Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 241 of 325
Found at i:75564624 original size:71 final size:71
Alignment explanation
Indices: 75564536--75564699 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
75564526 CGATTTGTCT
75564536 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
75564601 CTTTCA
66 CTTTCA
75564607 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
75564672 CTTTCA
66 CTTTCA
75564678 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
75564700 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:75564737 original size:71 final size:70
Alignment explanation
Indices: 75564536--75564733 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
75564526 CGATTTGTCT
* * *
75564536 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
75564601 CTTTCA
65 CTTTCA
* * *
75564607 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
75564672 CTTTCA
65 CTTTCA
* *
75564678 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
75564734 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:75568724 original size:29 final size:29
Alignment explanation
Indices: 75568643--75568760 Score: 100
Period size: 29 Copynumber: 4.2 Consensus size: 29
75568633 TACATACATG
* *
75568643 CATATGGCCCACTAGGCCCAA-TCTTATC
1 CATATGGCCCACTAGGCCCAATTCATATT
* *
75568671 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCAATTCATATT
* * *
75568700 CTTATGGCCCACTAGGCTCAATTCACATT
1 CATATGGCCCACTAGGCCCAATTCATATT
* ** *
75568729 CATATAGCCCGTTA-GCCCAAATCATATT
1 CATATGGCCCACTAGGCCCAATTCATATT
75568757 -ATAT
1 CATAT
75568761 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 4 0.06
28 29 0.41
29 38 0.54
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.29
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCATATT
Found at i:75574556 original size:50 final size:49
Alignment explanation
Indices: 75574443--75574618 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 49
75574433 CTAGTACGCA
* * * ** *
75574443 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
75574492 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCTGATACACG
* **** * * * *
75574542 TAGTAGCCTTCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCTGATACACG
75574593 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
75574619 TGCGACCTCA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
49 30 0.28
50 43 0.40
51 34 0.31
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCTGATACACG
Found at i:75574626 original size:101 final size:99
Alignment explanation
Indices: 75574443--75574626 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
75574433 CTAGTACGCA
* * *
75574443 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
*
75574508 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * * *
75574542 TAGTAGCCTTCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-C-CAATTATCGGGTACACATAGTAGCCTGCACT
*
75574607 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
75574627 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 27 0.38
100 1 0.01
101 44 0.61
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:75576455 original size:20 final size:20
Alignment explanation
Indices: 75576404--75576447 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
75576394 CGGGCCGAGG
75576404 ACACGAGCGTGTCCCAAGCC
1 ACACGAGCGTGTCCCAAGCC
*
75576424 ATACGAGCGTGTCCCAAGCC
1 ACACGAGCGTGTCCCAAGCC
75576444 ACAC
1 ACAC
75576448 AGGCGTGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.39, G:0.23, T:0.11
Consensus pattern (20 bp):
ACACGAGCGTGTCCCAAGCC
Found at i:75578008 original size:13 final size:13
Alignment explanation
Indices: 75577990--75578020 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
75577980 ACAAATTTCT
75577990 AAAATTATGATAA
1 AAAATTATGATAA
*
75578003 AAAATTATTATAA
1 AAAATTATGATAA
75578016 AAAAT
1 AAAAT
75578021 AATTTACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
AAAATTATGATAA
Found at i:75579833 original size:28 final size:29
Alignment explanation
Indices: 75579766--75579866 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
75579756 ATAGTGAATC
*
75579766 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
75579795 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
75579823 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
75579853 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75579867 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:75586968 original size:28 final size:29
Alignment explanation
Indices: 75586901--75587001 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
75586891 ATAGTGAATC
*
75586901 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
75586930 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
75586958 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
75586988 CGCACACTTAGTGC
1 CGCACACTTAGTGC
75587002 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:75588768 original size:15 final size:16
Alignment explanation
Indices: 75588741--75588770 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75588731 AACTTTTTTT
75588741 ATTTTTAGATAATTAG
1 ATTTTTAGATAATTAG
75588757 ATTTTTAG-TAATTA
1 ATTTTTAGATAATTA
75588771 AATAGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (16 bp):
ATTTTTAGATAATTAG
Found at i:75592642 original size:14 final size:15
Alignment explanation
Indices: 75592617--75592646 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
75592607 AAATTAAAAA
75592617 ATTTTTAGTATATAT
1 ATTTTTAGTATATAT
75592632 ATTTTTA-TATATAT
1 ATTTTTAGTATATAT
75592646 A
1 A
75592647 ATATCTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
ATTTTTAGTATATAT
Found at i:75593428 original size:19 final size:20
Alignment explanation
Indices: 75593405--75593452 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
75593395 AATTATAAAA
75593405 AATAAAAATCAATAAAATTT
1 AATAAAAATCAATAAAATTT
* * *
75593425 -ATAAAAATTATTAAACTTT
1 AATAAAAATCAATAAAATTT
75593444 AATAAAAAT
1 AATAAAAAT
75593453 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAAAATCAATAAAATTT
Found at i:75593481 original size:11 final size:10
Alignment explanation
Indices: 75593418--75593550 Score: 68
Period size: 10 Copynumber: 13.6 Consensus size: 10
75593408 AAAAATCAAT
75593418 AAAATTTATA
1 AAAATTTATA
*
75593428 AAAA-TTATT
1 AAAATTTATA
*
75593437 AAACTTTAATA
1 AAAATTT-ATA
* *
75593448 AAAATATAAA
1 AAAATTTATA
75593458 AAATATTTA-A
1 AAA-ATTTATA
75593468 AAAATTTACTA
1 AAAATTTA-TA
*
75593479 AAAA-TTAGA
1 AAAATTTATA
75593488 AAAATATATATA
1 AAAAT-T-TATA
*
75593500 AACATTGTA-A
1 AAAATT-TATA
75593510 AAAA--TAT-
1 AAAATTTATA
*
75593517 AAAA-TTGTA
1 AAAATTTATA
*
75593526 AAATTTTATA
1 AAAATTTATA
*
75593536 AAAA-TCATA
1 AAAATTTATA
75593545 AAAATT
1 AAAATT
75593551 ATTAAATGCA
Statistics
Matches: 93, Mismatches: 17, Indels: 26
0.68 0.12 0.19
Matches are distributed among these distances:
7 6 0.06
8 2 0.02
9 28 0.30
10 30 0.32
11 20 0.22
12 7 0.08
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
AAAATTTATA
Found at i:75593525 original size:17 final size:18
Alignment explanation
Indices: 75593495--75593528 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
75593485 AGAAAAATAT
75593495 ATATAAACATTGTAAAAA
1 ATATAAACATTGTAAAAA
75593513 ATATAAA-ATTGTAAAA
1 ATATAAACATTGTAAAA
75593529 TTTTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (18 bp):
ATATAAACATTGTAAAAA
Found at i:75593556 original size:10 final size:9
Alignment explanation
Indices: 75593392--75593552 Score: 87
Period size: 9 Copynumber: 17.0 Consensus size: 9
75593382 CATGTGGCAA
75593392 AAAAATTAT
1 AAAAATTAT
75593401 AAAAA--AT
1 AAAAATTAT
*
75593408 AAAAATCAAT
1 AAAAAT-TAT
*
75593418 AAAATTTAT
1 AAAAATTAT
75593427 AAAAATTATT
1 AAAAATTA-T
**
75593437 AAACTTTAAT
1 AAAAATT-AT
75593447 AAAAA-TAT
1 AAAAATTAT
*
75593455 AAAAAATATTT
1 -AAAAAT-TAT
75593466 AAAAAATTTACT
1 -AAAAA-TTA-T
*
75593478 AAAAATTAG
1 AAAAATTAT
75593487 AAAAATATAT
1 AAAAAT-TAT
*
75593497 ATAAACATTGT
1 A-AAA-ATTAT
*
75593508 AAAAAATAT
1 AAAAATTAT
*
75593517 -AAAATTGT
1 AAAAATTAT
*
75593525 AAAATTTTAT
1 AAAA-ATTAT
*
75593535 AAAAATCAT
1 AAAAATTAT
75593544 AAAAATTAT
1 AAAAATTAT
75593553 TAAATGCATA
Statistics
Matches: 116, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
7 7 0.06
8 8 0.07
9 43 0.37
10 33 0.28
11 21 0.18
12 4 0.03
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:75593861 original size:19 final size:20
