Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 157 of 167
Found at i:51769579 original size:22 final size:22
Alignment explanation
Indices: 51769554--51769596 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
51769544 TCTCCCTATT
51769554 TTGCTACCATTTTACTATTATG
1 TTGCTACCATTTTACTATTATG
* *
51769576 TTGCTACTATTTTATTATTAT
1 TTGCTACCATTTTACTATTAT
51769597 TATTTAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.56
Consensus pattern (22 bp):
TTGCTACCATTTTACTATTATG
Found at i:51769660 original size:30 final size:30
Alignment explanation
Indices: 51769626--51769688 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
51769616 TCTTATTTTA
*
51769626 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
51769656 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
51769686 TTG
1 TTG
51769689 CTTATTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:51769806 original size:18 final size:18
Alignment explanation
Indices: 51769770--51769810 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
51769760 AAAAATATTT
*
51769770 TTTTTGATGTTTTTAATA
1 TTTTTGATGTTTATAATA
51769788 TTTTTGATGTATTATATATA
1 TTTTTGATGT-TTATA-ATA
51769808 TTT
1 TTT
51769811 AAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 4 0.20
20 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (18 bp):
TTTTTGATGTTTATAATA
Found at i:51775732 original size:19 final size:18
Alignment explanation
Indices: 51775708--51775746 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
51775698 TTTTGAAAGG
51775708 TTAAGTGACATGAAATGGT
1 TTAAGT-ACATGAAATGGT
* *
51775727 TTAAGTAGATGGAATGGT
1 TTAAGTACATGAAATGGT
51775745 TT
1 TT
51775747 GGAATGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.36
Consensus pattern (18 bp):
TTAAGTACATGAAATGGT
Found at i:51776335 original size:15 final size:15
Alignment explanation
Indices: 51776315--51776352 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
51776305 TATAACTGTT
51776315 CCATTTTGTAATGTA
1 CCATTTTGTAATGTA
51776330 CCATTTTGTAATGTA
1 CCATTTTGTAATGTA
*
51776345 GCATTTTG
1 CCATTTTG
51776353 CAGCTCAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (15 bp):
CCATTTTGTAATGTA
Found at i:51778165 original size:22 final size:21
Alignment explanation
Indices: 51778138--51778223 Score: 82
Period size: 22 Copynumber: 4.0 Consensus size: 21
51778128 CCAAACAACA
*
51778138 AGAAAATAGTAATAACATAAT
1 AGAAAATAGTAATAAAATAAT
* *
51778159 AGTAAAATAGTAGTAAAATAGT
1 AG-AAAATAGTAATAAAATAAT
* * * *
51778181 GAGAAAACAATAAGAAAATAGT
1 -AGAAAATAGTAATAAAATAAT
51778203 AGCAAAATAGTAATAAAATAA
1 AG-AAAATAGTAATAAAATAA
51778224 ATTTTTTTTG
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
21 4 0.08
22 45 0.88
23 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.14, T:0.21
Consensus pattern (21 bp):
AGAAAATAGTAATAAAATAAT
Found at i:51778174 original size:11 final size:11
Alignment explanation
Indices: 51778140--51778222 Score: 71
Period size: 11 Copynumber: 7.5 Consensus size: 11
51778130 AAACAACAAG
*
51778140 AAAATAGTAAT
1 AAAATAGTAGT
* *
51778151 AACATAATAGT
1 AAAATAGTAGT
51778162 AAAATAGTAGT
1 AAAATAGTAGT
51778173 AAAATAGTGAG-
1 AAAATAGT-AGT
* *
51778184 AAAACAATAAG-
1 AAAATAGT-AGT
*
51778195 AAAATAGTAGC
1 AAAATAGTAGT
*
51778206 AAAATAGTAAT
1 AAAATAGTAGT
51778217 AAAATA
1 AAAATA
51778223 AATTTTTTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
10 2 0.03
11 54 0.93
12 2 0.03
ACGTcount: A:0.61, C:0.04, G:0.13, T:0.22
Consensus pattern (11 bp):
AAAATAGTAGT
Found at i:51779321 original size:21 final size:21
Alignment explanation
Indices: 51779297--51779339 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
51779287 ATAAATAATA
51779297 TAATGATTTT-ACCTTTTAACT
1 TAATGATTTTCA-CTTTTAACT
*
51779318 TAATGGTTTTCACTTTTAACT
1 TAATGATTTTCACTTTTAACT
51779339 T
1 T
51779340 TAGAAAAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (21 bp):
TAATGATTTTCACTTTTAACT
Found at i:51780210 original size:23 final size:22
Alignment explanation
Indices: 51780157--51780210 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
51780147 ATATAATTGC
* * * *
51780157 AAAATGACAGCAAAATAGTGGT
1 AAAATAACACCAAAATAATGGA
51780179 AAAATAACACCAAAATAATGGA
1 AAAATAACACCAAAATAATGGA
51780201 AACAATAACA
1 AA-AATAACA
51780211 AGTCTTTCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.59, C:0.13, G:0.13, T:0.15
Consensus pattern (22 bp):
AAAATAACACCAAAATAATGGA
Found at i:51780707 original size:31 final size:31
Alignment explanation
Indices: 51780665--51780732 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
51780655 CATGCAATTT
*
51780665 ACTGCTCAGGTAACCAAAGCTACCACTTCTC
1 ACTGATCAGGTAACCAAAGCTACCACTTCTC
* * *
51780696 ACTGATCAGGTAGCTAGAGCTACCACTTCTC
1 ACTGATCAGGTAACCAAAGCTACCACTTCTC
51780727 ACTGAT
1 ACTGAT
51780733 TAGATTACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (31 bp):
ACTGATCAGGTAACCAAAGCTACCACTTCTC
Found at i:51780891 original size:35 final size:35
Alignment explanation
Indices: 51780831--51781097 Score: 311
Period size: 35 Copynumber: 7.6 Consensus size: 35
51780821 CCTCATTGAA
*
51780831 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCGGTAT-GGAT
* ** *
51780866 AATGCCATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* *
51780901 AATAACATACCTACGTTTCACAACTCGGTATAGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* ** *
51780936 GATAAAATACCTACGTTCCACAACTCGGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* * * * *
51780971 GATGCCATACCTACGTTCCACAACTCAGAATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* * *
51781006 GATACCATACCTACGTTTCACAACTCGATATGGTT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* *
51781041 AATACCATACCTACATTTCACAACTCCGTATGGAT
1 AATACCATACCTACGTTTCACAACTCGGTATGGAT
* *
51781076 GATACCATACGTACGTTTCACA
1 AATACCATACCTACGTTTCACA
51781098 CTTTGCCATG
Statistics
Matches: 197, Mismatches: 34, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
34 3 0.02
35 194 0.98
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCGGTATGGAT
Found at i:51781019 original size:105 final size:105
Alignment explanation
Indices: 51780837--51781097 Score: 344
Period size: 105 Copynumber: 2.5 Consensus size: 105
51780827 TGAAAATACC
* ** *
51780837 ATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTACGTTTCTTAACTCAGTATGGAT
1 ATACCTACATTTCACAACTCGGTAT-GGATGATGCCATACCTACGTTTCACAACTCAGAATGGAT
* *
51780901 AATAACATACCTACGTTTCACAACTCGGTATAGATGATAAA
65 AATAACATACCTACGTTTCACAACTCGATATAGATAATAAA
* * * *
51780942 ATACCTACGTTCCACAACTCGGTATGGATGATGCCATACCTACGTTCCACAACTCAGAATGGATG
1 ATACCTACATTTCACAACTCGGTATGGATGATGCCATACCTACGTTTCACAACTCAGAATGGATA
* * * **
51781007 ATACCATACCTACGTTTCACAACTCGATATGGTTAATACC
