Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 149 of 325
Found at i:47889004 original size:12 final size:10
Alignment explanation
Indices: 47888979--47889026 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 10
47888969 TAAAGAAGAT
47888979 AAATAAAGATA
1 AAATAAA-ATA
47888990 AAATTGAAAATAA
1 AAA-T-AAAAT-A
47889003 AAATAAAAATA
1 AAAT-AAAATA
47889014 AAATAAAATA
1 AAATAAAATA
47889024 AAA
1 AAA
47889027 AAAGTCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.27
11 8 0.24
12 9 0.27
13 7 0.21
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (10 bp):
AAATAAAATA
Found at i:47889005 original size:6 final size:6
Alignment explanation
Indices: 47888979--47889027 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
47888969 TAAAGAAGAT
* * *
47888979 AAATAA AGATAA AATTGA AAATAA AAATAA AAAT-A AAAT-A AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
47889025 AAA
1 AAA
47889028 AAGTCTTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:47889028 original size:17 final size:17
Alignment explanation
Indices: 47888979--47889027 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
47888969 TAAAGAAGAT
* *
47888979 AAATAAAGATAAAATTGA
1 AAATAAAAATAAAAAT-A
47888997 AAATAAAAATAAAAATA
1 AAATAAAAATAAAAATA
47889014 AAAT-AAAATAAAAA
1 AAATAAAAATAAAAA
47889028 AAGTCTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.34
17 5 0.17
18 14 0.48
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
AAATAAAAATAAAAATA
Found at i:47889029 original size:24 final size:24
Alignment explanation
Indices: 47888979--47889027 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
47888969 TAAAGAAGAT
*
47888979 AAATAAAGATAAAATTGAAAATAA
1 AAATAAAAATAAAATTGAAAATAA
47889003 AAATAAAAATAAAA-T-AAAATAA
1 AAATAAAAATAAAATTGAAAATAA
47889025 AAA
1 AAA
47889028 AAGTCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 10 0.42
23 1 0.04
24 13 0.54
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (24 bp):
AAATAAAAATAAAATTGAAAATAA
Found at i:47903640 original size:27 final size:27
Alignment explanation
Indices: 47903598--47903705 Score: 144
Period size: 27 Copynumber: 4.0 Consensus size: 27
47903588 AATCTCATAT
* *
47903598 CTATAGGCTAGTATTACTAAAATACCC
1 CTATAGGGTAGAATTACTAAAATACCC
* *
47903625 CTATAGGGTAGAATTACTGAAATGCCC
1 CTATAGGGTAGAATTACTAAAATACCC
* * *
47903652 TTGTAGGATAGAATTACTAAAATACCC
1 CTATAGGGTAGAATTACTAAAATACCC
*
47903679 CTATAGGGTAGAATTACTGAAATACCC
1 CTATAGGGTAGAATTACTAAAATACCC
47903706 TTGGTTACAA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (27 bp):
CTATAGGGTAGAATTACTAAAATACCC
Found at i:47903692 original size:54 final size:54
Alignment explanation
Indices: 47903601--47903708 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
47903591 CTCATATCTA
* * *
47903601 TAGGCTAGTATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATGCCCTTG
1 TAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTG
47903655 TAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTG
1 TAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTG
47903709 GTTACAAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (54 bp):
TAGGATAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTG
Found at i:47903734 original size:25 final size:27
Alignment explanation
Indices: 47903690--47903758 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 27
47903680 TATAGGGTAG
*
47903690 AATTACTGAAATACCCTTGG-TTACAA
1 AATTACTGAAATACACTTGGTTTACAA
*
47903716 AATTACTG-AATACATTTGGTTTACAA
1 AATTACTGAAATACACTTGGTTTACAA
**
47903742 AATTACCAAAATACACT
1 AATTACTGAAATACACT
47903759 CGATTAGCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.25
26 20 0.56
27 7 0.19
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTGAAATACACTTGGTTTACAA
Found at i:47903799 original size:54 final size:55
Alignment explanation
Indices: 47903740--47904026 Score: 259
Period size: 54 Copynumber: 5.3 Consensus size: 55
47903730 TTTGGTTTAC
* *
47903740 AAAATTACCAAAATACACTCGATTAGCAAAATTACCAAAATACCCCTAG-TTTGT
1 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAGATTTGT
* *
47903794 AAAATTACCAAAATACCC-CTGATTTA-TGAAATTACCAAAATACTCCTA-ATTTGT
1 AAAATTACCAAAATACCCTC-GA-TTAGTAAAATTACCAAAATACCCCTAGATTTGT
* * * * * * * *
47903848 GAAATTATCGAAATACCCTCAACCTA-TAAAATTACCGAAATA-CCCTTGACTTGT
1 AAAATTACCAAAATACCCTCGA-TTAGTAAAATTACCAAAATACCCCTAGATTTGT
* * * *
47903902 AAAATTACCAAATTACCCTTGATTTGTAAAATTACCAAAATACCCCT-GATTTGG
1 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAGATTTGT
* * * * * * **
47903956 GAAATTATCAAAATACCCTTGATTTGGAAAATTACAAAAATACCCCT-GATTTAC
1 AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAGATTTGT
47904010 AAAATTA-CAGAAATACC
1 AAAATTACCA-AAATACC
47904027 TTTAACTTTA
Statistics
Matches: 191, Mismatches: 34, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
53 7 0.04
54 176 0.92
55 8 0.04
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.29
Consensus pattern (55 bp):
AAAATTACCAAAATACCCTCGATTAGTAAAATTACCAAAATACCCCTAGATTTGT
Found at i:47903883 original size:108 final size:108
Alignment explanation
Indices: 47903767--47903974 Score: 301
Period size: 108 Copynumber: 1.9 Consensus size: 108
47903757 CTCGATTAGC
* *
47903767 AAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGATTTATGAAATTACCA
1 AAAATTACCAAAATA-CCCTAGACTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCA
* * *
47903831 AAATACTCCTAATTTGTGAAATTATCGAAATACCCTCAACCTAT
65 AAATACCCCTAATTTGGGAAATTATCAAAATACCCTCAACCTAT
* * * * *
47903875 AAAATTACCGAAATACCCTTGACTTGTAAAATTACCAAATTACCCTTGATTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTAGACTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCAA
*
47903940 AATACCCCTGATTTGGGAAATTATCAAAATACCCT
66 AATACCCCTAATTTGGGAAATTATCAAAATACCCT
47903975 TGATTTGGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
107 5 0.06
108 83 0.94
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (108 bp):
AAAATTACCAAAATACCCTAGACTTGTAAAATTACCAAAATACCCCTGATTTATAAAATTACCAA
AATACCCCTAATTTGGGAAATTATCAAAATACCCTCAACCTAT
Found at i:47904000 original size:81 final size:80
Alignment explanation
Indices: 47903740--47904109 Score: 278
Period size: 81 Copynumber: 4.6 Consensus size: 80
47903730 TTTGGTTTAC
* * *
47903740 AAAATTACCAAAATACACTCGATTAGCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCCTA-TTTGTAAAATTACCAA
* *
47903805 AATACCCCTGATTTATG
65 AATACCCTTGATTT-GG
* ** * * * ** * *
47903822 -AAATTACCAAAATACTCC-TAATTTGTGAAATTATCGAAATACCCTCAACCTATAAAATTACCG
1 AAAATTACCAAAATAC-CCTTGATTTGCAAAATTACCAAAATACCC-CTATTTGTAAAATTACCA
* *
47903885 AAATACCCTTGACTTGT
64 AAATACCCTTGATTTGG
* * ** *
47903902 AAAATTACCAAATTACCCTTGATTTGTAAAATTACCAAAATACCCCTGATTTGGGAAATTATCAA
1 AAAATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCCT-ATTTGTAAAATTACCAA
47903967 AATACCCTTGATTTGG
65 AATACCCTTGATTTGG
* * * ** ** *
47903983 AAAATTACAAAAATACCCCTGATTTACAAAATTA-CAGAAATACCTTTAACTTTAAAAAATTACT
1 AAAATTACCAAAATACCCTTGATTTGCAAAATTACCA-AAATACCCCT-A-TTTGTAAAATTACC
* * * *
47904047 GAAGTACCATTGATTTGC
63 AAAATACCCTTGATTTGG
* * * * * * *
47904065 AAAATTATCGAAATACCATTGGTTTGTAAATTTACCAAAACACCC
1 AAAATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCC
47904110 TTGTAGGGTG
Statistics
Matches: 220, Mismatches: 60, Indels: 16
0.74 0.20 0.05
Matches are distributed among these distances:
80 5 0.02
81 156 0.71
82 57 0.26
83 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCCTATTTGTAAAATTACCAAA
ATACCCTTGATTTGG
Found at i:47904081 original size:27 final size:26
Alignment explanation
Indices: 47903690--47904099 Score: 171
Period size: 27 Copynumber: 15.2 Consensus size: 26
47903680 TATAGGGTAG
* *
47903690 AATTACTGAAATACCCTTG-GTTACAA
1 AATTAC-GAAATACCCTTGATTTGCAA
** * *
47903716 AATTACTG-AATACATTTGGTTTACAA
1 AATTAC-GAAATACCCTTGATTTGCAA
* * * *
47903742 AATTACCAAAATACACTCGATTAGCAA
1 AATTA-CGAAATACCCTTGATTTGCAA
* * *
47903769 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTA-CGAAATACCCTTGA-TTTGCAA
* * ***
47903796 AATTACCAAAATACCCCTGATTTATGA
1 AATTA-CGAAATACCCTTGATTTGCAA
* * **
47903823 AATTACCAAAATACTCC-TAATTTGTGA
1 AATTA-CGAAATAC-CCTTGATTTGCAA
** ** **
47903850 AATTATCGAAATACCCTCAACCTATAA
1 AATTA-CGAAATACCCTTGATTTGCAA
* *
47903877 AATTACCGAAATACCCTTGACTTGTAA
1 AATTA-CGAAATACCCTTGATTTGCAA
* *
47903904 AATTACCAAATTACCCTTGATTTGTAA
1 AATTACGAAA-TACCCTTGATTTGCAA
* * **
47903931 AATTACCAAAATACCCCTGATTTGGGA
1 AATTA-CGAAATACCCTTGATTTGCAA
* *
47903958 AATTATCAAAATACCCTTGATTTGGAA
1 AATTA-CGAAATACCCTTGATTTGCAA
* * *
47903985 AATTACAAAAATACCCCTGATTTACAA
1 AATTAC-GAAATACCCTTGATTTGCAA
* * **
47904012 AATTACAGAAATACCTTTAACTTTAAAA
1 AATTAC-GAAATACCCTTGA-TTTGCAA
* *
47904040 AATTACTGAAGTACCATTGATTTGCAA
1 AATTAC-GAAATACCCTTGATTTGCAA
* * *
47904067 AATTATCGAAATACCATTGGTTTGTAA
1 AATTA-CGAAATACCCTTGATTTGCAA
*
47904094 ATTTAC
1 AATTAC
47904100 CAAAACACCC
Statistics
Matches: 315, Mismatches: 57, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
25 8 0.03
26 28 0.09
27 249 0.79
28 30 0.10
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (26 bp):
AATTACGAAATACCCTTGATTTGCAA
Found at i:47904382 original size:41 final size:41
Alignment explanation
Indices: 47904330--47904452 Score: 167
Period size: 41 Copynumber: 3.0 Consensus size: 41
47904320 GGAGGGAGAA
*
47904330 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTAAGCATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
47904371 ATTGAGCATCGCATGGTTGCTTGACGACTGTGGATCCACCG
1 ATTAAGCATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* ** *
47904412 ATTAAGGATCTTATGGTTGCTTGATG-CTCGTGGATCCACCG
1 ATTAAGCATCGCATGGTTGCTTGACGAC-CGTGGATCCACCG
47904453 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 1 0.01
41 71 0.99
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.28
Consensus pattern (41 bp):
ATTAAGCATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:47905352 original size:4 final size:4
Alignment explanation
Indices: 47905343--47905372 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
47905333 ATATTATATG
47905343 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
47905373 GGAAAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:47907821 original size:45 final size:46
Alignment explanation
Indices: 47907718--47907826 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 46
47907708 AGCTTAAGAT
*
47907718 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAACATGTGATAAGGC
* *
47907765 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAACATGTGATAAGGC
*
47907810 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
47907827 AAAGTGTGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 26 0.46
46 6 0.11
47 24 0.43
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAACATGTGATAAGGC
Found at i:47910959 original size:15 final size:15
Alignment explanation
Indices: 47910930--47910969 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
47910920 AAAGATGACA
* *