Alignment explanation
Indices: 75593831--75593875 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
75593821 TTTTACAATT
*
75593831 TTTTTATATATTTTTTATGA
1 TTTTTATATATTTTTTATAA
*
75593851 TTTTTAT-TATTTTTTCTAA
1 TTTTTATATATTTTTTATAA
75593870 TTTTTA
1 TTTTTA
75593876 ATAAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTATATATTTTTTATAA
Found at i:75593902 original size:28 final size:29
Alignment explanation
Indices: 75593863--75593926 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
75593853 TTTATTATTT
*
75593863 TTTCTAAT-TTTTAATAAAAATTAAAT-A
1 TTTCTTATATTTTAATAAAAATTAAATAA
* * *
75593890 TTTCTTATATTTTTATTAAAATTTAATAA
1 TTTCTTATATTTTAATAAAAATTAAATAA
75593919 TTT-TTATA
1 TTTCTTATA
75593927 ACTTTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 20 0.65
29 4 0.13
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTCTTATATTTTAATAAAAATTAAATAA
Found at i:75593921 original size:29 final size:29
Alignment explanation
Indices: 75593861--75593935 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
75593851 TTTTTATTAT
* *
75593861 TTTTTCTAATTTTTAATAAAAATTAAATA
1 TTTTTATAATTTTTATTAAAAATTAAATA
*
75593890 TTTCTTAT-ATTTTTATT-AAAATTTAATAA
1 TTT-TTATAATTTTTATTAAAAATTAAAT-A
*
75593919 TTTTTATAACTTTTATT
1 TTTTTATAATTTTTATT
75593936 TATTTTTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 13 0.33
29 23 0.59
30 3 0.08
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTTATAATTTTTATTAAAAATTAAATA
Found at i:75596305 original size:22 final size:22
Alignment explanation
Indices: 75596264--75596304 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
75596254 TTGAGAATGA
75596264 ATTGATTCTTTATTACTTTTGG
1 ATTGATTCTTTATTACTTTTGG
*
75596286 ATTGATTCTTT-TTTCTTTT
1 ATTGATTCTTTATTACTTTT
75596305 TTAATTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.15, C:0.10, G:0.10, T:0.66
Consensus pattern (22 bp):
ATTGATTCTTTATTACTTTTGG
Found at i:75606630 original size:2 final size:2
Alignment explanation
Indices: 75606623--75606648 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75606613 CCTGATACCC
75606623 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
75606649 ATTTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:75606696 original size:37 final size:37
Alignment explanation
Indices: 75606650--75606725 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
75606640 ATATATATAA
* *
75606650 TTTATTTTATACAAACATCAACTATTTTATATAATTT
1 TTTATTTTATAAAAACATCAACTATTGTATATAATTT
75606687 TTTATTTTATAAAAACATCAACTATTGTATATAATTT
1 TTTATTTTATAAAAACATCAACTATTGTATATAATTT
75606724 TT
1 TT
75606726 ATATGCTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (37 bp):
TTTATTTTATAAAAACATCAACTATTGTATATAATTT
Found at i:75607382 original size:2 final size:2
Alignment explanation
Indices: 75607375--75607404 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
75607365 TAACATAATG
75607375 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75607405 TTCATTATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75614943 original size:40 final size:40
Alignment explanation
Indices: 75614877--75614971 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
75614867 ACCAGTTCCG
* * *
75614877 TCCAACCCAACACACC--ATGTGGGGATAAAATTGACCCA
1 TCCAACCCTACACACCAAATATGGGGATAAAATCGACCCA
* *
75614915 -CTCATCCCTACACACCAAATATGGGGATAAAATCGATCCA
1 TC-CAACCCTACACACCAAATATGGGGATAAAATCGACCCA
75614955 TCCAACCCTACACACCA
1 TCCAACCCTACACACCA
75614972 TAAAGTACCG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
37 1 0.02
38 12 0.26
40 33 0.70
41 1 0.02
ACGTcount: A:0.37, C:0.35, G:0.12, T:0.17
Consensus pattern (40 bp):
TCCAACCCTACACACCAAATATGGGGATAAAATCGACCCA
Found at i:75617596 original size:80 final size:80
Alignment explanation
Indices: 75617512--75617660 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
75617502 TATGGTAACC
* * * *
75617512 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
75617576 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
75617592 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
75617657 CCGG
66 CCGG
75617661 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:75617602 original size:40 final size:38
Alignment explanation
Indices: 75617553--75617660 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
75617543 ATCACGATTT
*
75617553 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
75617593 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
75617633 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
75617661 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:75625714 original size:80 final size:80
Alignment explanation
Indices: 75625630--75625778 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
75625620 TATGGTAACC
* * * *
75625630 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
75625694 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
75625710 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
75625775 CCGG
66 CCGG
75625779 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:75625720 original size:40 final size:38
Alignment explanation
Indices: 75625671--75625778 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
75625661 ATCACGATTT
*
75625671 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
75625711 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
75625751 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
75625779 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:75633932 original size:77 final size:77
Alignment explanation
Indices: 75633812--75634001 Score: 335
Period size: 77 Copynumber: 2.5 Consensus size: 77
75633802 TATGGTAACC
* *
75633812 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
75633877 CGGTATCATAGCT
65 CGGTATCATAGCT
* *
75633890 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
75633955 GGTATCATAGCT
66 GGTATCATAGCT
75633967 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
75634002 TCGAACATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 90 0.84
78 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (77 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGTATCATAGCT
Found at i:75633934 original size:39 final size:39
Alignment explanation
Indices: 75633812--75634000 Score: 319
Period size: 38 Copynumber: 4.9 Consensus size: 39
75633802 TATGGTAACC
* * * *
75633812 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
75633852 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
75633890 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
75633929 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
75633967 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
75634001 CTCGAACATT
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 74 0.52
39 52 0.36
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:75642099 original size:38 final size:39
Alignment explanation
Indices: 75641951--75642138 Score: 310
Period size: 38 Copynumber: 4.9 Consensus size: 39
75641941 TATGGTAACC
* * * *
75641951 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
75641991 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
75642029 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
75642067 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
75642105 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
75642139 CTCGAACATT
Statistics
Matches: 141, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
37 27 0.19
38 56 0.40
39 41 0.29
40 17 0.12
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:75644331 original size:33 final size:33
Alignment explanation
Indices: 75644289--75644352 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
75644279 CCTCTTTCCC
75644289 TCTTATGATTTTCTTTATTTTGAATATTCTACG
1 TCTTATGATTTTCTTTATTTTGAATATTCTACG
75644322 TCTTATGATTTTCTTTATTTTGAATATTCTA
1 TCTTATGATTTTCTTTATTTTGAATATTCTA
75644353 TCTTTGTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.59
Consensus pattern (33 bp):
TCTTATGATTTTCTTTATTTTGAATATTCTACG
Found at i:75646385 original size:46 final size:47
Alignment explanation
Indices: 75646284--75646408 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 47
75646274 AACCCGCCCC
75646284 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCTAGTTACAT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCTAG-TACAT
* * * *
