Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 64 of 290
Found at i:20983832 original size:43 final size:42
Alignment explanation
Indices: 20983743--20983851 Score: 155
Period size: 43 Copynumber: 2.6 Consensus size: 42
20983733 TAAGATTACG
20983743 TGTAAGACCATATCTGGGATATGGAATCAATACGAGACTTCA
1 TGTAAGACCATATCTGGGATATGGAATCAATACGAGACTTCA
* * * * *
20983785 TGTAAGACCATAGCTGGGCTATTGGCATCGATACGAGATTTCA
1 TGTAAGACCATATCTGGGATA-TGGAATCAATACGAGACTTCA
*
20983828 TGTAAGACCATATCTGGGACATGG
1 TGTAAGACCATATCTGGGATATGG
20983852 CATTGGTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 22 0.38
43 36 0.62
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGAATCAATACGAGACTTCA
Found at i:20990618 original size:46 final size:46
Alignment explanation
Indices: 20990568--20990678 Score: 177
Period size: 46 Copynumber: 2.4 Consensus size: 46
20990558 TTTCTGTATG
*
20990568 TGTTGCAGACTCGAGAATACAGGAATAGGTTCTGAGCTCTTACATA
1 TGTTGCAGACTCGAGAATACAGGAATAGGTTCTGAGCTCCTACATA
*
20990614 TGTTGCAGACTCGAGAATACAGGAATAGGTTCTGAGCTCCTGCATA
1 TGTTGCAGACTCGAGAATACAGGAATAGGTTCTGAGCTCCTACATA
* * *
20990660 TGCTACAGACTTGAGAATA
1 TGTTGCAGACTCGAGAATA
20990679 TATGAATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (46 bp):
TGTTGCAGACTCGAGAATACAGGAATAGGTTCTGAGCTCCTACATA
Found at i:20994563 original size:46 final size:46
Alignment explanation
Indices: 20994511--20995520 Score: 1869
Period size: 46 Copynumber: 22.0 Consensus size: 46
20994501 AGTGTGCTCT
*
20994511 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994557 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994603 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994649 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994695 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994741 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994787 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994833 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994879 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994925 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20994971 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20995017 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20995063 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20995109 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20995155 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20995201 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20995247 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20995293 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
20995339 CTGATATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
20995385 CTTATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
20995431 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
20995477 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
20995521 TCATGTCAAA
Statistics
Matches: 945, Mismatches: 18, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
45 1 0.00
46 944 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.24
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:20997963 original size:10 final size:10
Alignment explanation
Indices: 20997950--20997997 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
20997940 TTATTTTCAT
20997950 TTATCTTTAA
1 TTATCTTTAA
20997960 TTATCTTTAA
1 TTATCTTTAA
*
20997970 TTATCTTTAT
1 TTATCTTTAA
* * *
20997980 TTATGTGTAT
1 TTATCTTTAA
20997990 TTATCTTT
1 TTATCTTT
20997998 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.23, C:0.08, G:0.04, T:0.65
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:20998317 original size:35 final size:35
Alignment explanation
Indices: 20998271--20998341 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
20998261 TCTCAAAGAA
*
20998271 TATTCATTGTTTCTTTGCATTACGGGGCTAATACT
1 TATTCATTGTTTCTTCGCATTACGGGGCTAATACT
*
20998306 TATTCATTGTTTCTTCGTATTACGGGGCTAATACT
1 TATTCATTGTTTCTTCGCATTACGGGGCTAATACT
20998341 T
1 T
20998342 TCGTCTATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (35 bp):
TATTCATTGTTTCTTCGCATTACGGGGCTAATACT
Found at i:21003721 original size:5 final size:5
Alignment explanation
Indices: 21003701--21003783 Score: 111
Period size: 5 Copynumber: 17.0 Consensus size: 5
21003691 AGGCAACTCA
21003701 ATTTT -TTTT A-TTT ATTTT ATTTT ATTTT ATTTT A-TTT ATTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A-TTTT ATTTT
*
21003749 ATTTT ATTTT ATTTT ATTATT -TATT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATT-TT ATTTT ATTTT ATTTT
21003784 TAGATGTTGA
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
4 14 0.20
5 50 0.71
6 6 0.09
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:21003747 original size:30 final size:29
Alignment explanation
Indices: 21003711--21003783 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 29
21003701 ATTTTTTTTA
21003711 TTTATTTTATTTTATTTTATTTTATTTATT
1 TTTATTTTATTTTATTTTATTTTA-TTATT
21003741 TTTATTTTATTTTATTTTATTTTATTATT
1 TTTATTTTATTTTATTTTATTTTATTATT
21003770 TATTATTTTATTTT
1 T-TTATTTTATTTT
21003784 TAGATGTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 6 0.14
30 36 0.86
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTATTTTATTTTATTTTATTTTATTATT
Found at i:21003992 original size:75 final size:75
Alignment explanation
Indices: 21003865--21004024 Score: 223
Period size: 75 Copynumber: 2.1 Consensus size: 75
21003855 GAAAAAAATA
* * * *
21003865 CAGCCAAACAGCCTTTATTCCATTCCTATTTTAGCCCAGAATAGTGCTTTCCTGCCCTAGACTCC
1 CAGCCAAATAGCCTTTATTCCATTCCTATTCTAGCCCAGAATAGTGCATTCCTACCCTAGACTCC
21003930 CCAAAACCTG
66 CCAAAACCTG
*** *
21003940 CAGCCAAATAGCCTTTATTCCA-TCCATATTCTAGCTTGGAATAGTGCATTCCTACTCTAGACTC
1 CAGCCAAATAGCCTTTATTCCATTCC-TATTCTAGCCCAGAATAGTGCATTCCTACCCTAGACTC
21004004 CCCAAAACCTG
65 CCCAAAACCTG
*
21004015 CAACCAAATA
1 CAGCCAAATA
21004025 CCCCCTTTCA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
74 3 0.04
75 72 0.96
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.28
Consensus pattern (75 bp):
CAGCCAAATAGCCTTTATTCCATTCCTATTCTAGCCCAGAATAGTGCATTCCTACCCTAGACTCC
CCAAAACCTG
Found at i:21006595 original size:4 final size:4
Alignment explanation
Indices: 21006586--21006611 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21006576 TAAGCAAAAA
21006586 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
21006612 AAAAAGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:21007251 original size:10 final size:10
Alignment explanation
Indices: 21007236--21007285 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
21007226 TAATTTTAGG
21007236 ATTTAT-TTT
1 ATTTATCTTT
21007245 CATTTATCTTT
1 -ATTTATCTTT
*
21007256 AATTATCTTT
1 ATTTATCTTT
21007266 ATTTAT-TTCT
1 ATTTATCTT-T
21007276 ATTTATCTTT
1 ATTTATCTTT
21007286 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:21013537 original size:47 final size:48
Alignment explanation
Indices: 21013468--21013794 Score: 201
Period size: 47 Copynumber: 6.9 Consensus size: 48
21013458 AGGGTATAAT
*
21013468 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCATC-CATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAA
* * * * * *
21013515 GTCGATGCCATGACCCAGACATGGCCTTACATTAACT-ATCAAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-ACATC-AA
* *
21013564 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACATGTCTATA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACA--TC-A-A
* *
21013615 -ACGATACCATGTCCCAGACATGGTCTTACACT-G---A-CACATCTAGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATC-A--A
* * * *
21013660 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCAC-TCGTC-TCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-ACATCAA
* *
21013705 -TGCAAATGCCATGTCCCAGACATGGTCTTACACTGGCTC--C-CAT-AA
1 GT-C-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAA
*
21013750 TGTGGCCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA-CACA
1 -GT---CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACA
21013795 AGTGACCCAA
Statistics
Matches: 223, Mismatches: 30, Indels: 53
0.73 0.10 0.17
Matches are distributed among these distances:
44 14 0.06
45 21 0.09
46 29 0.13
47 63 0.28
48 27 0.12
49 37 0.17
50 32 0.14
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCACATCAA
Found at i:21015031 original size:20 final size:19
Alignment explanation
Indices: 21015006--21015053 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
21014996 ACAGTTTGTA
21015006 CCCCTGTTAGCACTTCGGTG
1 CCCCTGTTA-CACTTCGGTG
*
21015026 CCCCTGTATACACTTTGGTG
1 CCCCTGT-TACACTTCGGTG
*
21015046 TCCCTGTT
1 CCCCTGTT
21015054 TGCTCGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 22 0.88
21 2 0.08
ACGTcount: A:0.10, C:0.33, G:0.21, T:0.35
Consensus pattern (19 bp):
CCCCTGTTACACTTCGGTG
Found at i:21016999 original size:46 final size:47
Alignment explanation
Indices: 21016882--21017006 Score: 139
Period size: 48 Copynumber: 2.7 Consensus size: 47
21016872 TCGCCTCAAT
*
21016882 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTAAATATCTCAGG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTAAATATCT-AGA
* * *
21016930 GCCGATGCATTTCCCAGACATGTCTTACACTGGCTCT-CATA-CT-GTA
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCT-TAAATATCTAG-A
** *
21016976 GCTTATGCATGTCCCAAACATGTCTTGCACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
21017007 AGCACACAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
45 1 0.02
46 26 0.39
47 2 0.03
48 36 0.55
49 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTAAATATCTAGA
Found at i:21018514 original size:13 final size:13
Alignment explanation
Indices: 21018496--21018531 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21018486 GGTGCAGGGT
*
21018496 CACACGGCCAAGC
1 CACACGCCCAAGC
21018509 CACACGCCCAAGC
1 CACACGCCCAAGC
*
21018522 CATACGCCCA
1 CACACGCCCA
21018532 TGTGCCAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.50, G:0.17, T:0.03
Consensus pattern (13 bp):
CACACGCCCAAGC
Found at i:21019858 original size:26 final size:26
Alignment explanation
Indices: 21019829--21019890 Score: 90
Period size: 26 Copynumber: 2.3 Consensus size: 26