66 ATAACATACCTACGTTTCACAACTCGATATAGATAATAAA
* * *
51781047 ATACCTACATTTCACAACTCCGTATGGATGATACCATACGTACGTTTCACA
1 ATACCTACATTTCACAACTCGGTATGGATGATGCCATACCTACGTTTCACA
51781098 CTTTGCCATG
Statistics
Matches: 134, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
104 3 0.02
105 131 0.98
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.28
Consensus pattern (105 bp):
ATACCTACATTTCACAACTCGGTATGGATGATGCCATACCTACGTTTCACAACTCAGAATGGATA
ATAACATACCTACGTTTCACAACTCGATATAGATAATAAA
Found at i:51788094 original size:12 final size:12
Alignment explanation
Indices: 51788077--51788112 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
51788067 AACATTTTGA
51788077 CATTCATGCATT
1 CATTCATGCATT
51788089 CATTCATGCATT
1 CATTCATGCATT
*
51788101 CATTCATACATT
1 CATTCATGCATT
51788113 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:51796567 original size:73 final size:73
Alignment explanation
Indices: 51796446--51796613 Score: 219
Period size: 73 Copynumber: 2.3 Consensus size: 73
51796436 TTTCCTTTTT
*
51796446 TTTCAATTTATGCTTTTCAAAAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTCAATTTATGCTTTTC--AAAAATCAACCCATATTGCGAGAGGTGAGCTGAGCCTCAAGACAC
*
51796511 GCTGAGGTAA
64 GCCGAGGTAA
* * ** *
51796521 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGCTGAGCCTCGGGGCACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACCCATATTGCGAGAGGTGAGCTGAGCCTCAAGACACGC
*
51796586 CGAGGTAT
66 CGAGGTAA
* * *
51796594 TTTTAATTTCTGTTTTTCAA
1 TTTCAATTTATGCTTTTCAA
51796614 TTTCTGCTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
73 64 0.78
75 18 0.22
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (73 bp):
TTTCAATTTATGCTTTTCAAAAATCAACCCATATTGCGAGAGGTGAGCTGAGCCTCAAGACACGC
CGAGGTAA
Found at i:51796615 original size:14 final size:14
Alignment explanation
Indices: 51796593--51796654 Score: 92
Period size: 14 Copynumber: 4.6 Consensus size: 14
51796583 CGCCGAGGTA
51796593 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
51796606 TTTTTCAATTTCTG
1 TTTTTCAATTTCTG
*
51796620 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
*
51796634 CTTTT-AATTTCTG
1 TTTTTCAATTTCTG
51796647 TTTTTCAA
1 TTTTTCAA
51796655 AAATCAACTC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
13 17 0.38
14 28 0.62
ACGTcount: A:0.16, C:0.15, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:51796725 original size:114 final size:114
Alignment explanation
Indices: 51796525--51796752 Score: 339
Period size: 114 Copynumber: 2.0 Consensus size: 114
51796515 AGGTAATTTC
* * *
51796525 AATTTATGCTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAG
1 AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAG
* * * *
51796590 GTATTTTTAATTTCTGTTTTTCAATTTCTGCTTTTCAATTTCTGCTTTT
66 GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTGCTTTT
* * * * *
51796639 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAG
1 AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAG
*
51796704 GTATTTTCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTCTGCTTTT
66 GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTGCTTTT
51796753 CAAATCAACT
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 101 1.00
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (114 bp):
AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCAGGACACGCCGAG
GTATTTTCAATTTCTGTTTTTCAATTTCTGCCTTACAAATTCTGCTTTT
Found at i:51796779 original size:99 final size:97
Alignment explanation
Indices: 51796607--51796916 Score: 359
Period size: 99 Copynumber: 3.2 Consensus size: 97
51796597 TAATTTCTGT
* * * *
51796607 TTTTCAATTTCTGCTTTTCAATTTCTGCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGC
1 TTTTCAATTTCTGTTTTTCAATTTATGCTTTCAAATTCTG-TTTTC--AAATCAACTCATATTGC
*
51796672 GAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTA
63 GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* *
51796707 TTTTCAATTTCTGTTTTTCAATTTTTGCCTTACAAATTCTGCTTTTCAAATCAACTCATATTGCG
1 TTTTCAATTTCTGTTTTTCAATTTATG-CTTTCAAATTCTG-TTTTCAAATCAACTCATATTGCG
51796772 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
64 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* ***
51796806 TTTTCAATTT-TCGTTTTTTTAATTTATG-TTTCAAA-------AAAAAATCAACTCATATTGCG
1 TTTTCAATTTCT-G-TTTTTCAATTTATGCTTTCAAATTCTGTTTTCAAATCAACTCATATTGCG
* * *
51796862 AGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTA
64 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
51796896 TTTTCAATTTCTGTCTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
51796917 AAAAATCAGC
Statistics
Matches: 188, Mismatches: 18, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
89 6 0.03
90 60 0.32
91 1 0.01
98 7 0.04
99 62 0.33
100 37 0.20
101 15 0.08
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (97 bp):
TTTTCAATTTCTGTTTTTCAATTTATGCTTTCAAATTCTGTTTTCAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
Found at i:51796990 original size:73 final size:70
Alignment explanation
Indices: 51796842--51797099 Score: 345
Period size: 74 Copynumber: 3.5 Consensus size: 70
51796832 TGTTTCAAAA
* *
51796842 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACGCTGAGGTATTTTCAATTTC
51796907 TGTCTTTC
64 TGT-TTTC
* * * *
51796915 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTAATTTCAATTTT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTC
51796980 TGTTTGTC
64 TGTTT-TC
* * *
51796988 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--AGACGCTGAGGTA-TTTTCAATTT
51797053 CTGTTTTTC
63 CTG-TTTTC
51797062 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
51797100 GGCTCACATG
Statistics
Matches: 164, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
71 36 0.22
72 2 0.01
73 36 0.22
74 49 0.30
75 41 0.25
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (70 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCTG
TTTTC
Found at i:51797076 original size:74 final size:73
Alignment explanation
Indices: 51796842--51797138 Score: 384
Period size: 75 Copynumber: 4.0 Consensus size: 73
51796832 TGTTTCAAAA
* * *
51796842 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
51796907 TGTCTTTC
66 TGTTTTTC
* * * *
51796915 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
* *
51796978 TTTGTTTGTC
64 TCTGTTTTTC
* *
51796988 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTCAATTT
51797053 CTGTTTTTC
65 CTGTTTTTC
* *
51797062 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTCTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
*
51797126 TTCTGTTCTTC
63 TTCTGTTTTTC
51797137 AA
1 AA
51797139 TTTCTGTTCG
Statistics
Matches: 194, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
71 36 0.19
73 40 0.21
74 52 0.27