47910930 AGAAAACCAAGATAG
1 AGAAATCCAAAATAG
*
47910945 AGGAATCCAAAATAG
1 AGAAATCCAAAATAG
47910960 AGAAATCCAA
1 AGAAATCCAA
47910970 GATACGATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.10
Consensus pattern (15 bp):
AGAAATCCAAAATAG
Found at i:47920444 original size:46 final size:46
Alignment explanation
Indices: 47920307--47920479 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
47920297 GGGTTATTGT
* * * *
47920307 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GACGA
* * * *
47920353 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCTGCATCGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGACGA
* *
47920401 GTGCTAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACG-A
*
47920448 -AGCTAGGGTAAGACATGTC-AGGGACATGCATC
1 GAGCTAGTGTAAGACATGTCTA-GGACATGCATC
47920480 AGCTTGAGAT
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 55 0.52
47 26 0.25
48 22 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGACGA
Found at i:47937205 original size:50 final size:50
Alignment explanation
Indices: 47937090--47937230 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
47937080 CATGTAATAA
* * *
47937090 GATGCCAAGGCCATATCCCAAATATGGTCTTACATGGGA--TCACATACC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATACC
* *
47937138 GATGCCAATGCCATGTCCCAGACATGGTCCTACATGGGATCTCACATATCC
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATA-CC
* *
47937189 -ATGCGAATTCCATGTCCCAAACATGGTCTTACAT-GGATCTCA
1 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCA
47937231 TTACTCATGG
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
48 34 0.42
49 8 0.10
50 37 0.46
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACATACC
Found at i:47937414 original size:20 final size:20
Alignment explanation
Indices: 47937389--47937446 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
47937379 GTCACCTATA
* *
47937389 TCATGAACTCAGACCACAAC
1 TCATGAGCTCAGATCACAAC
47937409 TCATGAGCTCAGATCACAAC
1 TCATGAGCTCAGATCACAAC
47937429 TCATGAGCTCAGATCACA
1 TCATGAGCTCAGATCACA
47937447 TATTTTCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.31, G:0.14, T:0.19
Consensus pattern (20 bp):
TCATGAGCTCAGATCACAAC
Found at i:47939784 original size:6 final size:6
Alignment explanation
Indices: 47939766--47939891 Score: 73
Period size: 6 Copynumber: 20.3 Consensus size: 6
47939756 AAGAAACATT
* *
47939766 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
47939815 ATCAGA ATTAGA ATCAGT ATCAGGTA A-CCGA ATCAAA ATCAGA ATCA-A
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
*
47939863 TATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 -ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
47939892 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 14, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
5 7 0.08
6 69 0.75
7 12 0.13
8 3 0.03
9 1 0.01
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:47939817 original size:31 final size:31
Alignment explanation
Indices: 47939780--47939891 Score: 136
Period size: 31 Copynumber: 3.6 Consensus size: 31
47939770 GAACTAGAAT
* * *
47939780 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* * *
47939811 CAGAATCAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
*
47939842 CCGAATCAAAATCAGAATCA-ATATCAGGTAA
1 CAGAATCAAAATCAGAATCAGA-ATCAGGTAA
47939873 CAGAATCAAAAATCAGAAT
1 CAGAATC-AAAATCAGAAT
47939892 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
31 59 0.84
32 11 0.16
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAATCAGGTAA
Found at i:47940076 original size:27 final size:27
Alignment explanation
Indices: 47940028--47940129 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
47940018 GCTCAGTTAT
* * *
47940028 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGAAA
* *
47940055 CAGATATTGGGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAAAGCCACCAGAAA
*
47940081 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAGAAA
*
47940109 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
47940130 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 8 0.12
27 47 0.73
28 9 0.14
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGAAA
Found at i:47940316 original size:22 final size:22
Alignment explanation
Indices: 47940288--47940352 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
47940278 GCAAATACGT
*
47940288 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
47940310 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
47940332 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
47940353 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:47940836 original size:27 final size:27
Alignment explanation
Indices: 47940797--47940973 Score: 239
Period size: 27 Copynumber: 6.6 Consensus size: 27
47940787 TACCCCACAA
*
47940797 GGTATCTT-GGTAATTCCACCCTACAGG
1 GGTAT-TTCGGTAATTCTACCCTACAGG
**
47940824 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
47940851 GGTATTTCGGTAATTCTACCCTACAGT
1 GGTATTTCGGTAATTCTACCCTACAGG
* * **
47940878 TGTATTGCAATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
47940905 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
47940932 GGTATTTTGGTATTTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
47940959 GGTATTTCGGTAATT
1 GGTATTTCGGTAATT
47940974 TTGTAAATCG
Statistics
Matches: 130, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 2 0.02
27 128 0.98
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:47941042 original size:27 final size:27
Alignment explanation
Indices: 47941012--47941299 Score: 106
Period size: 27 Copynumber: 10.7 Consensus size: 27
47941002 TGTAAATCAG
*
47941012 GGGTACTTT-GGTAATTTTACACGTCGA
1 GGGTA-TTTCGGTAATTTTACAAGTCGA
** * *
47941039 GGGTATTTCAATAATTTTTCAGGTCGA
1 GGGTATTTCGGTAATTTTACAAGTCGA
* * * *
47941066 GGGTATTTCTGTAATTTCACAAAT-TA
1 GGGTATTTCGGTAATTTTACAAGTCGA
* * *
47941092 GGGGTATTTTGGTAATTTTACAA-ACCA
1 -GGGTATTTCGGTAATTTTACAAGTCGA
* * * *
47941119 GAGGTATTTTGATAATTTTACAA-ACCA
1 G-GGTATTTCGGTAATTTTACAAGTCGA
* ** *
47941146 TGGGTATTTTGGTAATTTTACAAACCAA
1 -GGGTATTTCGGTAATTTTACAAGTCGA
* * *
47941174 GGGTATTTTGGTAATTATGTA-AA-CCAA
1 GGGTATTTCGGTAATT-T-TACAAGTCGA
** * *
47941201 GGGTATTTTAGTAATTTTACAAAATAG-
1 GGGTATTTCGGTAATTTTAC-AAGTCGA
* ** ** *
47941228 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTACAAGTCGA
** * *
47941255 GGGTATTTTAGTAATTTTACAA-ACTA
1 GGGTATTTCGGTAATTTTACAAGTCGA
*
47941281 GGGGTATTTTGGTAATTTT
1 -GGGTATTTCGGTAATTTT
47941300 GTAAACCAAA
Statistics
Matches: 212, Mismatches: 36, Indels: 26
0.77 0.13 0.09
Matches are distributed among these distances:
25 2 0.01
26 11 0.05
27 191 0.90
28 6 0.03
29 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAGTCGA
Found at i:47941125 original size:81 final size:81
Alignment explanation
Indices: 47941005--47941352 Score: 272
Period size: 81 Copynumber: 4.3 Consensus size: 81
47940995 ATAATTCTGT
* *** * ** *
47941005 AAATCAGGGGTACTTTGGTAATTTTACACGTCGAGGGTATTTCAATAATTTTTCAGGTCGA-GGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAATAATTTTACA-AACCATGGG
47941069 TATTTCT-GTAATTTCAC
65 TATTT-TGGTAATTTCAC
* **
47941086 AAATTAGGGGTATTTTGGTAATTTTACAAACC-AGAGGTATTTTGATAATTTTACAAACCATGGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCGAG-GGTATTTCAATAATTTTACAAACCATGGG
*
47941150 TATTTTGGTAATTTTAC
65 TATTTTGGTAATTTCAC
* * * ** * * * ** *
47941167 AAACCAAGGGTATTTTGGTAATTATGTAAACCAAGGGTATTTTAGTAATTTTACAAAATAGGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAATAATTTTACAAACCATGGGT
***
47941232 ATTTTGGTAATTTTGT
66 ATTTTGGTAATTTCAC
* * * * *** ** **
47941248 AAACCAAGGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTGTAAACCAAAGG
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCGA-GGGTATTTCAATAATTTTACAAACCATGGG
* *
47941312 TATTTTTGTAATTTTAC
65 TATTTTGGTAATTTCAC
*
47941329 AAACCAGGGGTATTTTGGTAATTT
1 AAATCAGGGGTATTTTGGTAATTT
47941353 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 42, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
80 7 0.03
81 211 0.96
82 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTCAATAATTTTACAAACCATGGGT
ATTTTGGTAATTTCAC
Found at i:47941358 original size:54 final size:54
Alignment explanation
Indices: 47941093--47941359 Score: 399
Period size: 54 Copynumber: 4.9 Consensus size: 54
47941083 CACAAATTAG
* * * ** *
47941093 GGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTGATAATTTTACAAACCAT
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
* * *
47941147 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGTAATTATGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
**
47941201 GGGTATTTTAGTAATTTTACAAAATAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
*
47941255 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
* * *
47941309 AGGTATTTTTGTAATTTTACAAACCAGGGGTATTTTGGTAATTTGGTAAAC
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC
47941360 TAAAGTATTC
Statistics
Matches: 196, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 196 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
Found at i:47941359 original size:27 final size:27
Alignment explanation
Indices: 47941066--47941352 Score: 342
Period size: 27 Copynumber: 10.6 Consensus size: 27
47941056 TTCAGGTCGA
* **
47941066 GGGTATTTCT-GTAATTTCACAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACCAG
47941093 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
47941120 AGGTATTTTGATAATTTTACAAACCAT
1 GGGTATTTTGGTAATTTTACAAACCAG
*
47941147 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
47941174 GGGTATTTTGGTAATTATGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* **
47941201 GGGTATTTTAGTAATTTTACAAAATAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
47941228 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47941255 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
47941282 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
47941309 AGGTATTTTTGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
47941336 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
47941353 GGTAAACTAA
Statistics
Matches: 217, Mismatches: 42, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.00
27 216 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:47947237 original size:13 final size:13
Alignment explanation
Indices: 47947219--47947243 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47947209 AAGTAATTGA
47947219 ACACGGGCGTGTT
1 ACACGGGCGTGTT
47947232 ACACGGGCGTGT
1 ACACGGGCGTGT
47947244 CTCTACTGAT
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:47960764 original size:27 final size:27
Alignment explanation
Indices: 47960734--47960786 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 27
47960724 GAAGTAAACC
47960734 CAATGTAATCATAAATACAT-AATTCAA
1 CAAT-TAATCATAAATACATGAATTCAA
* * *
47960761 CAATTGATTATAAGTACATGAATTCA
1 CAATTAATCATAAATACATGAATTCA
47960787 CATCAACTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (27 bp):