21019819 ATCCTCTCTC
21019829 GAGCCATATAA-CAAGAAACTCACAAA
1 GAGCCAT-TAATCAAGAAACTCACAAA
*
21019855 GAGCCATTAATCAGGAAACTCACAAA
1 GAGCCATTAATCAAGAAACTCACAAA
21019881 GAGCCTATTA
1 GAGCC-ATTA
21019891 GGAAGCTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 3 0.09
26 26 0.79
27 4 0.12
ACGTcount: A:0.47, C:0.23, G:0.15, T:0.16
Consensus pattern (26 bp):
GAGCCATTAATCAAGAAACTCACAAA
Found at i:21020821 original size:21 final size:21
Alignment explanation
Indices: 21020797--21020838 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
21020787 AAGTTGTTTA
21020797 TCTATCAACAACCTTTTATTT
1 TCTATCAACAACCTTTTATTT
21020818 TCTATCAACAACCTTTTATTT
1 TCTATCAACAACCTTTTATTT
21020839 ATGATAAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (21 bp):
TCTATCAACAACCTTTTATTT
Found at i:21022709 original size:7 final size:7
Alignment explanation
Indices: 21022697--21022723 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
21022687 ACTTTAATGT
21022697 AATTTAA
1 AATTTAA
21022704 AATTTAA
1 AATTTAA
21022711 AATTTAA
1 AATTTAA
21022718 AATTTA
1 AATTTA
21022724 TTTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATTTAA
Found at i:21034849 original size:18 final size:18
Alignment explanation
Indices: 21034814--21034850 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21034804 CCCGGCAAAG
*
21034814 AACACTGGAAAGCGGTTC
1 AACACTGGAAAGCAGTTC
*
21034832 AACACTGGAAAGTAGTTC
1 AACACTGGAAAGCAGTTC
21034850 A
1 A
21034851 GTAGATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (18 bp):
AACACTGGAAAGCAGTTC
Found at i:21036486 original size:13 final size:12
Alignment explanation
Indices: 21036452--21036502 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
21036442 TTTTAGCAAG
21036452 TTTTTATTTTAGT
1 TTTTTATTTTA-T
*
21036465 CTTTTATTTTAT
1 TTTTTATTTTAT
*
21036477 TTTTTAATTT-T
1 TTTTTATTTTAT
21036488 TTTTTACTTTT-T
1 TTTTTA-TTTTAT
21036500 TTT
1 TTT
21036503 CAATAAAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
11 7 0.21
12 16 0.48
13 10 0.30
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:21038426 original size:25 final size:24
Alignment explanation
Indices: 21038373--21038426 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
21038363 AATCATCTTA
* *
21038373 TTTTTTAAATTTGCTTTATTTCTT
1 TTTTTTAAATTTGCTTTAGTTATT
*
21038397 CTTTTTAGAATTT-CTTTTAGTTATT
1 TTTTTTA-AATTTGC-TTTAGTTATT
21038422 TTTTT
1 TTTTT
21038427 CAATAAAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.17, C:0.07, G:0.06, T:0.70
Consensus pattern (24 bp):
TTTTTTAAATTTGCTTTAGTTATT
Found at i:21044020 original size:64 final size:64
Alignment explanation
Indices: 21043951--21044078 Score: 231
Period size: 64 Copynumber: 2.0 Consensus size: 64
21043941 CAAAAGTATA
*
21043951 CTAAAATTAGAAATACAAAAAAACCCAATATCATCATTTTTACCTTTT-TCATCCTTTAATTTTG
1 CTAAAATTAAAAATACAAAAAAACCCAATATCATCATTTTTACCTTTTCTCATCCTTT-ATTTTG
21044015 CTAAAATTAAAAATACAAAAAAACCCAATATCATCATTTTTACCTTTTCTCATCCTTTATTTTG
1 CTAAAATTAAAAATACAAAAAAACCCAATATCATCATTTTTACCTTTTCTCATCCTTTATTTTG
21044079 ATATTCTAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
64 53 0.85
65 9 0.15
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (64 bp):
CTAAAATTAAAAATACAAAAAAACCCAATATCATCATTTTTACCTTTTCTCATCCTTTATTTTG
Found at i:21051909 original size:30 final size:30
Alignment explanation
Indices: 21051875--21051935 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21051865 TCCTTAACTC
21051875 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
21051905 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
21051935 A
1 A
21051936 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:21054476 original size:13 final size:13
Alignment explanation
Indices: 21054458--21054482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21054448 CCGAAACTAG
21054458 AAAGAAAAAAAAC
1 AAAGAAAAAAAAC
21054471 AAAGAAAAAAAA
1 AAAGAAAAAAAA
21054483 ATGCTCATCC
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:0.88, C:0.04, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAC
Found at i:21055656 original size:39 final size:41
Alignment explanation
Indices: 21055561--21055744 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
21055551 TTGAATGCTG
*
21055561 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
21055600 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
21055640 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
21055679 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
21055719 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21055745 ACCGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:21055696 original size:79 final size:81
Alignment explanation
Indices: 21055561--21055744 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
21055551 TTGAATGCTG
21055561 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
21055624 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
21055639 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
21055700 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
21055719 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21055745 ACCGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:21055766 original size:79 final size:79
Alignment explanation
Indices: 21055562--21055777 Score: 196
Period size: 79 Copynumber: 2.7 Consensus size: 79
21055552 TGAATGCTGT
** **
21055562 CCGGGCTAAGTCCCGAAGGC-TTGTG-CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGCAT
1 CCGGGCTAAG-CCCGAAGGCATT-TGACCGAGTGACTAA-ATCCGGGTTAA-ATCCCGAAGGCAT
*
21055623 TTGTGCGAGATACTAATT
62 TTGTGCGAGATACTAATA
** * *
21055641 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGACCGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
21055706 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
21055720 CCGGGCTATGTCCCGAAGGCATTTGACCGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGACCGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
21055778 TACGTGATTT
Statistics
Matches: 114, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
78 15 0.13
79 72 0.63
80 27 0.24
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGACCGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:21057914 original size:66 final size:66
Alignment explanation
Indices: 21057808--21057942 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 66
21057798 ACACATGCCA
* *
21057808 GCTGGTGAGGCACGACCACCATCGGTGGATGATAATGGGCCGTATGATCAGGCCGCAGGGGACGA
1 GCTGGTGAGGCACGACCACCACCGGTGGATAATAATGGGCCGTATGATCAGGCCGCAGGGGACGA
21057873 C
66 C
* *
21057874 GCTGGTGAGGCACGACGACCACCGGTGGATAATAATGGGCCGTATGATCGGGCCGCAGGGGACGA
1 GCTGGTGAGGCACGACCACCACCGGTGGATAATAATGGGCCGTATGATCAGGCCGCAGGGGACGA
21057939 C
66 C
21057940 GCT
1 GCT
21057943 CTGTCCCAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.22, C:0.24, G:0.39, T:0.15
Consensus pattern (66 bp):
GCTGGTGAGGCACGACCACCACCGGTGGATAATAATGGGCCGTATGATCAGGCCGCAGGGGACGA
C
Found at i:21062576 original size:40 final size:40
Alignment explanation
Indices: 21062492--21062709 Score: 212
Period size: 40 Copynumber: 5.5 Consensus size: 40
21062482 TGGATGATAA
* * *
21062492 CCGGGATAAGTCCCGACGGCATTT-TGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTG--AGTTACTA-TAT
* * * *
21062533 CCGGGCTAAGTCCCTAAGGTATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
* *
21062573 CCGGGCTAAATCCCGAAAGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
* * *
21062613 CCGGGCTAAGTCCCGAAGGCAATGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
* * *
21062653 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTA-CTATAT
* *
21062692 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21062710 TACTTGGCTT
Statistics
Matches: 150, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 96 0.64
41 20 0.13
42 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
Found at i:21070591 original size:40 final size:40
Alignment explanation
Indices: 21070536--21070792 Score: 387
Period size: 40 Copynumber: 6.5 Consensus size: 40
21070526 TGGATGATAA
* * *
21070536 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
21070576 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21070616 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21070656 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21070696 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21070736 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21070775 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21070793 TACTTGGCTT
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
38 15 0.07
39 16 0.08
40 174 0.85
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21081056 original size:20 final size:20
Alignment explanation
Indices: 21081031--21081070 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21081021 GTTGGTATAA
21081031 ATTATGTGTTCTTAAACTAT
1 ATTATGTGTTCTTAAACTAT
21081051 ATTATGTGTTCTTAAACTAT
1 ATTATGTGTTCTTAAACTAT
21081071 TAGCCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
ATTATGTGTTCTTAAACTAT
Found at i:21081591 original size:23 final size:23
Alignment explanation
Indices: 21081543--21081640 Score: 92
Period size: 23 Copynumber: 4.1 Consensus size: 23
21081533 AATCACTTTA
* *
21081543 ATATTAAATTTAATCT--AATATG
1 ATATT-AATTTAATATAAAATATT
21081565 ATATTAATTTAATATAAAATATT
1 ATATTAATTTAATATAAAATATT
21081588 ATATTAATTTAATCACTTGATAAATATT
1 ATATTAATTTAAT-A--T-A-AAATATT
* *
21081616 ATATTAATTTAATATTAAATCTT
1 ATATTAATTTAATATAAAATATT
21081639 AT
1 AT
21081641 TAAGTTAATA
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
21 9 0.14
22 5 0.08
23 26 0.40
24 1 0.02
25 1 0.02
26 1 0.02
27 2 0.03
28 20 0.31
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
ATATTAATTTAATATAAAATATT
Found at i:21081599 original size:28 final size:29
Alignment explanation
Indices: 21081568--21081633 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
21081558 TAATATGATA
21081568 TTAATTTAA-T-ATAAAATATTATATTAAT
1 TTAATTTAATTGAT-AAATATTATATTAAT
* *
21081596 TTAA-TCACTTGATAAATATTATATTAAT
1 TTAATTTAATTGATAAATATTATATTAAT
21081624 TTAATATTAA
1 TTAAT-TTAA
