Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold344
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: 1758742
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 10 of 11
Found at i:1564996 original size:55 final size:55
Alignment explanation
Indices: 1564905--1565367 Score: 706
Period size: 55 Copynumber: 8.4 Consensus size: 55
1564895 TCTCCTTCCG
*
1564905 CTTTTTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
1564960 CCTTTC-AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA
1 -CTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
*
1565015 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
1565070 CCTTTC-AGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA
1 -CTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
*
1565125 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
* *
1565180 CCTTT-TAGTCCCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA
1 -CTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
*
1565235 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
*
1565290 CCTTTC-AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
*
1565345 TTTTCTAGTCCTCAAAGAGCAGG
1 CTTTCTAGTCCTCAAAGAGCAGG
1565368 CTCTTTCAGT
Statistics
Matches: 372, Mismatches: 22, Indels: 27
0.88 0.05 0.06
Matches are distributed among these distances:
54 21 0.06
55 330 0.89
56 21 0.06
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (55 bp):
CTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1565103 original size:110 final size:110
Alignment explanation
Indices: 1564906--1565367 Score: 883
Period size: 110 Copynumber: 4.2 Consensus size: 110
1564896 CTCCTTCCGC
1564906 TTTT-TAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1564970 CCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
66 CCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1565015 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1565080 CCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
66 CCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
*
1565125 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1565190 CCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
66 CCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
1565235 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
1565300 CCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
66 CCCAAAGAGCAGGACACCT-TTCAAAGCCCACCCAAGTTGGTGGCA
1565345 TTTTCTAGTCCTCAAAGAGCAGG
1 TTTTCTAGTCCTCAAAGAGCAGG
1565368 CTCTTTCAGT
Statistics
Matches: 348, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
109 4 0.01
110 342 0.98
111 2 0.01
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (110 bp):
TTTTCTAGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CCCAAAGAGCAGGACACCTTTCAAAGCCCACCCAAGTTGGTGGCA
Found at i:1565587 original size:55 final size:55
Alignment explanation
Indices: 1565370--1566057 Score: 839
Period size: 55 Copynumber: 12.4 Consensus size: 55
1565360 AGAGCAGGCT
*
1565370 CTTTCAGTCCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACATAGTTGGTGGCA
1 CTTTCAGT-CCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACA-AGTTGGTGGCA
* * *
1565426 TTTTCTAAGTCCTCAAAGAACAGGACCACCT-TTCAACAGCCCAAACAAGTTGGTGGCA
1 CTTTC--AGTCCTCAAAGAGCAGGA-CACCTCTTCAA-AGCCCACACAAGTTGGTGGCA
* * *
1565484 TTTTTCCAGTCCTCAAAGAGCAGGACACCTCTTTAAAGCCCACACAAGTTGGTGGAA
1 -CTTT-CAGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1565541 CCTTTCAGTCCCCAAA-AGCATGACCAACT-TTCAAAGCCCACCCAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGA-CACCTCTTCAAAGCCCACACAAGTTGGTGGCA
*
1565596 TTTTCTAG-CCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
* *
1565650 CCTTTTCAGTCCCCAAAGAGCAGGACACCT-TTCAAAG-CCACCCAAGTTGGTGGCA
1 -C-TTTCAGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
*
1565705 TTTTCTA-TCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
*
1565759 CCTTTCAGTCCCCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
* *
1565814 TTTTCTAGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTC-AGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
*
1565869 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CTTT-CAGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1565924 CCTTTCATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
** *
1565979 CCTTTCAGTCCTCAAAGAGCAGGACGTCT-TTCAAAGCCCACACGAGTTGGTGGCA
1 -CTTTCAGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1566034 CTTTTTACTCCTCAATGAGCAGGA
1 C-TTTCAGTCCTCAAAGAGCAGGA
1566058 TACAGTTTAT
Statistics
Matches: 559, Mismatches: 44, Indels: 59
0.84 0.07 0.09
Matches are distributed among these distances:
53 28 0.05
54 68 0.12
55 312 0.56
56 53 0.09
57 42 0.08
58 42 0.08
59 13 0.02
60 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (55 bp):
CTTTCAGTCCTCAAAGAGCAGGACACCTCTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1565985 original size:29 final size:29
Alignment explanation
Indices: 1565838--1565985 Score: 89
Period size: 29 Copynumber: 5.3 Consensus size: 29
1565828 AAGAACAGGA
1565838 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTTGGTGG
* * * * * **
1565867 CA-TTTTC-CAGTCCTCA-AAG-AGCAGG
1 CACCTTTCAAAGCCCACACAAGTTGGTGG
1565892 ACACCTCTT-AAAGCCCACACAAGTTGGTGG
1 -CACCT-TTCAAAGCCCACACAAGTTGGTGG
** * **
1565922 CACCTTTC-ATTCCC-CA-AAG-AGCAGG
1 CACCTTTCAAAGCCCACACAAGTTGGTGG
*
1565947 ACACTTTTCAAAGCCCACACAAGTTGGTGG
1 -CACCTTTCAAAGCCCACACAAGTTGGTGG
1565977 CACCTTTCA
1 CACCTTTCA
1565986 GTCCTCAAAG
Statistics
Matches: 81, Mismatches: 26, Indels: 24
0.62 0.20 0.18
Matches are distributed among these distances:
25 6 0.07
26 15 0.19
27 13 0.16
28 20 0.25
29 21 0.26
30 6 0.07
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTTGGTGG
Found at i:1566689 original size:13 final size:13
Alignment explanation
Indices: 1566650--1566689 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
1566640 ATAAAGTGTT
*
1566650 TGAAAAAAAAAAT
1 TGAAAAAAAAAAA
1566663 TGAAAAAAAAAAAA
1 TG-AAAAAAAAAAA
1566677 TGAAAAAAAAAAA
1 TGAAAAAAAAAAA
1566690 AAATCCAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (13 bp):
TGAAAAAAAAAAA
Found at i:1566691 original size:15 final size:14
Alignment explanation
Indices: 1566652--1566690 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
1566642 AAAGTGTTTG
*
1566652 AAAAAAAAAATTGA
1 AAAAAAAAAAATGA
1566666 AAAAAAAAAAATGA
1 AAAAAAAAAAATGA
1566680 AAAAAAAAAAA
1 AAAAAAAAAAA
1566691 AATCCAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.87, C:0.00, G:0.05, T:0.08
Consensus pattern (14 bp):
AAAAAAAAAAATGA
Found at i:1566742 original size:20 final size:21
Alignment explanation
Indices: 1566697--1566772 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
1566687 AAAAAATCCA
**
1566697 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTCCTAG
1566718 AATGTATCGATACATTCCT-G
1 AATGTATCGATACATTCCTAG
*
1566738 AATGTATCGATACA-TCCTACA
1 AATGTATCGATACATTCCTA-G
1566759 AATGTATCGATACA
1 AATGTATCGATACA
1566773 GGGTCCCAAC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 4 0.08
20 15 0.30
21 31 0.62
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATTCCTAG
Found at i:1566832 original size:19 final size:19
Alignment explanation
Indices: 1566808--1566875 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1566798 AATTCAACGA
1566808 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1566827 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1566842 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1566859 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1566876 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1566846 original size:32 final size:32
Alignment explanation
Indices: 1566810--1566872 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1566800 TTCAACGATT
*
1566810 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1566842 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1566873 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1566847 original size:13 final size:13
Alignment explanation
Indices: 1566829--1566853 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1566819 ACATAAGTTT
1566829 TGTATCGATACAA
1 TGTATCGATACAA
1566842 TGTATCGATACA
1 TGTATCGATACA
1566854 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1566933 original size:13 final size:13
Alignment explanation
Indices: 1566915--1566940 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1566905 CATTTTTCTG
1566915 TGTATCGATACAT
1 TGTATCGATACAT
1566928 TGTATCGATACAT
1 TGTATCGATACAT
1566941 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1566937 original size:33 final size:33
Alignment explanation
Indices: 1566895--1566961 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1566885 GCCAAGGAAA
***
1566895 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1566928 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1566961 T
1 T
1566962 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1569438 original size:27 final size:28
Alignment explanation
Indices: 1569408--1569483 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
1569398 TTTCTTCACA
1569408 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
1569435 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
1569463 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1569484 GTTTTATCGC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.55
28 20 0.45
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:1569635 original size:52 final size:51
Alignment explanation
Indices: 1569299--1569635 Score: 229
Period size: 52 Copynumber: 6.4 Consensus size: 51
1569289 ATCAATTCTC
* * *
1569299 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
* *
1569349 CTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAATTT-TT
* * * ** * *
1569404 CACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGTTATTT
1 CACAATCGGGGATACTCCAACTCCGATTTTAT-TTC--CAAAACACCAA-----TT-TTT
* * * ** * *
1569462 C-CGA--GGGGATACTCCAACCCCGGTTTTATCGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
* * * *
1569510 CCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTC
1 -CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAATTTTT
** *
1569562 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAATTTTT
*
1569615 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
1569636 CTCGTTATTT
Statistics
Matches: 221, Mismatches: 42, Indels: 46
0.72 0.14 0.15
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 3 0.01
51 34 0.15
52 81 0.37
53 34 0.15
54 29 0.13
55 21 0.10
56 1 0.00
57 6 0.03
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (51 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTT
Found at i:1569651 original size:28 final size:28
Alignment explanation
Indices: 1569619--1569695 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
1569609 ATTTTTCACA
* *
1569619 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTACTTC
1569647 ATCGAGGATACTCCAACCCCGTTACTTC
1 ATCGAGGATACTCCAACCCCGTTACTTC
1569675 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
1569696 GCTTTATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.07
28 42 0.93
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTACTTC
Found at i:1569664 original size:212 final size:212
Alignment explanation
Indices: 1569297--1569702 Score: 647
Period size: 212 Copynumber: 1.9 Consensus size: 212
1569287 TTATCAATTC
* *
1569297 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