CAATTAATCATAAATACATGAATTCAA
Found at i:47962781 original size:50 final size:50
Alignment explanation
Indices: 47962711--47962947 Score: 242
Period size: 50 Copynumber: 4.7 Consensus size: 50
47962701 TAAAATGGTT
* * * *
47962711 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACATGTACTAGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* * * *
47962761 TTAGGTTGCATGTGTCGTACTAAGTGCAGGCTACTA-AGTGTACCCGATAG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACA-TGTACCAGATTG
* * * * * * * * *
47962811 CTTCGATCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCTGATGG
1 -TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
*** *
47962862 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
* *
47962912 TTAGCTCGCATGTGTAGTACTAACTGCAGGCTACTA
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
47962948 TGCGTATCGA
Statistics
Matches: 153, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
49 1 0.01
50 114 0.75
51 38 0.25
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTG
Found at i:47962846 original size:101 final size:99
Alignment explanation
Indices: 47962711--47962947 Score: 289
Period size: 101 Copynumber: 2.4 Consensus size: 99
47962701 TAAAATGGTT
* * *
47962711 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACATGTA-CTAGATTGTTAGGTTGCA-TGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCT-GATGGTTAGG-T-CAGTGT
* *
47962774 GTCGTACTAAGTGCAGGCTACTAAGTGTACCCGATAG
63 GTAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAG
* * *
47962811 CTTCGATCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATCTGATGGTTAGGTCATGTGTG
1 -TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCTGATGGTTAGGTCA-GTGTG
* *
47962876 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG
64 TAGTACTAAGTGCAGGCTACTAAGTGTACCAGATAG
* * * *
47962912 TTAGCTCGCATGTGTAGTACTAACTGCAGGCTACTA
1 TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTA
47962948 TGCGTATCGA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
99 2 0.02
100 31 0.26
101 82 0.70
102 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (99 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCTGATGGTTAGGTCAGTGTGTA
GTACTAAGTGCAGGCTACTAAGTGTACCAGATAG
Found at i:47962944 original size:151 final size:147
Alignment explanation
Indices: 47962711--47963095 Score: 439
Period size: 151 Copynumber: 2.7 Consensus size: 147
47962701 TAAAATGGTT
* * * * *
47962711 TTAGGTCACGTGTGTAGTACTAAGTGCAGTCTACTACATGTACTAGATTGTTAGGTTGCATGTGT
1 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
*
47962776 CGTACTAAGTGCAGGCTACTAAGTGTACCCGATAGCTTCGATCACGTGTATAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTAAGTGTACCCGATAGCTTCGATCACGTGTATAGTACTAAGTGCAG
*
47962841 GCTACTACGTGTATCTGA
131 GCTACTACGTGTATC-CA
*
47962859 TGGTTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGCTCGCATG
1 ---TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATG
* *
47962924 TGTAGTACTAACTGCAGGCTACT-A-TG----CG-TA---TCGATCACGTGTCTAGTACTAAGTG
63 TGTAGTACTAAGTGCAGGCTACTAAGTGTACCCGATAGCTTCGATCACGTGTATAGTACTAAGTG
47962979 CAGGCTACTACGTGTATCCA
128 CAGGCTACTACGTGTATCCA
* * * *
47962999 AT-GGT--TG-G-GT--CAC-AAGTGCAGGCTGCTACGTGTACCAGATTGTTAGGTCGTATGTGT
1 TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
* * *
47963056 AGTACTAAGTGCTA-GCTACTATGTGTACCAGAGAGCTTCG
66 AGTACTAAGTGC-AGGCTACTAAGTGTACCCGATAGCTTCG
47963096 GTTACAAGGG
Statistics
Matches: 204, Mismatches: 19, Indels: 34
0.79 0.07 0.13
Matches are distributed among these distances:
129 58 0.28
130 3 0.01
131 2 0.01
132 2 0.01
133 1 0.00
134 2 0.01
135 1 0.00
136 4 0.02
137 1 0.00
139 3 0.01
140 1 0.00
141 42 0.21
144 2 0.01
145 2 0.01
149 2 0.01
150 1 0.00
151 77 0.38
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (147 bp):
TTAGGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGT
AGTACTAAGTGCAGGCTACTAAGTGTACCCGATAGCTTCGATCACGTGTATAGTACTAAGTGCAG
GCTACTACGTGTATCCA
Found at i:47963863 original size:16 final size:16
Alignment explanation
Indices: 47963842--47963872 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47963832 GTAACGCCAC
47963842 AAAAATCCCGAAATCA
1 AAAAATCCCGAAATCA
47963858 AAAAATCCCGAAATC
1 AAAAATCCCGAAATC
47963873 TTGAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.06, T:0.13
Consensus pattern (16 bp):
AAAAATCCCGAAATCA
Found at i:47964989 original size:24 final size:23
Alignment explanation
Indices: 47964955--47965009 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 23
47964945 TATGTATCGA
*
47964955 CAAAAGCTGAAATGCCGAAAAGC
1 CAAAAGTTGAAATGCCGAAAAGC
*
47964978 TGAAAAGTTGAAATGCCGAAAAGC
1 -CAAAAGTTGAAATGCCGAAAAGC
47965002 CAAAAGTT
1 CAAAAGTT
47965010 TGGCTACGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (23 bp):
CAAAAGTTGAAATGCCGAAAAGC
Found at i:47964990 original size:16 final size:16
Alignment explanation
Indices: 47964956--47965007 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
47964946 ATGTATCGAC
*
47964956 AAAAGCTGAAATGCCG
1 AAAAGCTGAAAAGCCG
**
47964972 AAAAGCTGAAAAGTTG
1 AAAAGCTGAAAAGCCG
* *
47964988 AAATGCCGAAAAGCC-
1 AAAAGCTGAAAAGCCG
47965003 AAAAG
1 AAAAG
47965008 TTTGGCTACG
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
15 4 0.14
16 24 0.86
ACGTcount: A:0.50, C:0.15, G:0.23, T:0.12
Consensus pattern (16 bp):
AAAAGCTGAAAAGCCG
Found at i:47965139 original size:19 final size:19
Alignment explanation
Indices: 47965115--47965168 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
47965105 ATTTGGCCAT
47965115 ATGGGCCGGAATGGGCTAA
1 ATGGGCCGGAATGGGCTAA
*
47965134 ATGGGCCGGAATAGGCTAA
1 ATGGGCCGGAATGGGCTAA
*
47965153 ATGGGCCCG-ATGGGCT
1 ATGGGCCGGAATGGGCT
47965169 GTATGGCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
18 6 0.19
19 26 0.81
ACGTcount: A:0.24, C:0.19, G:0.41, T:0.17
Consensus pattern (19 bp):
ATGGGCCGGAATGGGCTAA
Found at i:47965286 original size:29 final size:29
Alignment explanation
Indices: 47965249--47965350 Score: 134
Period size: 29 Copynumber: 3.6 Consensus size: 29
47965239 TGAATGTTAC
*
47965249 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * *
47965278 TGGGCCTAATAGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
47965307 TGGGCCTAATGGGCCATATGAATATGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
47965335 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
47965351 GTTACAGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 16 0.25
29 47 0.75
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:47965321 original size:58 final size:57
Alignment explanation
Indices: 47965249--47965359 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 57
47965239 TGAATGTTAC
*
47965249 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATAGGCCA-TATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-TTGGGCCTAATAGGCCAGT-TACAGGTGATT
* * * *
47965307 TGGGCCTAATGGGCCATATGAATATGATTGGGCTTAATGGGCCAGTTACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATAGGCCAGTTACAGGT
47965360 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
57 22 0.47
58 25 0.53
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGATTGGGCCTAATAGGCCAGTTACAGGTGATT
Found at i:47972602 original size:50 final size:51
Alignment explanation
Indices: 47972483--47972616 Score: 180
Period size: 50 Copynumber: 2.6 Consensus size: 51
47972473 TAAGAACACA
* * *
47972483 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGG-TTTAGGTCACG
* * ***
47972535 TGTGTAGTACTAGGTGCATGCTACTACGTGTATCCGATGG-TTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGGTTTAGGTCACG
47972585 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA
47972617 CTAGATTGTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 40 0.55
52 33 0.45
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.34
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAAATGGTTTAGGTCACG
Found at i:47972639 original size:50 final size:50
Alignment explanation
Indices: 47972479--47972649 Score: 164
Period size: 50 Copynumber: 3.4 Consensus size: 50
47972469 ATTGTAAGAA
* * * * *
47972479 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGAT--TGTTAGGT
* * * ** *
47972531 CACGTGTGTAGTACTAGGTGCATGCTACTACGTGTATCCGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGTTAGGT
* *
47972581 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATTGTTAGCT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TAAGATTGTTAGGT
* * *
47972631 CCCATGTGTGGTGCTAAGT
1 CACATGTGTAGTACTAAGT
47972650 ACAGTAATAA
Statistics
Matches: 99, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
50 64 0.65
51 1 0.01
52 34 0.34
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.34
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGTTAGGT
Found at i:47976172 original size:49 final size:48
Alignment explanation
Indices: 47976111--47976252 Score: 212
Period size: 49 Copynumber: 2.9 Consensus size: 48
47976101 CCCGTGAGCA
*
47976111 ATGAAATCCCATGTAGGACCATGTCTGGGACATGGCATTGGCATCGAAT
1 ATGAAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-AAT
* * *
47976160 ATGAGATCCCATGTAAGACCATGTCTAGGATATGGCATTGGCATCAAT
1 ATGAAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAT
*
47976208 ATGTAATATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA
1 ATG-AA-ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47976253 GTAGTACGTG
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
48 6 0.07
49 42 0.51
50 35 0.42
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (48 bp):
ATGAAATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAT
Found at i:47985749 original size:19 final size:20
Alignment explanation
Indices: 47985677--47985749 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 20
47985667 TTAAGAGGGA
*
47985677 ATGCATAGGAATAAAAAGGGC
1 ATGCATAGGAA-AAAATGGGC
47985698 ATGCATAGGAAAAAATGGGC
1 ATGCATAGGAAAAAATGGGC
** *
47985718 -T-TTTTGGACAAAAATGGGC
1 ATGCATAGGA-AAAAATGGGC
47985737 ATGCATAGGAAAA
1 ATGCATAGGAAAA
47985750 TTTTGAAAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 4 0.10
19 11 0.26
20 12 0.29
21 15 0.36
ACGTcount: A:0.44, C:0.10, G:0.27, T:0.19
Consensus pattern (20 bp):
ATGCATAGGAAAAAATGGGC
Found at i:47986770 original size:52 final size:52
Alignment explanation
Indices: 47986706--47986806 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
47986696 AAGTTAAAAA
*
47986706 ATCCGAGCTCGTTCAGTTGGTCCAAGTTCATAATGGATGAGATATATGTGGC
1 ATCCGAGCTCGTTCAGTTGGTCCAAGTTCATAATGGATGAGATACATGTGGC
* * ** *
47986758 ATCCGAGGTCGTTGAGTTGGTCTGAGTTCATAATGGATGCGATACATGT
1 ATCCGAGCTCGTTCAGTTGGTCCAAGTTCATAATGGATGAGATACATGT
47986807 ATTTGGGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (52 bp):
ATCCGAGCTCGTTCAGTTGGTCCAAGTTCATAATGGATGAGATACATGTGGC
Found at i:47994302 original size:18 final size:19
Alignment explanation
Indices: 47994281--47994316 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
47994271 GACACTTGGT
47994281 AATACTCATACAC-TCAAG
1 AATACTCATACACATCAAG