21081634 ATCTTATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
27 2 0.07
28 24 0.80
29 2 0.07
30 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
TTAATTTAATTGATAAATATTATATTAAT
Found at i:21083207 original size:15 final size:15
Alignment explanation
Indices: 21083187--21083218 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21083177 TGTGCATGCA
21083187 AAATATAAAAGACAT
1 AAATATAAAAGACAT
21083202 AAATATAAAAGACAT
1 AAATATAAAAGACAT
21083217 AA
1 AA
21083219 TAGTGAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATATAAAAGACAT
Found at i:21088887 original size:6 final size:6
Alignment explanation
Indices: 21088876--21088924 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
21088866 TCTGTTTCTA
* * * *
21088876 GAATCT GAATCT GGATCT GAATTT GAATTT GAATCT GAATCT GTATCT
1 GAATCT GAATCT GAATCT GAATCT GAATCT GAATCT GAATCT GAATCT
21088924 G
1 G
21088925 CTTCTAACTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (6 bp):
GAATCT
Found at i:21096699 original size:16 final size:16
Alignment explanation
Indices: 21096678--21096711 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
21096668 CAATGCTTTC
21096678 TTTACATAGGGAGAGT
1 TTTACATAGGGAGAGT
21096694 TTTACATAGGGAGAGT
1 TTTACATAGGGAGAGT
21096710 TT
1 TT
21096712 AGAGAGTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (16 bp):
TTTACATAGGGAGAGT
Found at i:21096930 original size:37 final size:37
Alignment explanation
Indices: 21096856--21096932 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
21096846 GATAATCACT
*
21096856 TTAATATTAAATTAATAAAATACTATTAAGATAAATA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAATA
*
21096893 TTAA-ATTAAATTTAATATTAA-ACTATTAAAA-ATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATA-AATA
21096930 TTA
1 TTA
21096933 TTTTTAGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 7 0.20
37 26 0.74
38 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAATA
Found at i:21097286 original size:19 final size:19
Alignment explanation
Indices: 21097242--21097278 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21097232 GGCTCCCAGG
*
21097242 CCCAATTTACAATCTTAGA
1 CCCAATTTACAATATTAGA
*
21097261 CCCAATTTACGATATTAG
1 CCCAATTTACAATATTAG
21097279 GTCCAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.24, G:0.08, T:0.32
Consensus pattern (19 bp):
CCCAATTTACAATATTAGA
Found at i:21107082 original size:30 final size:30
Alignment explanation
Indices: 21107048--21107105 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21107038 CCGAGCCTAT
21107048 GGGAAAAAGTGTAAATATGAAAAAGTTTAG
1 GGGAAAAAGTGTAAATATGAAAAAGTTTAG
* * * *
21107078 GGGAAAAATTGTAATTTTGCAAAAGTTT
1 GGGAAAAAGTGTAAATATGAAAAAGTTT
21107106 GAGTTAAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGAAAAAGTGTAAATATGAAAAAGTTTAG
Found at i:21107956 original size:67 final size:67
Alignment explanation
Indices: 21107872--21108059 Score: 324
Period size: 67 Copynumber: 2.8 Consensus size: 67
21107862 TACTATGTGT
21107872 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
21107937 GG
66 GG
21107939 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
21108004 GG
66 GG
* ** * *
21108006 ACACCATGTAGACAAGAGAGCTACGAGATA-AACTAGCTAGGTCACATGGGTGGT
1 ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGT
21108060 ACTAAGTGTT
Statistics
Matches: 116, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
66 20 0.17
67 96 0.83
ACGTcount: A:0.31, C:0.18, G:0.30, T:0.20
Consensus pattern (67 bp):
ACACCATGTAGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAA
GG
Found at i:21111563 original size:27 final size:27
Alignment explanation
Indices: 21111546--21111623 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
21111536 AAATTTTCGA
*
21111546 AATACCCTTGTAGTGTAAAATGACCGT
1 AATACCCTTGTAGTGTAAAATGATCGT
* *
21111573 AATGCCCTTGTAGTGAAAAATGATCGT
1 AATACCCTTGTAGTGTAAAATGATCGT
*
21111600 AATACCCCTGTA-TGGTAAAATGAT
1 AATACCCTTGTAGT-GTAAAATGAT
21111624 GATTATGCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (27 bp):
AATACCCTTGTAGTGTAAAATGATCGT
Found at i:21112137 original size:15 final size:15
Alignment explanation
Indices: 21112117--21112145 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
21112107 CTTAAGCCCA
21112117 GACTGTTACTGTATG
1 GACTGTTACTGTATG
21112132 GACTGTTACTGTAT
1 GACTGTTACTGTAT
21112146 AGGGCTCTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (15 bp):
GACTGTTACTGTATG
Found at i:21117632 original size:18 final size:20
Alignment explanation
Indices: 21117596--21117633 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21117586 GAGTTCGTAG
*
21117596 TTTGGCCCATTTTCTTCGTT
1 TTTGGCCCAGTTTCTTCGTT
21117616 TTTGGCCC-GTTTC-TCGTT
1 TTTGGCCCAGTTTCTTCGTT
21117634 CCTTTTGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.03, C:0.26, G:0.18, T:0.53
Consensus pattern (20 bp):
TTTGGCCCAGTTTCTTCGTT
Found at i:21128387 original size:29 final size:29
Alignment explanation
Indices: 21128331--21128387 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
21128321 TACATAAAAA
* * *
21128331 ATATATAAAATATATAAAAGAATTAGTAT
1 ATATAGAAAATATATAAAAAAATGAGTAT
21128360 ATATAGAAAATATA-AAATAAAATGAGTA
1 ATATAGAAAATATATAAA-AAAATGAGTA
21128388 ATTGTTAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (29 bp):
ATATAGAAAATATATAAAAAAATGAGTAT
Found at i:21128598 original size:20 final size:20
Alignment explanation
Indices: 21128575--21128616 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21128565 AATAATTTAC
*
21128575 AAAATAAAT-ACATAATAAAT
1 AAAA-AAATCACATAAAAAAT
*
21128595 AAAAATATCACATAAAAAAT
1 AAAAAAATCACATAAAAAAT
21128615 AA
1 AA
21128617 TTAATAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAAATCACATAAAAAAT
Found at i:21128783 original size:17 final size:16
Alignment explanation
Indices: 21128745--21128808 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
21128735 ATAATATATA
*
21128745 AATATATATAATAAAT
1 AATATATATAAAAAAT
** *
21128761 GTTATATCATAAAATAT
1 AATATAT-ATAAAAAAT
*
21128778 AATATATGTAAGAAAAT
1 AATATATATAA-AAAAT
21128795 AATATATGATAAAA
1 AATATAT-ATAAAA
21128809 GATTTTAAAT
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
16 8 0.22
17 25 0.69
18 3 0.08
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (16 bp):
AATATATATAAAAAAT
Found at i:21128872 original size:21 final size:23
Alignment explanation
Indices: 21128836--21128887 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
21128826 TGGTATTTTT
21128836 AATAATAATAAAT-AAATTATAAA
1 AATAATAATAAATAAAATT-TAAA
21128859 AATAA-AAT-AATAAAATTTAAA
1 AATAATAATAAATAAAATTTAAA
21128880 AATAATAA
1 AATAATAA
21128888 AGAAAAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.44
22 10 0.37
23 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AATAATAATAAATAAAATTTAAA
Found at i:21131269 original size:206 final size:206
Alignment explanation
Indices: 21130604--21131382 Score: 1091
Period size: 206 Copynumber: 3.8 Consensus size: 206
21130594 TTTGATTTGC
* * * * *
21130604 TCTCTAACAATACAGAGATAACAAATCATCTTAGATTTGCTTTA-GGATAAACACGTGAAAGCCA
1 TCTCTGACAATACAGAGATGACAAATCATCCTAGATTTGCTTCATCG-TAAACACGTGAAAGCCA
* ** * * *
21130668 AATCAACTACATCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTCCT
65 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTTGCT
* * *
21130733 TCAGTC-TAATCGTTTGAAGGTCAGATCTGCTATGTATCTAAGCTCCATCAAAGTGAAGATGCTA
130 TCAG-CATAAACATCTGAAGGTCAGATCTGCTATGTATCTAAGCTCCATCAAAGTGAAGATGCTA
21130797 GACTTTGACTCGT
194 GACTTTGACTCGT
*
21130810 TCTCTGACAATACAGAGATGCCAAATCATCCTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
1 TCTCTGACAATACAGAGATGACAAATCATCCTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
* * * * *
21130875 ATCAGCTATGTCTTTGATTTGTTCCTTGTAAGTACAAGGGTACCAAACCATCTTAGAT-TTGCTT
66 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTTGCTT
* *
21130939 CGGCATAAACATCCGAAGG-CGAGATCTGCTATGTATCTAAGCTCCATCAAAGTGAAGATGCTAG
131 CAGCATAAACATCTGAAGGTC-AGATCTGCTATGTATCTAAGCTCCATCAAAGTGAAGATGCTAG
21131003 ACTTTGACTCGT
195 ACTTTGACTCGT
* *
21131015 TCTCTGACAATACAGAGATGCCAAATCATCCTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAA
1 TCTCTGACAATACAGAGATGACAAATCATCCTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
* *
21131080 ATCAGCTGTGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCTT
66 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTTGCTT
* * * *** ** * *
21131145 CAGCATAATCGTCTGAAGGTCAGATCTGCTATATATCTGCTCTCCATTGAAGTGGAGATGCCAGA
131 CAGCATAAACATCTGAAGGTCAGATCTGCTATGTATCTAAGCTCCATCAAAGTGAAGATGCTAGA
* *
21131210 CTTTGATTTGT
196 CTTTGACTCGT
**
21131221 TCTCTGACAATACAGAGATGACAAATCATTTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
1 TCTCTGACAATACAGAGATGACAAATCATCCTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
* * *
21131286 ATTAGCTATGTCTTCCATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCCTGGATC-TGCTT
66 ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTTGCTT
* *
21131350 CAGCATAAACATCTGAAGGTGAGATTTGCTATG
131 CAGCATAAACATCTGAAGGTCAGATCTGCTATG
21131383 CTGCGACTTA
Statistics
Matches: 510, Mismatches: 58, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
204 2 0.00
205 220 0.43
206 286 0.56
207 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (206 bp):
TCTCTGACAATACAGAGATGACAAATCATCCTAGATTTGCTTCATCGTAAACACGTGAAAGCCAA
ATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAATCATCTTGGATCTTGCTT
CAGCATAAACATCTGAAGGTCAGATCTGCTATGTATCTAAGCTCCATCAAAGTGAAGATGCTAGA
CTTTGACTCGT
Found at i:21131382 original size:411 final size:411
Alignment explanation
Indices: 21130604--21131382 Score: 1166
Period size: 411 Copynumber: 1.9 Consensus size: 411
21130594 TTTGATTTGC
* * *
21130604 TCTCTAACAATACAGAGATAACAAATCATCTTAGATTTGCTTTAGGATAAACACGTGAAAGCCAA
1 TCTCTAACAATACAGAGATAACAAATCATCCTAGATTTGCTTCACGATAAACACGTGAAAGCCAA
21130669 ATCAACTACATCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTCCTT
66 ATCAACTACATCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTCCTT
* * *
21130734 CAGTCTAATCGTTTGAAGGTCAGATCTGCTATGTATCTAAGCTCCATCAAAGTGAAGATGCTAGA
131 CAGTCTAATCGTCTGAAGGTCAGATCTGCTATATATCTAAGCTCCATCAAAGTGAAGATGCCAGA
*
