCCAATGT
38671283 AAGACCATATCTGGGATATGGCATCCG
1 AAGACCATATCTGGGATATGGCATCCG
*
38671310 AAGACCATATTTGGGATATGGCATC
1 AAGACCATATCTGGGATATGGCATC
38671335 GGCCCCGGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (27 bp):
AAGACCATATCTGGGATATGGCATCCG
Done.