47994299 AATACTCATACACATCAA
1 AATACTCATACACATCAA
47994317 TGCTCACACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.22
Consensus pattern (19 bp):
AATACTCATACACATCAAG
Found at i:47994612 original size:12 final size:12
Alignment explanation
Indices: 47994595--47994619 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47994585 AACAACATAG
47994595 TAGATAGTCAAT
1 TAGATAGTCAAT
47994607 TAGATAGTCAAT
1 TAGATAGTCAAT
47994619 T
1 T
47994620 TAGCTAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TAGATAGTCAAT
Found at i:48004657 original size:40 final size:40
Alignment explanation
Indices: 48004567--48004751 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
48004557 TCGAATGATG
* * *
48004567 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAT
* *
48004606 ATCTGGACTAAGAT-CCGAAGGCATTTGTGTGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGTGAGTTACTAAT
* * *
48004647 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAT
*
48004686 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAT
* *
48004725 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
48004752 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 78 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAT
Found at i:48011329 original size:28 final size:28
Alignment explanation
Indices: 48011296--48011398 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 28
48011286 ATTGCATGAC
*
48011296 TATGAAAGTGATTGGGCCTGACGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
*
48011324 TATGAAAGTGGTTGGGCCTGATGGGCCA
1 TATGAAAGTGATTGGGCCTGATGGGCCA
* * * *
48011352 TATGAATGTGGTTGGG-TTCGATGGGTCA
1 TATGAAAGTGATTGGGCCT-GATGGGCCA
* *
48011380 TATGAATGAGATTGGGCCT
1 TATGAAAGTGATTGGGCCT
48011399 AAAGGGGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 63 0.97
29 1 0.02
ACGTcount: A:0.22, C:0.13, G:0.37, T:0.28
Consensus pattern (28 bp):
TATGAAAGTGATTGGGCCTGATGGGCCA
Found at i:48014153 original size:40 final size:40
Alignment explanation
Indices: 48014109--48014189 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
48014099 TTTATGAGTC
48014109 AATTTCCACCTTATTGGGGAAAATATTCATATTTGTGGCT
1 AATTTCCACCTTATTGGGGAAAATATTCATATTTGTGGCT
48014149 AATTTCCACCTTATTGGGGAAAATATTCATATTTGTGGCT
1 AATTTCCACCTTATTGGGGAAAATATTCATATTTGTGGCT
48014189 A
1 A
48014190 TAGCTTATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (40 bp):
AATTTCCACCTTATTGGGGAAAATATTCATATTTGTGGCT
Found at i:48015447 original size:13 final size:13
Alignment explanation
Indices: 48015425--48015457 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
48015415 AAGGATTTGT
48015425 TTAT-TAAACTAA
1 TTATCTAAACTAA
48015437 TTATCTAAACTAA
1 TTATCTAAACTAA
*
48015450 TTAACTAA
1 TTATCTAA
48015458 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:48018367 original size:23 final size:23
Alignment explanation
Indices: 48018324--48018378 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
48018314 AATAAAATTG
*
48018324 AAATGAAAATAAATATCAAAAGAA
1 AAAT-AAAATAAATATAAAAAGAA
*
48018348 AAATAAAATAAGA-ATAAAAATAA
1 AAATAAAATAA-ATATAAAAAGAA
*
48018371 GAATAAAA
1 AAATAAAA
48018379 AAAGGAGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (23 bp):
AAATAAAATAAATATAAAAAGAA
Found at i:48018369 original size:12 final size:12
Alignment explanation
Indices: 48018352--48018379 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
48018342 AAAGAAAAAT
48018352 AAAATAAGAATA
1 AAAATAAGAATA
48018364 AAAATAAGAATA
1 AAAATAAGAATA
48018376 AAAA
1 AAAA
48018380 AAGGAGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (12 bp):
AAAATAAGAATA
Found at i:48030713 original size:27 final size:27
Alignment explanation
Indices: 48030671--48030722 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
48030661 GAAATGTGAA
*
48030671 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
48030698 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
48030723 GGTTCATTGG
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:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:48030735 original size:103 final size:104
Alignment explanation
Indices: 48030595--48030817 Score: 360
Period size: 103 Copynumber: 2.2 Consensus size: 104
48030585 TGTATATAAA
** * * *
48030595 AGGGGTTGCTGTGTGCTGATTCCCTGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
48030659 TTGAAATGTGAAA-GGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
48030698 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
48030763 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
48030802 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
48030818 GATATCCATT
Statistics
Matches: 111, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
103 68 0.61
104 43 0.39
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:48030869 original size:71 final size:72
Alignment explanation
Indices: 48030736--48030887 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
48030726 TCATTGGTGG
* *
48030736 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
48030801 GAGGGGT
66 GAGGGGT
***
48030808 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
48030872 GAGGGGT
66 GAGGGGT
48030879 TGCTAAGTG
1 TGCTAAGTG
48030888 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:48039929 original size:27 final size:27
Alignment explanation
Indices: 48039899--48040076 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
48039889 ATATTGAGCC
* *
48039899 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
48039926 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
48039953 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
48039981 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
48040008 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
48040035 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
48040062 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48040077 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48040011 original size:55 final size:54
Alignment explanation
Indices: 48039899--48040076 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
48039889 ATATTGAGCC
* * *
48039899 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
48039953 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
48040008 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
48040062 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48040077 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:48047135 original size:27 final size:27
Alignment explanation
Indices: 48047105--48047282 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
48047095 ATATTGAGCC
* *
48047105 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
48047132 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
48047159 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
48047187 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
48047214 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
48047241 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
48047268 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48047283 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:48047217 original size:55 final size:54
Alignment explanation
Indices: 48047105--48047282 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
48047095 ATATTGAGCC
* * *
48047105 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
48047159 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
48047214 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
48047268 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48047283 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:48056937 original size:40 final size:39
Alignment explanation
Indices: 48056884--48057110 Score: 346
Period size: 40 Copynumber: 5.7 Consensus size: 39
48056874 ACTACTTGCT
48056884 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
48056924 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
48056964 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
48057004 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* * * *
48057044 CAAATGCCTTCGAGACTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
48057084 CAAATGCCTTCGGGACTTAAGCCCGGT
1 CAAATGCCTTCGGGACTT-AGCCCGGT
48057111 TATCATCCGA
Statistics
Matches: 176, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 168 0.95
41 7 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:48067727 original size:827 final size:828
Alignment explanation
Indices: 48066131--48067787 Score: 2685
Period size: 827 Copynumber: 2.0 Consensus size: 828
48066121 AATCACACAC
* *
48066131 ATATCTCTGAAGATAAAAGAATTTATAGAATACCTAGAAAACATTATCATATTCATTTCAACTAT
1 ATATCTCTGAAGATAAAAGAATATATAGAATACCTAGAAAACATCATCATATTCATTTCAACTAT
* * * * *
48066196 AACTATCACATACACAGACATCTTTACTACTCCAATATCATTTGTTTGACTAATTCTGTTATCAT
66 AACTATCACACACACAGACATCTTTACTACTCAAATATCATTTCTCTGACTAATTCTGTCATCAT
* * *
48066261 GAACCCCGCATCATTCCATTAACTAACAAAAACCAATTTAGGGAAAATTTCAGCAAACACATACT
131 AAACCCCGCATCATTCCATTAACTAACAAAAACCAATTCAGGGAAAATTTCAACAAACACATACT
* * * * *
48066326 TTAGACATCATATTTAAATAATTCGATTAGCCGAGATTAACTTTTTCTTTGACCGTGACATTGCT
196 TTAGACATCATATCTAAATAAGTCAATTAGCCGAGATTAACTTTTTCTTTAACCGTGACATTACT
* *
48066391 TAATCTGAATAATCTTTAGAACAATCTGATATCTCTTCCAGAACTATATTCACTTGCCAAACTAT
261 TAATCTAAATAATCTTTAGAACAATATGATATCTCTTCCAGAACTATATTCACTTGCCAAACTAT
* *
48066456 TCTCAATTCTGACCACATTCTAGCTATTCTACTATCGAACTCTTTAGTCTCACACTTGTGAGCTC
326 TCTCAATTCTGACCACATTCTAGCTATTCCACTATCGAACTCTTTAGTCTCACACTTGTAAGCTC
* *
48066521 ATTCAACATAAATCTGGTTAAATCTTATTACAAAATACCATATTGGTAAGGGGGTGAGGTCGTAA
391 ATTCAACATAAATCTGCTTAAATCTTATTACAAAATACCACATTGGTAAGGGGGTGAGGTCGTAA
* *
48066586 AGCCTCTAATTTGGCTCTCATAAATACACACATATGACTTAGCATTCATCATCCAAAAAATATCG
456 AGCCTCTAATTTGACTCTCATAAATACACACATATGACTTAGCATTCATCATCCAAAAAATATCA
* * **
48066651 TCACAATAACATAATTCACTTCAAGGAAATTAACCAACATATTCATGTTACACGAACTTTTTTGA
521 TCACAACAACATAATTCACTTCAAGCAAATTAACCAACATATTCATGTTACACGAAAATTTTTGA
48066716 TTATCTTATTCAAACAAGTGTACATAAACACACATTCCGTCAATTTGAGTAAATTTACTTATCGT
586 TTATCTTATTCAAACAAGTGTACATAAACACACATTCCGTCAATTTGAGTAAATTTACTTATCGT
* * * *
48066781 ATTCACTTAATCAAATATGTTGGGCACATAAAATCATATGCATGCCAAGCAAACTTGGATGGGCT
651 ATTCACTTAATCAAATATGATGGGCACATAAAATCATATGCATGCCAAACAAACATGGATAGGCT
*
48066846 TATCACCATATAAACTTTCATTTCATTCCATTTTTCACATTTATCAACTTGTGGTTATCTCATTT
716 TATCACCATATAAACTTTCATTTCATTCCACTTTTCACATTTATCAACTTGTGGTTATCTCATTT
* * *
48066911 TGTACATTAACACATACATATCGTGAGCTTTTATTCATACCTTTCCAA
781 CGTACAGTAACACATACATATCGTGAGCTTCTATTCATACCTTTCCAA
* *
48066959 ATATCTCT-AAGGATAAAAGAATATATAGAATACCTAGAAAAGATCATCATATTCATTTCAACTG
1 ATATCTCTGAA-GATAAAAGAATATATAGAATACCTAGAAAACATCATCATATTCATTTCAACTA
* *
48067023 TAATTGTCACACACACAGACATCTTTACTACTCAAATATCATTTCTCTGACTAATTCTGTCATCA
65 TAACTATCACACACACAGACATCTTTACTACTCAAATATCATTTCTCTGACTAATTCTGTCATCA
* * * * *
48067088 TAAACCCCGCATCATTTCATTCACTAACGAAAACTAATTCGGGGAAAATTTCAACAAACACATAC