21130799 CTTTGACTCGTTCTCTGACAATACAGAGATGCCAAATCATCCTAGATTTGCTTCATCGTAAACAC
196 CTTTGACTCGTTCTCTGACAATACAGAGATGACAAATCATCCTAGATTTGCTTCATCGTAAACAC
** * * *
21130864 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGTACAAGGGTACCAAACCATCTT
261 GTGAAAGCCAAATCAGCTATGTCTTCCATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCCT
* *
21130929 AGATTTGCTTCGGCATAAACATCCGAAGGCGAGATCTGCTATGTATCTAAGCTCCATCAAAGTGA
326 AGATCTGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTATCTAAGCTCCATCAAAGTGA
21130994 AGATGCTAGACTTTGACTCGT
391 AGATGCTAGACTTTGACTCGT
* ** *
21131015 TCTCTGACAATACAGAGATGCCAAATCATCCTAGATTTGCTTCATCG-TAAGCACGTGAAAGCCA
1 TCTCTAACAATACAGAGATAACAAATCATCCTAGATTTGCTTCA-CGATAAACACGTGAAAGCCA
* *** * *
21131079 AATCAGCTGTGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTTGCT
65 AATCAACTACATCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTCCT
*** ** *
21131144 TCAG-CATAATCGTCTGAAGGTCAGATCTGCTATATATCTGCTCTCCATTGAAGTGGAGATGCCA
130 TCAGTC-TAATCGTCTGAAGGTCAGATCTGCTATATATCTAAGCTCCATCAAAGTGAAGATGCCA
* * **
21131208 GACTTTGATTTGTTCTCTGACAATACAGAGATGACAAATCATTTTAGATTTGCTTCATCGTAAAC
194 GACTTTGACTCGTTCTCTGACAATACAGAGATGACAAATCATCCTAGATTTGCTTCATCGTAAAC
* *
21131273 ACGTGAAAGCCAAATTAGCTATGTCTTCCATTTGTTCCTTGTAAGCACAAGGATACCAAATCATC
259 ACGTGAAAGCCAAATCAGCTATGTCTTCCATTTGTTCCTTGTAAGCACAAGGATACCAAACCATC
* * * *
21131338 CTGGATCTGCTTCAGCATAAACATCTGAAGGTGAGATTTGCTATG
324 CTAGATCTGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATG
21131383 CTGCGACTTA
Statistics
Matches: 326, Mismatches: 40, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
410 1 0.00
411 324 0.99
412 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (411 bp):
TCTCTAACAATACAGAGATAACAAATCATCCTAGATTTGCTTCACGATAAACACGTGAAAGCCAA
ATCAACTACATCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAATCATCTTGGATCTTCCTT
CAGTCTAATCGTCTGAAGGTCAGATCTGCTATATATCTAAGCTCCATCAAAGTGAAGATGCCAGA
CTTTGACTCGTTCTCTGACAATACAGAGATGACAAATCATCCTAGATTTGCTTCATCGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCCATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCCT
AGATCTGCTTCAGCATAAACATCCGAAGGCGAGATCTGCTATGTATCTAAGCTCCATCAAAGTGA
AGATGCTAGACTTTGACTCGT
Found at i:21143099 original size:29 final size:29
Alignment explanation
Indices: 21143041--21143099 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
21143031 AATACATAAA
* * *
21143041 ATATATATAAAATATATAAAAGAATTAGT
1 ATATATAGAAAATATATAAAAAAATGAGT
21143070 ATATATAGAAAATATA-AAATAAAATGAGT
1 ATATATAGAAAATATATAAA-AAAATGAGT
21143099 A
1 A
21143100 ATTGTAATGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (29 bp):
ATATATAGAAAATATATAAAAAAATGAGT
Found at i:21143453 original size:19 final size:19
Alignment explanation
Indices: 21143429--21143469 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
21143419 AATATAAAAC
21143429 ATATAT-AATATGATAGATA
1 ATATATAAATAT-ATAGATA
*
21143448 ATATATAAATATATATATA
1 ATATATAAATATATAGATA
21143467 ATA
1 ATA
21143470 AATGTTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATATATAAATATATAGATA
Found at i:21143465 original size:14 final size:15
Alignment explanation
Indices: 21143429--21143495 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
21143419 AATATAAAAC
* *
21143429 ATATATAATATGATAG
1 ATATATAATA-AATAT
21143445 ATA-ATATATAAATAT
1 ATATATA-ATAAATAT
*
21143460 ATATATAATAAATGT
1 ATATATAATAAATAT
21143475 -TATATAATAAA-AT
1 ATATATAATAAATAT
21143488 ATAATATA
1 AT-ATATA
21143496 TGTAGGAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
13 1 0.02
14 12 0.28
15 21 0.49
16 9 0.21
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (15 bp):
ATATATAATAAATAT
Found at i:21143522 original size:17 final size:17
Alignment explanation
Indices: 21143454--21143523 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
21143444 GATAATATAT
*
21143454 AAAT-ATATAT-ATAAT
1 AAATAATATATGATAAA
** *
21143469 AAATGTTATATAATAAA
1 AAATAATATATGATAAA
* *
21143486 ATATAATATATG-TAGGA
1 AAATAATATATGATA-AA
21143503 AAATAATATATGATAAA
1 AAATAATATATGATAAA
21143520 AAAT
1 AAAT
21143524 TTTAAATGTA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
15 4 0.10
16 7 0.17
17 29 0.69
18 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (17 bp):
AAATAATATATGATAAA
Found at i:21143584 original size:21 final size:23
Alignment explanation
Indices: 21143548--21143599 Score: 74
Period size: 21 Copynumber: 2.3 Consensus size: 23
21143538 TGGTATTTTT
21143548 AATAATAATAAAT-AAATTATAAA
1 AATAATAATAAATAAAATT-TAAA
21143571 AATAA-AAT-AATAAAATTTAAA
1 AATAATAATAAATAAAATTTAAA
21143592 AATAATAA
1 AATAATAA
21143600 AGAAATGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.44
22 10 0.37
23 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (23 bp):
AATAATAATAAATAAAATTTAAA
Found at i:21148282 original size:30 final size:30
Alignment explanation
Indices: 21148236--21148293 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21148226 TTGGGCATTT
* * *
21148236 TCACACGGGCTAGCCACACTCCCGTGTGAG
1 TCACACAGGCTAGCCACACGCCCATGTGAG
*
21148266 TCACACAGGCTGGCCACACGCCCATGTG
1 TCACACAGGCTAGCCACACGCCCATGTG
21148294 CCAGCTCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.38, G:0.26, T:0.16
Consensus pattern (30 bp):
TCACACAGGCTAGCCACACGCCCATGTGAG
Found at i:21156456 original size:40 final size:40
Alignment explanation
Indices: 21156373--21156592 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
21156363 ACCCAAGTAT
** * *
21156373 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
21156411 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
21156451 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
21156491 CTTCAGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
21156531 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
21156571 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
21156593 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.11
40 123 0.81
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:21160171 original size:21 final size:21
Alignment explanation
Indices: 21160127--21160171 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
21160117 TCATCAAGCC
* * **
21160127 ATCATCTTTACACTTTTACCT
1 ATCATCATTACACTTTAAAAT
21160148 ATCATCATTACACTTTAAAAT
1 ATCATCATTACACTTTAAAAT
21160169 ATC
1 ATC
21160172 TACTTGGCTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (21 bp):
ATCATCATTACACTTTAAAAT
Found at i:21167121 original size:40 final size:40
Alignment explanation
Indices: 21167051--21167268 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
21167041 AAGCCAAGTA
* * * *
21167051 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
21167090 CCTTCGGGACATAGCCTGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
21167130 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21167170 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21167210 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21167250 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21167269 TTATCATCCA
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 149 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21175124 original size:28 final size:27
Alignment explanation
Indices: 21175067--21175218 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
21175057 TAAATTGTGC
*
21175067 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
21175094 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
21175122 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
* *
21175149 AACACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
21175177 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
21175204 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21175219 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:21175131 original size:55 final size:55
Alignment explanation
Indices: 21175067--21175218 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
21175057 TAAATTGTGC
*
21175067 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
21175122 AGCACTAAGTGTGCGAGTTGACTATGTAACACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
21175177 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
21175219 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:21177939 original size:40 final size:40
Alignment explanation
Indices: 21177877--21178814 Score: 1756
Period size: 40 Copynumber: 23.5 Consensus size: 40
21177867 AAGCCAAGTA
* * * *
21177877 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
21177916 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21177956 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21177996 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178036 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178076 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178116 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178156 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178196 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178236 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178276 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178316 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178356 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178396 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178436 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178476 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178516 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178556 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178596 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178636 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178676 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
21178716 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
21178756 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
21178796 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
21178815 TTATCATCCA
Statistics
Matches: 886, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
39 13 0.01
40 873 0.99
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:21180092 original size:6 final size:6