75646331 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-TCCA-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-ATGC-CTAGTACAT
75646376 TAAGTGAACT-GGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
75646409 TGCTCAACCA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 25 0.37
46 36 0.53
47 2 0.03
48 4 0.06
49 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCTAGTACAT
Found at i:75646870 original size:30 final size:30
Alignment explanation
Indices: 75646836--75646895 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
75646826 ATTTAATATG
75646836 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
75646866 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
75646896 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:75649129 original size:40 final size:40
Alignment explanation
Indices: 75649063--75649229 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
75649053 AAATTGAATG
* * *
75649063 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
75649102 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
75649142 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
75649182 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
75649222 ATATCCGG
1 ATATCCGG
75649230 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:75653666 original size:80 final size:80
Alignment explanation
Indices: 75653582--75653730 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
75653572 TATGGTAACC
* * * *
75653582 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
75653646 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
75653662 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
75653727 CCGG
66 CCGG
75653731 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:75653672 original size:40 final size:38
Alignment explanation
Indices: 75653623--75653730 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
75653613 ATCACGATTT
*
75653623 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
75653663 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
75653703 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
75653731 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:75661783 original size:80 final size:80
Alignment explanation
Indices: 75661699--75661847 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
75661689 TATGGTAACC
* * * *
75661699 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
75661763 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
75661779 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
75661844 CCGG
66 CCGG
75661848 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:75661789 original size:40 final size:38
Alignment explanation
Indices: 75661740--75661847 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
75661730 ATCACGATTT
*
75661740 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
75661780 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
75661820 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
75661848 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:75667444 original size:16 final size:17
Alignment explanation
Indices: 75667409--75667448 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
75667399 TACGTCATTA
*
75667409 TGTGTCTTGTTATTGCT
1 TGTGTCTTGATATTGCT
*
75667426 TGTGTCTT-ATATTGTT
1 TGTGTCTTGATATTGCT
75667442 TGTGTCT
1 TGTGTCT
75667449 AATGTTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.07, C:0.10, G:0.23, T:0.60
Consensus pattern (17 bp):
TGTGTCTTGATATTGCT
Found at i:75669192 original size:18 final size:18
Alignment explanation
Indices: 75669169--75669219 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
75669159 CCTGAGGTAA
75669169 TATGTCTCGAGACAATTG
1 TATGTCTCGAGACAATTG
75669187 TATGTCTCGAGACAATTG
1 TATGTCTCGAGACAATTG
*
75669205 TATGTCTCAAGACAA
1 TATGTCTCGAGACAA
75669220 GTGGCCTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (18 bp):
TATGTCTCGAGACAATTG
Found at i:75670080 original size:3 final size:3
Alignment explanation
Indices: 75670072--75670113 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
75670062 TATTTTGCTA
75670072 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
75670114 TGTATGTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:75673538 original size:23 final size:23
Alignment explanation
Indices: 75673471--75673616 Score: 113
Period size: 23 Copynumber: 6.3 Consensus size: 23
75673461 CAGGTCGTAT
* *
75673471 GAGCTTACTGATATATCAGCTCGTAA
1 GAGCTTACTG-T-T-TCAGCTCATTA
* *
75673497 GAGCTTACTATTTTCAGCTCATTG
1 GAGCTTACT-GTTTCAGCTCATTA
75673521 GAGCTTACTGTTTCAGCT--TGTA
1 GAGCTTACTGTTTCAGCTCAT-TA
* *
75673543 TGAGCTTACTG-TTCATCTCAATA
1 -GAGCTTACTGTTTCAGCTCATTA
* *
75673566 GAGCTTATTG-TTCAACTCGA-TA
1 GAGCTTACTGTTTCAGCTC-ATTA
*
75673588 GAGCTTACCGTTTCAGCTCATTA
1 GAGCTTACTGTTTCAGCTCATTA
75673611 GAGCTT
1 GAGCTT
75673617 CTTGTTCATC
Statistics
Matches: 99, Mismatches: 13, Indels: 19
0.76 0.10 0.15
Matches are distributed among these distances:
21 1 0.01
22 34 0.34
23 36 0.36
24 17 0.17
25 1 0.01
26 10 0.10
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCATTA
Found at i:75673569 original size:22 final size:22
Alignment explanation
Indices: 75673544--75673626 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
75673534 CAGCTTGTAT
75673544 GAGCTTACTGTTCATCTCAATA
1 GAGCTTACTGTTCATCTCAATA
* * *
75673566 GAGCTTATTGTTCAACTCGATA
1 GAGCTTACTGTTCATCTCAATA
* * *
75673588 GAGCTTACCGTTTCAGCTCATTA
1 GAGCTTACTG-TTCATCTCAATA
75673611 GAGCTT-CTTGTTCATC
1 GAGCTTAC-TGTTCATC
75673627 AGCTCAGGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 33 0.67
23 16 0.33
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGCTTACTGTTCATCTCAATA
Found at i:75673613 original size:45 final size:45
Alignment explanation
Indices: 75673490--75673624 Score: 130
Period size: 45 Copynumber: 3.0 Consensus size: 45
75673480 GATATATCAG
* ** * * *
75673490 CTCGTAAGAGCTTACTATTTTCAGCTCATTGGAGCTTACTGTTTCAG
1 CTCGTATGAGCTTAC-CGTTTCAGCTCATTAGAGCTTATTG-TTCAA
* * * *
75673537 CTTGTATGAGCTTACTG-TTCATCTCAATAGAGCTTATTGTTCAA
1 CTCGTATGAGCTTACCGTTTCAGCTCATTAGAGCTTATTGTTCAA
*
75673581 CTCG-ATAGAGCTTACCGTTTCAGCTCATTAGAGCTTCTTGTTCA
1 CTCGTAT-GAGCTTACCGTTTCAGCTCATTAGAGCTTATTGTTCA
75673625 TCAGCTCAGG
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
43 2 0.03
44 16 0.22
45 41 0.57
47 13 0.18
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (45 bp):
CTCGTATGAGCTTACCGTTTCAGCTCATTAGAGCTTATTGTTCAA
Found at i:75675340 original size:20 final size:20
Alignment explanation
Indices: 75675301--75675340 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
75675291 AAACTTCTTC
*
75675301 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTACTCAAAT
* *
75675321 ACTTACTTACTTAGTCAAAT
1 ACTTACTCACTTACTCAAAT
75675341 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTACTCAAAT
Found at i:75678649 original size:46 final size:46
Alignment explanation
Indices: 75678596--75678771 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
75678586 TATTTGGGCA
75678596 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
75678642 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
75678687 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
75678735 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75678772 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 65 0.58
47 28 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:75678751 original size:93 final size:93
Alignment explanation
Indices: 75678592--75678763 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
75678582 GGGATATTTG
* *
75678592 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
75678657 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
75678685 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
75678750 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
75678764 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:75681716 original size:15 final size:15
Alignment explanation
Indices: 75681677--75681746 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
75681667 GTATCTTGGG
*
75681677 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
75681692 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
75681707 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
75681721 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
75681736 TTTCTTTATTC
1 TTTCTTTATTC