1569362 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
1569427 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATC
131 CGTTAATCATCGAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
1569492 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * *
1569509 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
1569573 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
1569636 CTCGTTATTTCATCGAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
1569701 AT
193 AT
1569703 TTCTAATCAT
Statistics
Matches: 178, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
211 31 0.17
212 112 0.63
213 35 0.20
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGAGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:1571696 original size:42 final size:42
Alignment explanation
Indices: 1571637--1571721 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
1571627 TAAATACGGT
1571637 GCTACAGTAGGATTGATGTACACAAATGGGTGACTTGGCGGA
1 GCTACAGTAGGATTGATGTACACAAATGGGTGACTTGGCGGA
1571679 GCTACAGTAGGATTGATGTACACAAATGGGTGACTTGGCGGA
1 GCTACAGTAGGATTGATGTACACAAATGGGTGACTTGGCGGA
1571721 G
1 G
1571722 TTCTTGCTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.24
Consensus pattern (42 bp):
GCTACAGTAGGATTGATGTACACAAATGGGTGACTTGGCGGA
Found at i:1574397 original size:4 final size:4
Alignment explanation
Indices: 1574388--1574425 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
1574378 AAACAAAACA
* *
1574388 AAAT AAAT AAAT AAAT AAAT TAAT GAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1574426 GCACCTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:1576158 original size:13 final size:13
Alignment explanation
Indices: 1576140--1576170 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1576130 ACATTTCTTC
1576140 ATGTATCGATACA
1 ATGTATCGATACA
1576153 ATGTATCGATACA
1 ATGTATCGATACA
*
1576166 TTGTA
1 ATGTA
1576171 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1576158 original size:33 final size:33
Alignment explanation
Indices: 1576120--1576186 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
1576110 ATTACAAGCT
1576120 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
1576153 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
1576186 A
1 A
1576187 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:1576232 original size:18 final size:21
Alignment explanation
Indices: 1576215--1576354 Score: 98
Period size: 20 Copynumber: 6.7 Consensus size: 21
1576205 CTACCAATTT
1576215 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGTC
1576236 CATGTATCGATAC-A-TTGTAC
1 CATGTATCGATACAATTTGT-C
* *
1576256 CATATATCGATACAAATAGTGAT-
1 CATGTATCGATAC-AAT-TTG-TC
* * * * *
1576279 AAGGTAGCTACTGCGAA-TT-T-
1 CATGTATCGA-TAC-AATTTGTC
1576299 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAATTTGTC
1576320 CATGTATCGATAC-A-TTGTAC
1 CATGTATCGATACAATTTGT-C
1576340 CATGTATCGATACAA
1 CATGTATCGATACAA
1576355 ATAGTGATAG
Statistics
Matches: 92, Mismatches: 15, Indels: 24
0.70 0.11 0.18
Matches are distributed among these distances:
18 2 0.02
19 12 0.13
20 37 0.40
21 27 0.29
22 2 0.02
23 5 0.05
24 6 0.07
25 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (21 bp):
CATGTATCGATACAATTTGTC
Found at i:1576248 original size:84 final size:84
Alignment explanation
Indices: 1576153--1576433 Score: 464
Period size: 84 Copynumber: 3.4 Consensus size: 84
1576143 TATCGATACA
*
1576153 ATGTATCGATACATTGTACCATGTATCGATACAAATAGTGATAGGGTAGCTACTACCAATTTCAT
1 ATGTATCGATACATTGTACCATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCAT
1576218 GTATCGATACAATTTGTCC
66 GTATCGATACAATTTGTCC
* * *
1576237 ATGTATCGATACATTGTACCATATATCGATACAAATAGTGATAAGGTAGCTACTGCGAATTTCAT
1 ATGTATCGATACATTGTACCATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCAT
1576302 GTATCGATACAATTTGTCC
66 GTATCGATACAATTTGTCC
*
1576321 ATGTATCGATACATTGTACCATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCCT
1 ATGTATCGATACATTGTACCATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCAT
1576386 GTATCGATACAATTTGTCC
66 GTATCGATACAATTTGTCC
* *
1576405 ----ATCGATACATTG-AACATGTATTGATACAA
1 ATGTATCGATACATTGTACCATGTATCGATACAA
1576434 TGTATCAATA
Statistics
Matches: 187, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
79 15 0.08
80 12 0.06
84 160 0.86
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (84 bp):
ATGTATCGATACATTGTACCATGTATCGATACAAATAGTGATAGGGTAGCTACTGCCAATTTCAT
GTATCGATACAATTTGTCC
Found at i:1576350 original size:41 final size:41
Alignment explanation
Indices: 1576215--1576354 Score: 135
Period size: 41 Copynumber: 3.4 Consensus size: 41
1576205 CTACCAATTT
1576215 CATGTATCGATACAATTTGTCCATGTATCGATACATTGTAC
1 CATGTATCGATACAATTTGTCCATGTATCGATACATTGTAC
* * * * * * *
1576256 CATATATCGATACAAATAGTGAT-AAGGTAGCTACTGCGAATT-T--
1 CATGTATCGATAC-AAT-TTG-TCCATGTATCGA-TAC--ATTGTAC
1576299 CATGTATCGATACAATTTGTCCATGTATCGATACATTGTAC
1 CATGTATCGATACAATTTGTCCATGTATCGATACATTGTAC
1576340 CATGTATCGATACAA
1 CATGTATCGATACAA
1576355 ATAGTGATAG
Statistics
Matches: 75, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
38 3 0.04
39 1 0.01
40 3 0.04
41 35 0.47
42 6 0.08
43 20 0.27
44 3 0.04
45 1 0.01
46 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (41 bp):
CATGTATCGATACAATTTGTCCATGTATCGATACATTGTAC
Found at i:1578018 original size:158 final size:158
Alignment explanation
Indices: 1577868--1578239 Score: 428
Period size: 158 Copynumber: 2.4 Consensus size: 158
1577858 ATCCACTCGA
* * * * *
1577868 AAATAACGGGGTTGGAGTATCCGCGATTATGAAAAA-TAGATGTTTTAGAAATAAAACCGAGG-T
1 AAATAACAGGGTTGGAGTATCCCCGATGATGAAAAACCAG-TATTTTAGAAATAAAACCG-GGAT
*
1577931 TGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCTCGATGGTGGAAAATTGATGTTTTGAA
64 TGGAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTGAA
*
1577996 AATAAACTTGGGGTTAGAGTATCTCTTCAG
129 AATAAACTTGGGGTTAGAGTATCTCCTCAG
* * **
1578026 AAATAATAGGGTTGGAGTATCCCCGATGGTGAAAAACCAGTATTTTAGAAATAAAATTGGGATTG
1 AAATAACAGGGTTGGAGTATCCCCGATGATGAAAAACCAGTATTTTAGAAATAAAACCGGGATTG
** * *
1578091 GAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGAAAA
66 GAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTGAAAA
*****
1578156 TAAAAACAAGGTT-GAAGTATC-CCTTCAG
131 TAAACTTGGGGTTAG-AGTATCTCC-TCAG
* * *** * * *
1578184 AAATAACGGGGTTGGAGTTTTTTCGATGGTAAAAAATCAGTATTTTAGAAATAAAA
1 AAATAACAGGGTTGGAGTATCCCCGATGATGAAAAACCAGTATTTTAGAAATAAAA
1578240 ACATCCATGA
Statistics
Matches: 182, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
157 4 0.02
158 176 0.97
159 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (158 bp):
AAATAACAGGGTTGGAGTATCCCCGATGATGAAAAACCAGTATTTTAGAAATAAAACCGGGATTG
GAGTATCCCCTCAAAAATAACAAGGTTAGAGTATCCCCGATGGTGGAAAATTGATGTTTTGAAAA
TAAACTTGGGGTTAGAGTATCTCCTCAG
Found at i:1578213 original size:79 final size:80
Alignment explanation
Indices: 1577868--1578201 Score: 315
Period size: 79 Copynumber: 4.2 Consensus size: 80
1577858 ATCCACTCGA
* * ** * * *
1577868 AAATAACGGGGTTGGAGTATCCGCGATTATGAAAAATAGATGTTTT-AGAAATAAAACCGAGGTT
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGAGAAATAAAAACGAGGTT
* * *
1577932 GGAGTATCCCCTCAA
66 GAAGTATCCCTTCAG
* * * *** *
1577947 AAATAACAAGGTTAGAGTATCCTCGATGGTGGAAAATTGATGTTTTGA-AAATAAACTTGGGGTT
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGAGAAATAAAAACGAGGTT
*
1578011 -AGAGTATCTCTTCAG
66 GA-AGTATCCCTTCAG
* *** * **
1578026 AAATAATAGGGTTGGAGTATCCCCGATGGT-GAAAAACCA-GTATTTTAGAAATAAAATTG-GGA
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGT-TTTGAGAAATAAAAACGAGG-
* *
1578088 TTGGAGTATCCCCTTGA-
64 TTGAAGTAT-CCCTTCAG
*
1578105 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGA-AAATAAAAACAAGGTT
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGAGAAATAAAAACGAGGTT
1578169 GAAGTATCCCTTCAG
66 GAAGTATCCCTTCAG
*
1578184 AAATAACGGGGTTGGAGT
1 AAATAACAGGGTTGGAGT
1578202 TTTTTCGATG
Statistics
Matches: 205, Mismatches: 39, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
77 2 0.01
78 18 0.09
79 165 0.80
80 18 0.09
81 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.28
Consensus pattern (80 bp):
AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTTGAGAAATAAAAACGAGGTT
GAAGTATCCCTTCAG
Found at i:1578236 original size:79 final size:80
Alignment explanation
Indices: 1577868--1578242 Score: 277
Period size: 79 Copynumber: 4.7 Consensus size: 80
1577858 ATCCACTCGA
* * ** * * *
1577868 AAATAACGGGGTTGGAGTATCCGCGATTATGAAAAAT-AGATGTTTTAGAAATAAAACCGAGG-T
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAG-TATTTTAGAAATAAAAACAAGGAT
* * *
1577931 TGGAGTATCCCCTCAA
65 TGAAGTATCCCTTCAG
* * * * * * * ** *
1577947 AAATAACAAGGTTAGAGTATCCTCGATGGTGGAAAAT-TG-ATGTTTTGAAA-ATAAACTTGGGG
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTAT-TTTAGAAATAAAAAC-AAGGA
*
1578009 TT-AGAGTATCTCTTCAG
64 TTGA-AGTATCCCTTCAG
* * ***
1578026 AAATAATAGGGTTGGAGTATCCCCGATGGTGAAAAACCAGTATTTTAGAAAT-AAAATTGGGATT
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAAACAAGGATT
* *
1578090 GGAGTATCCCCTTGA-
66 GAAGTAT-CCCTTCAG
* * *
1578105 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAAT-TG-ATGTTTTGAAAATAAAAACAAGG-
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTAT-TTTAG-AAATAAAAACAAGGA
1578167 TTGAAGTATCCCTTCAG
64 TTGAAGTATCCCTTCAG
* * *** *
1578184 AAATAACGGGGTTGGAGTTTTTTCGATGGTAAAAAATCAGTATTTTAGAAATAAAAACA
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAAACA
1578243 TCCATGAAAT
Statistics
Matches: 230, Mismatches: 51, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
77 7 0.03
78 20 0.09
79 172 0.75
80 27 0.12
81 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.28
Consensus pattern (80 bp):
AAATAACAGGGTTGGAGTATCCCCGATGGTGAAAAATCAGTATTTTAGAAATAAAAACAAGGATT
GAAGTATCCCTTCAG
Found at i:1578885 original size:50 final size:50
Alignment explanation
Indices: 1578740--1578873 Score: 182
Period size: 50 Copynumber: 2.7 Consensus size: 50
1578730 AAAATGCTTA
* * * *
1578740 AATGTATCGATACATTG-AGAAAGATATTGATACATCTAGGTAAAA-CTCAG
1 AATGTATCGATACAATGAAGAATG-TATCGATACATCTGGGTAAAATC-CAG
*
1578790 AATGTATCGATACAATGGAGAATGTATCGATACATCTGGGTAAAATCCAG
1 AATGTATCGATACAATGAAGAATGTATCGATACATCTGGGTAAAATCCAG
*
1578840 AATGTATCGATACAATGAAGGATGTATCGATACA
1 AATGTATCGATACAATGAAGAATGTATCGATACA
1578874 AATTGTGAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 70 0.92
51 6 0.08
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (50 bp):
AATGTATCGATACAATGAAGAATGTATCGATACATCTGGGTAAAATCCAG
Found at i:1580318 original size:13 final size:13
Alignment explanation
Indices: 1580300--1580329 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1580290 ATTTCTTATA
*
1580300 TTTCCTTTTCTTT
1 TTTCCTTTTCCTT
1580313 TTTCCTTTTCCTT
1 TTTCCTTTTCCTT
1580326 TTTC
1 TTTC
1580330 TCACTTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTCCTTTTCCTT
Found at i:1583031 original size:26 final size:27
Alignment explanation
Indices: 1583002--1583053 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1582992 TCATTTTTGA
1583002 TGGA-AAACGGGGTTGGAGTGTCCCCT
1 TGGAGAAACGGGGTTGGAGTGTCCCCT
* *
1583028 TGGAGGAATGGGGTTGGAGTGTCCCC
1 TGGAGAAACGGGGTTGGAGTGTCCCC
1583054 GGTGAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.17, C:0.17, G:0.42, T:0.23
Consensus pattern (27 bp):
TGGAGAAACGGGGTTGGAGTGTCCCCT
Found at i:1585262 original size:52 final size:52
Alignment explanation
Indices: 1585184--1585312 Score: 258
Period size: 52 Copynumber: 2.5 Consensus size: 52
1585174 CGAAATATGA