Alignment explanation
Indices: 21180073--21180110 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
21180063 CATGAGAGCC
* *
21180073 TTTCTT TTTTTT TTTCTT TTTCTT TCTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
21180111 TTCATCATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:21180104 original size:11 final size:10
Alignment explanation
Indices: 21180073--21180112 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
21180063 CATGAGAGCC
21180073 TTTCTTT-TT
1 TTTCTTTCTT
21180082 TTT-TTTCTT
1 TTTCTTTCTT
21180091 TTTCTTTCTCT
1 TTTCTTTCT-T
21180102 TTTCTTT-TT
1 TTTCTTTCTT
21180111 TT
1 TT
21180113 CATCATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 3 0.11
9 11 0.39
10 6 0.21
11 8 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:21186783 original size:40 final size:40
Alignment explanation
Indices: 21186760--21187102 Score: 521
Period size: 40 Copynumber: 8.6 Consensus size: 40
21186750 TACTCGCTCG
* * * * * *
21186760 AATGCCTGCGGGACATAGCCCGGATA-TAGTAACTTGCACC
1 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
* * *
21186800 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
* * **
21186840 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGTACA
1 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
21186880 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
21186920 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
21186960 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
21187000 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
21187040 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
1 AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
21187080 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
21187103 TTATCATCCA
Statistics
Matches: 293, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 1 0.00
40 292 1.00
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGAACTAGTCACTAGCGCA
Found at i:21188380 original size:6 final size:6
Alignment explanation
Indices: 21188361--21188398 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
21188351 CATGAGAGCC
* *
21188361 TTTCTT TTTTTT TTTCTT TTTCTT TCTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
21188399 TTCATCATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:21188392 original size:11 final size:10
Alignment explanation
Indices: 21188361--21188400 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
21188351 CATGAGAGCC
21188361 TTTCTTT-TT
1 TTTCTTTCTT
21188370 TTT-TTTCTT
1 TTTCTTTCTT
21188379 TTTCTTTCTCT
1 TTTCTTTCT-T
21188390 TTTCTTT-TT
1 TTTCTTTCTT
21188399 TT
1 TT
21188401 CATCATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 3 0.11
9 11 0.39
10 6 0.21
11 8 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:21196392 original size:31 final size:32
Alignment explanation
Indices: 21196335--21196396 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
21196325 ACGAAGTCAC
* *
21196335 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCAAAGCCACCAGAA
*
21196367 CAGATATATATA-TGTGGCAAAGCCACCAGA
1 CAGATATAGATATTGTGGCAAAGCCACCAGA
21196397 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCAAAGCCACCAGAA
Found at i:21196419 original size:71 final size:67
Alignment explanation
Indices: 21196342--21196482 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
21196332 CACCAGATAT
* * *
21196342 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCAAAGCCACCAGATTGCAGCGAG
1 AGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCAAAGCCACCAGATTGCAGCGAG
21196407 GCTGCC
62 GCTGCC
* * *
21196413 AGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCAAGGCCACCAGATTGCAGTGAGGCTG
1 AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATTGCAGCGAGGCTG
21196478 CC
66 CC
21196480 AGA
1 AGA
21196483 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 24 0.38
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (67 bp):
AGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCAAAGCCACCAGATTGCAGCGAGGCTG
CC
Found at i:21204188 original size:16 final size:16
Alignment explanation
Indices: 21204159--21204203 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
21204149 TAGAATAAAT
*
21204159 ATTAA-TTTTAAATTA
1 ATTAATTTTTCAATTA
21204174 ATTAATTTTTCAATTA
1 ATTAATTTTTCAATTA
*
21204190 AATAATTTTCTCAA
1 ATTAATTTT-TCAA
21204204 CCTAATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 5 0.19
16 17 0.65
17 4 0.15
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTAATTTTTCAATTA
Found at i:21204631 original size:30 final size:30
Alignment explanation
Indices: 21204584--21204643 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21204574 TTCCCGAGCC
*
21204584 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
21204614 TAGGGGAAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
21204644 CGTATTAAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:21205116 original size:47 final size:47
Alignment explanation
Indices: 21205065--21205241 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 47
21205055 TGGTTGAACA
*
21205065 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
21205112 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
* *
21205159 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
21205205 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21205242 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 36 0.33
47 58 0.53
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:21216290 original size:27 final size:27
Alignment explanation
Indices: 21216260--21216437 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
21216250 ATATTGAGCC
* *
21216260 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
21216287 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21216314 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
21216342 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21216369 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
21216396 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
21216423 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21216438 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21216399 original size:82 final size:81
Alignment explanation
Indices: 21216281--21216436 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
21216271 TGCTATATAA
* *
21216281 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21216346 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
21216363 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21216427 CACTTAGTGC
65 CACTTAGTGC
21216437 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21224408 original size:27 final size:27
Alignment explanation
Indices: 21224378--21224554 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
21224368 ATATTGAGCC
* *
21224378 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
21224405 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21224432 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** *
21224460 CGCACACTTAGTGC-GCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21224486 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
21224513 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
21224540 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21224555 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 17 0.13
27 93 0.72
28 19 0.15
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21224497 original size:81 final size:80
Alignment explanation
Indices: 21224399--21224553 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 80
21224389 TGCTATATAA
* *
21224399 TCAACTCGCACACTTAGTGC-TACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTGCAT-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
21224463 ACACTTAGTGCGCATGG
64 ACACTTAGTGCGCATGG
* * ** *
21224480 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
21224545 ACTTAGTGC
66 ACTTAGTGC
21224554 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
80 15 0.23
81 50 0.76
82 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCGCATGG
Found at i:21232474 original size:27 final size:27
Alignment explanation
Indices: 21232444--21232621 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
21232434 ATATCGAGTC
* * * *
21232444 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
21232471 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21232498 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
21232526 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
21232553 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
21232580 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
21232607 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21232622 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:21232583 original size:82 final size:81
Alignment explanation
Indices: 21232465--21232620 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
21232455 TGCTATATAA
*
21232465 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
21232530 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
21232547 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21232611 CACTTAGTGC
65 CACTTAGTGC
21232621 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:21240002 original size:6 final size:6
Alignment explanation
Indices: 21239984--21240086 Score: 68
Period size: 6 Copynumber: 16.8 Consensus size: 6
21239974 AAAAAACATT
* * *
21239984 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACACA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
21240033 ATCAGA ATCAGA ATCAGT ACCAGGTA A-CAGA ATCAAA ATAAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
21240082 ATCAG
1 ATCAG
21240087 GTAACAGAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
5 4 0.05
6 64 0.85
7 5 0.07
8 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:21240035 original size:37 final size:37
Alignment explanation
Indices: 21239993--21240086 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
21239983 TATCAGAACT
** *
21239993 AGAATCAGAATCAGAATCAGAATTAGGTGACACAATC
1 AGAATCAGAATCAGAATCAGAACCAGGTAACACAATC
* *