75681747 GTTTTCTTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.04
14 9 0.20
15 32 0.71
16 2 0.04
ACGTcount: A:0.11, C:0.19, G:0.13, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:75681740 original size:29 final size:29
Alignment explanation
Indices: 75681668--75681747 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
75681658 CATAGTATCG
* * *
75681668 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATCTCTC
* *
75681698 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATCTCTC
75681727 TATCTTGGATTTCTTTATTCG
1 TATCTTGGATTTCTTTATTCG
75681748 TTTTCTTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 26 0.60
30 17 0.40
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.55
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATCTCTC
Found at i:75684288 original size:46 final size:46
Alignment explanation
Indices: 75684129--75684303 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
75684119 TATTTGGGCA
*
75684129 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
75684175 T-CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
75684219 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
75684267 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
75684304 CGGGTTTCAT
Statistics
Matches: 111, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 27 0.24
46 39 0.35
47 26 0.23
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:75688701 original size:46 final size:46
Alignment explanation
Indices: 75688641--75688841 Score: 269
Period size: 46 Copynumber: 4.4 Consensus size: 46
75688631 TTTGACATGA
* * * * * *
75688641 TGCCATAGTGTCTTTAAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * * * *
75688687 TGCCATGGTATCTTTCAACCATGATCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
75688733 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
75688779 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
75688825 TGCCATGGTATCTTTCA
1 TGCCATGGTATCTTTCA
75688842 GGAGGCAAAC
Statistics
Matches: 140, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 136 0.97
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:75692041 original size:16 final size:16
Alignment explanation
Indices: 75692022--75692052 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75692012 CTTCTTCACT
75692022 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
75692038 TACTTACTTACTTAA
1 TACTCACTTACTTAA
75692053 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:75692058 original size:20 final size:20
Alignment explanation
Indices: 75692019--75692058 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
75692009 AAACTTCTTC
* *
75692019 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
75692039 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
75692059 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:75692300 original size:49 final size:49
Alignment explanation
Indices: 75692243--75692336 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
75692233 ATACACGGGT
* * * *
75692243 AACTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCCTTTGGA
1 AACTTACCATTGCCATGACTCGACATGGTCTTACATGGTATCCTTTGGA
*
75692292 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTT
1 AACTTACCATTGCCATGACTCGACATGGTCTTACATGGTATCCTT
75692337 GCCTTATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (49 bp):
AACTTACCATTGCCATGACTCGACATGGTCTTACATGGTATCCTTTGGA
Found at i:75692374 original size:53 final size:54
Alignment explanation
Indices: 75692243--75692499 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
75692233 ATACACGGGT
* * * * * *
75692243 AACTTACCATTTCCATGACTTGTCATGGTCTTACGTGGTATCC--T--TT-GGA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATGA
* * * *
75692292 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATGA
* * *
75692345 AACTGACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTTCCTTAT-GA
** * * *
75692400 AACTTATGAATGCCATGTCTTGACGTGGTCTTACATGATATCCTTTCCTTA-GA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATGA
*
75692453 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
75692500 AAGCCCTAAT
Statistics
Matches: 169, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 38 0.22
52 2 0.01
53 48 0.28
54 8 0.05
55 71 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATGA
Found at i:75696154 original size:39 final size:39
Alignment explanation
Indices: 75696100--75696290 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
75696090 AATGTTCGAG
75696100 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
75696139 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
75696178 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
75696217 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
75696256 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
75696291 GGTTACCATA
Statistics
Matches: 143, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 126 0.88
40 17 0.12
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:75704171 original size:2 final size:2
Alignment explanation
Indices: 75704164--75704190 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
75704154 CACTAAAAGC
75704164 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
75704191 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:75704195 original size:2 final size:2
Alignment explanation
Indices: 75704190--75704222 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
75704180 ATATATATAT
75704190 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
75704223 CTTAAATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:75706014 original size:7 final size:7
Alignment explanation
Indices: 75706002--75706039 Score: 53
Period size: 6 Copynumber: 5.6 Consensus size: 7
75705992 TTGTTTTTGC
75706002 AAAAAAT
1 AAAAAAT
75706009 AAAAAAT
1 AAAAAAT
75706016 -AAAAAT
1 AAAAAAT
75706022 -AAAAAT
1 AAAAAAT
75706028 AAAAAAAT
1 -AAAAAAT
75706036 AAAA
1 AAAA
75706040 TTCAATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 12 0.41
7 11 0.38
8 6 0.21
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AAAAAAT
Found at i:75706021 original size:13 final size:14
Alignment explanation
Indices: 75706002--75706039 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
75705992 TTGTTTTTGC
75706002 AAAAAATAAAAA-A
1 AAAAAATAAAAATA
*
75706015 TAAAAATAAAAATA
1 AAAAAATAAAAATA
75706029 AAAAAATAAAA
1 AAAAAATAAAA
75706040 TTCAATTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:75711816 original size:19 final size:19
Alignment explanation
Indices: 75711774--75711817 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
75711764 TTTAAATTTA
75711774 TTTATTTAGGTAGATAAAT
1 TTTATTTAGGTAGATAAAT
* *
75711793 CTTATTTAGGTAGATAAGT
1 TTTATTTAGGTAGATAAAT
75711812 TTTATT
1 TTTATT
75711818 CATATTCTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.02, G:0.16, T:0.50
Consensus pattern (19 bp):
TTTATTTAGGTAGATAAAT
Found at i:75711893 original size:42 final size:42
Alignment explanation
Indices: 75711834--75711922 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
75711824 CTAGGAATAT
* *
75711834 TTTTATTTTATCTTTTAGTAGTTTATTAGAACAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
*
75711876 TTTTCTTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
75711918 TTTTC
1 TTTTC
75711923 CCAATTAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
Found at i:75715807 original size:42 final size:42
Alignment explanation
Indices: 75715748--75715836 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
75715738 CTAGGAATAT
* * *
75715748 TTTTATTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
*
75715790 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAATGGAACTA
1 TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
75715832 TTTTC
1 TTTTC
75715837 CCAATTAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTTCTTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTA
Found at i:75724016 original size:21 final size:21
Alignment explanation
Indices: 75723968--75724021 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
75723958 CACCGTTGTT
*
75723968 TCTAATCTCACCACTACAGTA
1 TCTAATCTCACTACTACAGTA
*
75723989 TCCAATCTCACTACTACAGTAA
1 TCTAATCTCACTACTACAGT-A
75724011 T-TAATCTCACT
1 TCTAATCTCACT
75724022 GCCACTGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.31
Consensus pattern (21 bp):
TCTAATCTCACTACTACAGTA
Found at i:75725363 original size:14 final size:14
Alignment explanation