1585184 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1585236 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1585288 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1585313 AAGATCAGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:1585323 original size:52 final size:51
Alignment explanation
Indices: 1585184--1585332 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 51
1585174 CGAAATATGA
1585184 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
1585236 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
1585288 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1585333 ATGTATCGAT
Statistics
Matches: 94, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 91 0.97
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:1585339 original size:13 final size:13
Alignment explanation
Indices: 1585321--1585345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1585311 CAAAGATCAG
1585321 TGTATCGATACAA
1 TGTATCGATACAA
1585334 TGTATCGATACA
1 TGTATCGATACA
1585346 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1585423 original size:33 final size:33
Alignment explanation
Indices: 1585386--1585452 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1585376 AGTAGCTTAA
1585386 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1585419 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1585452 A
1 A
1585453 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1585426 original size:13 final size:13
Alignment explanation
Indices: 1585408--1585432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1585398 CAAAAAAATA
1585408 TGTATCGATACAT
1 TGTATCGATACAT
1585421 TGTATCGATACA
1 TGTATCGATACA
1585433 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1586531 original size:49 final size:49
Alignment explanation
Indices: 1586388--1587206 Score: 1113
Period size: 49 Copynumber: 16.7 Consensus size: 49
1586378 GGATGTCAAC
* * *
1586388 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
1586440 ATGCTGATTCAAGGCTAGCTATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1586483 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1586532 ATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * *
1586575 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1586624 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1586673 GTGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1586722 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* * * *
1586771 GTGCTGAGTCAAGGCCAGCTACATTGGACTTGAAGATGAAGATGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1586820 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1586869 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1586918 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
1586970 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1587019 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
1587071 ATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
* *
1587120 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAAT
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGGTGCCAAT
* *
1587172 ATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAG
1 GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1587207 GGGTTGCCAC
Statistics
Matches: 681, Mismatches: 65, Indels: 42
0.86 0.08 0.05
Matches are distributed among these distances:
43 75 0.11
45 1 0.00
47 2 0.00
48 1 0.00
49 439 0.64
50 3 0.00
51 2 0.00
52 158 0.23
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
GTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
Found at i:1587304 original size:32 final size:33
Alignment explanation
Indices: 1587208--1587300 Score: 163
Period size: 33 Copynumber: 2.8 Consensus size: 33
1587198 GGCTTAAAGG
1587208 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1 GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
1587241 GGTTGCCACCGACTTGTGTGGGCTTTAGGAAG-A
1 GGTTGCCACCGACTTGTGTGGGCTTT-GGAAGAA
1587274 -GTTGCCACCGACTTGTGTGGGCTTTGG
1 GGTTGCCACCGACTTGTGTGGGCTTTGG
1587301 GAAGGAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 25 0.42
33 27 0.46
34 5 0.08
ACGTcount: A:0.15, C:0.19, G:0.37, T:0.29
Consensus pattern (33 bp):
GGTTGCCACCGACTTGTGTGGGCTTTGGAAGAA
Found at i:1587348 original size:34 final size:34
Alignment explanation
Indices: 1587308--1587989 Score: 376
Period size: 34 Copynumber: 19.7 Consensus size: 34
1587298 TGGGAAGGAA
*
1587308 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
*
1587342 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GA
1 AAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGG
* *
1587377 AAAAAG-TGCCACGGAGTTGTGGGCTTTAAACGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
*
1587410 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
* ** * * *
1587446 AAAGAGAGTGCCACAAAGTCGTAGGTGC-CACAGAGTTGTGGG
1 AAAAAGA-TGCCACGGAGTTGT-GG-GCTTA-A-A----AGGG
* *
1587488 CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
1 ----AAAA-----AGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
** *
1587533 AAAAAGAGTGCCACAAAGTTGTGGGATTTAAAA--G
1 AAAAAGA-TGCCACGGAGTTGTGGG-CTTAAAAGGG
* *
1587567 AAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
* * * *
1587601 AAGAAGGTTGCCACCGACTTGTGTGGGCTTTAAGAAGGG
1 AA-AAAGATGCCACGGA-GT-TGTGGGC-TTAA-AAGGG
* *
1587640 AGAAAGATGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
1587674 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1 AAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGG
1587708 AAAAAG-TGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGGG
* *
1587743 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGG
1 AAAAAGA-TGCCACGGAGTTGTGGGCTTAAAAGGG
* * * *
1587778 AAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGA
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAA-AGGG
*
1587813 AAAAAG-TGCCACGGAATTGTGGGCTTTAAAA-GG
1 AAAAAGATGCCACGGAGTTGTGGGC-TTAAAAGGG
* * *
1587846 -----G-TGCCACGGAGTTGTGGACTTAAAGATGA
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAA-AGGG
* *
1587875 AAAAAG-TGCCACGGAATTGTGGGCTTTAAA--G
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
* * * * *
1587906 AAAAA-ATGCCACTGAGTCGTGGACTT---TGAG
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
* * * *
1587936 ACAAA-ATGCCACTGAGTTGTGGACTTTAAA--G
1 AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
* *
1587967 AAAAAGATGCCACTGAGTCGTGG
1 AAAAAGATGCCACGGAGTTGTGG
1587990 ACTTTGAGCA
Statistics
Matches: 517, Mismatches: 71, Indels: 122
0.73 0.10 0.17
Matches are distributed among these distances:
27 5 0.01
28 18 0.03
29 1 0.00
30 25 0.05
31 26 0.05
32 42 0.08
33 48 0.09
34 114 0.22
35 88 0.17
36 40 0.08
37 60 0.12
38 14 0.03
39 4 0.01
41 4 0.01
42 3 0.01
45 2 0.00
46 3 0.01
48 2 0.00
49 3 0.01
50 12 0.02
51 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (34 bp):
AAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGG
Found at i:1587354 original size:35 final size:35
Alignment explanation
Indices: 1587308--1587905 Score: 410
Period size: 34 Copynumber: 16.9 Consensus size: 35
1587298 TGGGAAGGAA
*
1587308 AAAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
1587342 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGG
* *
1587376 AAAAA-AGTGCCACGGAGTTGTGGGCTTTAAACGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
1587410 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* ** * * *
1587446 AAAGAGAGTGCCACAAAGTCGTAGGTGC-CACAGAGTTGTGGG
1 AAAAAGAGTGCCACGGAGTTGT-GG-GCTTA-A-A----AGGG
* *
1587488 CTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGA
1 ----AAAA---AGA-GTGCCACGGAGTTGTGGGC-TT-AAAAGGG
** *
1587533 AAAAAGAGTGCCACAAAGTTGTGGGATTTAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGG-CTTAAAAGGG
*
1587567 AAGAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* * *
1587601 AAGAAG-GTTGCCACCGACTTGTGTGGGCTTTAAGAAGGG
1 AAAAAGAG-TGCCACGGA-GT-TGTGGGC-TTAA-AAGGG
* *
1587640 AGAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
1587674 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGG
1587708 -AAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGG
* *
1587743 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
* *
1587778 AAAAAG-GTGCCACGGAGTTGTGGACTT-AAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG-GG
*
1587812 AAAAA-AGTGCCACGGAATTGTGGGCTTTAAAA--G
1 AAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGG
* *
1587845 -----G-GTGCCACGGAGTTGTGGACTT-AAAGATG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG-GG
* *
1587874 AAAAA-AGTGCCACGGAATTGTGGGCTTTAAAG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAG
1587906 AAAAAATGCC
Statistics
Matches: 458, Mismatches: 47, Indels: 117
0.74 0.08 0.19
Matches are distributed among these distances:
26 3 0.01
27 2 0.00
28 17 0.04
29 1 0.00
32 28 0.06
33 50 0.11
34 129 0.28
35 66 0.14
36 45 0.10
37 64 0.14
38 13 0.03
39 7 0.02
41 4 0.01
42 3 0.01
45 2 0.00
46 3 0.01
48 2 0.00
49 5 0.01
50 13 0.03
51 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (35 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGG
Found at i:1587519 original size:87 final size:88
Alignment explanation
Indices: 1587382--1587551 Score: 288
Period size: 87 Copynumber: 1.9 Consensus size: 88
1587372 AAAGAAAAAA
* * *
1587382 GTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
*
1587447 AAGAGAGTGCCACAAAGTCGTAG
66 AAAAGAGTGCCACAAAGTCGTAG
*
1587470 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
1587534 AAAAGAGTGCCACAAAGT
66 AAAAGAGTGCCACAAAGT
1587552 TGTGGGATTT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 53 0.69
88 24 0.31
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
AAAAGAGTGCCACAAAGTCGTAG
Found at i:1587583 original size:70 final size:69
Alignment explanation
Indices: 1587470--1587934 Score: 441
Period size: 70 Copynumber: 6.8 Consensus size: 69
1587460 AAAGTCGTAG
*
1587470 GTGCCAC-AGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACGA-AGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGG-A
1587534 AAAAGA
64 AAAAGA
* * *
1587540 GTGCCACAAAGTTGTGGGATTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAG
1 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
1587604 AAG-
66 AAGA
** * * *
1587607 GTTGCCACCGACTTGTGTGGGCTTTAAGAAGGGAGAAAGATGCCACGGAGTTGTGGAC-TT-AAA
1 G-TGCCA-CGAAGT-TGTGGGCTTTAA-AA-GAAG-AAGGTGCCACGGAGTTGTGGGCTTTGAAA
1587670 AGGGAAAAAGA
60 A-GGAAAAAGA
* *
1587681 GTGCCACGGAGTTGTGGGCTTTAAAAGAA-AAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GGAA
1587745 AAAGA
65 AAAGA
* * * * *
1587750 GTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAGATGA
1 GTGCCACGAAGTTGTGGGCTTTAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA-AGGA
1587813 AAAA-A
64 AAAAGA
* *
1587818 GTGCCACGGAA-TTGTGGGCTTT--AA-AAG--GGTGCCACGGAGTTGTGGAC-TT-AAAGATGA
1 GTGCCAC-GAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA-AGGA
1587875 AAAA-A
64 AAAAGA
** * * *
1587880 GTGCCACGGAA-TTGTGGGCTTT-AAAGAA-AAAATGCCACTGAGTCGTGGACTTTGA
1 GTGCCAC-GAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGA
1587935 GACAAAATGC
Statistics
Matches: 344, Mismatches: 29, Indels: 47
0.82 0.07 0.11
Matches are distributed among these distances:
62 57 0.17
63 2 0.01
64 4 0.01
65 16 0.05
66 3 0.01
67 21 0.06
68 31 0.09
69 56 0.16
70 75 0.22
71 39 0.11
72 8 0.02
73 31 0.09
74 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (69 bp):
GTGCCACGAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAA
AAGA
Found at i:1587852 original size:28 final size:28