21240030 AGAATCAGAATCAGAATCAGTACCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAACCAGGTAACACAATC
* * *
21240067 AAAATAAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAG
21240087 GTAACAGAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAACCAGGTAACACAATC
Found at i:21240064 original size:31 final size:31
Alignment explanation
Indices: 21240029--21240101 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
21240019 GTGACACAAT
* *
21240029 CAGAATCAGAATCAGAATCAGTACCAGGTAA
1 CAGAATCAAAATAAGAATCAGTACCAGGTAA
*
21240060 CAGAATCAAAATAAGAATCAGTATCAGGTAA
1 CAGAATCAAAATAAGAATCAGTACCAGGTAA
*
21240091 CAGAATAAAAA
1 CAGAATCAAAA
21240102 ATCAGAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.16
Consensus pattern (31 bp):
CAGAATCAAAATAAGAATCAGTACCAGGTAA
Found at i:21240288 original size:27 final size:26
Alignment explanation
Indices: 21240246--21240347 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
21240236 ACTCAGTTAT
* *
21240246 CAGATATTGTGACAGAGCCACAAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
21240272 CAGATATTTGTGGCAGAGCCACCAGAA
1 CAGATA-TTGTGGCAGAGCCACCAGAA
*
21240299 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
21240327 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
21240348 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
26 6 0.09
27 55 0.80
28 8 0.12
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:21240534 original size:22 final size:22
Alignment explanation
Indices: 21240506--21240570 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
21240496 GCAAATACGT
* *
21240506 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
21240528 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
21240550 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
21240571 AAGGTTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:21241044 original size:27 final size:27
Alignment explanation
Indices: 21241014--21241211 Score: 261
Period size: 27 Copynumber: 7.3 Consensus size: 27
21241004 TACCCCACAA
* * *
21241014 GGTATCTCGGTAATTCCACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
21241041 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * **
21241068 GGCATTGCAATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
21241095 GGTATTTCGATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
21241122 GGTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
21241149 GGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
21241176 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
21241203 GGTATTTCG
1 GGTATTTCG
21241212 ATATTTTACA
Statistics
Matches: 150, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:21241210 original size:81 final size:81
Alignment explanation
Indices: 21241021--21241214 Score: 291
Period size: 81 Copynumber: 2.4 Consensus size: 81
21241011 CAAGGTATCT
* *
21241021 CGGTAATTCCACCCTATAGGGGTATTT-TAGTAATTCTACCCTACAGGGGCATTGCAATAATTCT
1 CGGTAATTCTACCCTATAGGGGTATTTCGA-TAATTCTACCCTACAGGGGCATTGCAATAATTCT
*
21241085 ACCCTACAGGGGTATTT
65 ACCCTACAGGGGTATTC
* * * *
21241102 CGATAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGTAATTCTA
1 CGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGCATTGCAATAATTCTA
*
21241167 CCCTATAGGGGTATTC
66 CCCTACAGGGGTATTC
*
21241183 CGGTAATTCTACCCTACAGGGGTATTTCGATA
1 CGGTAATTCTACCCTATAGGGGTATTTCGATA
21241215 TTTTACAAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 101 0.99
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (81 bp):
CGGTAATTCTACCCTATAGGGGTATTTCGATAATTCTACCCTACAGGGGCATTGCAATAATTCTA
CCCTACAGGGGTATTC
Found at i:21241251 original size:27 final size:26
Alignment explanation
Indices: 21241214--21241380 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 26
21241204 GTATTTCGAT
* *
21241214 ATTTTACAAATCGAGAGTATTTTGATA
1 ATTTTACAAATC-AGGGTATTTTGGTA
*
21241241 ATTTCACAAATCAGGGGTATTTTGGTA
1 ATTTTACAAATCA-GGGTATTTTGGTA
*
21241268 ATTTTACAAGTCAGGGGTATTTTGGTA
1 ATTTTACAAATCA-GGGTATTTTGGTA
* *
21241295 ATTTTACAAACCAGAGGTATTTTAGTA
1 ATTTTACAAATCAG-GGTATTTTGGTA
*
21241322 ATTTTACAAACCAGGGCTATTTTGGTA
1 ATTTTACAAATCAGGG-TATTTTGGTA
**
21241349 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAATC-AGGGTATTTTGGTA
21241376 ATTTT
1 ATTTT
21241381 GTAAACTAAG
Statistics
Matches: 124, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
26 4 0.03
27 116 0.94
28 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (26 bp):
ATTTTACAAATCAGGGTATTTTGGTA
Found at i:21241331 original size:81 final size:81
Alignment explanation
Indices: 21241199--21241380 Score: 230
Period size: 81 Copynumber: 2.3 Consensus size: 81
21241189 TTCTACCCTA
* * * * *
21241199 CAGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTTGATAATTTCACAAATCAGGGGTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACCGAGAGTATTTTGATAATTTCACAAACCAGGGCTATTT
21241263 TGGTAATTTTACA-AGT
66 TGGTAATTTTACAGA-T
*
21241279 CAGGGGTATTTTGGTAATTTTACAAACC-AGAGGTATTTT-AGTAATTTTACAAACCAGGGCTAT
1 CAGGGGTATTTTGGTAATTTTACAAACCGAGA-GTATTTTGA-TAATTTCACAAACCAGGGCTAT
*
21241342 TTTGGTAATTTTACTGAT
64 TTTGGTAATTTTACAGAT
21241360 C-GAGGGTATTTTGGTAATTTT
1 CAG-GGGTATTTTGGTAATTTT
21241381 GTAAACTAAG
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
80 18 0.20
81 71 0.79
82 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACCGAGAGTATTTTGATAATTTCACAAACCAGGGCTATTT
TGGTAATTTTACAGAT
Found at i:21241392 original size:27 final size:26
Alignment explanation
Indices: 21241230--21241397 Score: 138
Period size: 27 Copynumber: 6.2 Consensus size: 26
21241220 CAAATCGAGA
* * * *
21241230 GTATTTTGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTATAAA-CAAGG
* * *
21241257 GTATTTTGGTAATTTTACAAGTCAGGG
1 GTATTTTGGTAATTTTATAA-ACAAGG
* *
21241284 GTATTTTGGTAATTTTACAAACCAGAG
1 GTATTTTGGTAATTTTATAAACAAG-G
* * *
21241311 GTATTTTAGTAATTTTACAAACCAGG
1 GTATTTTGGTAATTTTATAAACAAGG
* * *
21241337 GCTATTTTGGTAATTTTACTGATCGAGG
1 G-TATTTTGGTAATTTTA-TAAACAAGG
*
21241365 GTATTTTGGTAATTTTGTAAACTAAGG
1 GTATTTTGGTAATTTTATAAAC-AAGG
21241392 GTATTT
1 GTATTT
21241398 CAATAATTTT
Statistics
Matches: 120, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
26 7 0.06
27 107 0.89
28 6 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (26 bp):
GTATTTTGGTAATTTTATAAACAAGG
Found at i:21241395 original size:81 final size:81
Alignment explanation
Indices: 21241199--21241407 Score: 223
Period size: 81 Copynumber: 2.6 Consensus size: 81
21241189 TTCTACCCTA
* * * * * *
21241199 CAGGGGTATTTCGAT-ATTTTACAAATCGAGA-GTATTTT-GATAATTTCACAAATCAGGGGTAT
1 CAGGGGTATTTTGGTAATTTTACAAA-CAAGAGGTATTTTAG-TAATTTTACAAACCAGGGCTAT
21241261 TTTGGTAATTTTACAAGT
64 TTTGGTAATTTTACAAGT
*
21241279 CAGGGGTATTTTGGTAATTTTACAAACCAGAGGTATTTTAGTAATTTTACAAACCAGGGCTATTT
1 CAGGGGTATTTTGGTAATTTTACAAACAAGAGGTATTTTAGTAATTTTACAAACCAGGGCTATTT
*
21241344 TGGTAATTTTAC-TGAT
66 TGGTAATTTTACAAG-T
** * *
21241360 C-GAGGGTATTTTGGTAATTTTGTAAACTAAG-GGTATTTCAATAATTTT
1 CAG-GGGTATTTTGGTAATTTTACAAAC-AAGAGGTATTTTAGTAATTTT
21241408 GTAAATCGAG
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
80 19 0.17
81 89 0.80
82 3 0.03
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
CAGGGGTATTTTGGTAATTTTACAAACAAGAGGTATTTTAGTAATTTTACAAACCAGGGCTATTT
TGGTAATTTTACAAGT
Found at i:21241431 original size:27 final size:27
Alignment explanation
Indices: 21241401--21241607 Score: 281
Period size: 27 Copynumber: 7.7 Consensus size: 27
21241391 GGTATTTCAA
*
21241401 TAATTTTGTAAATCGAGGATAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* **
21241428 TAATTCTGTAAATCGAGGGTAAAATAG
1 TAATTTTGTAAATCGAGGGTAAAACGG
*
21241455 TAATTTTATAAATCGAGGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
21241482 TAATTTTGAAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
21241509 TAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
21241536 TAATTTTATAAATCGAGGGTAAAACGA
1 TAATTTTGTAAATCGAGGGTAAAACGG
*
21241563 TAATTTTGTAAATCGAGGGTGAAAC-G
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
21241589 TAATTCTATAAATCGAGGG
1 TAATTTTGTAAATCGAGGG
21241608 CATTTCAGTA
Statistics
Matches: 158, Mismatches: 22, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 17 0.11
27 141 0.89
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAACGG
Found at i:21241443 original size:81 final size:81
Alignment explanation
Indices: 21241400--21241607 Score: 328
Period size: 81 Copynumber: 2.6 Consensus size: 81
21241390 GGGTATTTCA
*
21241400 ATAATTTTGTAAATCGAGGATAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
1 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
*
21241465 AATCGAGGGTAAAACG
66 AATCAAGGGTAAAACG
* * * *
21241481 GTAATTTTGAAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTATA
1 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
*
21241546 AATCGAGGGTAAAACG
66 AATCAAGGGTAAAACG
* *
21241562 ATAATTTTGTAAATCGAGGGTGAAAC-GTAATTCTATAAATCGAGGG
1 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
21241608 CATTTCAGTA
Statistics
Matches: 117, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 19 0.16
81 98 0.84
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (81 bp):
ATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTATA
AATCAAGGGTAAAACG
Found at i:21243214 original size:25 final size:25
Alignment explanation
Indices: 21243142--21243248 Score: 80
Period size: 25 Copynumber: 4.3 Consensus size: 25
21243132 ACCACAACTA
21243142 GTATGAGCTTACCGATTT-TAGCTC
1 GTATGAGCTTACCGATTTCTAGCTC
* * *
21243166 ATAAGAGCTTACTGA-TTCTCAGCTC
1 GTATGAGCTTACCGATTTCT-AGCTC
* *
21243191 GTATTAGCTTACCAATTTCTAGCTC
1 GTATGAGCTTACCGATTTCTAGCTC
* *
21243216 ATCA-GAGCATT-TCGA-TTCATAGCTC
1 GT-ATGAGC-TTACCGATTTC-TAGCTC
21243241 GTATGAGC
1 GTATGAGC
21243249 ATACATGTAC
Statistics
Matches: 63, Mismatches: 13, Indels: 13
0.71 0.15 0.15
Matches are distributed among these distances:
23 2 0.03
24 17 0.27
25 37 0.59
26 7 0.11
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (25 bp):
GTATGAGCTTACCGATTTCTAGCTC
Found at i:21243223 original size:50 final size:49
Alignment explanation
Indices: 21243142--21243248 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 49