75 55 0.28
76 11 0.06
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTC
Found at i:51797139 original size:14 final size:14
Alignment explanation
Indices: 51797120--51797147 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51797110 CTGAGGTCTT
51797120 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
51797134 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
51797148 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:51797202 original size:92 final size:92
Alignment explanation
Indices: 51797062--51797375 Score: 628
Period size: 92 Copynumber: 3.4 Consensus size: 92
51797052 TCTGTTTTTC
51797062 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
51797127 TCTGTTCTTCAATTTCTGTTCGTAAAA
66 TCTGTTCTTCAATTTCTGTTCGTAAAA
51797154 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
51797219 TCTGTTCTTCAATTTCTGTTCGTAAAA
66 TCTGTTCTTCAATTTCTGTTCGTAAAA
51797246 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
51797311 TCTGTTCTTCAATTTCTGTTCGTAAAA
66 TCTGTTCTTCAATTTCTGTTCGTAAAA
51797338 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
51797376 AAGACACGCT
Statistics
Matches: 222, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 222 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (92 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
TCTGTTCTTCAATTTCTGTTCGTAAAA
Found at i:51797231 original size:14 final size:14
Alignment explanation
Indices: 51797212--51797239 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51797202 CTGAGGTCTT
51797212 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
51797226 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
51797240 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:51797323 original size:14 final size:14
Alignment explanation
Indices: 51797304--51797331 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51797294 CTGAGGTCTT
51797304 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
51797318 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
51797332 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:51797446 original size:75 final size:74
Alignment explanation
Indices: 51797337--51797518 Score: 267
Period size: 75 Copynumber: 2.5 Consensus size: 74
51797327 TGTTCGTAAA
* *
51797337 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTA-ATTTAAATT
* *
51797402 TTTGTTTTTC
65 TCTGTTTGTC
* * *
51797412 AAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTAAATTT
51797477 CTGTTTGTC
66 CTGTTTGTC
* *
51797486 -AAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
51797519 ACCTTTTAAT
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
73 30 0.31
74 15 0.15
75 52 0.54
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.31
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGTAATTTAAATTT
CTGTTTGTC
Found at i:51797680 original size:54 final size:55
Alignment explanation
Indices: 51797597--51797704 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 55
51797587 TGAGGTATTC
* * *
51797597 TTAATTTTTGTTGTTTCAAAAATCAACTCATGTTGCGAGAAGTGAGTTAAGCCTT
1 TTAATTTCTGTTGTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTT
* *
51797652 TTAATTTCTGTT-TGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TTAATTTCTGTTGTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
51797705 CGGGACACAC
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 37 0.77
55 11 0.23
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (55 bp):
TTAATTTCTGTTGTGTCAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTT
Found at i:51797686 original size:128 final size:127
Alignment explanation
Indices: 51797393--51797773 Score: 525
Period size: 128 Copynumber: 3.0 Consensus size: 127
51797383 GCTGAGGTAT
* *
51797393 TTTTAAATTTTTGTTTTTCAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACAC
1 TTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * *
51797458 GATGAGGTAATTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
64 GCTGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
* * *
51797522 TTTTAATTTCTACTTTTTC-AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
1 TTTTAATTTCT-GTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * * *
51797586 CTGAGGT-ATTCTTAATTTTTGTTGTTTCAAAAATCAACTCATGTTGCGAGAAGTGAGTT-AAGC
65 CTGAGGTAATT-TCAATTTCTGTT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-C
51797649 C
127 C
* * *
51797650 TTTTAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACAC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
51797715 TGAGGTAATTTCAATTTCTGTTTTTTAAAAATTAACTCATATTGCGAGAGGTGAGTTGA
66 TGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
51797774 GTCTCGGCTC
Statistics
Matches: 220, Mismatches: 25, Indels: 15
0.85 0.10 0.06
Matches are distributed among these distances:
126 3 0.01
127 96 0.44
128 108 0.49
129 13 0.06
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (127 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACC
Found at i:51797773 original size:73 final size:73
Alignment explanation
Indices: 51797654--51798007 Score: 431
Period size: 73 Copynumber: 4.7 Consensus size: 73
51797644 TAAGCCTTTT
*
51797654 AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAG
1 AATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAG
51797719 GTAATTTC
66 GTAATTTC
* * * * **
51797727 AATTTCTGTTTTTTAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTG
1 AATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACA--CTG
*
51797792 AGGT-CTCTTC
64 AGGTAAT-TTC
* * * *
51797802 AATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGC
1 AATTTCTGTTTGT----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACAC
* *
51797867 TGAGGTATTTTTA
62 TGAGGTA-ATTTC
* * * * *
51797880 AATTTATGTTTTTCAAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCCTCGGGACACGCTGA
1 AATTTCTGTTTGT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGA
51797945 GGTAATTTC
65 GGTAATTTC
* *
51797954 AATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 AATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
51798008 CTCACATGCT
Statistics
Matches: 237, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
73 91 0.38
74 15 0.06
75 72 0.30
77 7 0.03
78 12 0.05
79 40 0.17
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.32
Consensus pattern (73 bp):
AATTTCTGTTTGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAG
GTAATTTC
Found at i:51797929 original size:75 final size:73
Alignment explanation
Indices: 51797650--51798044 Score: 420
Period size: 75 Copynumber: 5.3 Consensus size: 73
51797640 GAGTTAAGCC
* *
51797650 TTTT-AATTTCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGATAC
*
51797713 ACTGAGGTA