Alignment explanation
Indices: 1587812--1587904 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 28
1587802 CTTAAAGATG
1587812 AAAAAAGTGCCACGGAATTGTGGGCTTT
1 AAAAAAGTGCCACGGAATTGTGGGCTTT
** * *
1587840 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGAT
1 AAAAAAGTGCCACGGAATTGTGGGCTT-----T
1587873 GAAAAAAGTGCCACGGAATTGTGGGCTTT
1 -AAAAAAGTGCCACGGAATTGTGGGCTTT
1587902 AAA
1 AAA
1587905 GAAAAAATGC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
28 26 0.51
29 1 0.02
33 1 0.02
34 23 0.45
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (28 bp):
AAAAAAGTGCCACGGAATTGTGGGCTTT
Found at i:1587853 original size:62 final size:62
Alignment explanation
Indices: 1587642--1587904 Score: 296
Period size: 62 Copynumber: 4.0 Consensus size: 62
1587632 AAGAAGGGAG
* * *
1587642 AAAGATGCCACGGAGTTGTGGACTTAAA-AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAGA-TGAAAAA-AGTGCCACGGAATTGTGGGCTTT---
1587706 AGA
61 A-A
* * * *
1587709 AAAAGTGCCACGGAGTTGTGGGCTTTGAAA-AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAGA-TGAAAAA-AGTGCCACGGAATTGTGGGCTTT-
1587773 AACGGAA
61 -----AA
1587780 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
*
1587842 AAGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
1587904 A
1 A
1587905 GAAAAAATGC
Statistics
Matches: 179, Mismatches: 11, Indels: 17
0.86 0.05 0.08
Matches are distributed among these distances:
62 64 0.36
67 20 0.11
68 24 0.13
69 45 0.25
70 3 0.02
71 22 0.12
72 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (62 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
Found at i:1587857 original size:96 final size:93
Alignment explanation
Indices: 1587744--1587993 Score: 265
Period size: 96 Copynumber: 2.6 Consensus size: 93
1587734 TGAAAAGGGA
*
1587744 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAACGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAG
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAA-GGAAAAAGGTGCCACGGAGTTGTGGACTTAAA-
* *
1587809 ATGAAAAAAGTGCCACGGAATTGTGGGCTTT-
64 A-GAAAAAA-TGCCACGGAATCGTGGACTTTG
* * * * *
1587840 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTTAAAG--GAAAAAGGTGCCACGGAGTTGTGGACTTAAA
* *
1587904 AGAAAAAATGCCACTGAGTCGTGGACTTTG
64 AGAAAAAATGCCACGGAATCGTGGACTTTG
* * * * *
1587934 AGACAA-AATGCCACTGAGTTGTGGACTTTAAA-GAAAAAGATGCCACTGAGTCGTGGACTT
1 A-A-AAGAGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
1587994 TGAGCAGAGA
Statistics
Matches: 129, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
93 39 0.30
94 9 0.07
95 24 0.19
96 57 0.44
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (93 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTTAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAG
AAAAAATGCCACGGAATCGTGGACTTTG
Found at i:1587997 original size:62 final size:63
Alignment explanation
Indices: 1587893--1588087 Score: 317
Period size: 62 Copynumber: 3.1 Consensus size: 63
1587883 CCACGGAATT
* *
1587893 GTGGGCTTTAAAGAAAAA-ATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTT
1 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTC
*
1587954 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
*
1588017 GTGGACTTTAAAG-AAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
1588079 GTGGACTTT
1 GTGGACTTT
1588088 TTTTTTTTTT
Statistics
Matches: 128, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
61 19 0.15
62 84 0.66
63 25 0.20
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (63 bp):
GTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
Found at i:1588009 original size:93 final size:93
Alignment explanation
Indices: 1587912--1588087 Score: 259
Period size: 93 Copynumber: 1.9 Consensus size: 93
1587902 AAAGAAAAAA
* *
1587912 TGCCACTGAGTCGTGGACTTT-GAGACAAA-ATGCCACTGAGTTGTGGACTTTAAAGAAAAAGA-
1 TGCCACTGAGTCGTGGACTTTAAAGA-AAAGATGCCACTGAGTCGTGGACTTT-AAG-AAAAGAT
1587974 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
63 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
* * *
1588005 TGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGC
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTAAGAAAAGATTGC
1588070 CACTGAGTCGTGGACTTT
66 CACTGAGTCGTGGACTTT
1588088 TTTTTTTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 4 0.05
93 47 0.63
94 24 0.32
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (93 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTAAGAAAAGATTGC
CACTGAGTCGTGGACTTTGAGCAGAGAT
Found at i:1588012 original size:31 final size:30
Alignment explanation
Indices: 1587911--1588087 Score: 230
Period size: 31 Copynumber: 5.7 Consensus size: 30
1587901 TAAAGAAAAA
1587911 ATGCCACTGAGTCGTGGACTTTGAGACAAA-
1 ATGCCACTGAGTCGTGGACTTTGAG-CAAAG
* * *
1587941 ATGCCACTGAGTTGTGGACTTTAAAGAAAAAG
1 ATGCCACTGAGTCGTGGACTTT-GAG-CAAAG
*
1587973 ATGCCACTGAGTCGTGGACTTTGAGCAGAG
1 ATGCCACTGAGTCGTGGACTTTGAGCAAAG
* *
1588003 ATTGCCACTGAGTCGTGGACTTTAAAGAAAAG
1 A-TGCCACTGAGTCGTGGACTTT-GAGCAAAG
*
1588035 ATGCCACTGAGTCGTGGACTTTGAGCAGAG
1 ATGCCACTGAGTCGTGGACTTTGAGCAAAG
1588065 ATTGCCACTGAGTCGTGGACTTT
1 A-TGCCACTGAGTCGTGGACTTT
1588088 TTTTTTTTTT
Statistics
Matches: 129, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
30 31 0.24
31 71 0.55
32 27 0.21
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (30 bp):
ATGCCACTGAGTCGTGGACTTTGAGCAAAG
Found at i:1589394 original size:1 final size:1
Alignment explanation
Indices: 1589388--1589470 Score: 58
Period size: 1 Copynumber: 83.0 Consensus size: 1
1589378 ACCTTTGCAC
* * * * * * * * * *
1589388 TTTTTTTTGTGTTTTTTTTTTTTTGTTTTTTGTGTTTTTTGTTTTTTTTTGTGTGTTTTTTTTGT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1589453 TTGTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTT
1589471 CATCACTTCT
Statistics
Matches: 58, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (1 bp):
T
Found at i:1589416 original size:23 final size:23
Alignment explanation
Indices: 1589390--1589465 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
1589380 CTTTGCACTT
1589390 TTTTTTGTGTTTTTTTTTTTTTG
1 TTTTTTGTGTTTTTTTTTTTTTG
*
1589413 TTTTTTGTG-TTTTTTGTTTTT-
1 TTTTTTGTGTTTTTTTTTTTTTG
*
1589434 TTTTGTGTGTTTTTTTTGTTTGTTTG
1 TTTTTTGTG-TTTTTTT-TTT-TTTG
1589460 TTTTTT
1 TTTTTT
1589466 TTTTTCATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
21 8 0.18
22 11 0.25
23 15 0.34
24 2 0.05
25 3 0.07
26 5 0.11
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (23 bp):
TTTTTTGTGTTTTTTTTTTTTTG
Found at i:1589425 original size:19 final size:19
Alignment explanation
Indices: 1589403--1589469 Score: 93
Period size: 19 Copynumber: 3.5 Consensus size: 19
1589393 TTTGTGTTTT
1589403 TTTTTTTTTGTTTTTTGTG
1 TTTTTTTTTGTTTTTTGTG
1589422 TTTTTTGTTT-TTTTTTGTG
1 TTTTTT-TTTGTTTTTTGTG
1589441 TGTTTTTTTTGTTTGTTTGT-
1 T-TTTTTTTTGTTT-TTTGTG
1589461 TTTTTTTTT
1 TTTTTTTTT
1589470 TCATCACTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
19 27 0.61
20 12 0.27
21 5 0.11
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (19 bp):
TTTTTTTTTGTTTTTTGTG
Found at i:1589425 original size:21 final size:20
Alignment explanation
Indices: 1589402--1589470 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
1589392 TTTTGTGTTT
1589402 TTTTTTTTTTGTTTTTTGTG
1 TTTTTTTTTTGTTTTTTGTG
*
1589422 TTTTTTGTTT-TTTTTTGTG
1 TTTTTTTTTTGTTTTTTGTG
*
1589441 TGTTTTTTTTGTTTGTTTGT-
1 TTTTTTTTTTGTTT-TTTGTG
1589461 TTTTTTTTTT
1 TTTTTTTTTT
1589471 CATCACTTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.40
20 21 0.49
21 5 0.12
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTTGTTTTTTGTG
Found at i:1594205 original size:26 final size:27
Alignment explanation
Indices: 1594176--1594227 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1594166 TCATTTTTGA
1594176 TGGA-AAACGGGGTTGGAGTGTCCCCT
1 TGGAGAAACGGGGTTGGAGTGTCCCCT
* *
1594202 TGGAGGAATGGGGTTGGAGTGTCCCC
1 TGGAGAAACGGGGTTGGAGTGTCCCC
1594228 GGTGAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.17, C:0.17, G:0.42, T:0.23
Consensus pattern (27 bp):
TGGAGAAACGGGGTTGGAGTGTCCCCT
Found at i:1596437 original size:52 final size:52
Alignment explanation
Indices: 1596359--1596487 Score: 258
Period size: 52 Copynumber: 2.5 Consensus size: 52
1596349 CGAAATATGA
1596359 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1596411 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1596463 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1596488 AAGATCAGTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 77 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:1596498 original size:52 final size:51
Alignment explanation
Indices: 1596359--1596507 Score: 246
Period size: 52 Copynumber: 2.9 Consensus size: 51
1596349 CGAAATATGA
1596359 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
1596411 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
1596463 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1596508 ATGTATCGAT
Statistics
Matches: 94, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 91 0.97
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:1596514 original size:13 final size:13
Alignment explanation
Indices: 1596496--1596520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1596486 CAAAGATCAG
1596496 TGTATCGATACAA
1 TGTATCGATACAA
1596509 TGTATCGATACA
1 TGTATCGATACA
1596521 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1596598 original size:33 final size:33
Alignment explanation
Indices: 1596561--1596627 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1596551 AGTAGCTTAA
1596561 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1596594 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1596627 A
1 A
1596628 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1596601 original size:13 final size:13
Alignment explanation
Indices: 1596583--1596607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1596573 CAAAAAAATA
1596583 TGTATCGATACAT
1 TGTATCGATACAT
1596596 TGTATCGATACA
1 TGTATCGATACA
1596608 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1602137 original size:19 final size:21
Alignment explanation
Indices: 1602113--1602157 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1602103 TTTATGTTTG
1602113 ACAAAA-TCAAAATCATATC-
1 ACAAAACTCAAAATCATATCA
* *
1602132 ACAAAACTTAACATCATATCA
1 ACAAAACTCAAAATCATATCA
1602153 ACAAA
1 ACAAA
1602158 CAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 11 0.50
21 5 0.23
ACGTcount: A:0.58, C:0.22, G:0.00, T:0.20
Consensus pattern (21 bp):
ACAAAACTCAAAATCATATCA
Found at i:1602563 original size:22 final size:23
Alignment explanation
Indices: 1602538--1602586 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
1602528 ATTTTCCAAT
*
1602538 TTTTTTATTATTTATT-CTTTT-A
1 TTTTTTA-TAATTATTACTTTTGA
1602560 TTTTTTATAATTATTACTTTTGA
1 TTTTTTATAATTATTACTTTTGA
1602583 TTTT
1 TTTT
1602587 GATTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (23 bp):
TTTTTTATAATTATTACTTTTGA
Found at i:1602724 original size:14 final size:14
Alignment explanation
Indices: 1602698--1602736 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1602688 AAATTATACC
1602698 ATAAAAATT-AATT
1 ATAAAAATTAAATT
*
1602711 ATAAGAATTAAATT
1 ATAAAAATTAAATT
1602725 ATAAAAATTAAA
1 ATAAAAATTAAA
1602737 AATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
ATAAAAATTAAATT
Found at i:1604238 original size:20 final size:20
Alignment explanation
Indices: 1604213--1604268 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
1604203 TTAACCCAGA