130 TAAACCCCGCATCATTCCATTAACTAACAAAAACCAATTCAGGGAAAATTTCAACAAACACATAC
* *
48067153 TTTAGACATCATATCTGAATAAGTCAATTAGCCGAGATTAACTTTTTTTTTAACCGTGACATTAC
195 TTTAGACATCATATCTAAATAAGTCAATTAGCCGAGATTAACTTTTTCTTTAACCGTGACATTAC
48067218 TTAATCTAAATAATCTTTAGAACAATATGATATCTCTTCCAGAACTATATTCACTTGCCAAACTA
260 TTAATCTAAATAATCTTTAGAACAATATGATATCTCTTCCAGAACTATATTCACTTGCCAAACTA
* * * * *
48067283 TTCTCAACTT-TGA-CACATTTTAGTTATTCCGCTATTGAACTCTTTAGTCTCACACTTGTAAGT
325 TTCTCAA-TTCTGACCACATTCTAGCTATTCCACTATCGAACTCTTTAGTCTCACACTTGTAAGC
48067346 TCATTCAACATAAATCT-CTTGAAATCTTATTACAAAATACCACATTGGTAAGGGGGTGAGGTCG
389 TCATTCAACATAAATCTGCTT-AAATCTTATTACAAAATACCACATTGGTAAGGGGGTGAGGTCG
* * *
48067410 TAAAGCCTTTAATTTGACTCTCATAAATACACACATATGACTTAGCATTCATCATCCACATAATA
453 TAAAGCCTCTAATTTGACTCTCATAAATACACACATATGACTTAGCATTCATCATCCAAAAAATA
* * *
48067475 TCATCACAACCACATAATTCGCTTCAAGCAAGTTAA-CATACATATTCATGTTACACGAAAATTT
518 TCATCACAACAACATAATTCACTTCAAGCAAATTAACCA-ACATATTCATGTTACACGAAAATTT
* *
48067539 TTGATTATCTTATTCAAACAAGTGTACATAAACACATATTCTGTCAATTTGAGTAAATTTACTTA
582 TTGATTATCTTATTCAAACAAGTGTACATAAACACACATTCCGTCAATTTGAGTAAATTTACTTA
* *
48067604 TCGTATTCACTTAATCCAATATGATGGGCACATAACATCATATGCATGCCAAACAAACATGGATA
647 TCGTATTCACTTAATCAAATATGATGGGCACATAAAATCATATGCATGCCAAACAAACATGGATA
*
48067669 GGCTTATCACCATATAAACTTTCATTTCATTCCACTTTTCACATTTCTCAACTTGTGGTTATCTC
712 GGCTTATCACCATATAAACTTTCATTTCATTCCACTTTTCACATTTATCAACTTGTGGTTATCTC
48067734 ATTTCGTACAGTAACACATACATATCGTGAGCTTCTATTCATACCTTTCCAA
777 ATTTCGTACAGTAACACATACATATCGTGAGCTTCTATTCATACCTTTCCAA
48067786 AT
1 AT
48067788 TTTGCCACAT
Statistics
Matches: 763, Mismatches: 62, Indels: 9
0.91 0.07 0.01
Matches are distributed among these distances:
826 4 0.01
827 454 0.60
828 303 0.40
829 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (828 bp):
ATATCTCTGAAGATAAAAGAATATATAGAATACCTAGAAAACATCATCATATTCATTTCAACTAT
AACTATCACACACACAGACATCTTTACTACTCAAATATCATTTCTCTGACTAATTCTGTCATCAT
AAACCCCGCATCATTCCATTAACTAACAAAAACCAATTCAGGGAAAATTTCAACAAACACATACT
TTAGACATCATATCTAAATAAGTCAATTAGCCGAGATTAACTTTTTCTTTAACCGTGACATTACT
TAATCTAAATAATCTTTAGAACAATATGATATCTCTTCCAGAACTATATTCACTTGCCAAACTAT
TCTCAATTCTGACCACATTCTAGCTATTCCACTATCGAACTCTTTAGTCTCACACTTGTAAGCTC
ATTCAACATAAATCTGCTTAAATCTTATTACAAAATACCACATTGGTAAGGGGGTGAGGTCGTAA
AGCCTCTAATTTGACTCTCATAAATACACACATATGACTTAGCATTCATCATCCAAAAAATATCA
TCACAACAACATAATTCACTTCAAGCAAATTAACCAACATATTCATGTTACACGAAAATTTTTGA
TTATCTTATTCAAACAAGTGTACATAAACACACATTCCGTCAATTTGAGTAAATTTACTTATCGT
ATTCACTTAATCAAATATGATGGGCACATAAAATCATATGCATGCCAAACAAACATGGATAGGCT
TATCACCATATAAACTTTCATTTCATTCCACTTTTCACATTTATCAACTTGTGGTTATCTCATTT
CGTACAGTAACACATACATATCGTGAGCTTCTATTCATACCTTTCCAA
Found at i:48071121 original size:28 final size:28
Alignment explanation
Indices: 48071081--48071189 Score: 146
Period size: 28 Copynumber: 3.9 Consensus size: 28
48071071 TGAGAAGTAG
48071081 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
48071109 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * * *
48071137 TTGGGCCTGATGGTCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA
* * *
48071165 TTGGGCTTGAAAGGGCCAAATGAAT
1 TTGGGCCTG-ATGGGCCATATGAAT
48071190 AAGTGTGGAT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 60 0.86
29 10 0.14
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAATGTGA
Found at i:48071538 original size:36 final size:36
Alignment explanation
Indices: 48071488--48071559 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
48071478 ATAATAATAA
*
48071488 AAAATTACCGAAATACCCCT-GATTTGTAAAATTATC
1 AAAATTACCAAAATA-CCCTAGATTTGTAAAATTATC
*
48071524 AAAATTACTAAAATACCCTAGATTTGTAAAATTATC
1 AAAATTACCAAAATACCCTAGATTTGTAAAATTATC
48071560 GGAATACCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 4 0.12
36 29 0.88
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (36 bp):
AAAATTACCAAAATACCCTAGATTTGTAAAATTATC
Found at i:48071554 original size:27 final size:27
Alignment explanation
Indices: 48071524--48071638 Score: 108
Period size: 27 Copynumber: 4.3 Consensus size: 27
48071514 TAAAATTATC
* *
48071524 AAAATTACTAAAATACCCTAGATTTGT
1 AAAATTACTGAAACACCCTAGATTTGT
* *
48071551 AAAATTA-TCGGAATACCCTCAG-TTTGT
1 AAAATTACT-GAAACACCCT-AGATTTGT
* * *
48071578 GAAATTACCGAAACACCCTCGATTTGT
1 AAAATTACTGAAACACCCTAGATTTGT
* **
48071605 AAAATCACTGAAACACCCCCGATTTGT
1 AAAATTACTGAAACACCCTAGATTTGT
48071632 AAAATTA
1 AAAATTA
48071639 TCGAAGTACC
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.03
27 68 0.94
28 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
AAAATTACTGAAACACCCTAGATTTGT
Found at i:48071659 original size:27 final size:27
Alignment explanation
Indices: 48071629--48071717 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
48071619 ACCCCCGATT
* *
48071629 TGTAAAATTATCGAAGTACCCTTATAG
1 TGTAAAATTACCGAAATACCCTTATAG
*
48071656 TGTAAAACTACCGAAATACCCTTATAG
1 TGTAAAATTACCGAAATACCCTTATAG
* * * *
48071683 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTATAG
*
48071710 GGTAAAAT
1 TGTAAAAT
48071718 GACTATTTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTATAG
Found at i:48071704 original size:81 final size:81
Alignment explanation
Indices: 48071544--48071696 Score: 177
Period size: 81 Copynumber: 1.9 Consensus size: 81
48071534 AAATACCCTA
* * * *
48071544 GATTTGTAAAATTATCGGAATACCCTCAGTTTGTGAAATTACCGAAACACCCTCGATTTGTAAAA
1 GATTTGTAAAATTATCGGAATACCCTCAGTGTGTAAAACTACCGAAACACCCTCGATGTGTAAAA
*
48071609 TCACTGAAACACCCCC
66 TCACCGAAACACCCCC
* * *
48071625 GATTTGTAAAATTATC-GAAGTACCCTTA-TAGTGTAAAACTACCGAAATACCCT-TATAGTGTA
1 GATTTGTAAAATTATCGGAA-TACCCTCAGT-GTGTAAAACTACCGAAACACCCTCGAT-GTGTA
*
48071687 AAATGACCGA
63 AAATCACCGA
48071697 CATACCCCTG
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
80 6 0.10
81 54 0.90
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (81 bp):
GATTTGTAAAATTATCGGAATACCCTCAGTGTGTAAAACTACCGAAACACCCTCGATGTGTAAAA
TCACCGAAACACCCCC
Found at i:48072193 original size:11 final size:11
Alignment explanation
Indices: 48072177--48072202 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48072167 ATTGCATGTA
48072177 TGATATTATTG
1 TGATATTATTG
48072188 TGATATTATTG
1 TGATATTATTG
48072199 TGAT
1 TGAT
48072203 GTGGGCTTCG
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:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:48074576 original size:28 final size:28
Alignment explanation
Indices: 48074543--48074599 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
48074533 TTGTTTGGCT
* * *
48074543 TGATGGGTCATATGAATGTGATTGGGCC
1 TGATGGGCCATATGAACGAGATTGGGCC
*
48074571 TGATGGGCCATGTGAACGAGATTGGGCC
1 TGATGGGCCATATGAACGAGATTGGGCC
48074599 T
1 T
48074600 AAAGGGGCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.21, C:0.14, G:0.37, T:0.28
Consensus pattern (28 bp):
TGATGGGCCATATGAACGAGATTGGGCC
Found at i:48074946 original size:27 final size:27
Alignment explanation
Indices: 48074936--48075148 Score: 188
Period size: 27 Copynumber: 7.9 Consensus size: 27
48074926 AATAGCCCTA
* *
48074936 ATTTGTAAAATTA-TCAAAATACCC-CTG
1 ATTTGTAAAATTACT-GAAACACCCTC-G
* *
48074963 ATTTGTGAAATTACTGAAACACACTCG
1 ATTTGTAAAATTACTGAAACACCCTCG
* **
48074990 ATTTGTAAAATTA-TCGAAACACCATTA
1 ATTTGTAAAATTACT-GAAACACCCTCG
*
48075017 ATTTTTAAAATTA-TAGAAACACCCTCG
1 ATTTGTAAAATTACT-GAAACACCCTCG
* *
48075044 A-TTGTAAAATTACCGAAACACCCTCA
1 ATTTGTAAAATTACTGAAACACCCTCG
48075070 ATTTGTAAAATTACTGAAACACCCTCG
1 ATTTGTAAAATTACTGAAACACCCTCG
* *
48075097 ATTTGTAAAATTA-TCGAAATACCCTTG
1 ATTTGTAAAATTACT-GAAACACCCTCG
* * *
48075124 -TAGTGTAAAATTACCGAAATACCCT
1 AT-TTGTAAAATTACTGAAACACCCT
48075149 TGTAGTGTAA
Statistics
Matches: 155, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
26 25 0.16
27 128 0.83
28 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
ATTTGTAAAATTACTGAAACACCCTCG
Found at i:48075131 original size:54 final size:55
Alignment explanation
Indices: 48074936--48075148 Score: 249
Period size: 54 Copynumber: 4.0 Consensus size: 55
48074926 AATAGCCCTA
* * * * *
48074936 ATTTGTAAAATTATCAAAATACCCCTG-ATTTGTGAAATTACTGAAACACACTCG
1 ATTTGTAAAATTATCGAAACACCCTTGAATTTGTAAAATTACTGAAACACCCTCG
* *
48074990 ATTTGTAAAATTATCGAAACACCATT-AATTTTTAAAATTA-TAGAAACACCCTCG
1 ATTTGTAAAATTATCGAAACACCCTTGAATTTGTAAAATTACT-GAAACACCCTCG
* *
48075044 A-TTGTAAAATTACCGAAACACCC-TCAATTTGTAAAATTACTGAAACACCCTCG
1 ATTTGTAAAATTATCGAAACACCCTTGAATTTGTAAAATTACTGAAACACCCTCG
* * * * *
48075097 ATTTGTAAAATTATCGAAATACCCTTGTA-GTGTAAAATTACCGAAATACCCT
1 ATTTGTAAAATTATCGAAACACCCTTGAATTTGTAAAATTACTGAAACACCCT
48075149 TGTAGTGTAA
Statistics
Matches: 136, Mismatches: 17, Indels: 12
0.82 0.10 0.07
Matches are distributed among these distances:
52 1 0.01
53 47 0.35
54 86 0.63
55 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (55 bp):
ATTTGTAAAATTATCGAAACACCCTTGAATTTGTAAAATTACTGAAACACCCTCG
Found at i:48075149 original size:27 final size:27
Alignment explanation
Indices: 48075046--48075180 Score: 121
Period size: 27 Copynumber: 5.0 Consensus size: 27
48075036 CACCCTCGAT
* ** *
48075046 TGTAAAATTACCGAAACACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
48075073 TGTAAAATTACTGAAACACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
48075100 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
48075127 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * * *
48075154 TGTAAAATGACTGACATACCCCTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
48075181 GCTTGAGGGT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
27 92 0.99
28 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:48075167 original size:81 final size:80
Alignment explanation
Indices: 48074936--48075167 Score: 193
Period size: 80 Copynumber: 2.9 Consensus size: 80
48074926 AATAGCCCTA
* * * * * * *
48074936 ATTTGTAAAATTATCA-AAATACCC-CTGATTTGTGAAATTACTGAAACACACTCGATTTGTAAA
1 ATTTGTAAAATTAT-AGAAACACCCTC-GA-GTGTAAAATTACCGAAACACCCTCAATGTGTAAA
* * **
48074999 ATTA-TCGAAACACCATTA
63 ATGACT-GAAACACCCTCG
* * * *
48075017 ATTTTTAAAATTATAGAAACACCCTCGATTGTAAAATTACCGAAACACCCTCAATTTGTAAAATT
1 ATTTGTAAAATTATAGAAACACCCTCGAGTGTAAAATTACCGAAACACCCTCAATGTGTAAAATG
48075082 ACTGAAACACCCTCG
66 ACTGAAACACCCTCG
* * * * **
48075097 ATTTGTAAAATTATCGAAATACCCTTGTAGTGTAAAATTACCGAAATACCCT-TGTAGTGTAAAA
1 ATTTGTAAAATTATAGAAACACCCTCG-AGTGTAAAATTACCGAAACACCCTCAAT-GTGTAAAA
48075161 TGACTGA
64 TGACTGA
48075168 CATACCCCTG
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
80 68 0.54
81 58 0.46
82 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (80 bp):
ATTTGTAAAATTATAGAAACACCCTCGAGTGTAAAATTACCGAAACACCCTCAATGTGTAAAATG
ACTGAAACACCCTCG
Found at i:48081665 original size:29 final size:28
Alignment explanation
Indices: 48081591--48081675 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 28
48081581 AGACGATCCC
*
48081591 TTCAGAGTTCACC-ATAAAGGCATTCTT
1 TTCAGAGTTCACCAAAAAAGGCATTCTT
* * * *
48081618 TTCAGA-TACTGCCACAAAAGGCTATTTTT
1 TTCAGAGTTC-ACCAAAAAAGGC-ATTCTT