Indices: 75725344--75725371 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
75725334 CATCACTAAC
75725344 GAGGAAGAAATGAG
1 GAGGAAGAAATGAG
75725358 GAGGAAGAAATGAG
1 GAGGAAGAAATGAG
75725372 TCGTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (14 bp):
GAGGAAGAAATGAG
Found at i:75731923 original size:131 final size:131
Alignment explanation
Indices: 75731684--75732241 Score: 648
Period size: 131 Copynumber: 4.3 Consensus size: 131
75731674 ATTGTTTGGA
* * ** *
75731684 AAATCAGCTAACACAAATGAGATTGTTCATGATATTAAATTGAATAAACTTAGGTTGTGATCTTA
1 AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATCAAATAAACTTAAGTTGTGATCTTA
* * * * * *** ** * *
75731749 AATCAATGAACCTTAATGATGTCAACTATGATCTTAAATCAGCGAACTATTTGGAGTAGCGATAG
66 AATTAATGAACCTTAACGATATTAGCTGCAATCTTAAATCAGCGAGTTGTTTGGAGTAGCGATAT
75731814 T
131 T
* * * * * ***
75731815 AAATTAGCTAACTCAAATATGATTGTTGATAATATTAAATCAAATAAACTTAAGCTACAATCTTA
1 AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATCAAATAAACTTAAGTTGTGATCTTA
* * * * ** *
75731880 AATTAGTGAACCTTAACAAAATTAGTTGTGATCTTAAATCAGCGAGTTGTTTGGAGTAGCAATAT
66 AATTAATGAACCTTAACGATATTAGCTGCAATCTTAAATCAGCGAGTTGTTTGGAGTAGCGATAT
75731945 T
131 T
* * * * *
75731946 AAATTAGCTAACTTAAATAAGATTGTTCATGATATTAAATCAAATTAACTTAGGTTGTGGTCTTA
1 AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATCAAATAAACTTAAGTTGTGATCTTA
* * ** * *
75732011 AATTAATGAACCTTAATGATATTAGCTACAATCTTAAATCAATGAGTTGTTTGAAGTAGTGATAT
66 AATTAATGAACCTTAACGATATTAGCTGCAATCTTAAATCAGCGAGTTGTTTGGAGTAGCGATAT
75732076 T
131 T
** *
75732077 AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATTGAATGAACTTAAGTTGTGATCTTA
1 AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATCAAATAAACTTAAGTTGTGATCTTA
* * * * *
75732142 AATCAACGAACCTTAACGATATCAGCTGCAATCTTAAATCAGTGAGTTGTTTGGAGGAGCGATAT
66 AATTAATGAACCTTAACGATATTAGCTGCAATCTTAAATCAGCGAGTTGTTTGGAGTAGCGATAT
75732207 T
131 T
*
75732208 AAATCAGCTAACTCAAATAAGATTATTCATGATA
1 AAATCAGCTAACTCAAATAAGATTGTTCATGATA
75732242 GATAAAGTAA
Statistics
Matches: 358, Mismatches: 69, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
131 358 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (131 bp):
AAATCAGCTAACTCAAATAAGATTGTTCATGATATTAAATCAAATAAACTTAAGTTGTGATCTTA
AATTAATGAACCTTAACGATATTAGCTGCAATCTTAAATCAGCGAGTTGTTTGGAGTAGCGATAT
T
Found at i:75738168 original size:28 final size:28
Alignment explanation
Indices: 75738099--75738199 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
75738089 GACAAGATTG
* * * *
75738099 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
75738129 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
75738157 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
75738186 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
75738200 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:75746125 original size:28 final size:28
Alignment explanation
Indices: 75746056--75746156 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
75746046 GACAAGATTG
* * * *
75746056 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
75746086 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
75746114 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
75746143 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
75746157 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:75747798 original size:41 final size:41
Alignment explanation
Indices: 75747719--75747863 Score: 121
Period size: 41 Copynumber: 3.5 Consensus size: 41
75747709 CACTAAATTG
* ** *
75747719 GCACGAAGCCTACTAGGCTCAAGGCCTGATTTC-ATACACAA
1 GCACGAAGCCTACTAGGCTCAAGG-CTTAAATCGTTACACAA
* **
75747760 GCACGAAGCGTACTAGGCTCAAGGCTTAAATCGTTACACCG
1 GCACGAAGCCTACTAGGCTCAAGGCTTAAATCGTTACACAA
* * * ** * * *
75747801 GTATGAGGTTTTCTAGGCTCAAGGCCTAAATCGTTACACTA
1 GCACGAAGCCTACTAGGCTCAAGGCTTAAATCGTTACACAA
* *
75747842 GCACGAAGCCTACAAGGTTCAA
1 GCACGAAGCCTACTAGGCTCAA
75747864 AACTCGATAC
Statistics
Matches: 79, Mismatches: 24, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
40 5 0.06
41 74 0.94
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (41 bp):
GCACGAAGCCTACTAGGCTCAAGGCTTAAATCGTTACACAA
Found at i:75748206 original size:56 final size:55
Alignment explanation
Indices: 75748102--75748206 Score: 138
Period size: 56 Copynumber: 1.9 Consensus size: 55
75748092 CATGTAACAG
* * **
75748102 TCGATTTAAACATATAAATAATAGATTCAAAAGAAGTAGTATTCCAACATGACAA
1 TCGATTTAAACATATAAAAAATAGATTCAAAAGAAGCAACATTCCAACATGACAA
* * *
75748157 TCGATTTAAATATATAAAAAAATATATTCAAAAGAAGCAACATTTCAACA
1 TCGATTTAAACATAT-AAAAAATAGATTCAAAAGAAGCAACATTCCAACA
75748207 ATTAAGAGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
55 14 0.33
56 28 0.67
ACGTcount: A:0.51, C:0.12, G:0.09, T:0.28
Consensus pattern (55 bp):
TCGATTTAAACATATAAAAAATAGATTCAAAAGAAGCAACATTCCAACATGACAA
Found at i:75749806 original size:8 final size:9
Alignment explanation
Indices: 75749788--75749814 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
75749778 AATCTCTATG
75749788 AAAAATAAA
1 AAAAATAAA
75749797 AAAAATAAA
1 AAAAATAAA
75749806 AAAAATAAA
1 AAAAATAAA
75749815 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:75755433 original size:11 final size:11
Alignment explanation
Indices: 75755417--75755460 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
75755407 GACTATAACA
75755417 TCCATTTCATT
1 TCCATTTCATT
75755428 TCCATTTTCATT
1 TCCA-TTTCATT
75755440 T-CATTCTCATT
1 TCCATT-TCATT
*
75755451 TCAATTTCAT
1 TCCATTTCAT
75755461 CTCATATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.55
12 11 0.38
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (11 bp):
TCCATTTCATT
Found at i:75755450 original size:17 final size:17
Alignment explanation
Indices: 75755419--75755465 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
75755409 CTATAACATC
75755419 CATTTCATT-TCCATTTT
1 CATTTCATTCT-CATTTT
75755436 CATTTCATTCTCA-TTT
1 CATTTCATTCTCATTTT
75755452 CAATTTCA-TCTCAT
1 C-ATTTCATTCTCAT
75755466 ATTGAAATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 9 0.33
17 17 0.63
18 1 0.04
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (17 bp):
CATTTCATTCTCATTTT
Found at i:75757983 original size:40 final size:40
Alignment explanation
Indices: 75757817--75757984 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
75757807 CATTTGAATG
* *
75757817 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATT
* * *
75757857 ATGTCTGGGCTAAGACCCGAAGGC-ATTCATGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAG-TGATT
** * * **
75757897 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATT
* * * * *
75757937 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATT
*
75757977 GTATCCGG
1 ATATCCGG
75757985 TTAAATCCCG
Statistics
Matches: 100, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 3 0.03
40 93 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGTGATT
Found at i:75761566 original size:17 final size:18
Alignment explanation
Indices: 75761532--75761566 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
75761522 ATCAGAGGGG
*
75761532 TATCAATATCTTATAAAA
1 TATCAATATCTTAGAAAA
75761550 TATCAATA-CTTAGAAAA
1 TATCAATATCTTAGAAAA
75761567 AAAGTATCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (18 bp):
TATCAATATCTTAGAAAA
Found at i:75762819 original size:6 final size:6
Alignment explanation
Indices: 75762808--75762842 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
75762798 AGGTTTCCAA
75762808 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
75762843 ATCCATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:75765580 original size:20 final size:20
Alignment explanation
Indices: 75765555--75765594 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
75765545 TGAAAGGTGT
75765555 TAGCATGAAAATACTTAGAA
1 TAGCATGAAAATACTTAGAA
75765575 TAGCATGAAAATACTTAGAA
1 TAGCATGAAAATACTTAGAA
75765595 GGACTAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (20 bp):
TAGCATGAAAATACTTAGAA
Found at i:75765772 original size:30 final size:30
Alignment explanation
Indices: 75765731--75765787 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
75765721 TTTTTGGGCC
* *
75765731 TAGGGGTAAAATGGTCATTTTATCAAAATT
1 TAGGGGCAAAATGGTCATTTTACCAAAATT
75765761 TAGGGGCAAAATGGTCATTTTACCAAA
1 TAGGGGCAAAATGGTCATTTTACCAAA
75765788 GATGCAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAATT
Found at i:75773292 original size:42 final size:42