65 GCTGAGGTA
* * * * *
51797722 ATTTCAATTTCTGTTTTT-TAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT-AC
*
51797786 ATGCTGAGGTC
65 --GCTGAGGTA
* ***
51797797 TCTTCAATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 TTTTCAATTTCTGTT--T-TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGA
51797862 TACGCTGAGGTA
62 TACGCTGAGGTA
* * * * *
51797874 TTTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCCTCGGGACA
1 -TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGATA
51797939 CGCTGAGGTA
64 CGCTGAGGTA
* * * *
51797949 ATTTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT-AC
*
51798013 ATGCTGAGGTC
65 --GCTGAGGTA
* *
51798024 TTTTTAATTTCTGCTTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
51798045 TTTCTGTTTT
Statistics
Matches: 267, Mismatches: 41, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
72 7 0.03
73 87 0.33
74 15 0.06
75 94 0.35
76 2 0.01
77 9 0.03
78 12 0.04
79 38 0.14
80 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATACG
CTGAGGTA
Found at i:51797944 original size:152 final size:147
Alignment explanation
Indices: 51797654--51798044 Score: 464
Period size: 152 Copynumber: 2.6 Consensus size: 147
51797644 TAAGCCTTTT
* * * *
51797654 AATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACACTGAG
1 AATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGATACGCTGAG
* * * * * * *
51797719 GTAATTTCAATTTCTGTTTTT-TAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCT
65 GTATTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCCTCGGC-
* *
51797783 CACATGCTGAGGT-CTCTTC
129 CACACGCTGAGGTAAT-TTC
51797802 AATTTCTGTTCGTAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGC
1 AATTTCTGTTCGT----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGATACGC
*
51797867 TGAGGTATTTTTAAATTTATGTTTTTCAAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCCT
61 TGAGGTATTTTT-AATTTCTGTTTTTCAAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCCT
*
51797932 CGG-GACACGCTGAGGTAATTTC
125 CGGCCACACGCTGAGGTAATTTC
* * * *
51797954 AATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTG
1 AATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT-AC--GCTG
* *
51798019 AGGTCTTTTTAATTTCTGCTTTTCAA
63 AGGTATTTTTAATTTCTGTTTTTCAA
51798045 TTTCTGTTTT
Statistics
Matches: 210, Mismatches: 23, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
147 3 0.01
148 51 0.24
149 14 0.07
150 13 0.06
152 80 0.38
153 13 0.06
154 36 0.17
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (147 bp):
AATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATACGCTGAGG
TATTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCAAAAGGTGAGTTGAGCCTCGGCCA
CACGCTGAGGTAATTTC
Found at i:51798071 original size:17 final size:17
Alignment explanation
Indices: 51798038--51798072 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51798028 TAATTTCTGC
* *
51798038 TTTTCAATTTCTGTTTT
1 TTTTCAATTTATATTTT
51798055 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
51798072 T
1 T
51798073 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:51798139 original size:106 final size:106
Alignment explanation
Indices: 51797950--51798160 Score: 298
Period size: 106 Copynumber: 2.0 Consensus size: 106
51797940 GCTGAGGTAA
* * *
51797950 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
1 TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
* * * *
51798015 GCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCT-GTTTTT
66 GCTGAGCTATTTTCAATTTCTG-TTTTCAATGTCTAGTTTTT
* * * *
51798056 TTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGCTCACGT
1 TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
*
51798121 GCTGAGCTATTTTCAATTTCTGTTTTTAATGTCTAGTTTT
66 GCTGAGCTATTTTCAATTTCTGTTTTCAATGTCTAGTTTT
51798161 ACAGAGTCAA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
105 10 0.11
106 82 0.89
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.45
Consensus pattern (106 bp):
TTTCAATTTATATTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACAT
GCTGAGCTATTTTCAATTTCTGTTTTCAATGTCTAGTTTTT
Found at i:51800866 original size:18 final size:18
Alignment explanation
Indices: 51800841--51800883 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
51800831 TAAAAGTTAG
*
51800841 TAAAAAAAATTTGGATCCT
1 TAAAAAAAA-TTGGACCCT
51800860 TAAAAAAAATTGGACCCT
1 TAAAAAAAATTGGACCCT
51800878 TAAAAA
1 TAAAAA
51800884 TTGAAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.53, C:0.12, G:0.09, T:0.26
Consensus pattern (18 bp):
TAAAAAAAATTGGACCCT
Found at i:51806339 original size:17 final size:17
Alignment explanation
Indices: 51806319--51806353 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51806309 AATTGTGTAT
51806319 ATCTATATC-ATTATTTA
1 ATCTAT-TCTATTATTTA
51806336 ATCTATTCTATTATTTA
1 ATCTATTCTATTATTTA
51806353 A
1 A
51806354 GTGTGTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (17 bp):
ATCTATTCTATTATTTA
Found at i:51812580 original size:22 final size:22
Alignment explanation
Indices: 51812539--51812581 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51812529 GTAGAATAGT
*
51812539 AAATTATATATATTTTTATTAC
1 AAATTATATATATTTCTATTAC
51812561 AAATTATAT-TACTTTCTATTA
1 AAATTATATATA-TTTCTATTA
51812582 TTTTAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (22 bp):
AAATTATATATATTTCTATTAC
Found at i:51817192 original size:25 final size:25
Alignment explanation
Indices: 51817164--51817213 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
51817154 TACGATTGGT
51817164 CTTTAAGTGGGACT-GTTATTAAAAG
1 CTTTAAGTGGGA-TGGTTATTAAAAG
51817189 CTTTAAGTGGGATGGTTATTAAAAG
1 CTTTAAGTGGGATGGTTATTAAAAG
51817214 AATGAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (25 bp):
CTTTAAGTGGGATGGTTATTAAAAG
Found at i:51818040 original size:20 final size:19
Alignment explanation
Indices: 51818015--51818055 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
51818005 GTACTTTGAT
51818015 ATTGAATTGAATTAAACTTG
1 ATTGAATTGAATTAAA-TTG
*
51818035 ATTGAATTGGATTAAATTG
1 ATTGAATTGAATTAAATTG
51818054 AT
1 AT
51818056 ATATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (19 bp):
ATTGAATTGAATTAAATTG
Found at i:51820732 original size:26 final size:26
Alignment explanation
Indices: 51820686--51820736 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
51820676 AAAATTTTTC
*
51820686 GAATCGAGTTAAATGATGTGAAATTT
1 GAATCGAGTGAAATGATGTGAAATTT
*
51820712 GAATCGAGTCGAATTGA-GTGAAATT
1 GAATCGAGT-GAAATGATGTGAAATT
51820737 ATTCGAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.31
Consensus pattern (26 bp):
GAATCGAGTGAAATGATGTGAAATTT
Found at i:51821004 original size:21 final size:21
Alignment explanation