1604213 TGTATCGATACATTCTTTAT
1 TGTATCGATACATTCTTTAT
1604233 TGTATCGATACATTCTTTAT
1 TGTATCGATACATTCTTTAT
1604253 TGTATCGATACATTCT
1 TGTATCGATACATTCT
1604269 AGGTTTTACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTCTTTAT
Found at i:1604280 original size:70 final size:70
Alignment explanation
Indices: 1604162--1604317 Score: 249
Period size: 70 Copynumber: 2.2 Consensus size: 70
1604152 AAATCACAAT
* * *
1604162 TTGTATCGATACATTCTTCATTGTATTGATACATTCTGGGTTTAACCCAGATGTATCGATACATT
1 TTGTATCGATACATTCTTCATTGTATCGATACATTCTAGGTTTAACCCAAATGTATCGATACATT
1604227 CTTTA
66 CTTTA
* *
1604232 TTGTATCGATACATTCTTTATTGTATCGATACATTCTAGGTTTTACCCAAATGTATCGATACATT
1 TTGTATCGATACATTCTTCATTGTATCGATACATTCTAGGTTTAACCCAAATGTATCGATACATT
*
1604297 TTTTA
66 CTTTA
*
1604302 ATGTATCGATACATTC
1 TTGTATCGATACATTC
1604318 AAGCATTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 79 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.44
Consensus pattern (70 bp):
TTGTATCGATACATTCTTCATTGTATCGATACATTCTAGGTTTAACCCAAATGTATCGATACATT
CTTTA
Found at i:1605677 original size:20 final size:20
Alignment explanation
Indices: 1605654--1605726 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1605644 ACAATTCAAA
1605654 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1605674 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1605695 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1605715 GTATCGATACAT
1 GTATCGATACAT
1605727 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1605698 original size:21 final size:21
Alignment explanation
Indices: 1605672--1605747 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1605662 ACATGTTGCA
1605672 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1605693 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1605713 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1605734 ATGTATCGATACAT
1 ATGTATCGATACAT
1605748 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1605705 original size:41 final size:41
Alignment explanation
Indices: 1605654--1605747 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1605644 ACAATTCAAA
*
1605654 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1605695 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1605736 GTATCGATACAT
1 GTATCGATACAT
1605748 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1605804 original size:13 final size:13
Alignment explanation
Indices: 1605786--1605811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1605776 TACAGCAAGT
1605786 ATGTATCGATACA
1 ATGTATCGATACA
1605799 ATGTATCGATACA
1 ATGTATCGATACA
1605812 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1609892 original size:15 final size:15
Alignment explanation
Indices: 1609872--1609902 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1609862 TAAAAATGTC
*
1609872 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1609887 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1609902 C
1 C
1609903 TAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1611993 original size:20 final size:21
Alignment explanation
Indices: 1611914--1611992 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
1611904 AATGTCCAAA
*
1611914 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
1611934 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
1611959 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
1611979 TTGTATCGATACAT
1 ATGTATCGATACAT
1611993 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:1611997 original size:13 final size:13
Alignment explanation
Indices: 1611979--1612017 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1611969 ACATTTTTCT
1611979 TTGTATCGATACA
1 TTGTATCGATACA
1611992 TTGTATCGATACA
1 TTGTATCGATACA
*
1612005 CTGTATCGATACA
1 TTGTATCGATACA
1612018 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1614493 original size:20 final size:20
Alignment explanation
Indices: 1614470--1614542 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1614460 ACAATTCAAA
1614470 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1614490 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1614511 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1614531 GTATCGATACAT
1 GTATCGATACAT
1614543 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1614514 original size:21 final size:21
Alignment explanation
Indices: 1614488--1614563 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1614478 ACATGTTGCA
1614488 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1614509 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1614529 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1614550 ATGTATCGATACAT
1 ATGTATCGATACAT
1614564 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1614521 original size:41 final size:41
Alignment explanation
Indices: 1614470--1614563 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1614460 ACAATTCAAA
*
1614470 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1614511 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1614552 GTATCGATACAT
1 GTATCGATACAT
1614564 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1614620 original size:13 final size:13
Alignment explanation
Indices: 1614602--1614627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1614592 TACAGCAAGT
1614602 ATGTATCGATACA
1 ATGTATCGATACA
1614615 ATGTATCGATACA
1 ATGTATCGATACA
1614628 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1617235 original size:66 final size:67
Alignment explanation
Indices: 1617128--1617260 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 67
1617118 GTGTCATGAG
*
1617128 GATGCTAATCCTTCCCCATGTGTAACCAACTCCCAAACCCAAACACGAATCTTCAAATTATGTAG
1 GATGCTAATCCTTCCCCATGTGTAACCAACTCCCAAACCCAAACACAAATCTTCAAATTATGTAG
1617193 AC
66 AC
1617195 GATGCTAATCCTT-CCCATGTGTAACCAACTCCCAAACCCAAACACAAATCTTCAAATTATGTAG
1 GATGCTAATCCTTCCCCATGTGTAACCAACTCCCAAACCCAAACACAAATCTTCAAATTATGTAG
1617259 AC
66 AC
1617261 TGTGAGATCG
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 52 0.80
67 13 0.20
ACGTcount: A:0.35, C:0.31, G:0.10, T:0.24
Consensus pattern (67 bp):
GATGCTAATCCTTCCCCATGTGTAACCAACTCCCAAACCCAAACACAAATCTTCAAATTATGTAG
AC
Found at i:1622614 original size:62 final size:62
Alignment explanation
Indices: 1622534--1623665 Score: 1157
Period size: 62 Copynumber: 18.4 Consensus size: 62
1622524 CTCTTTTAGC
* * * * *
1622534 CCTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTTTTAAAGCTCATATGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * *** * * *
1622596 CCCTTTAATCCTTAAAGAGCT-GGACAACTTTTTCTTTTCAAAGCTCACACGAGTGGGTGGCA
1 CCTTTTAGTCCTCAAAGAG-TAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* **
1622658 CCCTTTAGTCCTCAAAGAGTAGGATG-CTTTTT-TTTTCGAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * *
1622718 CCCTTTAGTCCTCAAAAAGTAGGACGCCTTTTTTCTTTTCT-AAGCCCACATGAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCC-TTTTTCTTTT-TAAAGCCCACACGAGTTGGTGGCA
* *
1622781 CCTTTTAGTCCTCAAAGAGTAGGATGCC-TTTTCTTTTTAAAGCCCGCACGAGTTGGTGACA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * *
1622842 -CTTTCTAGTCTTCAAAGAGCAGGATG-C--TTT-TTTTTAAAGCCCACACGAGCTGGTGGCA
1 CCTTT-TAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* ** * * *
1622900 CCTTTTTAGACCTCAAAGAGTAGGGCGTCTTTTCCTTTTTAAAACCCACACGAGTTGGTGGCA
1 CC-TTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * *
1622963 CCTTTTAGTCCTCAAAAAGTAGGATGCCTTTTT-TCTTTTAAAGCCCACACGAGCTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCT-TTTTAAAGCCCACACGAGTTGGTGGCA
* * * *
1623025 ACTTTTAGTCCTCAAAGAGTA-GACCGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGA-TGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * *
1623087 CCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCATTTCAAAGCTCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * ** * *
1623149 TCTTTTAGTCTTCAAAGAGCAAGACACC-TTTT-TTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * * *
1623209 CATTTTTAGTCCTCAAAGAGCAAGATGCTTTTTTTTTCTTATTAAAGCCCACACGAGTTGGTGGT
1 C-CTTTTAGTCCTCAAAGAGTAGGATGC---CTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGC
1623274 A
62 A
* * * * * *
1623275 CCTTTTAGTCCTCAAAGAGTTGGACGCCTTTTTC-TTTTAAAGCCCATACGTGCTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * * *
1623336 ACTTTTAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCTT
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGC-A
* * *
1623399 CC-TTTAGTCCTCAAAGAGTAGGATGCC-TTTT-TTTTCAAAGCCCACATGAGTTGGTGCCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
** * ** *
1623458 CCTTTTAGTCCTCAAAGAGTAGGAAACCTTTTCCTTTCCAAAGCCCACACGAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * ** *
1623520 CCCTTTAGTCCTCAAAAATTAGGATGCCTTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* * * * * ** * *
1623582 CCCTTTAGTCTTCAAAGAGCAAGATGCCTTTTTCCTTTTAAAGCTTACGCAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
* *
1623644 CCTTTTAGTCCTTAAGGAGTAG
1 CCTTTTAGTCCTCAAAGAGTAG
1623666 AACACTTTCT
Statistics
Matches: 890, Mismatches: 151, Indels: 58
0.81 0.14 0.05
Matches are distributed among these distances:
58 25 0.03
59 22 0.02
60 129 0.14
61 141 0.16
62 442 0.50
63 81 0.09
65 25 0.03
66 25 0.03
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (62 bp):
CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCA
Found at i:1622859 original size:184 final size:181
Alignment explanation
Indices: 1622534--1623665 Score: 1144
Period size: 184 Copynumber: 6.1 Consensus size: 181
1622524 CTCTTTTAGC
* ** * * * * *
1622534 CCTTTTAGTCCTCAAAGAGCAGGATACCTTTTTCTTTTTAAAGCTCATATGAGTTGGTGGCACCC
1 CCTTTTAGTCCTCAAAGAGTAGGACGCC-TTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * ** * * *
1622599 TTTAATCCTTAAAGAGCT-GGACAACTTTTTCTTTTCAAAGCTCACACGAGTGGGTGGCACCCTT
65 TTTAGTCCTCAAAAAG-TAGGA-TGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CCTT
* *
1622663 TAGTCCTCAAAGAGTAGGATGCTTTTTTTTTCGAAGCCCACACGAGTTGGTGGCA
127 TAGTCCTCAAAGAGCAGGATGCTTTTTTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * * *
1622718 CCCTTTAGTCCTCAAAAAGTAGGACGCCTTTTTTCTTTTCTAAGCCCACATGAGTTAGTGGCACC
1 CCTTTTAGTCCTCAAAGAGTAGGACGCC-TTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCACC
* * * * *
1622783 TTTTAGTCCTCAAAGAGTAGGATGCCTTTTCTTTTTAAAGCCCGCACGAGTTGGTGACACTTTCT
64 TTTTAGTCCTCAAAAAGTAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT-T
* *
1622848 AGTCTTCAAAGAGCAGGATGC-TTTTTTTT-AAAGCCCACACGAGCTGGTGGCA
128 AGTCCTCAAAGAGCAGGATGCTTTTTTTTTCAAAGCCCACACGAGTTGGTGGCA
* * * *
1622900 CCTTTTTAGACCTCAAAGAGTAGGGCGTCTTTTCCTTTTTAAAACCCACACGAGTTGGTGGCACC
1 CC-TTTTAGTCCTCAAAGAGTAGGACGCCTTTTCC-TTTTAAAGCCCACACGAGTTGGTGGCACC
* * *
1622965 TTTTAGTCCTCAAAAAGTAGGATGCCTTTTTTCTTTT-AAAGCCCACACGAGCTGGTGGTAACTT
64 TTTTAGTCCTCAAAAAGTAGGATGCC--TTTTCTTTTCAAAGCCCACACGAGTTGGTGG-CACCT
* * *
1623029 TTAGTCCTCAAAGAGTA-GACCGCCTTTTTCTTTTCAAAGCCCACACGAGTTAGTGGCA
126 TTAGTCCTCAAAGAGCAGGA-TG-CTTTTT-TTTTCAAAGCCCACACGAGTTGGTGGCA
* * * * *
1623087 CCCTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCATTTCAAAGCTCACACGAGTTGGTGGCATCT
1 CCTTTTAGTCCTCAAAGAGTAGGACGCCTTTTCC-TTTTAAAGCCCACACGAGTTGGTGGCACCT
* * * * ** * * * *
1623152 TTTAGTCTTCAAAGAGCAAGACACCTTTT-TTTTTAAAGCCTACACAAGTTGGTGGCACATTTTT
65 TTTAGTCCTCAAAAAGTAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC--CTTT
* *
1623216 AGTCCTCAAAGAGCAAGATGCTTTTTTTTTCTTATTAAAGCCCACACGAGTTGGTGGTA
128 AGTCCTCAAAGAGCAGGATGCTTTTTTTTTC-----AAAGCCCACACGAGTTGGTGGCA
* * * * * * *