Alignment explanation
Indices: 75773184--75773302 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
75773174 CATACCAATG
* ** *
75773184 CCATATCCCATATATGGTCTTACATGGGATCTTATATCGATA
1 CCATATCCCAGATATGGTCTTACATGAAATCTCATATCGATA
* * * *
75773226 CCAATAGCCCAGCTATGGTCTTACATGAAATCTCGTATCGATT
1 CC-ATATCCCAGATATGGTCTTACATGAAATCTCATATCGATA
* *
75773269 CCATATCCCAGATATGGTCTTACACGTAATCTCA
1 CCATATCCCAGATATGGTCTTACATGAAATCTCA
75773303 ACTAACCCTA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACATGAAATCTCATATCGATA
Found at i:75783531 original size:89 final size:89
Alignment explanation
Indices: 75783375--75783560 Score: 354
Period size: 89 Copynumber: 2.1 Consensus size: 89
75783365 TGTCGACATA
*
75783375 ATTGACTCATTAGTAGAAGAAACTTTTAAGTCATCTTATGGAGATAAATCTAAAATGATGTTTGA
1 ATTGGCTCATTAGTAGAAGAAACTTTTAAGTCATCTTATGGAGATAAATCTAAAATGATGTTTGA
75783440 TGATTTTGAATCTATTAATGAATT
66 TGATTTTGAATCTATTAATGAATT
75783464 ATTGGCTCATTAGTAGAAGAAACTTTTAAGTCATCTTATGGAGATAAATCTAAAATGATGTTTGA
1 ATTGGCTCATTAGTAGAAGAAACTTTTAAGTCATCTTATGGAGATAAATCTAAAATGATGTTTGA
*
75783529 TGATTTTGAATCTGTTAATGAATT
66 TGATTTTGAATCTATTAATGAATT
75783553 ATTGGCTC
1 ATTGGCTC
75783561 CTATGGATAC
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 95 1.00
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (89 bp):
ATTGGCTCATTAGTAGAAGAAACTTTTAAGTCATCTTATGGAGATAAATCTAAAATGATGTTTGA
TGATTTTGAATCTATTAATGAATT
Found at i:75783948 original size:25 final size:24
Alignment explanation
Indices: 75783902--75783950 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
75783892 CGTAACGTAA
*
75783902 ATTTTTTATTTTTTACTCTATTTT
1 ATTTTTTATTTATTACTCTATTTT
* *
75783926 ATTTTATTATTTATTATTTTATTTT
1 ATTTT-TTATTTATTACTCTATTTT
75783951 GTTTGGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (24 bp):
ATTTTTTATTTATTACTCTATTTT
Found at i:75785113 original size:99 final size:98
Alignment explanation
Indices: 75784942--75785230 Score: 404
Period size: 99 Copynumber: 2.9 Consensus size: 98
75784932 TAAGAATGTG
* * * *
75784942 TTGGGCTGAGTAACCGAGGTGAGGTGCTTGGCTATCATCTCTCTTTGCGTCAAAAGGTTTGATAT
1 TTGGGCTGAGTAACGGA-GTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATAT
75785007 ATTCTTAAGAAAAATATAATAAATTAGGAGTATA
65 ATTCTTAAGAAAAATATAATAAATTAGGAGTATA
* *
75785041 TTGGGCTGAGCAATCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGACAT
1 TTGGGCTGAGTAA-CGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATAT
*
75785106 ATTCTTAAGAAAAATATAATAAATTAGGAGTATC
65 ATTCTTAAGAAAAATATAATAAATTAGGAGTATA
* *
75785140 TTGGGCTGAGTAACCGTG-GTG-GGATGCTTGGCTGTCATCTCTCTTCGCGTCAAAAAGTTCAAT
1 TTGGGCTGAGTAA-CG-GAGTGAGG-TGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGAT
* *
75785203 TTATTCTTAAGCAAAAATA-GATAAATTA
63 ATATTCTTAAG-AAAAATATAATAAATTA
75785231 ATTAATTAAA
Statistics
Matches: 172, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
98 2 0.01
99 159 0.92
100 11 0.06
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (98 bp):
TTGGGCTGAGTAACGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCGATATA
TTCTTAAGAAAAATATAATAAATTAGGAGTATA
Found at i:75787166 original size:24 final size:24
Alignment explanation
Indices: 75787134--75787192 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
75787124 CTGAGCTAAT
*
75787134 AAACAGTAAGGTCCATTGAACTGA
1 AAACAGTAAGCTCCATTGAACTGA
* * *
75787158 AAACGGTAAGCTCTATTGAGCTG-
1 AAACAGTAAGCTCCATTGAACTGA
75787181 -AACAGTAAGCTC
1 AAACAGTAAGCTC
75787193 TTTCAAGCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
22 11 0.37
24 19 0.63
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (24 bp):
AAACAGTAAGCTCCATTGAACTGA
Found at i:75787246 original size:23 final size:23
Alignment explanation
Indices: 75787158--75787248 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
75787148 ATTGAACTGA
* *
75787158 AAACGGTAAGCTC-TATTGAGCTG
1 AAACAGTAAGCTCTTA-CGAGCTG
* *
75787181 -AACAGTAAGCTCTTTCAAGCTG
1 AAACAGTAAGCTCTTACGAGCTG
* * * *
75787203 AATCGGTAAGCTCTAATGAGCTG
1 AAACAGTAAGCTCTTACGAGCTG
75787226 AAACAGTAAGCTCTTACGAGCTG
1 AAACAGTAAGCTCTTACGAGCTG
75787249 TGGTGAGTCT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
22 16 0.31
23 36 0.69
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (23 bp):
AAACAGTAAGCTCTTACGAGCTG
Found at i:75787248 original size:46 final size:45
Alignment explanation
Indices: 75787161--75787248 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 45
75787151 GAACTGAAAA
* *
75787161 CGGTAAGCTCTATTGAGCTGAACAGTAAGCTCTTTCAAGCTGAAT
1 CGGTAAGCTCTAATGAGCTGAACAGTAAGCTCTTACAAGCTGAAT
*
75787206 CGGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTTACGAGCTG
1 CGGTAAGCTCTAATGAGCTG-AACAGTAAGCTCTTACAAGCTG
75787249 TGGTGAGTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 19 0.49
46 20 0.51
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
CGGTAAGCTCTAATGAGCTGAACAGTAAGCTCTTACAAGCTGAAT
Found at i:75794895 original size:24 final size:24
Alignment explanation
Indices: 75794825--75794941 Score: 80
Period size: 24 Copynumber: 4.9 Consensus size: 24
75794815 AGTCATGGTT
* *
75794825 GGTAAGCTCCTCTTGAGCTGATAAAT
1 GGTAAGCT-CTATTGAGCTGA-AAAC
* * *
75794851 AGTAAGCTCTATTAAACTGAAAAC
1 GGTAAGCTCTATTGAGCTGAAAAC
*
75794875 GGTAAGCTCTATTGAGTTG--AAC
1 GGTAAGCTCTATTGAGCTGAAAAC
* *
75794897 AGTAAGCTCT-TTCGAGCT-AAATC
1 GGTAAGCTCTATT-GAGCTGAAAAC
* * *
75794920 GATAAGCTCCAATGAGCTGAAA
1 GGTAAGCTCTATTGAGCTGAAA
75794942 TAGTAAGCTC
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
21 2 0.03
22 16 0.23
23 14 0.20
24 22 0.31
25 9 0.13
26 7 0.10
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (24 bp):
GGTAAGCTCTATTGAGCTGAAAAC
Found at i:75794959 original size:23 final size:23
Alignment explanation
Indices: 75794897--75794961 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
75794887 TGAGTTGAAC
*
75794897 AGTAAGCTCTTTCGAGCT-AAAT
1 AGTAAGCTCTTACGAGCTGAAAT
* ** *
75794919 CGATAAGCTCCAATGAGCTGAAAT
1 AG-TAAGCTCTTACGAGCTGAAAT
75794943 AGTAAGCTCTTACGAGCTG
1 AGTAAGCTCTTACGAGCTG
75794962 TGGTGAGTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
22 1 0.03
23 26 0.81
24 5 0.16
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (23 bp):
AGTAAGCTCTTACGAGCTGAAAT
Found at i:75796583 original size:26 final size:26
Alignment explanation
Indices: 75796544--75796616 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
75796534 TATTTTCTTG
* *
75796544 AAATTTTACTAGGGGCAAAATCGTTA
1 AAATTTTACTAGGGGTAAAATCGTCA
*
75796570 AAATTTTACCAGGGGTAAAATCGTCA
1 AAATTTTACTAGGGGTAAAATCGTCA
75796596 AAATTTTACTAGGGGTAAAAT
1 AAATTTTACTAGGGGTAAAAT
75796617 GGAGATGAGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCGTCA
Found at i:75799673 original size:10 final size:10
Alignment explanation
Indices: 75799658--75799700 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
75799648 TAATTCACCA
75799658 ACCAAATCAT
1 ACCAAATCAT
*
75799668 ACCAAATCTAA
1 ACCAAATC-AT
75799679 ACCAAAATCAT
1 ACC-AAATCAT
*
75799690 ACCAAAGCAT
1 ACCAAATCAT
75799700 A
1 A
75799701 TGTTTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:75800486 original size:43 final size:42
Alignment explanation
Indices: 75800428--75800510 Score: 121
Period size: 43 Copynumber: 2.0 Consensus size: 42
75800418 CAATGCCAAC
* * *
75800428 GTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCATT
1 GTCCCAAACAAGGTCTTACATGAAATCAAATA-CGATGCCATT
*
75800471 GTCCCAAACAAGGTCTTACATGAAATTAAATACGATGCCA
1 GTCCCAAACAAGGTCTTACATGAAATCAAATACGATGCCA
75800511 ACGTCCAGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 8 0.22
43 28 0.78
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (42 bp):
GTCCCAAACAAGGTCTTACATGAAATCAAATACGATGCCATT
Found at i:75800560 original size:85 final size:85
Alignment explanation
Indices: 75800420--75800575 Score: 192
Period size: 85 Copynumber: 1.8 Consensus size: 85
75800410 ATCTCGTACA
* * **
75800420 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCATTGTCCCAAACAAGGT
1 ATGCCAACGTCCCAGACATAGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAAACAAGGT
75800485 CTTACATGAAATTAAATACG
66 CTTACATGAAATTAAATACG
* * **
75800505 ATGCCAACGT-CCAGACGTAGTCTTACACGTAAATCATAAGT-T-GATGCCAACGTCCCAGACGT
1 ATGCCAACGTCCCAGACATAGTCTTACACGT-AATCA-AA-TATCGATGCCAACGTCCCAAACAA
75800567 GGTCTTACA
63 GGTCTTACA
75800576 CGATCACACA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 17 0.28
85 39 0.65
86 3 0.05