**
48081647 TTCAGAGTTCACCAAAAAAGTTATTCTT
1 TTCAGAGTTCACCAAAAAAGGCATTCTT
48081675 T
1 T
48081676 ACTATCATGT
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
26 2 0.05
27 8 0.19
28 12 0.28
29 19 0.44
30 2 0.05
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (28 bp):
TTCAGAGTTCACCAAAAAAGGCATTCTT
Found at i:48085102 original size:43 final size:42
Alignment explanation
Indices: 48085052--48085172 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
48085042 ATATGTGTTC
*
48085052 TCGTGTAAGACCAGGTCTGGGACATTGGCATCGAT-TTGTGAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATT-TGAT
* * *
48085094 TATGTGTAAGACCATGTCTGGGACATCGACATCG-TATTTGAT
1 T-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGAT
* * *
48085136 TCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATAT
1 TCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
48085173 GAGATAGCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
41 26 0.39
42 10 0.15
43 30 0.45
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATTGGCATCGATATTTGAT
Found at i:48088625 original size:28 final size:29
Alignment explanation
Indices: 48088592--48088692 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
48088582 TATAGTAAGT
* * *
48088592 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
48088620 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
48088649 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
48088678 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
48088693 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:48096545 original size:28 final size:29
Alignment explanation
Indices: 48096512--48096612 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
48096502 TATAGTAAGT
* * *
48096512 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
48096540 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
48096569 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
48096598 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
48096613 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:48099533 original size:31 final size:31
Alignment explanation
Indices: 48099495--48099598 Score: 181
Period size: 31 Copynumber: 3.4 Consensus size: 31
48099485 GGTTACTAGG
48099495 CTGAAGCCTTTTCATAAATCATATCACTGGA
1 CTGAAGCCTTTTCATAAATCATATCACTGGA
48099526 CTGAAGCCTTTTCATAAATCATATCACTGGA
1 CTGAAGCCTTTTCATAAATCATATCACTGGA
* *
48099557 CTGAAGCCTTTTCATAAATCATATCATTGGG
1 CTGAAGCCTTTTCATAAATCATATCACTGGA
*
48099588 CCGAAGCCTTT
1 CTGAAGCCTTT
48099599 ACTGTGAATG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 70 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (31 bp):
CTGAAGCCTTTTCATAAATCATATCACTGGA
Found at i:48099669 original size:42 final size:42
Alignment explanation
Indices: 48099622--48099713 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
48099612 TGGCCCTTAG
* ** *
48099622 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
48099664 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
48099706 GCCCATTT
1 GCCCATTT
48099714 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:48099929 original size:26 final size:26
Alignment explanation
Indices: 48099858--48099980 Score: 196
Period size: 26 Copynumber: 4.8 Consensus size: 26
48099848 CCTCTTTAAC
**
48099858 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
48099883 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
48099908 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
48099934 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
48099960 AATTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
48099981 GCATTTCCTC
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 33 0.35
26 60 0.65
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:48100905 original size:27 final size:27
Alignment explanation
Indices: 48100875--48101287 Score: 223
Period size: 27 Copynumber: 15.3 Consensus size: 27
48100865 TTTTATCCTA
* * *
48100875 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
**
48100902 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
48100929 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
48100956 TAAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
48100982 CCAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* * * **
48101009 CTAGGGGTGTTTTGGTAATTCTAC-CCT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
** *
48101036 -ATAGGGTATTTCAGTAATTTCAC-AAT
1 CA-AGGGTATTTTGGTAATTTTACAAAT
* *** *
48101062 CGAGGGTA-AAAGGTAATTTCGA-AAAT
1 CAAGGGTATTTTGGTAATTT-TACAAAT
* *** * **
48101088 CAGGGGTAAAATAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*** * * *
48101115 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
48101142 CGAGGGTACTTTGGTAATTTTTACAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAAT
* *
48101170 CAAGAGTATTTCT-GTAATTTTAAAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
* * *
48101197 CAGGGGGTATTTTAGTAATTTTACAAAC
1 CA-AGGGTATTTTGGTAATTTTACAAAT
* * *
48101225 CAGGGGGTATTTTAGTAATTTTACAAAC
1 CA-AGGGTATTTTGGTAATTTTACAAAT
* * **
48101253 CAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
48101280 CGAGGGTA
1 CAAGGGTA
48101288 AAACGGTAAT
Statistics
Matches: 306, Mismatches: 65, Indels: 30
0.76 0.16 0.07
Matches are distributed among these distances:
25 8 0.03
26 35 0.11
27 191 0.62
28 71 0.23
29 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:48101186 original size:28 final size:28
Alignment explanation
Indices: 48101126--48101273 Score: 133
Period size: 28 Copynumber: 5.4 Consensus size: 28
48101116 AAGGGTAAAA
* * * *
48101126 TAGTAATTCTATAAATC-GAGGGTACTT
1 TAGTAATTTTACAAATCAGAGAGTATTT
*
48101153 TGGTAATTTTTACAAATCA-AGAGTATTT
1 TAGTAA-TTTTACAAATCAGAGAGTATTT
* * *
48101181 CT-GTAATTTTAAAAATCAGGGGGTATTT
1 -TAGTAATTTTACAAATCAGAGAGTATTT
* * *
48101209 TAGTAATTTTACAAACCAGGGGGTATTT
1 TAGTAATTTTACAAATCAGAGAGTATTT
* *
48101237 TAGTAATTTTACAAACCAG-GGGTATTT
1 TAGTAATTTTACAAATCAGAGAGTATTT
48101264 TAGTAATTTT
1 TAGTAATTTT
48101274 GTAAATCGAG
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
27 35 0.33
28 70 0.66
29 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (28 bp):
TAGTAATTTTACAAATCAGAGAGTATTT
Found at i:48101314 original size:54 final size:54
Alignment explanation
Indices: 48101038--48101386 Score: 183
Period size: 54 Copynumber: 6.4 Consensus size: 54
48101028 TCTACCCTAT
* * *
48101038 AGGGTATTTCAGTAA-TTT-CACAATCGAGGGTAAAA-GGTAATTTCGA-AAATC-
1 AGGGTATTTTAGTAATTTTGTA-AATCGAGGGTAAAATGGTAA-TTCTATAAATCG
*** * *
48101089 AGGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCG
1 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCG
* * * * ** * * *
48101144 AGGGTACTTTGGTAATTTT-TACAAATCAAGAGT-ATTTCTGTAATTTTAAAAATCAG
1 AGGGTATTTTAGTAATTTTGT--AAATCGAGGGTAAAAT-GGTAATTCTATAAATC-G
* ** * * *** * * * *
48101200 GGGGTATTTTAGTAATTTTACAAACCAGGGGGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTTAGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATAAATCG
*
48101254 AGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCG
1 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCG
*** * * * * *
48101309 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAGAATGGTAATTCTGTAAATCG
1 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCG
* * * *
48101363 GGGGTACTTTGGTAATTTGGTAAA
1 AGGGTATTTTAGTAATTTTGTAAA
48101387 CTAAAGTATT
Statistics
Matches: 224, Mismatches: 59, Indels: 27
0.72 0.19 0.09
Matches are distributed among these distances:
51 1 0.00
52 10 0.04
53 21 0.09
54 104 0.46
55 53 0.24
56 32 0.14
57 3 0.01
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.34
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCG
Found at i:48101379 original size:27 final size:27
Alignment explanation
Indices: 48101266--48101368 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
48101256 GGGTATTTTA
* * *
48101266 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
48101293 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
48101320 GTAATTCTATAAATCGAGGGTAGAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
48101347 GTAATTCTGTAAATCGGGGGTA
1 GTAATTCTATAAATCGAGGGTA
48101369 CTTTGGTAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:48109279 original size:40 final size:40
Alignment explanation
Indices: 48109195--48109386 Score: 196
Period size: 40 Copynumber: 4.8 Consensus size: 40
48109185 TCGAATGATG
* * * *
48109195 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAT
*
48109234 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
48109275 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* *
48109314 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
48109353 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
48109387 AGCTATATCC
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
39 35 0.27
40 85 0.66
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
Found at i:48109331 original size:79 final size:81
Alignment explanation
Indices: 48109195--48109377 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
48109185 TCGAATGATG
* *
48109195 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48109259 TGTACGAGTTACTA-A
66 TGTACGAGTTACTATA
* * * **
48109274 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
48109336 TTTGTGCGAGTTACTATA
64 TTTGTACGAGTTACTATA
* *
48109354 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48109378 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGTTACTATA
Found at i:48109401 original size:79 final size:79
Alignment explanation
Indices: 48109248--48109412 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
48109238 GGACTAAGAT
* **
48109248 CCGAAGGCATTTGTACGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
48109313 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
48109327 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
48109390 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
48109406 CCGAAGG
1 CCGAAGG
48109413 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:48112539 original size:79 final size:81
Alignment explanation
Indices: 48112430--48112609 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 81
48112420 TACTCGTTCA
* *
48112430 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
* *
48112494 TTTAGTAAC-TCGCACC
65 TATAGTAACTTAGCACC
* **
48112510 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
48112573 TATGGTCACTTAGCACC
65 TATAGTAACTTAGCACC
48112590 AA-GCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
48112610 AGACATCATT
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 55 0.63
80 28 0.32
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCACC
Found at i:48112545 original size:39 final size:40
Alignment explanation
Indices: 48112428--48112609 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 40
48112418 GCTACTCGTT
*
48112428 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