1623275 CCTTTTAGTCCTCAAAGAGTTGGACGCCTTTTTCTTTTAAAGCCCATACGTGCTGGTGGTAACTT
1 CCTTTTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTT
* * *
1623340 TTAGTCCTCAAAAAGCAGGATGCCTTTTTCTTTTCAAAGCTCACACGAGTTGGTGGCTTCCTTTA
66 TTAGTCCTCAAAAAGTAGGATGCC-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGC-ACCTTTA
* * * *
1623405 GTCCTCAAAGAGTAGGATGCCTTTTTTTTCAAAGCCCACATGAGTTGGTGCCA
129 GTCCTCAAAGAGCAGGATGCTTTTTTTTTCAAAGCCCACACGAGTTGGTGGCA
** * * *
1623458 CCTTTTAGTCCTCAAAGAGTAGGAAACCTTTTCCTTTCCAAAGCCCACACGAGTTGGTGGTACCC
1 CCTTTTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTT-TAAAGCCCACACGAGTTGGTGGCACCT
* * *
1623523 TTTAGTCCTCAAAAATTAGGATGCCTTTTTCTTTTCGAAGCCCACACAAGTTGGTGGCACCCTTT
65 TTTAGTCCTCAAAAAGTAGGATGCC-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CCTTT
* * ** * *
1623588 AGTCTTCAAAGAGCAAGATGCCTTTTTCCTTTT-AAAGCTTACGCAAGTTGGTGGCA
128 AGTCCTCAAAGAGCAGGATG-CTTTTT--TTTTCAAAGCCCACACGAGTTGGTGGCA
* *
1623644 CCTTTTAGTCCTTAAGGAGTAG
1 CCTTTTAGTCCTCAAAGAGTAG
1623666 AACACTTTCT
Statistics
Matches: 791, Mismatches: 127, Indels: 58
0.81 0.13 0.06
Matches are distributed among these distances:
182 76 0.10
183 133 0.17
184 221 0.28
185 66 0.08
186 115 0.15
187 70 0.09
188 86 0.11
189 23 0.03
190 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (181 bp):
CCTTTTAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTT
TTAGTCCTCAAAAAGTAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTAGT
CCTCAAAGAGCAGGATGCTTTTTTTTTCAAAGCCCACACGAGTTGGTGGCA
Found at i:1623773 original size:42 final size:42
Alignment explanation
Indices: 1623726--1624210 Score: 400
Period size: 42 Copynumber: 11.3 Consensus size: 42
1623716 ACTTCATTTC
* * *
1623726 TTTCTTTTCTCTTTTATCCTTAAAGAGCAAGATGCACTTTAT
1 TTTCTTTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTTAT
* * *
1623768 TTTCTTTTTTC-TTTATCCTCAAAGAGCAGGACGCACCTCAT
1 TTTCTTTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTTAT
* * * *
1623809 TTCCTTATTTTTCCTTTATCCTCAAAGAGCAGGACGCACTTCAT
1 TTTC-T-TTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTTAT
* * * *
1623853 TTCCTTATTTTCCCTTTTGTCCTTAAAGAGCATGATGCACTTTAT
1 TTTCTT-TTTT--CTTTTATCCTTAAAGAGCAGGACGCACTTTAT
* **
1623898 TTTCCTTTTTCTTTTATCCTTAAAGAGCAAAACGCACTTTAT
1 TTTCTTTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTTAT
* * * * * *
1623940 TTTCCTTTTTCTTTTGTCCTCAAAGAGTAGGACGTATTTTAT
1 TTTCTTTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTTAT
* ** * * *
1623982 TTCCTTATTTTCCCTTATGTCTTCAAAGAGTAGGACACACTTTAT
1 TTTCTT-TTTTCTTTTAT-CCTT-AAAGAGCAGGACGCACTTTAT
* * * *
1624027 TTTCCTTTTTCTTTTATCCTCAAAGAGCAGGATGCACTTCAT
1 TTTCTTTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTTAT
* * * **
1624069 TTTTTTCTTTTCTTTTTCGTCCTTAAAGAGCAGAATACACTTTAT
1 TTTCTT-TTTTC-TTTT-ATCCTTAAAGAGCAGGACGCACTTTAT
* * * * * *
1624114 TCTCCTTTTCCCTTTATCCTCAAAGAGCAGGACGTA-TTTCAT
1 TTTCTTTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTT-AT
* * * * *
1624156 TCTCTTTTTTCCTTTATCCTTAAAGAACAAGACACACTTTAT
1 TTTCTTTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTTAT
1624198 TTT-TTTTTTCTTT
1 TTTCTTTTTTCTTT
1624211 GTCCTCGAAA
Statistics
Matches: 355, Mismatches: 74, Indels: 29
0.78 0.16 0.06
Matches are distributed among these distances:
41 40 0.11
42 150 0.42
43 32 0.09
44 56 0.16
45 77 0.22
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.45
Consensus pattern (42 bp):
TTTCTTTTTTCTTTTATCCTTAAAGAGCAGGACGCACTTTAT
Found at i:1623831 original size:130 final size:131
Alignment explanation
Indices: 1623674--1624070 Score: 525
Period size: 129 Copynumber: 3.1 Consensus size: 131
1623664 AGAACACTTT
* * *
1623674 CTCATTTCCTTATTTTTCCTTTGTCCTCAAAGAGTAGGACGTACTTCATTTCTTTCTTTTCTCTT
1 CTCATTTCCTTATTTTTCCTTTGTCCTCAAAGAGTAGGACGTACTTCATTTCCTTATTTTCCCTT
* *
1623739 TTATCCTTAAAGAGCAAGATGCACTTTATTTTCTTTTTTC-TTTATCCTCAAAGAGCAGGACGCA
66 TTGTCCTTAAAGAGCAAGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAGGACGCA
1623803 C
131 C
* * *
1623804 CTCATTTCCTTATTTTTCCTTTATCCTCAAAGAGCAGGACGCACTTCATTTCCTTATTTTCCCTT
1 CTCATTTCCTTATTTTTCCTTTGTCCTCAAAGAGTAGGACGTACTTCATTTCCTTATTTTCCCTT
* * **
1623869 TTGTCCTTAAAGAGCATGATGCACTTTATTTTCCTTTTTCTTTTATCCTTAAAGAGCAAAACGCA
66 TTGTCCTTAAAGAGCAAGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAGGACGCA
1623934 C
131 C
* * * * *
1623935 TTTATTTTCC---TTTTTCTTTTGTCCTCAAAGAGTAGGACGTATTTTATTTCCTTATTTTCCCT
1 CTCA-TTTCCTTATTTTTCCTTTGTCCTCAAAGAGTAGGACGTACTTCATTTCCTTATTTTCCCT
* * * ** *
1623997 TATGT-CTTCAAAGAGTAGGACACACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAGGATG
65 TTTGTCCTT-AAAGAGCAAGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAGGACG
1624061 CAC
129 CAC
*
1624064 TTCATTT
1 CTCATTT
1624071 TTTTCTTTTC
Statistics
Matches: 234, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
128 6 0.03
129 103 0.44
130 96 0.41
131 24 0.10
132 5 0.02
ACGTcount: A:0.22, C:0.23, G:0.11, T:0.44
Consensus pattern (131 bp):
CTCATTTCCTTATTTTTCCTTTGTCCTCAAAGAGTAGGACGTACTTCATTTCCTTATTTTCCCTT
TTGTCCTTAAAGAGCAAGATGCACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAGGACGCA
C
Found at i:1624010 original size:129 final size:129
Alignment explanation
Indices: 1623686--1624229 Score: 498
Period size: 129 Copynumber: 4.2 Consensus size: 129
1623676 CATTTCCTTA
* * * * *
1623686 TTTTTCCTTTGTCCTCAAAGAGTAGGACGTACTTCATTTCTTTCTTTTCTCTTTTATCCTTAAAG
1 TTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTATTTTCCCTTTTATCCTTAAAG
* * * * *
1623751 AGCAAGATGCACTTTATTTTCTTTTTTC-TTTATCCTCAAAGAGCAGGACGCACCTCA-TTTCC
66 AGCAGGACGCACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAAGACGCACTTCATTTTCC
* *
1623813 TTATTTTTCCTTTATCCTCAAAGAGCAGGACGCACTTCATTTCCTTATTTTCCCTTTTGTCCTTA
1 ---TTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTATTTTCCCTTTTATCCTTA
* * * * *
1623878 AAGAGCATGATGCACTTTATTTTCCTTTTTCTTTTATCCTTAAAGAGCAAAACGCACTTTATTTT
63 AAGAGCAGGACGCACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAAGACGCACTTCATTTT
1623943 CC
128 CC
* * * * * * *
1623945 TTTTTCTTTTGTCCTCAAAGAGTAGGACGTATTTTATTTCCTTATTTTCCCTTATGT-CTTCAAA
1 TTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTATTTTCCCTTTTATCCTT-AAA
* * * * **
1624009 GAGTAGGACACACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAGGATGCACTTCATTTTTT
65 GAGCAGGACGCACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAAGACGCACTTCATTTTCC
* * * ** * *
1624074 TCTTTTCTTTTTCGTCCTTAAAGAGCAGAATACACTTTATTCTCC---TTTTCCC-TTTATCCTC
1 T-TTTTC-CTTT-GTCCTCAAAGAGCAGGACGCACTTCATT-TCCTTATTTTCCCTTTTATCCTT
* * * * * * * *
1624135 AAAGAGCAGGACGTA-TTTCATTCTCTTTTTTCCTTTATCCTTAAAGAACAAGACACACTTTATT
62 AAAGAGCAGGACGCACTTT-ATTTTCCTTTTTCTTTTATCCTCAAAGAGCAAGACGCACTTCATT
1624199 TT--
126 TTCC
* *
1624201 TTTTTTCTTTGTCCTCGAAA-AGCATGACG
1 TTTTTCCTTTGTCCTC-AAAGAGCAGGACG
1624230 TAATCTTTTT
Statistics
Matches: 343, Mismatches: 61, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
124 10 0.03
125 6 0.02
126 4 0.01
127 1 0.00
128 6 0.02
129 161 0.47
130 98 0.29
131 28 0.08
132 26 0.08
133 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (129 bp):
TTTTTCCTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTATTTTCCCTTTTATCCTTAAAG
AGCAGGACGCACTTTATTTTCCTTTTTCTTTTATCCTCAAAGAGCAAGACGCACTTCATTTTCC
Found at i:1624035 original size:87 final size:84
Alignment explanation
Indices: 1623686--1624229 Score: 395
Period size: 87 Copynumber: 6.3 Consensus size: 84
1623676 CATTTCCTTA
* * * * * *
1623686 TTTTTCCTTTGTCCTCAAAGAGTAGGACGTACTTCATTTCTTTCTTTTCTCTTTTATCCTTAAAG
1 TTTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT-TTTTC-C-CTTATTCTTAAAG
** *
1623751 AGCAAGATGCACTTTATTTTCT
63 AGCAAGACACACTTTATTTTCC
* * * * *
1623773 TTTTTC-TTTATCCTCAAAGAGCAGGACGCACCTCATTTCCTTATTTTTCCTTTATCCTCAAAGA
1 TTTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCC-T-TTTTTCCCTTATTCTTAAAGA
* * *
1623837 GCAGGACGCACTTCA-TTTCC
64 GCAAGACACACTTTATTTTCC
* * * * ** *
1623857 TTATTTTCCCTTTTGTCCTTAAAGAGCATGATGCACTTTATTTTCC-TTTTTCTTTTATCCTTAA
1 -T-TTTT--CTTTTGTCCTCAAAGAGCAGGACGCACTTCA-TTTCCTTTTTTCCCTTATTCTTAA
* *
1623921 AGAGCAAAACGCACTTTATTTTCC
61 AGAGCAAGACACACTTTATTTTCC
* * * *
1623945 TTTTTCTTTTGTCCTCAAAGAGTAGGACGTATTTTATTTCCTTATTTTCCCTTATGTCTTCAAAG
1 TTTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT-TTTTCCCTTAT-TCTT-AAAG
* *
1624010 AGTAGGACACACTTTATTTTCC
63 AGCAAGACACACTTTATTTTCC
* * * * * *
1624032 TTTTTCTTTTATCCTCAAAGAGCAGGATGCACTTCATTT-TTTTCTTTTCTTTTTCGTCCTTAAA
1 TTTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTT-TTTCCCTTAT--T-CTTAAA
* *
1624096 GAGC-AGAATACACTTTATTCTCC
62 GAGCAAG-ACACACTTTATTTTCC
* * * * * * * *
1624119 TTTTCCCTTTATCCTCAAAGAGCAGGACGTATTTCA-TTCTCTTTTTTCCTTTATCCTTAAAGAA
1 TTTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTC-CTTTTTTCCCTTATTCTTAAAGAG
*
1624183 CAAGACACACTTTATTTT-T
65 CAAGACACACTTTATTTTCC
*
1624202 TTTTTC-TTTGTCCTCGAAA-AGCATGACG
1 TTTTTCTTTTGTCCTC-AAAGAGCAGGACG
1624230 TAATCTTTTT
Statistics
Matches: 372, Mismatches: 64, Indels: 47
0.77 0.13 0.10
Matches are distributed among these distances:
82 16 0.04
83 13 0.03
84 51 0.14
85 38 0.10
86 53 0.14
87 160 0.43
88 13 0.03
89 23 0.06
90 5 0.01
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.44
Consensus pattern (84 bp):
TTTTTCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTTTCCCTTATTCTTAAAGAGC
AAGACACACTTTATTTTCC
Found at i:1624240 original size:117 final size:117
Alignment explanation
Indices: 1624119--1624341 Score: 254
Period size: 117 Copynumber: 1.9 Consensus size: 117
1624109 TTTATTCTCC
* * *
1624119 TTTTCCCTTTATCCTCAAAGAGCAGGACGTA-TTTC-ATTCTCTTTTTTCCTTTATCCTTAAAGA
1 TTTTCACTTTATCCTCAAAGAGCAGGAC--ACTTTCTATTCTCTTTCTTCCTTTATCCTCAAAGA
* * *
1624182 ACAAGACACACTTT-ATTTTTTTTTTCTTTGTCCTCGAAAAGCATGACGTAATCT
64 ACAAGACACA-TTTCATTCTCTTTTTCTTTGTCCTCAAAAAGCATGACGTAATCT
* * * * * * * *
1624236 TTTTCACTTTTTCTTCAAGGAGCAGGACACTTTCTTTTTTCTTTCTTCCTTTGTCCTCAAGGAGC
1 TTTTCACTTTATCCTCAAAGAGCAGGACACTTTCTATTCTCTTTCTTCCTTTATCCTCAAAGAAC
* *
1624301 AGGACCCATTTCATTCTCTTTTTCTTTGTCCTCAAAAAGCA
66 AAGACACATTTCATTCTCTTTTTCTTTGTCCTCAAAAAGCA
1624342 AGACACCCCT
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
115 1 0.01
116 7 0.08
117 79 0.91
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (117 bp):
TTTTCACTTTATCCTCAAAGAGCAGGACACTTTCTATTCTCTTTCTTCCTTTATCCTCAAAGAAC
AAGACACATTTCATTCTCTTTTTCTTTGTCCTCAAAAAGCATGACGTAATCT
Found at i:1624321 original size:42 final size:41
Alignment explanation
Indices: 1624233--1624335 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 41
1624223 CATGACGTAA
* * * *
1624233 TCTTTTTCACTTTTTCTTCAAGGAGCAGGACACTTTCTTTTT
1 TCTTTTTC-CTTTGTCCTCAAGGAGCAGGACACTTTCTATTC
*
1624275 TCTTTCTTCCTTTGTCCTCAAGGAGCAGGACCCATTTC-ATTC
1 TCTTT-TTCCTTTGTCCTCAAGGAGCAGGACAC-TTTCTATTC
1624317 TCTTTTT-CTTTGTCCTCAA
1 TCTTTTTCCTTTGTCCTCAA
1624336 AAAGCAAGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 12 0.22
41 2 0.04
42 33 0.61
43 7 0.13
ACGTcount: A:0.16, C:0.26, G:0.12, T:0.47
Consensus pattern (41 bp):
TCTTTTTCCTTTGTCCTCAAGGAGCAGGACACTTTCTATTC
Found at i:1625013 original size:50 final size:50
Alignment explanation
Indices: 1624929--1625093 Score: 231
Period size: 50 Copynumber: 3.3 Consensus size: 50
1624919 TTTCACAATT
* * *
1624929 TGTATTGATACATTCTTCATTGTATCGATACATTCTGGGTTTAACCCAGA
1 TGTATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTACCCAGA
* * * *
1624979 TGTATCAATACATTATTCATTGTATAAATGCATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTACCCAGA
* * *
1625029 TATATCGATACATTCTTCATTGTATCAATACATTCTAGGTTTTACCTAGA
1 TGTATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTACCCAGA
*
1625079 TGTATTGATACATTC
1 TGTATCGATACATTC
1625094 AGGCATTTTT
Statistics
Matches: 99, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 99 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGTATCAATACATTCTGGGTTTTACCCAGA
Found at i:1627521 original size:79 final size:79
Alignment explanation
Indices: 1627429--1627632 Score: 266
Period size: 79 Copynumber: 2.6 Consensus size: 79
1627419 CATTGATCTT
** * * * * *
1627429 TTTATTTCCAAAACACCGATTTTCCACCATCAGGGATACTCCAACCTCGTTA-TTTCTGAGGGGA
1 TTTATTTTTAAAACATCGATTTTCCACAATCAGGGATACTTCAACCTCATTATTTTC-AAGGGGA
*
1627493 TGCTCCAACCCCGGC
65 TACTCCAACCCCGGC
* * * *
1627508 TTTATTTTTAAAACATCAATTTTTCACAATTAGGGACACTTCAACCTCATTATTTTCAAGGGGAT
1 TTTATTTTTAAAACATCGATTTTCCACAATCAGGGATACTTCAACCTCATTATTTTCAAGGGGAT
1627573 ACTCCAACCCCGGC
66 ACTCCAACCCCGGC
* *
1627587 TTTATTTTTAAAACATTGATTTTCCATAATCAGGGATACTTCAACC
1 TTTATTTTTAAAACATCGATTTTCCACAATCAGGGATACTTCAACC
1627633 CTAGTTTTAT
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 102 0.96
80 4 0.04
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (79 bp):
TTTATTTTTAAAACATCGATTTTCCACAATCAGGGATACTTCAACCTCATTATTTTCAAGGGGAT
ACTCCAACCCCGGC
Found at i:1627753 original size:78 final size:78
Alignment explanation
Indices: 1627619--1627921 Score: 324
Period size: 79 Copynumber: 3.8 Consensus size: 78
1627609 TCCATAATCA
* * * *
1627619 GGGATACTTCAA-CCCTAGTTTTATTTCCAAAACA-CTAATTTTTCACAATTGGGGATACTCCAA
1 GGGATAC-TCAACCCCGA-TTTTATTTCCAAAACATC-AATTTTCCACAATCGAGGATACTCCAA
1627682 CTCC-GTTATTTTTGAG
63 C-CCTGTTATTTTTGAG
* *** * *
1627698 GGGATACTCTACCCCGGCCTTATTTCTAAAACATCAATTTTCCATAATCGAGGATACTCCAACCC
1 GGGATACTCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAACCC
* *
1627763 TATTATTTTCGAG
66 TGTTATTTTTGAG
* * * * *
1627776 AGGATACTTCAACCCCGATTTTATTTCCAAAACATTAATTTTTCACCATCGAAGATACTCCAACC
1 GGGATAC-TCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAACC
* *
1627841 CTGTTATTTCTAAG
65 CTGTTATTTTTGAG
* * *
1627855 GGGACACTCCAACCCCGAATTTTATTTCTAAAACATCAATTTTCCACAATAGAGGATACTCCAAC
1 GGGATACT-CAACCCCG-ATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAAC
1627920 CC
64 CC
1627922 CATTAATTCT
Statistics
Matches: 183, Mismatches: 35, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
77 2 0.01
78 57 0.31
79 81 0.44
80 43 0.23
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (78 bp):
GGGATACTCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATCGAGGATACTCCAACCC
TGTTATTTTTGAG
Found at i:1627763 original size:129 final size:130
Alignment explanation
Indices: 1627489--1627764 Score: 335
Period size: 130 Copynumber: 2.1 Consensus size: 130
1627479 TATTTCTGAG
* ** ** *
1627489 GGGATGCTCCAACCCCGGCTTTATTTTTAAAACATCAATTTTTCACAATTAGGGACACTTCAACC
1 GGGATACTCCAACCCTAGCTTTATTTCCAAAACATCAATTTTTCACAATTAGGGACACTCCAACC
* * **
1627554 TCATTATTTTCAAGGGGATACTCCAACCCCGGCTTTATTTTTAAAACATTGATTTTCCATAATCA
66 TCATTATTTTCAAGGGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTTCCATAATCA
* * * *
1627619 GGGATACTTCAACCCTAGTTTTATTTCCAAAACA-CTAATTTTTCACAATTGGGGATACTCCAA-
1 GGGATACTCCAACCCTAGCTTTATTTCCAAAACATC-AATTTTTCACAATTAGGGACACTCCAAC
* ** *
1627682 CTCCGTTATTTTTGAGGGGATACT-CTACCCCGGCCTTATTTCTAAAACATCAATTTTCCATAAT
65 CT-CATTATTTTCAAGGGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTTCCATAAT
1627746 C-
129 CA
1627747 GAGGATACTCCAACCCTA
1 G-GGATACTCCAACCCTA
1627765 TTATTTTCGA
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
128 1 0.01
129 54 0.44
130 69 0.56
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (130 bp):
GGGATACTCCAACCCTAGCTTTATTTCCAAAACATCAATTTTTCACAATTAGGGACACTCCAACC
TCATTATTTTCAAGGGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTTCCATAATCA
Found at i:1627792 original size:208 final size:209
Alignment explanation
Indices: 1627428--1627817 Score: 509
Period size: 208 Copynumber: 1.9 Consensus size: 209
1627418 TCATTGATCT
* *
1627428 TTTTATTTCCAAAACACCGATTTTCCACCATCAGGGATACTCCAACCTCGTTATTTCTGAGGGGA
1 TTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAACCTCGTTATTTCTGAGGGGA
* * * * * *
1627493 TGCTCCAACCCCGGCTTTATTTTTAAAACATCAATTTTTCACAATTAGGGACACTTCAACCTCAT
66 TACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTTCCACAATGAGGGACACTCCAACCTCAT
* * ** *
1627558 TATTTTCAAGGGGATACTCCAACCCCGGCTTTATTTTTAAAACATTGATTTTCCATAATCAGGGA
131 TATTTTCAAGAGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTTCCATAATCAGGGA
1627623 TACTTCAACCCTAG
196 TACTTCAACCCTAG
* * ** *
1627637 TTTTATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCCAA-CTCCGTTATTTTTGAGGGG
1 TTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAACCT-CGTTATTTCTGAGGGG
* * *
1627701 ATACT-CTACCCCGGCCTTATTTCTAAAACATCAATTTTCCATAATCGA-GGATACTCCAACC-C
65 ATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTTCCACAAT-GAGGGACACTCCAACCTC
* * *
1627763 TATTATTTTCGAGAGGATACTTCAACCCCGATTTTATTTCCAAAACATTAATTTT
129 -ATTATTTTCAAGAGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTT
1627818 TCACCATCGA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
207 1 0.01
208 94 0.61
209 59 0.38
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (209 bp):
TTTTATTTCCAAAACACCAATTTTCCACAATCAGGGATACTCCAACCTCGTTATTTCTGAGGGGA
TACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTTCCACAATGAGGGACACTCCAACCTCAT
TATTTTCAAGAGGATACTCCAACCCCGACTTTATTTCCAAAACATTAATTTTCCATAATCAGGGA
TACTTCAACCCTAG
Found at i:1627944 original size:80 final size:78
Alignment explanation
Indices: 1627717--1627949 Score: 263
Period size: 80 Copynumber: 2.9 Consensus size: 78
1627707 TACCCCGGCC
* * *
1627717 TTATTTCTAAAACATCAATTTTCCATAATCGAGGATACTCCAACCCTATT-ATTTTCGAGAGGAT
1 TTATTTCTAAAACATCAATTTTCCACAATCGAGGATACTCCAACCCTATTAATTCTC-A-AGGGT
*
1627781 ACTTCAACCCCGATT
64 ACTCCAACCCCGATT
* * * * * * * *
1627796 TTATTTCCAAAACATTAATTTTTCACCATCGAAGATACTCCAACCCTGTTATTTCT-AAGGGGAC
1 TTATTTCTAAAACATCAATTTTCCACAATCGAGGATACTCCAACCCTATTAATTCTCAA-GGG-T
1627860 ACTCCAACCCCGAATT
64 ACTCCAACCCCG-ATT
* *
1627876 TTATTTCTAAAACATCAATTTTCCACAATAGAGGATACTCCAACCCCATTAATTCTGCAAGGGTA
1 TTATTTCTAAAACATCAATTTTCCACAATCGAGGATACTCCAACCCTATTAATTCT-CAAGGGTA
*
1627941 CTCCGACCC
65 CTCCAACCC
1627950 TGTTAGCTCA
Statistics
Matches: 125, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
77 1 0.01
78 3 0.02
79 54 0.43
80 62 0.50
81 3 0.02
82 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (78 bp):
TTATTTCTAAAACATCAATTTTCCACAATCGAGGATACTCCAACCCTATTAATTCTCAAGGGTAC
TCCAACCCCGATT
Found at i:1628238 original size:34 final size:35
Alignment explanation
Indices: 1628200--1628266 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1628190 CCTTACAACA
1628200 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1628234 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1628267 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1628742 original size:13 final size:13
Alignment explanation
Indices: 1628724--1628749 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1628714 CAATTTTTTG
1628724 TGTATCGATACAT
1 TGTATCGATACAT
1628737 TGTATCGATACAT
1 TGTATCGATACAT
1628750 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1628814 original size:21 final size:21
Alignment explanation
Indices: 1628788--1628863 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1628778 CTGCCAAGAA
1628788 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1628809 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1628829 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1628850 ATGTATCGATACAT
1 ATGTATCGATACAT
1628864 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1628833 original size:20 final size:20
Alignment explanation
Indices: 1628808--1628881 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1628798 ACATCTTTTT
1628808 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1628828 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1628849 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1628869 CATGTATCGATAC
1 CATGTATCGATAC
1628882 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1628845 original size:41 final size:41
Alignment explanation
Indices: 1628788--1628881 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1628778 CTGCCAAGAA
1628788 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1628829 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1628870 ATGTATCGATAC
1 ATGTATCGATAC
1628882 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1630685 original size:13 final size:13
Alignment explanation
Indices: 1630667--1630691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1630657 ACTGAAGCAA
1630667 TGTATCGATACAT
1 TGTATCGATACAT
1630680 TGTATCGATACA
1 TGTATCGATACA
1630692 ATCTGGAAAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1633851 original size:34 final size:35
Alignment explanation
Indices: 1633813--1633879 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
1633803 CCTTACAACA
1633813 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
1633847 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
1633880 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:1634355 original size:13 final size:13
Alignment explanation
Indices: 1634337--1634362 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1634327 CAATTTTTTG
1634337 TGTATCGATACAT
1 TGTATCGATACAT
1634350 TGTATCGATACAT
1 TGTATCGATACAT
1634363 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1634427 original size:21 final size:21
Alignment explanation
Indices: 1634401--1634476 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
1634391 CTGCCAAGAA
1634401 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1634422 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1634442 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1634463 ATGTATCGATACAT
1 ATGTATCGATACAT
1634477 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1634446 original size:20 final size:20
Alignment explanation
Indices: 1634421--1634494 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1634411 ACATCTTTTT
1634421 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1634441 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1634462 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1634482 CATGTATCGATAC
1 CATGTATCGATAC
1634495 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1634458 original size:41 final size:41
Alignment explanation
Indices: 1634401--1634494 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
1634391 CTGCCAAGAA
1634401 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1634442 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1634483 ATGTATCGATAC
1 ATGTATCGATAC
1634495 TTTGAATTGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1637230 original size:13 final size:13
Alignment explanation
Indices: 1637212--1637236 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1637202 CTATTTATGA
1637212 TGTATCGATACAC
1 TGTATCGATACAC
1637225 TGTATCGATACA
1 TGTATCGATACA
1637237 TGAATAGTGA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1637390 original size:53 final size:53
Alignment explanation
Indices: 1637327--1637463 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1637317 CTACTACCAA
*
1637327 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAGTGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* * *