Indices: 51820961--51821004 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
51820951 TCCTTTATAT
* **
51820961 ATTTTTAGAATTTTTTTTGAA
1 ATTTTTAGAATTTATTTAAAA
*
51820982 ATTTTTATAATTTATTTAAAA
1 ATTTTTAGAATTTATTTAAAA
51821003 AT
1 AT
51821005 ATAAATTTTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTTAGAATTTATTTAAAA
Found at i:51821041 original size:19 final size:19
Alignment explanation
Indices: 51821009--51821081 Score: 53
Period size: 19 Copynumber: 3.7 Consensus size: 19
51820999 AAAAATATAA
51821009 ATTTTGAATTTTTTTATAAAT
1 ATTTTGAA--TTTTTATAAAT
*
51821030 ATTTT-AGA-TTTTAAAAATT
1 ATTTTGA-ATTTTTATAAA-T
51821049 ATTTTGAATTTTT-TAAATT
1 ATTTTGAATTTTTATAAA-T
*
51821068 TTTTTGTAATTTTT
1 ATTTTG-AATTTTT
51821082 GTTGAGAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.18
19 17 0.39
20 13 0.30
21 6 0.14
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
ATTTTGAATTTTTATAAAT
Found at i:51821763 original size:18 final size:19
Alignment explanation
Indices: 51821740--51821778 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
51821730 TTAATAATAA
*
51821740 TTTTATCTCAAAAGTA-TT
1 TTTTATCCCAAAAGTACTT
51821758 TTTTATCCCAAAAGTACTT
1 TTTTATCCCAAAAGTACTT
51821777 TT
1 TT
51821779 GAGAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTTATCCCAAAAGTACTT
Found at i:51823160 original size:19 final size:19
Alignment explanation
Indices: 51823136--51823175 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51823126 AGCTCCCATG
51823136 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
51823155 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
51823174 TA
1 TA
51823176 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:51824309 original size:12 final size:12
Alignment explanation
Indices: 51824292--51824334 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
51824282 ATACAAGTTT
51824292 AAAAAAATCAAA
1 AAAAAAATCAAA
* *
51824304 AAAAAATTC-GA
1 AAAAAAATCAAA
51824315 AAAAAAATCAAA
1 AAAAAAATCAAA
51824327 ATAAAAAA
1 A-AAAAAA
51824335 AATCGAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 9 0.36
12 10 0.40
13 6 0.24
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (12 bp):
AAAAAAATCAAA
Found at i:51824332 original size:15 final size:16
Alignment explanation
Indices: 51824314--51824343 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51824304 AAAAAATTCG
51824314 AAAAAAAATC-AAAAT
1 AAAAAAAATCGAAAAT
51824329 AAAAAAAATCGAAAA
1 AAAAAAAATCGAAAA
51824344 AAAGAGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.80, C:0.07, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAAAATCGAAAAT
Found at i:51829591 original size:19 final size:19
Alignment explanation
Indices: 51829567--51829606 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51829557 AGCTCCCATG
51829567 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
51829586 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
51829605 TA
1 TA
51829607 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:51829672 original size:32 final size:32
Alignment explanation
Indices: 51829635--51829698 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
51829625 CCCAGCTCGA
51829635 GTTTAACTCATGAATTAACCATCAGCTCATGG
1 GTTTAACTCATGAATTAACCATCAGCTCATGG
*
51829667 GTTTAACTTATGAATTAACCATCAGCTCATGG
1 GTTTAACTCATGAATTAACCATCAGCTCATGG
51829699 AGTTCACTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (32 bp):
GTTTAACTCATGAATTAACCATCAGCTCATGG
Found at i:51830053 original size:39 final size:39
Alignment explanation
Indices: 51829999--51830077 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
51829989 ATCTCTTAGA
51829999 TGCATGTTCGACCAAGTGCATGTATGACCATATTCAATG
1 TGCATGTTCGACCAAGTGCATGTATGACCATATTCAATG
* *
51830038 TGCATGTTCGGCCAAGTGCGTGTATGACCATATTCAATG
1 TGCATGTTCGACCAAGTGCATGTATGACCATATTCAATG
51830077 T
1 T
51830078 CTTTAAGGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (39 bp):
TGCATGTTCGACCAAGTGCATGTATGACCATATTCAATG
Found at i:51830941 original size:14 final size:14
Alignment explanation
Indices: 51830919--51830966 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
51830909 ACCTAAACTG
* *
51830919 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
51830933 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
51830947 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
51830961 ACCATT
1 ACCATT
51830967 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:51834619 original size:40 final size:40
Alignment explanation
Indices: 51834575--51834651 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
51834565 TACCTCTAAG
* *
51834575 CATGAAAGGAAGTTGACATAGCTCTGGGCATGTTATGGTT
1 CATGAAAGGAAGTTGACAAAGCTCGGGGCATGTTATGGTT
*
51834615 CATGAAAGGAAGTTGGCAAAGCTCGGGGCATGTTATG
1 CATGAAAGGAAGTTGACAAAGCTCGGGGCATGTTATG
51834652 AATAACTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (40 bp):
CATGAAAGGAAGTTGACAAAGCTCGGGGCATGTTATGGTT
Found at i:51836167 original size:21 final size:21
Alignment explanation
Indices: 51836123--51836168 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
51836113 CAAAAACATC
* *
51836123 AAATTTGAAATTCGAAACCCA
1 AAATATGAAATTCGAAAACCA
* *
51836144 AAATATGAAATTTGAAAACTA
1 AAATATGAAATTCGAAAACCA
51836165 AAAT
1 AAAT
51836169 CCAAAGGCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (21 bp):
AAATATGAAATTCGAAAACCA
Found at i:51839054 original size:3 final size:3
Alignment explanation
Indices: 51839046--51839081 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
51839036 ACACTTACTG
51839046 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
51839082 TACTCTTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:51839067 original size:16 final size:16
Alignment explanation
Indices: 51839046--51839078 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51839036 ACACTTACTG
51839046 TTATTATTATTATTAT
1 TTATTATTATTATTAT
51839062 TTATTATTATTATTAT
1 TTATTATTATTATTAT
51839078 T
1 T
51839079 ATTTACTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:51839070 original size:19 final size:19
Alignment explanation
Indices: 51839046--51839083 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
51839036 ACACTTACTG
51839046 TTATTATTATTATTATTTA
1 TTATTATTATTATTATTTA
51839065 TTATTATTATTATTATTTA
1 TTATTATTATTATTATTTA
51839084 CTCTTTCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATTATTATTATTATTTA
Found at i:51839463 original size:99 final size:99
Alignment explanation
Indices: 51839346--51839544 Score: 389
Period size: 99 Copynumber: 2.0 Consensus size: 99
51839336 CCCAACCGCC
51839346 TTCGACCTTCACTGCTCCGACAACCTCGTAATCCCTTCCATCGACCGTTCCAGCTTCAATGAATC
1 TTCGACCTTCACTGCTCCGACAACCTCGTAATCCCTTCCATCGACCGTTCCAGCTTCAATGAATC