48112468 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
48112508 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
48112547 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
48112588 CCAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
48112610 AGACATCATT
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.62
41 12 0.10
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:48114530 original size:28 final size:28
Alignment explanation
Indices: 48114459--48114557 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
48114449 ATAATAAGCC
* *
48114459 CGCACACTTAGTGCT-TAATAGTCGAA-AT
1 CGCACACTTAGTGCTAT-ATAATC-AACCT
48114487 CGCACACTTAGTGCTATATAATCAACCT
1 CGCACACTTAGTGCTATATAATCAACCT
* *
48114515 CGCACACTTAGTGCTATACAATTTGAACC-
1 CGCACACTTAGTGCTATATAA--TCAACCT
48114544 CGCACACTTAGTGC
1 CGCACACTTAGTGC
48114558 CAATCTCATG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
27 2 0.03
28 41 0.65
29 15 0.24
30 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAACCT
Found at i:48116751 original size:56 final size:56
Alignment explanation
Indices: 48116684--48116803 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
48116674 TATTAGTTTA
*
48116684 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACTTGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
48116740 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
48116796 TTGCCCAT
1 TTGCCCAT
48116804 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:48123476 original size:79 final size:81
Alignment explanation
Indices: 48123340--48123522 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
48123330 TCGAATGATG
* *
48123340 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
48123404 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
48123419 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
48123481 TTTGTGTGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
48123499 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48123523 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:48123538 original size:40 final size:40
Alignment explanation
Indices: 48123341--48123524 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
48123331 CGAATGATGT
* * * *
48123341 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
48123381 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
48123421 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
48123459 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
48123500 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48123525 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 80 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:48123546 original size:79 final size:79
Alignment explanation
Indices: 48123393--48123547 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
48123383 GGACTAAGAT
* **
48123393 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
48123458 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
48123472 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
48123535 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
48123548 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:48128926 original size:9 final size:9
Alignment explanation
Indices: 48128914--48128940 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
48128904 ATGAATTGAA
48128914 AATGTTTTG
1 AATGTTTTG
48128923 AATGTTTTG
1 AATGTTTTG
48128932 AATGTTTTG
1 AATGTTTTG
48128941 GTAATGAATC
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:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (9 bp):
AATGTTTTG
Found at i:48129968 original size:15 final size:15
Alignment explanation
Indices: 48129948--48129994 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
48129938 TACTTGATTT
48129948 AAAATTTAATTAATC
1 AAAATTTAATTAATC
*
48129963 AAAA-TTAATTAATT
1 AAAATTTAATTAATC
* *
48129977 AAACTTTAATTAACC
1 AAAATTTAATTAATC
48129992 AAA
1 AAA
48129995 CCTTAATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATTTAATTAATC
Found at i:48129995 original size:15 final size:15
Alignment explanation
Indices: 48129952--48130001 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
48129942 TGATTTAAAA
48129952 TTTAATTAATCAAA-
1 TTTAATTAATCAAAC
* *
48129966 ATTAATTAATTAAAC
1 TTTAATTAATCAAAC
*
48129981 TTTAATTAACCAAAC
1 TTTAATTAATCAAAC
*
48129996 CTTAAT
1 TTTAAT
48130002 CATAATTGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTAATTAATCAAAC
Found at i:48134693 original size:24 final size:24
Alignment explanation
Indices: 48134661--48134710 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
48134651 ATCACGAAAC
48134661 TATGCGCATATGTCCACATTAATT
1 TATGCGCATATGTCCACATTAATT
*
48134685 TATGTGCATATGTCCACATTAATT
1 TATGCGCATATGTCCACATTAATT
48134709 TA
1 TA
48134711 AACCATCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (24 bp):
TATGCGCATATGTCCACATTAATT
Found at i:48135080 original size:48 final size:49
Alignment explanation
Indices: 48135023--48135120 Score: 180
Period size: 48 Copynumber: 2.0 Consensus size: 49
48135013 GTTGATGATA
*
48135023 ATCATCACATATATTTTCATCGCATAAACCGAA-ACACAAGCACATTAT
1 ATCATCACATATATTTTCATCACATAAACCGAATACACAAGCACATTAT
48135071 ATCATCACATATATTTTCATCACATAAACCGAATACACAAGCACATTAT
1 ATCATCACATATATTTTCATCACATAAACCGAATACACAAGCACATTAT
48135120 A
1 A
48135121 AACAATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 32 0.67
49 16 0.33
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (49 bp):
ATCATCACATATATTTTCATCACATAAACCGAATACACAAGCACATTAT
Found at i:48142592 original size:22 final size:23
Alignment explanation
Indices: 48142567--48142610 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
48142557 CACGATACTA
48142567 TATGC-ATATGTCCACATTAAAT
1 TATGCAATATGTCCACATTAAAT
48142589 TATGCGAATATGTCCACATTAA
1 TATGC-AATATGTCCACATTAA
48142611 TTTAAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.25
24 15 0.75
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.34
Consensus pattern (23 bp):
TATGCAATATGTCCACATTAAAT
Found at i:48148705 original size:46 final size:46
Alignment explanation
Indices: 48148651--48148826 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
48148641 TGGTTGACCA
48148651 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
48148697 TCCAAACTCGTTGAGCTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
48148742 CATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48148790 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48148827 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.57
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48148810 original size:93 final size:93
Alignment explanation
Indices: 48148649--48148819 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
48148639 GATGGTTGAC
* * * *
48148649 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAGCT
1 CATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCAAACTCGTTGAGCT
48148714 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* * *
48148742 CATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCAAACTCGTTGAGCT
48148807 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
48148820 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (93 bp):
CATCCGAACTCGTAGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCAAACTCGTTGAGCT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:48151319 original size:14 final size:15
Alignment explanation
Indices: 48151290--48151319 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48151280 AAAAATTTAG
48151290 ACATGATACTTTCAC
1 ACATGATACTTTCAC
48151305 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
48151319 A
1 A
48151320 TATAATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:48157308 original size:182 final size:181
Alignment explanation
Indices: 48157000--48157360 Score: 686
Period size: 182 Copynumber: 2.0 Consensus size: 181
48156990 TCTTCACATT
48157000 CAAGTCCCTCCAACTCATTATTTTACCATTTAGTCACTTATAATTATAGATTCATAATTTCTATC
1 CAAGTCCCTCCAACTCATTATTTTACCATTTAGTCACTTATAATTATAGATTCATAATTTCTATC
*
48157065 CTTAATTAAGACAAACAACCAAATTTTATTCAATTTCCTCTATGACCGAATGCATATACCTCAAC
66 CTTAATTAAGACAAACAACCAAATTTTATTCAATTTCCTCTATGACCGAATGCACATACCTCAAC
48157130 CGAAATCAAAATTTCAACATGGGCTTTAACACTAATTAAACAAGGATCATA
131 CGAAATCAAAATTTCAACATGGGCTTTAACACTAATTAAACAAGGATCATA
*
48157181 CAAGTCCCTCCAACTCATTATTTTACCATTTAGTCACTTATAATTATAGATTCATAAATTTCTCT
1 CAAGTCCCTCCAACTCATTATTTTACCATTTAGTCACTTATAATTATAGATTCAT-AATTTCTAT
*
48157246 CCTTAATTAAGACAAACAACCAAATTTTATTCAATTTCTTCTATGACCGAATGCACATACCTCAA
65 CCTTAATTAAGACAAACAACCAAATTTTATTCAATTTCCTCTATGACCGAATGCACATACCTCAA
48157311 CCGAAATCAAAATTTCAACATGGGCTTTAACACTAATTAAACAAGGATCA
130 CCGAAATCAAAATTTCAACATGGGCTTTAACACTAATTAAACAAGGATCA
48157361 CACATCTATT
Statistics
Matches: 176, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
181 55 0.31
182 121 0.69
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (181 bp):
CAAGTCCCTCCAACTCATTATTTTACCATTTAGTCACTTATAATTATAGATTCATAATTTCTATC
CTTAATTAAGACAAACAACCAAATTTTATTCAATTTCCTCTATGACCGAATGCACATACCTCAAC
CGAAATCAAAATTTCAACATGGGCTTTAACACTAATTAAACAAGGATCATA
Found at i:48157784 original size:14 final size:15
Alignment explanation
Indices: 48157755--48157784 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48157745 CAAAATTTAG
48157755 ACATGATACTTTCAC
1 ACATGATACTTTCAC
48157770 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
48157784 A
1 A
48157785 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:48161249 original size:13 final size:13
Alignment explanation
Indices: 48161233--48161258 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48161223 AATGATTTTT
48161233 TTGAAAATTTTGA
1 TTGAAAATTTTGA
48161246 TTGAAAATTTTGA
1 TTGAAAATTTTGA
48161259 CGTTTGGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TTGAAAATTTTGA
Found at i:48162369 original size:42 final size:42
Alignment explanation
Indices: 48162322--48162437 Score: 151
Period size: 42 Copynumber: 2.7 Consensus size: 42
48162312 GAGATTCTAA
* *
48162322 ATAAGACCATATTTGGGATATGGCATTGGTATGTGATTTCGT
1 ATAAGACCATATTTGGGATATGGCATTGATATGTGATTTCAT
* ** * * *
48162364 ATAAGACCATGTGAGGGACATGGCATCGATATGTTATTTCAT
1 ATAAGACCATATTTGGGATATGGCATTGATATGTGATTTCAT
48162406 ATAAGACCATATTTGGGATATGGCATTTGATA
1 ATAAGACCATATTTGGGATATGGCA-TTGATA
48162438 CAGTACTATG
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 55 0.92
43 5 0.08
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.34
Consensus pattern (42 bp):
ATAAGACCATATTTGGGATATGGCATTGATATGTGATTTCAT
Found at i:48163680 original size:32 final size:32
Alignment explanation
Indices: 48163639--48163703 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
48163629 ATGACACTTT
*
48163639 TAAAATGTGATAGTTTAATCTATACGGATCAA
1 TAAAATGTGATAGTTTAATCTATAAGGATCAA
48163671 TAAAATGTGATAGTTTAATCTATAAGGATCAA
1 TAAAATGTGATAGTTTAATCTATAAGGATCAA
48163703 T
1 T
48163704 TAATACATGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (32 bp):