87 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATAGTCTTACACGTAATCAAATATCGATGCCAACGTCCCAAACAAGGT
CTTACATGAAATTAAATACG
Found at i:75801652 original size:2 final size:2
Alignment explanation
Indices: 75801645--75801685 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
75801635 TTCTGAGATC
75801645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
75801686 ACAACCTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:75806441 original size:12 final size:13
Alignment explanation
Indices: 75806419--75806448 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
75806409 AAATTTAGAA
75806419 TTTAGTTTTTATT
1 TTTAGTTTTTATT
75806432 TTTA-TTTTTATT
1 TTTAGTTTTTATT
75806444 TTTAG
1 TTTAG
75806449 AAAATTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTAGTTTTTATT
Found at i:75811268 original size:2 final size:2
Alignment explanation
Indices: 75811211--75811251 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
75811201 TTTTAACGAT
75811211 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75811252 CGCTAGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:75815523 original size:35 final size:35
Alignment explanation
Indices: 75815477--75815545 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
75815467 GATGATGAGC
75815477 TAGTTGCCCCAGTTACTGATAAGAAGAATGGATAT
1 TAGTTGCCCCAGTTACTGATAAGAAGAATGGATAT
* **
75815512 TAGTTGTCCCAGTTGTTGATAAGAAGAATGGATA
1 TAGTTGCCCCAGTTACTGATAAGAAGAATGGATA
75815546 AGGGAAAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
TAGTTGCCCCAGTTACTGATAAGAAGAATGGATAT
Found at i:75822083 original size:45 final size:43
Alignment explanation
Indices: 75821975--75822323 Score: 281
Period size: 45 Copynumber: 7.9 Consensus size: 43
75821965 TACGCAAACT
* * ** * *
75821975 TTATCTCTCTGAAGTTGCAGTAGAGTGGGTTGAAGAAACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACAA-TC
*
75822019 TTATCTCCCTAGAA-TTGCAGTGGAGTAGATTGAAGATAACAGATC
1 TTATCTCCCT-GAAGTTGCAGTGGAGCAGATTGAAG-TAACA-ATC
* * * **
75822064 TTGTCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGCCACAATCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACAAT-C
* * * * *
75822108 TTATCTCTCTGAAGTTGTAGTAGAGCAGGA-TGACATTACCCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGA-AGTA-ACAA-TC
* *
75822154 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTAGCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TAACA-ATC
* *
75822199 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTCACAATCC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACAAT-C
* * ** * *
75822243 TTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGTA-ACAATC
* * *
75822288 GTATCTCCATGAAGTTGCAGTGGAGCAG-TTGCAGTA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTA
75822324 GAGCAGATTA
Statistics
Matches: 245, Mismatches: 45, Indels: 31
0.76 0.14 0.10
Matches are distributed among these distances:
43 8 0.03
44 87 0.36
45 110 0.45
46 39 0.16
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTAACAATC
Found at i:75822172 original size:135 final size:135
Alignment explanation
Indices: 75821975--75822315 Score: 465
Period size: 135 Copynumber: 2.5 Consensus size: 135
75821965 TACGCAAACT
** * * *
75821975 TTATCTCTCTGAAGTTGCAGTAGAGTGGGTTGAAGA-A-ACAAGTCTTATCTCCCTAGAA-TTGC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAGTCTTATCTCCCT-GAAGTTGC
* * * *
75822037 AGTGGAGTAGATTGAAGATAACAGATCTTGTCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGCCA
65 AGTGGAGCAGACTGAAGATAACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCA
75822102 CAATCC
130 CAATCC
* * * * *
75822108 TTATCTCTCTGAAGTTGTAGTAGAGCAGGATGACATTACCCAAGTCTTATCTCCCTGAAGTTGCA
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAGTCTTATCTCCCTGAAGTTGCA
* * *
75822173 GTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGTCAC
66 GTGGAGCAGACTGAAGATAACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCAC
75822238 AATCC
131 AATCC
* * *
75822243 TTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAA-CCGTATCTCCATGAAGTTGCA
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAGTCTTATCTCCCTGAAGTTGCA
75822307 GTGGAGCAG
66 GTGGAGCAG
75822316 TTGCAGTAGA
Statistics
Matches: 182, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
133 29 0.16
134 31 0.17
135 122 0.67
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (135 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACTGAAGATAACAGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCAC
AATCC
Found at i:75822269 original size:89 final size:83
Alignment explanation
Indices: 75821975--75822315 Score: 252
Period size: 89 Copynumber: 3.8 Consensus size: 83
75821965 TACGCAAACT
* ** *
75821975 TTATCTCTCTGAAGTTGCAGTAGAGTGGGTTGAAGAAACAAGTCTTATCTCCCTAGAA-TTGCAG
1 TTATCTCCCTGAAGTTGCAGTAGAG-CAGATGAAG-AACAA-TCTTATCTCCCT-GAAGTTGCAG
* *
75822039 TGGAGTAGATTGAAGATAACAGATC
62 TGGAGCAGA-TGAAG-TCACA-ATC
* * * * * *
75822064 TTGTCTCCCTGAGGTTGCAGTGGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGTAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGAT-GAAG-AACAAT-CTTATCTCCCTGAAGTTGCAGT
* * *
75822129 AGAGCAGGATGACATTACCCAAGTC
63 GGAGCA-GATGA-AGT-CACAA-TC
* *
75822154 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGTTAGCAGATCTTATCTCCCTGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGA-TGAAG--AACA-ATCTTATCTCCCTGAAGTTGCAG
75822219 TGGAGCAGATCGAAGTCACAATCC
62 TGGAGCAGAT-GAAGTCACAAT-C
* * * * * *
75822243 TTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATACACAACCGTATCTCCATGAAGTTGCAG
1 TTATCTCCCTGAAGTTGCAGTAGAGCA-GAT--GAAGA-ACAATCTTATCTCCCTGAAGTTGCAG
75822308 TGGAGCAG
62 TGGAGCAG
75822316 TTGCAGTAGA
Statistics
Matches: 202, Mismatches: 34, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
88 7 0.03
89 114 0.56
90 47 0.23
91 32 0.16
92 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (83 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGATGAAGAACAATCTTATCTCCCTGAAGTTGCAGTGGA
GCAGATGAAGTCACAATC
Found at i:75822319 original size:14 final size:14
Alignment explanation
Indices: 75822300--75822329 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
75822290 ATCTCCATGA
*
75822300 AGTTGCAGTGGAGC
1 AGTTGCAGTAGAGC
75822314 AGTTGCAGTAGAGC
1 AGTTGCAGTAGAGC
75822328 AG
1 AG
75822330 ATTAAAAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.40, T:0.20
Consensus pattern (14 bp):
AGTTGCAGTAGAGC
Found at i:75824527 original size:2 final size:2
Alignment explanation
Indices: 75824478--75824510 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
75824468 TTTTAACGAT
75824478 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75824511 CCCTAGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75826667 original size:21 final size:21
Alignment explanation
Indices: 75826643--75826695 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
75826633 AAAAATAAAA
75826643 AATATATAAAAATATTATTAT
1 AATATATAAAAATATTATTAT
* * *
75826664 AATA-ATAATATATTTTATTTT
1 AATATATAA-AAATATTATTAT
75826685 AA-ATATAAAAA
1 AATATATAAAAA
75826696 GATATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATATAAAAATATTATTAT
Found at i:75835505 original size:7 final size:7
Alignment explanation
Indices: 75835495--75835535 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
75835485 ATCCAATATC
75835495 CACATTT
1 CACATTT
75835502 CACATTT
1 CACATTT
*
75835509 AACATTT
1 CACATTT
75835516 CACATTT
1 CACATTT
75835523 CACATTT
1 CACATTT
75835530 CACATT
1 CACATT
75835536 AATCACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.41
Consensus pattern (7 bp):
CACATTT
Found at i:75836244 original size:22 final size:22
Alignment explanation
Indices: 75836217--75836287 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
75836207 TAATTTCTCC
75836217 TTTCTTTCTTTCTCTTTCTCTT
1 TTTCTTTCTTTCTCTTTCTCTT
* *
75836239 TTTCTTTCTTTCCCTTTCTGTT
1 TTTCTTTCTTTCTCTTTCTCTT
** *
75836261 TTAGTTTCTATCTCTGTT-TCTT
1 TTTCTTTCTTTCTCT-TTCTCTT
75836283 TTTCT
1 TTTCT
75836288 ATTTATTTGT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
22 37 0.95
23 2 0.05
ACGTcount: A:0.03, C:0.24, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTTTCTCTT
Found at i:75836331 original size:3 final size:3
Alignment explanation
Indices: 75836323--75836388 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
75836313 TATCATTTAC
75836323 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