51839411 CGCCGGATCCCGTCGCCAGACATTCGCCCGTCTT
66 CGCCGGATCCCGTCGCCAGACATTCGCCCGTCTT
51839445 TTCGACCTTCACTGCTCCGACAACCTCGTAATCCCTTCCATCGACCGTTCCAGCTTCAATGAATC
1 TTCGACCTTCACTGCTCCGACAACCTCGTAATCCCTTCCATCGACCGTTCCAGCTTCAATGAATC
*
51839510 CGCTGGATCCCGTCGCCAGACATTCGCCCGTCTT
66 CGCCGGATCCCGTCGCCAGACATTCGCCCGTCTT
51839544 T
1 T
51839545 CCCCTAACAA
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 99 1.00
ACGTcount: A:0.18, C:0.40, G:0.16, T:0.26
Consensus pattern (99 bp):
TTCGACCTTCACTGCTCCGACAACCTCGTAATCCCTTCCATCGACCGTTCCAGCTTCAATGAATC
CGCCGGATCCCGTCGCCAGACATTCGCCCGTCTT
Found at i:51846882 original size:29 final size:27
Alignment explanation
Indices: 51846819--51846885 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
51846809 GAGCTTCACG
* *
51846819 TGTATAATTGCACCAAATTACAGTTCA
1 TGTATAATTGCACCAAATTAAAATTCA
*
51846846 TGCATATAATTGCACGTTAAATTAAAATTCA
1 TG--TATAATTGCAC--CAAATTAAAATTCA
51846877 TGTATAATT
1 TGTATAATT
51846886 TTAAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 2 0.06
29 18 0.55
31 13 0.39
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.37
Consensus pattern (27 bp):
TGTATAATTGCACCAAATTAAAATTCA
Found at i:51848021 original size:20 final size:19
Alignment explanation
Indices: 51847998--51848045 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
51847988 AAGCCCTTTT
51847998 AAAATTTAAAAATTATTAAA-
1 AAAATTTAAAAA-TA-TAAAC
*
51848018 AAAATCATAAAAATATAAAC
1 AAAAT-TTAAAAATATAAAC
51848038 AAAATTTA
1 AAAATTTA
51848046 TTTAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 6 0.25
20 12 0.50
21 6 0.25
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTTAAAAATATAAAC
Found at i:51848051 original size:23 final size:23
Alignment explanation
Indices: 51848025--51848078 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
51848015 AAAAAAATCA
51848025 TAAAAATATA-AACAAAATTTATT
1 TAAAAATATATAACAAAATTTA-T
*
51848048 TAAAAAGT-TATAACAAATTTTAT
1 TAAAAA-TATATAACAAAATTTAT
51848071 TAAAAATA
1 TAAAAATA
51848079 ACAATACCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.04
23 15 0.56
24 11 0.41
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATATATAACAAAATTTAT
Found at i:51850131 original size:14 final size:14
Alignment explanation
Indices: 51850112--51850157 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
51850102 AAGTTATAGA
51850112 TTTAATTTTTATAT
1 TTTAATTTTTATAT
51850126 TTTAATTTGATTA-AT
1 TTTAATTT--TTATAT
51850141 TTTAATCTTTT-TAT
1 TTTAAT-TTTTATAT
51850155 TTT
1 TTT
51850158 TTAAATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 15 0.54
15 8 0.29
16 5 0.18
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTAATTTTTATAT
Found at i:51850151 original size:23 final size:23
Alignment explanation
Indices: 51850113--51850156 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
51850103 AGTTATAGAT
*
51850113 TTAATTTTTATATTTTAATTTGA
1 TTAATTTTAATATTTTAATTTGA
* *
51850136 TTAATTTTAATCTTTTTATTT
1 TTAATTTTAATATTTTAATTT
51850157 TTTAAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (23 bp):
TTAATTTTAATATTTTAATTTGA
Found at i:51854666 original size:28 final size:29
Alignment explanation
Indices: 51854612--51854676 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 29
51854602 ATGTAAACAT
*
51854612 TAAAATAATGTTATAAAAAATTCAATAAA
1 TAAAATAATGTTATAAAAAATTAAATAAA
* *
51854641 TAAAA-AATG-TATAAAATTATTAAAT-AT
1 TAAAATAATGTTATAAAA-AATTAAATAAA
51854668 TAAAATAAT
1 TAAAATAAT
51854677 ATAATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 13 0.42
28 13 0.42
29 5 0.16
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (29 bp):
TAAAATAATGTTATAAAAAATTAAATAAA
Found at i:51856769 original size:29 final size:27
Alignment explanation
Indices: 51856729--51856783 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 27
51856719 AACTTCACTT
51856729 TTCAAATACAACCA-ATATTCAATTCAA
1 TTCAAATACAA-CATATATTCAATTCAA
51856756 TTCAAATAATCAACATATATTCAATTCA
1 TTCAAAT-A-CAACATATATTCAATTCA
51856784 TATAAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 7 0.28
28 3 0.12
29 15 0.60
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (27 bp):
TTCAAATACAACATATATTCAATTCAA
Found at i:51857567 original size:19 final size:19
Alignment explanation
Indices: 51857509--51857558 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
51857499 TTTTATTCTC
*
51857509 TGTTTCGTTTTAACTCTTTT
1 TGTTTC-TTTTAATTCTTTT
51857529 TGTTTCTTTTAATTCTTTT
1 TGTTTCTTTTAATTCTTTT
51857548 TGTTTCTTTTA
1 TGTTTCTTTTA
51857559 TTTTGTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.10, C:0.12, G:0.08, T:0.70
Consensus pattern (19 bp):
TGTTTCTTTTAATTCTTTT
Found at i:51889693 original size:22 final size:23
Alignment explanation
Indices: 51889642--51889694 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
51889632 AATTCGGTAG
*
51889642 ATTTAACAATGCAGATATGGTAAC
1 ATTTAA-AATGCAGATATGGTAAA
* *
51889666 A-GTAAAATTCAGA-ATGGTAAA
1 ATTTAAAATGCAGATATGGTAAA
51889687 ATTTAAAA
1 ATTTAAAA
51889695 ACCGATGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 8 0.33
22 12 0.50
23 3 0.12
24 1 0.04
ACGTcount: A:0.49, C:0.08, G:0.15, T:0.28
Consensus pattern (23 bp):
ATTTAAAATGCAGATATGGTAAA
Found at i:51899028 original size:7 final size:7
Alignment explanation
Indices: 51899018--51899043 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
51899008 AAATAATAAA
51899018 TTTTTAT
1 TTTTTAT
51899025 TTTTTAT
1 TTTTTAT
51899032 TTTTTAT
1 TTTTTAT
51899039 TTTTT
1 TTTTT
51899044 GTCACATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:51901664 original size:81 final size:83
Alignment explanation
Indices: 51901558--51901722 Score: 264
Period size: 82 Copynumber: 2.0 Consensus size: 83
51901548 TTTACCCTAA
* *
51901558 ATACAATTGTGTTGAATTTTAA-TTTTATTTAGTTGGT-GGATTGATATTAAATTTTAATAAAGT
1 ATACAATTGTGTTGAATTTTAATTTTTATTTAGTTGGTCGG-TTAATAATAAATTTTAATAAAGT
51901621 TTTAATTTTGACTAATGAC
65 TTTAATTTTGACTAATGAC
*
51901640 ATACACTT-TGTTGAATTTTAATTTTTATTTAGTTGGTCGGTTAATAATAAATTTTAATAAAGTT
1 ATACAATTGTGTTGAATTTTAATTTTTATTTAGTTGGTCGGTTAATAATAAATTTTAATAAAGTT
*
51901704 TTATTTTTGACTAATGAC
66 TTAATTTTGACTAATGAC
51901722 A
1 A
51901723 CCAGATGGTC
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
81 13 0.17
82 62 0.81
83 2 0.03
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (83 bp):
ATACAATTGTGTTGAATTTTAATTTTTATTTAGTTGGTCGGTTAATAATAAATTTTAATAAAGTT
TTAATTTTGACTAATGAC
Found at i:51902157 original size:21 final size:20
Alignment explanation
Indices: 51902112--51902163 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
51902102 GTCAACAAAT
* *
51902112 AATTTAAAAATTAT-AAAAA
1 AATTCAAAAAATATAAAAAA
*
51902131 TATTCAAAAAATATAAAAAA