21243132 ACCACAACTA
*
21243142 GTATGAGCTTACCGATTTTAGCTCATAAGAGC-TTACTGATTC-TCAGCTC
1 GTATGAGCTTACCAATTTTAGCTCATAAGAGCATTAC-GATTCAT-AGCTC
* * *
21243191 GTATTAGCTTACCAATTTCTAGCTCATCAGAGCATTTCGATTCATAGCTC
1 GTATGAGCTTACCAATTT-TAGCTCATAAGAGCATTACGATTCATAGCTC
21243241 GTATGAGC
1 GTATGAGC
21243249 ATACATGTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
49 16 0.32
50 30 0.60
51 4 0.08
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (49 bp):
GTATGAGCTTACCAATTTTAGCTCATAAGAGCATTACGATTCATAGCTC
Found at i:21246956 original size:17 final size:18
Alignment explanation
Indices: 21246934--21246967 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21246924 TACATTGAAG
21246934 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
21246951 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
21246968 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:21248174 original size:29 final size:29
Alignment explanation
Indices: 21248134--21248239 Score: 119
Period size: 28 Copynumber: 3.8 Consensus size: 29
21248124 TTTGGCCCCT
* *
21248134 TTAGG-CCTAATCTCATTCATATGGCCAA
1 TTAGGCCCCAATCACATTCATATGGCCAA
* * *
21248162 TTAGGCCCAAATCACTTTCATATGACCAA
1 TTAGGCCCCAATCACATTCATATGGCCAA
* *
21248191 TT-GGCCCCAATCACATTCATATAGCCCA
1 TTAGGCCCCAATCACATTCATATGGCCAA
*
21248219 TCA-GCCCCAATCACATTCATA
1 TTAGGCCCCAATCACATTCATA
21248240 GTCATGCAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
28 45 0.68
29 21 0.32
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.27
Consensus pattern (29 bp):
TTAGGCCCCAATCACATTCATATGGCCAA
Found at i:21252423 original size:100 final size:100
Alignment explanation
Indices: 21252250--21252450 Score: 393
Period size: 100 Copynumber: 2.0 Consensus size: 100
21252240 ATTTTTATTA
*
21252250 AAAGAAAAGGGTGATAAAAACAAAGTTGGCTCATCTTTTCTTCTTCCATTGCCGTACTTAAAGAA
1 AAAGAAAAGGGTGATAAAAACAAAGTTGGCTCATCTTTTCTTCTTCCATTGCCGTACCTAAAGAA
21252315 AGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTC
66 AGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTC
21252350 AAAGAAAAGGGTGATAAAAACAAAGTTGGCTCATCTTTTCTTCTTCCATTGCCGTACCTAAAGAA
1 AAAGAAAAGGGTGATAAAAACAAAGTTGGCTCATCTTTTCTTCTTCCATTGCCGTACCTAAAGAA
21252415 AGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTC
66 AGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTC
21252450 A
1 A
21252451 CCTTTAAGTT
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (100 bp):
AAAGAAAAGGGTGATAAAAACAAAGTTGGCTCATCTTTTCTTCTTCCATTGCCGTACCTAAAGAA
AGAAAAAGAAGAAATTGAAGTTAAGGCATTTGGTC
Found at i:21255091 original size:43 final size:44
Alignment explanation
Indices: 21255028--21255113 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 44
21255018 ACCAAAATAT
*
21255028 GATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAAC
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
* *
21255072 GATA-TCGGGCTTTGAGCCTAGTAGGCTATAATGCCGGTGAAA
1 GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAA
21255114 TGAAATGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (44 bp):
GATATTCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAC
Found at i:21255453 original size:38 final size:38
Alignment explanation
Indices: 21255408--21255625 Score: 312
Period size: 38 Copynumber: 5.7 Consensus size: 38
21255398 GGCTTAAAGA
21255408 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
* * *
21255446 CTCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
* * *
21255484 CCCGCAGGCTTCGTGCTGGTAATATATCCGTGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
21255522 CCCGCAGGCTTCGTGCTGGTATTATA-TCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTC-GGGTTAAAT
* **
21255560 CCCACAGGCTTCGTGCTAATATTATATTCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
* * *
21255598 CCCGCAGGCCTAGTACTGGTATTATATT
1 CCCGCAGGCTTCGTGCTGGTATTATATT
21255626 TAGGCCTTAA
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
37 1 0.01
38 158 0.98
39 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATTCGGGTTAAAT
Found at i:21255692 original size:45 final size:43
Alignment explanation
Indices: 21255635--21255751 Score: 114
Period size: 45 Copynumber: 2.7 Consensus size: 43
21255625 TTAGGCCTTA
* * * * *
21255635 AGCCTAGAAGGCTATTATGCCGGTGAGAT-ACTATTCGGGCCTTTG
1 AGCCTAGCAGGCTATAATGCCGGTGACATGAC-A-TCGAGCC-TCG
*
21255680 AGCCTAGCAGGCTCTAATGCCGGTGACATGACATCGAGCCTCG
1 AGCCTAGCAGGCTATAATGCCGGTGACATGACATCGAGCCTCG
* *
21255723 AGCCTAGCAGGCGA-AATGCTGGTGA-ATGA
1 AGCCTAGCAGGCTATAATGCCGGTGACATGA
21255752 ATAAAAGTCT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
41 4 0.06
42 10 0.16
43 14 0.23
44 6 0.10
45 26 0.42
46 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (43 bp):
AGCCTAGCAGGCTATAATGCCGGTGACATGACATCGAGCCTCG
Found at i:21258007 original size:46 final size:46
Alignment explanation
Indices: 21257937--21258156 Score: 243
Period size: 46 Copynumber: 4.7 Consensus size: 46
21257927 TGTAACCCGC
* *
21257937 CCATAAGTGAACTTGGACTAAACTCAACGAGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
*
21257983 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGCTCGGGCATTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGA----GCTCGGGCATTCACAT
*
21258033 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G--GGC-A-TTCACAT
* * * *
21258083 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
21258126 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
21258157 TTGGGATGCC
Statistics
Matches: 149, Mismatches: 10, Indels: 30
0.79 0.05 0.16
Matches are distributed among these distances:
42 3 0.02
43 6 0.04
44 2 0.01
46 55 0.37
47 26 0.17
49 2 0.01
50 52 0.35
51 3 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCACAT
Found at i:21258181 original size:46 final size:46
Alignment explanation
Indices: 21258029--21258181 Score: 116
Period size: 46 Copynumber: 3.3 Consensus size: 46
21258019 TCGGGCATTC
* ** *
21258029 ACATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTT
1 ACATCC-T-AGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCCA--T
* * * *
21258079 ACATCTCT--CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 ACATC-CTAGTGAACTCGGACTCAACTCAACGAGTT-GG-GATGCCCAT
* * *
21258126 CCAT--AAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCCAA
1 ACATCCTAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCCAT
21258170 ACATCCTAGTGA
1 ACATCCTAGTGA
21258182 CATGTCACTT
Statistics
Matches: 79, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 30 0.38
47 28 0.35
49 4 0.05
50 6 0.08
51 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
ACATCCTAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCCAT
Found at i:21261674 original size:43 final size:43
Alignment explanation
Indices: 21261616--21261697 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
21261606 AATATTATAT
* *
21261616 TCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAAATAGTA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAGTA
*
21261659 TCGGGCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAAT
1 TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAAT
21261698 GAAATGTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.26
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATAGTA
Found at i:21262041 original size:38 final size:38
Alignment explanation
Indices: 21261999--21262131 Score: 212
Period size: 38 Copynumber: 3.5 Consensus size: 38
21261989 GACCTACAGA
*
21261999 CTTCGTGCTGGTATTATATCTGGGTTAAATCCCGCAGG
1 CTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGG
*
21262037 CTTCGTGCTGGTAATATATCCGGGTTAAATCCCGCAGG
1 CTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGG
*
21262075 CTTCGTGCTGGTATTATATCCGGGTTAAATTCCGCAGG
1 CTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGG
* * *
21262113 CCTAGTACTGGTATTATAT
1 CTTCGTGCTGGTATTATAT
21262132 TCAGGCCTTG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 88 1.00
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
CTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGG
Found at i:21262183 original size:44 final size:44
Alignment explanation
Indices: 21262128--21262258 Score: 153
Period size: 45 Copynumber: 3.0 Consensus size: 44
21262118 TACTGGTATT
* * *
21262128 ATATTCAGGCCTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
*
21262171 ACTATTCGGGCCTTTGAGCGTAGCAGGCTATAATGCCGGTGACATG
1 A-TATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * *
21262217 ATA-TCGAGCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA-ATG
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
21262258 A
1 A
21262259 ATAAAAGTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
41 4 0.05
42 11 0.14
43 15 0.19
44 15 0.19
45 31 0.40
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (44 bp):
ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:21263521 original size:28 final size:28
Alignment explanation
Indices: 21263487--21263589 Score: 118
Period size: 28 Copynumber: 3.7 Consensus size: 28
21263477 GGCCCCTTTA
* *
21263487 GGCCC-AATCTCATTCATATGACCCATT
1 GGCCCAAATCACATTCATATGACCCATC
*
21263514 GAGCCCAAATCACTTTCATATGACCCATC
1 G-GCCCAAATCACATTCATATGACCCATC
* * * *
21263543 GGCCCTAATCATATTCATATGGCCTATC
1 GGCCCAAATCACATTCATATGACCCATC
*
21263571 GGCCCCAATCACATTCATA
1 GGCCCAAATCACATTCATA
21263590 GTCTTGCAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.67
29 20 0.31
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (28 bp):
GGCCCAAATCACATTCATATGACCCATC
Found at i:21263845 original size:24 final size:23
Alignment explanation
Indices: 21263801--21263846 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
21263791 TGTAGCCAAA
* *
21263801 CTTTCGGCTTTTTGGCTTTTTGG
1 CTTTCGGCATTTTGGCATTTTGG
*
21263824 CTTTACGGCATTTTGGGATTTTG
1 CTTT-CGGCATTTTGGCATTTTG
21263847 CCGATCTACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.07, C:0.15, G:0.26, T:0.52
Consensus pattern (23 bp):
CTTTCGGCATTTTGGCATTTTGG
Found at i:21266719 original size:18 final size:16
Alignment explanation
Indices: 21266687--21266725 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
21266677 TTACTAAATA
21266687 AATAATAAAATGTTAT
1 AATAATAAAATGTTAT