75836370 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
75836389 ATACTTAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:75836444 original size:19 final size:20
Alignment explanation
Indices: 75836407--75836456 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
75836397 ATATTAGGTA
*
75836407 ATACATAT-TTTATTAATTT
1 ATACATATGTATATTAATTT
75836426 ATACATATGTATATT-ATTT
1 ATACATATGTATATTAATTT
* *
75836445 TTACACATGTAT
1 ATACATATGTAT
75836457 TTACTATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.52
Consensus pattern (20 bp):
ATACATATGTATATTAATTT
Found at i:75837803 original size:16 final size:16
Alignment explanation
Indices: 75837782--75837812 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
75837772 GCCAAAAAGT
75837782 GTTTCTGAGGTATAAA
1 GTTTCTGAGGTATAAA
*
75837798 GTTTCTTAGGTATAA
1 GTTTCTGAGGTATAA
75837813 CTGGTTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (16 bp):
GTTTCTGAGGTATAAA
Found at i:75839269 original size:21 final size:21
Alignment explanation
Indices: 75839221--75839270 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
75839211 CAGCTAAAGC
* *
75839221 CACATGAAAAGAATTACCTGA
1 CACATGATAAGAATTACCCGA
*
75839242 CACATGATAAGAATTACCCGG
1 CACATGATAAGAATTACCCGA
*
75839263 CATATGAT
1 CACATGAT
75839271 CTTGAATTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (21 bp):
CACATGATAAGAATTACCCGA
Found at i:75848170 original size:21 final size:21
Alignment explanation
Indices: 75848137--75848177 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
75848127 ATATTTTAAA
75848137 ATAAAAAACTAAAAATTGACT
1 ATAAAAAACTAAAAATTGACT
*
75848158 ATAATAAAA-TAAAATTTGAC
1 ATAA-AAAACTAAAAATTGAC
75848178 AAAATAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.27
Consensus pattern (21 bp):
ATAAAAAACTAAAAATTGACT
Found at i:75848183 original size:20 final size:22
Alignment explanation
Indices: 75848141--75848184 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
75848131 TTTAAAATAA
*
75848141 AAAACTAAAAATTGACTATAAT
1 AAAACTAAAAATTGACTAAAAT
*
75848163 AAAA-TAAAATTTGAC-AAAAT
1 AAAACTAAAAATTGACTAAAAT
75848183 AA
1 AA
75848185 TTTTAAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 10 0.50
22 4 0.20
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAACTAAAAATTGACTAAAAT
Found at i:75852370 original size:29 final size:29
Alignment explanation
Indices: 75852328--75852391 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
75852318 AAATTAGCGC
75852328 GCTTATCGTTGTAAAATTTGCAATTCGGT
1 GCTTATCGTTGTAAAATTTGCAATTCGGT
75852357 GCTTATCGTTGTAAAATTTGCAATTCGGT
1 GCTTATCGTTGTAAAATTTGCAATTCGGT
75852386 GCTTAT
1 GCTTAT
75852392 AGATATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.42
Consensus pattern (29 bp):
GCTTATCGTTGTAAAATTTGCAATTCGGT
Found at i:75852426 original size:28 final size:28
Alignment explanation
Indices: 75852328--75852426 Score: 99
Period size: 29 Copynumber: 3.5 Consensus size: 28
75852318 AAATTAGCGC
* *
75852328 GCTTATCGTTGTAAAATTTGCAATTCGGT
1 GCTTATCGTTAT-TAATTTGCAATTCGGT
* *
75852357 GCTTATCGTTGTAAAATTTGCAATTCGGT
1 GCTTATCGTTAT-TAATTTGCAATTCGGT
* * * * *
75852386 GCTTATAGATATTATTTTGCACTTCAGT
1 GCTTATCGTTATTAATTTGCAATTCGGT
75852414 GCTTATCGTTATT
1 GCTTATCGTTATT
75852427 TGCACCATGT
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 23 0.38
29 38 0.62
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.44
Consensus pattern (28 bp):
GCTTATCGTTATTAATTTGCAATTCGGT
Found at i:75855226 original size:19 final size:19
Alignment explanation
Indices: 75855189--75855227 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
75855179 CTTAATGTTC
75855189 ATATGATATAAAAAGATGA
1 ATATGATATAAAAAGATGA
*
75855208 ATATGCATATACAAA-ATGA
1 ATATG-ATATAAAAAGATGA
75855227 A
1 A
75855228 AATGGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (19 bp):
ATATGATATAAAAAGATGA
Found at i:75858113 original size:28 final size:28
Alignment explanation
Indices: 75858029--75858113 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
75858019 AGGTATTACA
* *
75858029 ATTTTGCACTTCAGTGCTTATCATTGTAA
1 ATTTTGCACTTCAGTGCTTATCATTAT-T
* * * *
75858058 AATTTGCACTTCGGTGTTTATTGA-TATT
1 ATTTTGCACTTCAGTGCTTA-TCATTATT
75858086 ATTTTGCACTTCAGTGCTTATCATTATT
1 ATTTTGCACTTCAGTGCTTATCATTATT
75858114 TGCACCATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.05
28 21 0.48
29 19 0.43
30 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.14, T:0.48
Consensus pattern (28 bp):
ATTTTGCACTTCAGTGCTTATCATTATT
Found at i:75860933 original size:46 final size:46
Alignment explanation
Indices: 75860823--75860994 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
75860813 GTCGGATGTT
* *
75860823 GATGCCATGTCCCAGACATGGTCTTACATTGGC-TCATCTCATAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCA-AGTC
* * *
75860869 GATG-TATGTCCCAGACAT-GTCTTACATTGGCTTACATATCAAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCAA-GTC
* * *
75860915 GATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCATCTCAATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TCATCTCAA-GTC
75860961 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
75860995 CACAATAACC
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
44 13 0.12
45 15 0.14
46 53 0.49
47 14 0.13
48 13 0.12
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCAAGTC
Found at i:75867339 original size:2 final size:2
Alignment explanation
Indices: 75867332--75867360 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
75867322 CTAATTGGGT
75867332 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75867361 TTAGGTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:75867715 original size:17 final size:17
Alignment explanation
Indices: 75867695--75867729 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
75867685 ATAATACAGT
75867695 ATCAAATTCAATATCAA
1 ATCAAATTCAATATCAA
* *
75867712 ATCACATTCAATTTCAA
1 ATCAAATTCAATATCAA
75867729 A
1 A
75867730 GTCATACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (17 bp):
ATCAAATTCAATATCAA
Found at i:75874472 original size:38 final size:39
Alignment explanation
Indices: 75874419--75874499 Score: 128
Period size: 41 Copynumber: 2.1 Consensus size: 39
75874409 GGAATTTTAA
*
75874419 ATGACCATA-GTTTTTTTTTAATGACTTCTCACCCGCAT
1 ATGACCATAGGTTTTTTTTTAATGACTTCTCACCCACAT
75874457 ATGACCATAGGTTTTTTTTTTTAATGACTTCTCACCCACAT
1 ATGACCATAGG--TTTTTTTTTAATGACTTCTCACCCACAT
75874498 AT
1 AT
75874500 CAAGGCTTCG
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
38 9 0.23
39 1 0.03
41 29 0.74
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (39 bp):
ATGACCATAGGTTTTTTTTTAATGACTTCTCACCCACAT
Found at i:75882634 original size:17 final size:17
Alignment explanation
Indices: 75882612--75882654 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
75882602 CAGTATAATG
*
75882612 GGCCCACATACCCATGT
1 GGCCCACACACCCATGT
*
75882629 GGCCCACACACCCGTGT
1 GGCCCACACACCCATGT
*
75882646 GGTCCACAC
1 GGCCCACAC
75882655 GTCCAGATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.21, C:0.44, G:0.21, T:0.14
Consensus pattern (17 bp):
GGCCCACACACCCATGT
Found at i:75883627 original size:71 final size:71
Alignment explanation
Indices: 75883544--75883707 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
75883534 GAGATGTATC
*
75883544 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCATGATTCCAAGTGA
75883609 AAGACA
66 AAGACA
75883615 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCATGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCATGATTCCAAGTGA
*
75883680 AGGACA
66 AAGACA
75883686 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
75883708 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCATGATTCCAAGTGA
AAGACA
Found at i:75889728 original size:38 final size:37
Alignment explanation
Indices: 75889648--75889751 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 37
75889638 CACCTGTTCG
* *
75889648 TATTTTTTAAAATATGTTTTCAAAATTTATCAGTTTC
1 TATTTTTTAAAATATGTTTTCAAAATTTATCACTCTC
* * *
75889685 TATTTTTTTAAAT-TGTTTTCCAAAATTTTTCACTCTG
1 TATTTTTTAAAATATGTTTT-CAAAATTTATCACTCTC
*
75889722 TAATTTTTTAAAAATAT-TGATTCAAAATTT
1 T-ATTTTTT-AAAATATGT-TTTCAAAATTT
75889752 TTTAGATAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
36 6 0.11
37 26 0.47
38 7 0.13
39 13 0.24
40 3 0.05
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.54
Consensus pattern (37 bp):
TATTTTTTAAAATATGTTTTCAAAATTTATCACTCTC
Done.