TAAAATGTGATAGTTTAATCTATAAGGATCAA
Found at i:48165251 original size:40 final size:39
Alignment explanation
Indices: 48165196--48165333 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 39
48165186 CGGATGATAA
*
48165196 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ACTATA-T
*
48165236 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TACTATAT
* * *
48165276 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-CTATAT
*
48165316 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48165334 TACTTGGTTG
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
39 17 0.19
40 69 0.78
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTACTATAT
Found at i:48172380 original size:40 final size:40
Alignment explanation
Indices: 48172325--48172502 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
48172315 CGGATGATAA
* *
48172325 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
48172365 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
48172405 GCGGGCTATGTCCCGAAGGCATTTGCGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48172445 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
48172485 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48172503 TACTTGGTTG
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 17 0.14
40 106 0.85
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48175631 original size:24 final size:24
Alignment explanation
Indices: 48175604--48175711 Score: 112
Period size: 25 Copynumber: 4.4 Consensus size: 24
48175594 CTGGAGGCCT
48175604 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
48175628 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
** *
48175652 AGCCCTTTTCTGTAAACTAGGGCAA
1 AGCCCTTTT-AATAAACTGGGGCAA
**
48175677 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCA-A
48175703 A-CCCTTTTA
1 AGCCCTTTTA
48175712 GCACTTCCTC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.09
24 24 0.32
25 41 0.55
26 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:48175674 original size:25 final size:25
Alignment explanation
Indices: 48175617--48175710 Score: 131
Period size: 25 Copynumber: 3.8 Consensus size: 25
48175607 CTCTTTTAAT
48175617 AACTGGGGCAAAGCCC-TTT-TGATA
1 AACTGGGGCAAAGCCCTTTTCTG-TA
48175641 AACTGGGGCAAAGCCCTTTTCTGTA
1 AACTGGGGCAAAGCCCTTTTCTGTA
* *
48175666 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCTGTA
48175691 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
48175711 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.25
25 44 0.69
26 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCTGTA
Found at i:48176580 original size:27 final size:27
Alignment explanation
Indices: 48176518--48176595 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
48176508 GGGCATATTA
48176518 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
48176545 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
48176572 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
48176596 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:48176666 original size:27 final size:27
Alignment explanation
Indices: 48176613--48176945 Score: 185
Period size: 27 Copynumber: 12.3 Consensus size: 27
48176603 TTTCACCCTA
* * * **
48176613 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
**
48176640 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * * *
48176667 TAATGGTATTTCT-ATAATTTT-TAAAAAAT
1 CAAGGGTATTT-TGGTAATTTTGT---AAAC
*
48176696 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTGTAAAC
* ** *
48176723 CAAGGGTATTTTGGCAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * ***
48176750 TAAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* **
48176777 C-AGTGGTATTTTGGTAACTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTGTAAAC
* **
48176803 CTAGGGATATTTTGGTAATTTTACAAAC
1 CAAGGG-TATTTTGGTAATTTTGTAAAC
* * ** *
48176831 CAAGGGTATTTTAGCAATTTTACAGAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * *
48176858 C-AGGGTATATTGGTAATTTTGCT-GAT
1 CAAGGGTATTTTGGTAATTTTG-TAAAC
*
48176884 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTGTAAAC
* * *
48176911 CAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTGTAAAC
*
48176938 CGAGGGTA
1 CAAGGGTA
48176946 AAACAGTAAT
Statistics
Matches: 246, Mismatches: 47, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
26 27 0.11
27 192 0.78
28 5 0.02
29 21 0.09
30 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTGTAAAC
Found at i:48176742 original size:56 final size:54
Alignment explanation
Indices: 48176640--48176769 Score: 147
Period size: 56 Copynumber: 2.4 Consensus size: 54
48176630 ATCTACAAAC
* *
48176640 CAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAAAAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTACAA-TTTT-AAAAAT
* * *
48176696 CAAGGGTATTTCTGTAATTTTGTAAA-TCAAGGGTATTT-TGGCAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAACT-AAGGGTATTTCT-ACAATTTTAAAAAT
* *
48176750 TAAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCAGTAATTT
48176770 CACAAACCAG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
54 23 0.35
55 6 0.09
56 36 0.55
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTTTGTAAACTAAGGGTATTTCTACAATTTTAAAAAT
Found at i:48176784 original size:110 final size:108
Alignment explanation
Indices: 48176613--48176865 Score: 244
Period size: 110 Copynumber: 2.3 Consensus size: 108
48176603 TTTCACCCTA
* * * * *** *
48176613 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACTAATGGTATTT
1 CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
* ** *
48176678 CT-ATAATTTTTAAAAAATCAAGGG-TATTTCT-GTAATTTTGTAAAT
66 -TGATAA-CTTT-AAAAA-CAAGGGATATTT-TGGTAATTTTACAAAC
** * *
48176723 CAAGGGTATTTTGGCAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTT
1 CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
* * *
48176788 TGGTAACTTTACAAACTAGGGATATTTTGGTAATTTTACAAAC
66 TGATAACTTTAAAAACAAGGGATATTTTGGTAATTTTACAAAC
* *
48176831 CAAGGGTATTTTAGCAATTTTACAGACC-AGGGTAT
1 CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTAT
48176866 ATTGGTAATT
Statistics
Matches: 117, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
107 13 0.11
108 44 0.38
109 4 0.03
110 56 0.48
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (108 bp):
CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATTT
TGATAACTTTAAAAACAAGGGATATTTTGGTAATTTTACAAAC
Found at i:48176911 original size:80 final size:80
Alignment explanation
Indices: 48176725--48176931 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
48176715 TTGTAAATCA
* ** ** * *
48176725 AGGGTATTTTGGCAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTTG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATATTG
*
48176790 GTAACTTTACAAACT
66 GTAACTTTACAAACG
* *
48176805 AGGGATATTTTGGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAGACCAG-GGTATATT
1 AGGG-TATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATATT
* * * *
48176869 GGTAATTTTGCTGATCG
65 GGTAACTTTAC-AAACG
** *
48176886 AGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTT
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
48176932 GTAAATCGAG
Statistics
Matches: 107, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 58 0.54
81 49 0.46
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (80 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAGTGGTATATTG
GTAACTTTACAAACG
Found at i:48176940 original size:54 final size:54
Alignment explanation
Indices: 48176613--48176945 Score: 230
Period size: 54 Copynumber: 6.1 Consensus size: 54
48176603 TTTCACCCTA
* * * * **
48176613 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAA-
1 CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* ** * *
48176666 CTAATGGTATTTCT-ATAATTTTTAAAAAATCAAGGGTATTTCT-GTAATTTTGTAAAT
1 C-AAGGGTATTT-TGGCAA-TTTT-ACAAACCAAGGGTATTT-TGGTAATTTTGTAAAT
** * ***
48176723 CAAGGGTATTTTGGCAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
* * * * ** *
48176776 CCAGTGGTATTTTGGTAACTTTACAAA-CTAGGGATATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGCAATTTTACAAACCAAGGG-TATTTTGGTAATTTTGTAAAT
* * * *
48176831 CAAGGGTATTTTAGCAATTTTACAGACC-AGGGTATATTGGTAATTTTGCT-GAT
1 CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTTGGTAATTTTG-TAAAT
* * ** * *
48176884 CGAGGGTATTTTGGTAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
*
48176938 CGAGGGTA
1 CAAGGGTA
48176946 AAACAGTAAT
Statistics
Matches: 221, Mismatches: 44, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
53 46 0.21
54 123 0.56
55 12 0.05
56 39 0.18
57 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGCAATTTTACAAACCAAGGGTATTTTGGTAATTTTGTAAAT
Found at i:48176953 original size:27 final size:27
Alignment explanation
Indices: 48176923--48177045 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
48176913 ATGGTATTTT
*
48176923 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
48176950 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
48176977 AGTAATTCTATAAATCGAGGGTAAAA-
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
48177003 TGATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
*
48177031 -GATAATTATGTAAAT
1 AG-TAATTCTGTAAAT
48177046 TGGTGGTACT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 85 0.99
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:48176955 original size:54 final size:54
Alignment explanation
Indices: 48176897--48177029 Score: 151
Period size: 54 Copynumber: 2.5 Consensus size: 54
48176887 GGGTATTTTG
* * *** * *
48176897 GTAATTTTGTAAACCAATGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
* *
48176951 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA-T
1 GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
* *
48177004 GATAATTCTGTAAATCGAGGGTAAAA
1 G-TAATTCTGTAAACCAAGGGTAAAA
48177030 CGATAATTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 67 0.99
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.32
Consensus pattern (54 bp):
GTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:48179270 original size:3 final size:3
Alignment explanation
Indices: 48179262--48179289 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
48179252 CGGTTGCTCC
48179262 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
48179290 TTCAGGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:48181907 original size:27 final size:27
Alignment explanation
Indices: 48181801--48181907 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
48181791 AGGAAGCGTC
*
48181801 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
*
48181828 CTGGTGGCTCTGCCACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
48181855 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * *
48181883 CTAGTGACTCTGTCACATTATCTGT
1 CTGGTGGCTCTGCCACATTATCTGT
48181908 CTTGGCAGCC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 2 0.03
27 52 0.74
28 16 0.23
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Done.