*
21266703 TATAATAATATATGTTAT
1 AATAATAA-A-ATGTTAT
21266721 AATAA
1 AATAA
21266726 CATTAAACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AATAATAAAATGTTAT
Found at i:21267287 original size:43 final size:42
Alignment explanation
Indices: 21267239--21267392 Score: 159
Period size: 43 Copynumber: 3.6 Consensus size: 42
21267229 ATAGGATTTC
21267239 CGATATGTGTTCTCGTGTAAGACCATGTCTAGGACGTTGGCAT
1 CGATATGTGTT-TCGTGTAAGACCATGTCTAGGACGTTGGCAT
* * *
21267282 CGATATGTGATTTCGAGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATGTG-TTTCGTGTAAGACCATGTCTAGGACGTTGGCAT
* * *
21267325 CG-TAATTGTGATTCGTGTAAGACCCTGTCTAGGATAG-TGGCAT
1 CGAT-A-TGTGTTTCGTGTAAGACCATGTCTAGGA-CGTTGGCAT
* * *
21267368 CGACATGTGATTACATGTAAGACCA
1 CGATATGTG-TTTCGTGTAAGACCA
21267393 CATTTGGGAT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 5 0.05
43 80 0.88
44 6 0.07
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (42 bp):
CGATATGTGTTTCGTGTAAGACCATGTCTAGGACGTTGGCAT
Found at i:21284775 original size:43 final size:43
Alignment explanation
Indices: 21284619--21284776 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 43
21284609 ATGTGTTATT
* *
21284619 GTGTAAGACCATGTATGGGATGTTGGCATCGAT-TTGTGATTTAC
1 GTGTAAGACCACGTCTGGGATGTTGGCATCGATATT-TGA-TTAC
* ** ** * *
21284663 GTGTAAGACCATGTCTGGGACATTGGTGTCG-TATATGATTTC
1 GTGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTAC
*
21284705 GTGTAAGACC-CTGTCTGGGATAG-TGGCATGGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATTAC
* *
21284748 ATGTAAGACCACGTCTAGGATGTTGGCAT
1 GTGTAAGACCACGTCTGGGATGTTGGCAT
21284777 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 28 0.31
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTAC
Found at i:21284980 original size:21 final size:21
Alignment explanation
Indices: 21284954--21284994 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21284944 ATGTATATGG
**
21284954 AAATGAAATGTGAATAAATGT
1 AAATGAAACATGAATAAATGT
21284975 AAATGAAACATGAATAAATG
1 AAATGAAACATGAATAAATG
21284995 AATAAGTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.02, G:0.17, T:0.24
Consensus pattern (21 bp):
AAATGAAACATGAATAAATGT
Found at i:21288773 original size:67 final size:67
Alignment explanation
Indices: 21288665--21288800 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
21288655 CAATTTATGC
* *
21288665 TTAGTAAGTTTTGAGCAAGGGATTCCAGCACAACAAAAGTATAGCATTCATGTAGCTAAACGGAT
1 TTAGTAAGTTTTGAGCAAGGAATTCCAGCACAACAAAAGTATAGCATTCATATAGCTAAACGGAT
21288730 AA
66 AA
21288732 TTAGTAAGTTTTGAGCAAGGAATTCCAGCACAACAAAAGTATAGCATTCATATAGCTAAACGGAT
1 TTAGTAAGTTTTGAGCAAGGAATTCCAGCACAACAAAAGTATAGCATTCATATAGCTAAACGGAT
21288797 AA
66 AA
21288799 TT
1 TT
21288801 TCATATGCAC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (67 bp):
TTAGTAAGTTTTGAGCAAGGAATTCCAGCACAACAAAAGTATAGCATTCATATAGCTAAACGGAT
AA
Found at i:21289170 original size:80 final size:80
Alignment explanation
Indices: 21289066--21289290 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 80
21289056 GCTCCTCGTT
* *
21289066 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
*
21289131 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * *
21289146 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTTGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCG
*
21289209 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * *
21289225 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAACTCA-CACAAATGCCTTCGGGACTTAGCCC
21289288 GGA
64 GGA
21289291 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
78 4 0.03
79 55 0.45
80 62 0.50
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:21289250 original size:119 final size:120
Alignment explanation
Indices: 21289068--21289290 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
21289058 TCCTCGTTCA
*
21289068 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* *
21289133 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * * **
21289188 AATGCCTTCGGG-CTTTGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* * *
21289250 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
21289291 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:21289290 original size:40 final size:41
Alignment explanation
Indices: 21289066--21289290 Score: 250
Period size: 40 Copynumber: 5.6 Consensus size: 41
21289056 GCTCCTCGTT
* * *
21289066 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
21289106 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
21289146 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
21289186 CCAATGCCTTCGGG-CTTTGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
21289225 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
21289266 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21289291 CATCATTCAA
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 117 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:21293599 original size:22 final size:23
Alignment explanation
Indices: 21293574--21293632 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
21293564 TATCTACGGT
21293574 GTTGAGTTA-TCCTGTCTAAAGC
1 GTTGAGTTAGTCCTGTCTAAAGC
* *
21293596 GTTGAG-TAGTCTTGTCTACAGC
1 GTTGAGTTAGTCCTGTCTAAAGC
*
21293618 GTTGAG-TCGTCCTGT
1 GTTGAGTTAGTCCTGT
21293633 TGACTTAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.37
Consensus pattern (23 bp):
GTTGAGTTAGTCCTGTCTAAAGC
Found at i:21297023 original size:22 final size:22
Alignment explanation
Indices: 21296985--21297058 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
21296975 AGCCTTTAGC
*
21296985 CATCCTATCTA-AGGCGTTGAGT
1 CATCCTGTCTACA-GCGTTGAGT
* * *
21297007 CTTCTTGTCTACTGCGTTGAGT
1 CATCCTGTCTACAGCGTTGAGT
*
21297029 CATCCTGTCTACAGCGTTGAGC
1 CATCCTGTCTACAGCGTTGAGT
*
21297051 CGTCCTGT
1 CATCCTGT
21297059 TGACTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (22 bp):
CATCCTGTCTACAGCGTTGAGT
Found at i:21302743 original size:18 final size:18
Alignment explanation
Indices: 21302720--21302756 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21302710 TATGTTTCAA
* *
21302720 TTGAATGTTGTATTTGTT
1 TTGAATGTGGTATATGTT
21302738 TTGAATGTGGTATATGTT
1 TTGAATGTGGTATATGTT
21302756 T
1 T
21302757 ATGATATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (18 bp):
TTGAATGTGGTATATGTT
Found at i:21304133 original size:29 final size:29
Alignment explanation
Indices: 21304084--21304150 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
21304074 CACATGGGTA
21304084 GACACACGGGCGTATGTCTTGACCGTGTGT
1 GACACAC-GGCGTATGTCTTGACCGTGTGT
*
21304114 GACACACGGCTTATGTCTTGACCGTGTGT
1 GACACACGGCGTATGTCTTGACCGTGTGT
21304143 GACACACG
1 GACACACG
21304151 ACTTGGCACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 29 0.81
30 7 0.19
ACGTcount: A:0.19, C:0.25, G:0.30, T:0.25
Consensus pattern (29 bp):
GACACACGGCGTATGTCTTGACCGTGTGT
Found at i:21305991 original size:39 final size:39
Alignment explanation
Indices: 21305934--21306250 Score: 562
Period size: 39 Copynumber: 8.1 Consensus size: 39
21305924 ATTATATTAT
* * * *
21305934 CAGCACAAAGTCTACGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
21305973 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
21306012 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
21306051 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
21306090 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
21306129 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
21306168 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
21306207 CAGCACGAAGCCTGCAGGACCTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
21306246 CAGCA
1 CAGCA
21306251 GGCTTCGGAT
Statistics
Matches: 268, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 268 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:21306293 original size:61 final size:61
Alignment explanation
Indices: 21306195--21306309 Score: 203
Period size: 61 Copynumber: 1.9 Consensus size: 61
21306185 GACTTTGGCC
*
21306195 CGGATATATTTCCAGCACGAAGCCTGCAGGACCTTAGCCCGGATACATTTCCAGCAGGCTT
1 CGGATACATTTCCAGCACGAAGCCTGCAGGACCTTAGCCCGGATACATTTCCAGCAGGCTT
* *
21306256 CGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAG
1 CGGATACATTTCCAGCACGAAGCCTGCAGGACCTTAGCCCGGATACATTTCCAG
21306310 TGTCTTGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (61 bp):
CGGATACATTTCCAGCACGAAGCCTGCAGGACCTTAGCCCGGATACATTTCCAGCAGGCTT
Found at i:21311338 original size:46 final size:46
Alignment explanation
Indices: 21311281--21311448 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
21311271 GGCATCCGAG
**
21311281 CGTTGAGTTGAGTTTGAGTTCACTTATGGATGCGAACGTCCGAACT
1 CGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACT
* * * * *
21311327 CGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGACATCCGAGCT
1 CGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-ACGTCCGAACT
* * *
21311374 CGTTGAGTTGAGTCTGAGTTCACTTATGGATGGGAACG-CCCAAGCT
1 CGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAA-CT
*
21311420 CGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGTTGAGTTGAGTCCGAGTTCACTTATGG
21311449 GCAGGTTACA
Statistics
Matches: 97, Mismatches: 17, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 4 0.04
45 5 0.05
46 52 0.54
47 30 0.31
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (46 bp):
CGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACT
Found at i:21311385 original size:47 final size:47
Alignment explanation
Indices: 21311234--21311394 Score: 172
Period size: 47 Copynumber: 3.5 Consensus size: 47
21311224 GGCATTCGAA
*
21311234 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCGAG
** * * * * *
21311281 --CGTTGAGTTGAGTTTGAGTTCACTTATGGATG---CGA-ACGTCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGACATCCGAG
21311325 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCGAG
*
21311372 CTCGTTGAGTTGAGTCTGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
21311395 ACTTATGGAT
Statistics
Matches: 89, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
43 4 0.04
44 6 0.07
45 23 0.26
46 23 0.26
47 29 0.33
48 4 0.04
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGACATCCGAG
Done.