1637380 TGTATCGATACATATTATGTGTATCGCTACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1637433 TGTATCGATACATATTTATGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1637464 TATGCAATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 65 0.84
54 12 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:1637458 original size:20 final size:21
Alignment explanation
Indices: 1637433--1637503 Score: 78
Period size: 20 Copynumber: 3.5 Consensus size: 21
1637423 GCCAATGTCC
**
1637433 TGTATCGATACATAT-TTATG
1 TGTATCGATACATATCAAATG
*
1637453 TGTATCGATAC-TATGC-AATC
1 TGTATCGATACATAT-CAAATG
1637473 TGTATCGATACAT-TCAAATG
1 TGTATCGATACATATCAAATG
1637493 TGTATCGATAC
1 TGTATCGATAC
1637504 TTTTCAGGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
19 4 0.09
20 39 0.89
21 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATATCAAATG
Found at i:1637569 original size:21 final size:21
Alignment explanation
Indices: 1637543--1637583 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1637533 GTCAACCTTG
1637543 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1637564 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1637584 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1638710 original size:59 final size:56
Alignment explanation
Indices: 1638601--1638802 Score: 165
Period size: 57 Copynumber: 3.5 Consensus size: 56
1638591 CATCTTAGGT
* * * * * * *
1638601 ACTATTATGTAATTTCATGCATTGTAGCAGTATTTTAGTTATTTCCCATGACTTAGGGG
1 ACTATTATGTAATTTCATACATTTTAG-GGTATTCTAGTAATTTGCCATGACTTA--AG
* *
1638660 ACTATTATGTAATTTCATACATTTTAGGGTCATTCTAGTAATTTGTCATGATTTAAG
1 ACTATTATGTAATTTCATACATTTTAGGGT-ATTCTAGTAATTTGCCATGACTTAAG
* * * * *
1638717 A-TCATTTATGGAATTTCACACATTTTATGATATTCTAGTAATTTGCCATGATTTAAG
1 ACT-A-TTATGTAATTTCATACATTTTAGGGTATTCTAGTAATTTGCCATGACTTAAG
* * *
1638774 ATTATTTATGCAGTTTCA-AGCATTTTAGG
1 ACTA-TTATGTAATTTCATA-CATTTTAGG
1638803 CCCATTTTAG
Statistics
Matches: 121, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
56 2 0.02
57 50 0.41
58 25 0.21
59 44 0.36
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (56 bp):
ACTATTATGTAATTTCATACATTTTAGGGTATTCTAGTAATTTGCCATGACTTAAG
Found at i:1638721 original size:29 final size:29
Alignment explanation
Indices: 1638689--1638775 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
1638679 CATTTTAGGG
*
1638689 TCATTCTAGTAATTTGTCATGATTTAAGA
1 TCATTCTAGTAATTTGACATGATTTAAGA
* * * *
1638718 TCATT-TATGGAATTTCACA-CATTTTATGA
1 TCATTCTA-GTAATTTGACATGA-TTTAAGA
*
1638747 T-ATTCTAGTAATTTGCCATGATTTAAGA
1 TCATTCTAGTAATTTGACATGATTTAAGA
1638775 T
1 T
1638776 TATTTATGCA
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
28 21 0.48
29 23 0.52
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (29 bp):
TCATTCTAGTAATTTGACATGATTTAAGA
Found at i:1638768 original size:57 final size:57
Alignment explanation
Indices: 1638664--1638802 Score: 181
Period size: 57 Copynumber: 2.4 Consensus size: 57
1638654 TAGGGGACTA
* * *
1638664 TTATGTAATTTCATACATTTTAGGGTCATTCTAGTAATTTGTCATGATTTAAGATCAT
1 TTATGCAATTTCA-ACATTTTAGGATCATTCTAGTAATTTGCCATGATTTAAGATCAT
* * *
1638722 TTATGGAATTTCACACATTTTATGAT-ATTCTAGTAATTTGCCATGATTTAAGATTAT
1 TTATGCAATTTCA-ACATTTTAGGATCATTCTAGTAATTTGCCATGATTTAAGATCAT
*
1638779 TTATGCAGTTTCAAGCATTTTAGG
1 TTATGCAATTTCAA-CATTTTAGG
1638803 CCCATTTTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
56 1 0.01
57 48 0.68
58 22 0.31
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.45
Consensus pattern (57 bp):
TTATGCAATTTCAACATTTTAGGATCATTCTAGTAATTTGCCATGATTTAAGATCAT
Found at i:1645771 original size:13 final size:13
Alignment explanation
Indices: 1645753--1645777 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1645743 ATTTTGCTTA
1645753 GTATCGATACATT
1 GTATCGATACATT
1645766 GTATCGATACAT
1 GTATCGATACAT
1645778 AAACTGGCAG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1645842 original size:13 final size:13
Alignment explanation
Indices: 1645824--1645865 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
1645814 TCACCGTTCA
1645824 TGTATCGATACAT
1 TGTATCGATACAT
*
1645837 TGTATCGATACAG
1 TGTATCGATACAT
1645850 TGTATCGATACAT
1 TGTATCGATACAT
1645863 TGT
1 TGT
1645866 GAATAGTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1647977 original size:21 final size:21
Alignment explanation
Indices: 1647953--1648011 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1647943 TAATATTCTT
* *
1647953 GAAAAGAAATTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
1647974 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
1647995 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
1648012 GTTGCAAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:1651235 original size:13 final size:13
Alignment explanation
Indices: 1651217--1651241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1651207 ATTTTGCTTA
1651217 GTATCGATACATT
1 GTATCGATACATT
1651230 GTATCGATACAT
1 GTATCGATACAT
1651242 AAACTGGCAG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1651307 original size:13 final size:13
Alignment explanation
Indices: 1651289--1651330 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
1651279 TCACTGTTCA
1651289 TGTATCGATACAT
1 TGTATCGATACAT
*
1651302 TGTATCGATACAG
1 TGTATCGATACAT
*
1651315 TGTACCGATACAT
1 TGTATCGATACAT
1651328 TGT
1 TGT
1651331 GAATAGTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1651870 original size:37 final size:33
Alignment explanation
Indices: 1651786--1651872 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 33
1651776 CAAGTGATTA
1651786 AGAGGTTCTACCTTAG-CTTTGAAAGATAGTGT
1 AGAGGTTCTACCTTAGCCTTTGAAAGATAGTGT
*
1651818 AGAGGTTCTATCTTAGCCTTTGTAAAAGATAGGGGTGT
1 AGAGGTTCTACCTTAGCCTTTG--AAAGATA---GTGT
*
1651856 A-AGGTTATACCTTAGCC
1 AGAGGTTCTACCTTAGCC
1651873 ATAAAAGTCA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
32 15 0.33
33 5 0.11
35 7 0.15
37 14 0.30
38 5 0.11
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (33 bp):
AGAGGTTCTACCTTAGCCTTTGAAAGATAGTGT
Found at i:1657251 original size:20 final size:21
Alignment explanation
Indices: 1657208--1657261 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
1657198 TTTTACAATT
* *
1657208 TGTATCAATACAAATAAGTTAA
1 TGTATCGATAC-AATAAGTGAA
1657230 TGTATCGATACAA-AAGTGAA
1 TGTATCGATACAATAAGTGAA
1657250 TGTATCGATACA
1 TGTATCGATACA
1657262 TGCTTGCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.60
21 2 0.07
22 10 0.33
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:1667062 original size:2 final size:2
Alignment explanation
Indices: 1667057--1667087 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1667047 TTTAGATTAA
1667057 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1667088 AAAATTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1668010 original size:21 final size:21
Alignment explanation
Indices: 1667970--1668012 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1667960 TTATATCTTC
1667970 ATGAAGATAATTTTTATTAGT
1 ATGAAGATAATTTTTATTAGT
1667991 ATGAAGATAATTTTTATTAGT
1 ATGAAGATAATTTTTATTAGT
1668012 A
1 A
1668013 ACATATACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
ATGAAGATAATTTTTATTAGT
Found at i:1672279 original size:85 final size:85
Alignment explanation
Indices: 1672186--1672357 Score: 308
Period size: 85 Copynumber: 2.0 Consensus size: 85
1672176 AAATACGATT
*
1672186 ATATTTTGTTTCTTGATTAGCTTAGTAATCTCAAAAAGACTTGATATGTATTTTATGGACTAGTG
1 ATATTTTGTTTCTTGATTAGCATAGTAATCTCAAAAAGACTTGATATGTATTTTATGGACTAGTG
1672251 ATAACTTATTTTTATGGCTC
66 ATAACTTATTTTTATGGCTC
*
1672271 ATATTTTGTTTCTTGATTAGCATAGTAATCTCAAAGAGACTTGATATGTATTTTATGGACTAGTG
1 ATATTTTGTTTCTTGATTAGCATAGTAATCTCAAAAAGACTTGATATGTATTTTATGGACTAGTG
* *
1672336 ATGACTTATTTTTATGGTTC
66 ATAACTTATTTTTATGGCTC
1672356 AT
1 AT
1672358 TGGATTTCAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (85 bp):
ATATTTTGTTTCTTGATTAGCATAGTAATCTCAAAAAGACTTGATATGTATTTTATGGACTAGTG
ATAACTTATTTTTATGGCTC
Found at i:1675173 original size:20 final size:21
Alignment explanation
Indices: 1675135--1675252 Score: 100
Period size: 20 Copynumber: 5.6 Consensus size: 21
1675125 TACCCAGATA
* *
1675135 TATCGATACATT-TTGCATTG
1 TATCGATACATTGCTACATTG
*
1675155 CATCGATACATTGCT-CATTG
1 TATCGATACATTGCTACATTG
*
1675175 TATCAATACATTGTATCGATACATTG
1 TATCGATACATTG---C--TACATTG
*
1675201 TATCGATACATGGCT-CATTG
1 TATCGATACATTGCTACATTG
* *
1675221 TATCGATACATT-TTACAATG
1 TATCGATACATTGCTACATTG
1675241 TATCGATACATT
1 TATCGATACATT
1675253 CAGGCATTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 16
0.76 0.08 0.15
Matches are distributed among these distances:
19 1 0.01
20 59 0.73
21 2 0.02
23 2 0.02
25 1 0.01
26 16 0.20
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (21 bp):
TATCGATACATTGCTACATTG
Found at i:1675186 original size:13 final size:13
Alignment explanation
Indices: 1675170--1675211 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
1675160 ATACATTGCT
*
1675170 CATTGTATCAATA
1 CATTGTATCGATA
1675183 CATTGTATCGATA
1 CATTGTATCGATA
1675196 CATTGTATCGATA
1 CATTGTATCGATA
1675209 CAT
1 CAT
1675212 GGCTCATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1677631 original size:51 final size:51
Alignment explanation
Indices: 1677553--1677714 Score: 166
Period size: 50 Copynumber: 3.2 Consensus size: 51
1677543 TTTTCATCTC
* ** * **
1677553 GGGGATACTCCAATCCCTG-TTCCATTTCCAAAACGTCAATTTTTCTTAATT
1 GGGGATACTCCAA-CTCTGATTTTATTTCCAAAACATCAATTTTTCACAATT
* * * ** * *
1677604 GGGGATACTCCAACTCTGATTTTATTTCTAAAGCATCGA-TTGCCGCAATC
1 GGGGATACTCCAACTCTGATTTTATTTCCAAAACATCAATTTTTCACAATT
* *
1677654 GGGGATACTCCAACTCCGATTTTATTTCCAAAACATAAATTTTTCACAATT
1 GGGGATACTCCAACTCTGATTTTATTTCCAAAACATCAATTTTTCACAATT
1677705 GGGGATACTC
1 GGGGATACTC
1677715 TAACCCATTA
Statistics
Matches: 88, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
50 44 0.50
51 44 0.50
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACTCTGATTTTATTTCCAAAACATCAATTTTTCACAATT
Found at i:1677763 original size:28 final size:27
Alignment explanation
Indices: 1677705--1677775 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
1677695 TTTCACAATT
*
1677705 GGGGATACTCTAACCCATTATTTCGTC
1 GGGGATACTCTAACCCATTATTTCGTA
* *
1677732 GGGGACACTCTAACCCTGTTATTTCCG-A
1 GGGGATACTCTAACCC-ATTATTT-CGTA
*
1677760 GGGGATACTCCAACCC
1 GGGGATACTCTAACCC
1677776 CGGCTTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
27 15 0.41
28 20 0.54
29 2 0.05
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (27 bp):
GGGGATACTCTAACCCATTATTTCGTA
Found at i:1677885 original size:82 final size:79
Alignment explanation
Indices: 1677738--1677913 Score: 255
Period size: 82 Copynumber: 2.2 Consensus size: 79
1677728 CGTCGGGGAC
* * *
1677738 ACTCTAACCCTGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATATCTAAAAATGTTGTTTT
1 ACTCTAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATATCTAAAAATATTG---T
1677803 TTTTCATAATCAGGGGT
63 TTTTCATAATCAGGGGT
* *
1677820 ACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCGGCTTTATATCT-AAAATATTGATTT
1 ACTCTAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATATCTAAAAATATTG-TTT
*
1677884 TTCATAATCGGGGGT
65 TTCATAATCAGGGGT
1677899 ACTCTAACCCCGTTA
1 ACTCTAACCCCGTTA
1677914 CGTCATCGGG
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
79 31 0.36
81 8 0.09
82 47 0.55
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (79 bp):
ACTCTAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATATCTAAAAATATTGTTTT
TCATAATCAGGGGT
Done.