1 AATTCAAAAAATATAAAAAA
51902151 AAGTTCATAAAAA
1 AA-TTCA-AAAAA
51902164 CTAAAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 11 0.42
20 6 0.23
21 4 0.15
22 5 0.19
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (20 bp):
AATTCAAAAAATATAAAAAA
Found at i:51909099 original size:11 final size:11
Alignment explanation
Indices: 51909084--51909123 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
51909074 ATTTTTTCAA
51909084 TATTTTACTAT
1 TATTTTACTAT
* *
51909095 CATTTCACTAT
1 TATTTTACTAT
*
51909106 TATGTTACTAT
1 TATTTTACTAT
51909117 TATTTTA
1 TATTTTA
51909124 TTGTTATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (11 bp):
TATTTTACTAT
Found at i:51913967 original size:21 final size:21
Alignment explanation
Indices: 51913941--51913981 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51913931 AGACGAGCAA
* *
51913941 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
51913962 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
51913982 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:51915920 original size:16 final size:16
Alignment explanation
Indices: 51915887--51915920 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51915877 GGAGATTGTT
* *
51915887 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
51915903 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
51915919 AA
1 AA
51915921 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:51924460 original size:13 final size:13
Alignment explanation
Indices: 51924442--51924481 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
51924432 GAACTGTTCT
51924442 TTTTTTCTTTTCC
1 TTTTTTCTTTTCC
51924455 TTTTTTCTTTT--
1 TTTTTTCTTTTCC
51924466 TTTTTT-TTTTCAC
1 TTTTTTCTTTTC-C
51924479 TTT
1 TTT
51924482 CTAGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.17
11 6 0.25
13 14 0.58
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTTCC
Found at i:51927805 original size:15 final size:15
Alignment explanation
Indices: 51927785--51927815 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
51927775 GTGGATATCC
51927785 ATAGACTACACAAGT
1 ATAGACTACACAAGT
51927800 ATAGACTACACAAGT
1 ATAGACTACACAAGT
51927815 A
1 A
51927816 GGAAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (15 bp):
ATAGACTACACAAGT
Found at i:51928256 original size:45 final size:45
Alignment explanation
Indices: 51928180--51928269 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 45
51928170 ACTATTAACA
* *
51928180 ATCTACTGAAAAGCAAAAGAAATATGAAAAGGTATCTACCACTTT
1 ATCTACTGAAAAGAAAAAGAAATATGAAAAGGTACCTACCACTTT
* *
51928225 ATCTACTGAAAAGTAAAAAG-AATGTGGAAAGGTACCTACCACTTT
1 ATCTACTGAAAAG-AAAAAGAAATATGAAAAGGTACCTACCACTTT
51928270 CTCTTAAGCG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 35 0.88
46 5 0.12
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (45 bp):
ATCTACTGAAAAGAAAAAGAAATATGAAAAGGTACCTACCACTTT
Found at i:51932266 original size:21 final size:20
Alignment explanation
Indices: 51932225--51932263 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
51932215 TTGAAATGAT
51932225 ATTAATATTTTTAAGAATTA
1 ATTAATATTTTTAAGAATTA
*
51932245 ATTAATTTGTTTTAA-AATT
1 ATTAATAT-TTTTAAGAATT
51932264 TAAAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTAATATTTTTAAGAATTA
Found at i:51934355 original size:40 final size:40
Alignment explanation
Indices: 51934274--51934355 Score: 96
Period size: 40 Copynumber: 2.0 Consensus size: 40
51934264 TAATTTAAAT
* * *
51934274 TTTTGTCAAATAATATCTAAAAATTACAAAACAAAATTTA
1 TTTTGTCAAATAAGATCTAAAAAATACAAAACAAAAATTA
*
51934314 TTTTGTCAAAATAAGA-CTAAAAAAT-CAAAATAAAAGATTA
1 TTTTGTC-AAATAAGATCTAAAAAATACAAAACAAAA-ATTA
51934354 TT
1 TT
51934356 ATGAAAAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
39 9 0.25
40 20 0.56
41 7 0.19
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.33
Consensus pattern (40 bp):
TTTTGTCAAATAAGATCTAAAAAATACAAAACAAAAATTA
Found at i:51940614 original size:136 final size:136
Alignment explanation
Indices: 51940421--51940693 Score: 528
Period size: 136 Copynumber: 2.0 Consensus size: 136
51940411 GAAGGAATTT
*
51940421 GATTATTTCCTTTAAGTTTTGATGAAGAATGTGTTGAGTAAATTAGGGGTTTGAACACTTAAGGA
1 GATTATTTCCTTTAAGTTTTGATGAAGAATGTGTTGAGTAAATTAGGGATTTGAACACTTAAGGA
51940486 TTCGGCATTGTTCATGATTTTTTTTAGAAGGTGAGTGTGAATGATATGAGTAATGTCATGTATGG
66 TTCGGCATTGTTCATGATTTTTTTTAGAAGGTGAGTGTGAATGATATGAGTAATGTCATGTATGG
51940551 GTTTCG
131 GTTTCG
51940557 GATTATTTCCTTTAAGTTTTGATGAAGAATGTGTTGAGTAAATTAGGGATTTGAACACTTAAGGA
1 GATTATTTCCTTTAAGTTTTGATGAAGAATGTGTTGAGTAAATTAGGGATTTGAACACTTAAGGA
*
51940622 TTCGGCATTGTTCATGATTTTTTTTAGAAGGTGAGTTTGAATGATATGAGTAATGTCATGTATGG
66 TTCGGCATTGTTCATGATTTTTTTTAGAAGGTGAGTGTGAATGATATGAGTAATGTCATGTATGG
51940687 GTTTCG
131 GTTTCG
51940693 G
1 G
51940694 CTTTGATAAG
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 135 1.00
ACGTcount: A:0.27, C:0.07, G:0.26, T:0.41
Consensus pattern (136 bp):
GATTATTTCCTTTAAGTTTTGATGAAGAATGTGTTGAGTAAATTAGGGATTTGAACACTTAAGGA
TTCGGCATTGTTCATGATTTTTTTTAGAAGGTGAGTGTGAATGATATGAGTAATGTCATGTATGG
GTTTCG
Found at i:51941816 original size:40 final size:40
Alignment explanation
Indices: 51941761--51941997 Score: 393
Period size: 40 Copynumber: 5.9 Consensus size: 40
51941751 GCATGAGCAT
51941761 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
51941801 TTGATATATCTGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
51941841 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
51941881 TTGATATATCTGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
51941921 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
51941961 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
51941998 TTGCGGTTAT
Statistics
Matches: 183, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:51945116 original size:26 final size:26
Alignment explanation
Indices: 51945080--51945132 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
51945070 CCATGAGAAG
51945080 TTAACCAATCCATCCCAAGGATTACA
1 TTAACCAATCCATCCCAAGGATTACA
51945106 TTAACCAATCCATCCCAAGGATTACA
1 TTAACCAATCCATCCCAAGGATTACA
51945132 T
1 T
51945133 CAAATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.30, G:0.08, T:0.25
Consensus pattern (26 bp):
TTAACCAATCCATCCCAAGGATTACA
Found at i:51956654 original size:79 final size:81
Alignment explanation
Indices: 51956486--51956670 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
51956476 GCTACTCGTT
*
51956486 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCA
* *
51956550 GATTTAGTAACTCGCAC
65 GATATAGTAACTAGCAC
* * ** *
51956567 CAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTT-TGGATCTTAGTCCG
1 CAAAGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCA
* *
51956629 GATATGGTCACTTAGCA-
65 GATATAGTAAC-TAGCAC
51956646 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
51956671 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 57 0.64
80 26 0.29
81 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCAC
Found at i:51956670 original size:40 final size:40
Alignment explanation
Indices: 51956467--51956670 Score: 227
Period size: 40 Copynumber: 5.1 Consensus size: 40
51956457 TAGAATTTAA
** *
51956467 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51956507 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
51956547 CCAGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
51956586 CCGGATTTAGTAACTCGCACAAATGCCTT-TGGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
51956626 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
51956666 CCGGA
1 CCGGA
51956671 CATCATTCGA
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:51957099 original size:23 final size:23
Alignment explanation
Indices: 51957048--51957104 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
51957038 AAAGGATGGA
51957048 CACATTTT-TTTTCTTTTGTTTT
1 CACATTTTCTTTTCTTTTGTTTT
*
51957070 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTT-TCTTTTGTTTT
51957095 C-CA-TTTCTTT
1 CACATTTTCTTT
51957105 ATTACTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 9 0.29
23 8 0.26
24 3 0.10
25 11 0.35
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (23 bp):
CACATTTTCTTTTCTTTTGTTTT
Found at i:51962899 original size:54 final size:54
Alignment explanation
Indices: 51962816--51962923 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
51962806 ATTACTTTCC
*
51962816 TATAAAAATAGATTCATCAAGGTTTGTTTACATAATTTAGTCACTATTTAATTA
1 TATAAAAATAGATTCATCAAGGTTCGTTTACATAATTTAGTCACTATTTAATTA
*
51962870 TATAAAAATAGATTCATCAAGGTTCGTTTACATAATTTATTCACTATTTAATTA
1 TATAAAAATAGATTCATCAAGGTTCGTTTACATAATTTAGTCACTATTTAATTA
51962924 CATTCCTACT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (54 bp):
TATAAAAATAGATTCATCAAGGTTCGTTTACATAATTTAGTCACTATTTAATTA
Found at i:51966618 original size:24 final size:24
Alignment explanation
Indices: 51966571--51966688 Score: 163
Period size: 23 Copynumber: 5.0 Consensus size: 24
51966561 GCTTTATCAT
*
51966571 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
51966596 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
51966620 ATAACTGGGGCATAAG-CCATTTA
1 ATAACTGGGGCATAAGCCCTTTTA
51966643 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
51966666 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
51966689 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 2, Indels: 11
0.87 0.02 0.11
Matches are distributed among these distances:
23 44 0.51
24 31 0.36
25 11 0.13
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:51966762 original size:20 final size:20
Alignment explanation
Indices: 51966737--51966803 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
51966727 TTATAAATAC
51966737 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
51966757 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
51966777 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
51966797 ACCATGT
1 ATCATGT
51966804 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:51966768 original size:11 final size:11
Alignment explanation
Indices: 51966737--51966792 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
51966727 TTATAAATAC
51966737 ATCATGTGCAT
1 ATCATGTGCAT
*
51966748 ATCA--TACAT
1 ATCATGTGCAT
51966757 ATCATGTGCAT
1 ATCATGTGCAT
*
51966768 ATCA--TACAT
1 ATCATGTGCAT
*
51966777 GTCATGTGCAT
1 ATCATGTGCAT
51966788 ATCAT
1 ATCAT
51966793 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:51966872 original size:25 final size:25
Alignment explanation
Indices: 51966840--51966887 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
51966830 ATGTATAAAC
* * *
51966840 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
51966865 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
51966888 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:51976608 original size:40 final size:40
Alignment explanation
Indices: 51976553--51976900 Score: 687
Period size: 40 Copynumber: 8.7 Consensus size: 40
51976543 GAGCATTGGA
51976553 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51976593 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51976633 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51976673 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51976713 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51976753 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51976793 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
51976833 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
51976873 ATATGTCCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
51976901 ATGTGTTTGC
Statistics
Matches: 307, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 307 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:51984551 original size:16 final size:16
Alignment explanation
Indices: 51984530--51984564 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
51984520 AACACATTTT
51984530 GAATTCTGTAAAGTGA
1 GAATTCTGTAAAGTGA
51984546 GAATTCTGTAAAGTGA
1 GAATTCTGTAAAGTGA
51984562 GAA
1 GAA
51984565 ATTGGATTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.26, T:0.29
Consensus pattern (16 bp):
GAATTCTGTAAAGTGA
Found at i:51985343 original size:40 final size:40
Alignment explanation
Indices: 51985288--51985475 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
51985278 AGCATTTGAA
51985288 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
51985328 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
51985368 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
51985408 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
51985448 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
51985476 AGGTGTTTGC
Statistics
Matches: 137, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:51987404 original size:17 final size:18
Alignment explanation
Indices: 51987377--51987410 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
51987367 ATATAATAAA
*
51987377 AGAATAAAGAAATAAAAT
1 AGAATAAAGAAAGAAAAT
51987395 AGAA-AAAGAAAGAAAA
1 AGAATAAAGAAAGAAAA
51987411 AACAGACAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (18 bp):
AGAATAAAGAAAGAAAAT
Found at i:51990536 original size:9 final size:9
Alignment explanation
Indices: 51990522--51990554 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
51990512 AAGAGACAAA
51990522 CTACTGTAT
1 CTACTGTAT
51990531 CTACTGTAT
1 CTACTGTAT
51990540 CTACTGTAT
1 CTACTGTAT
51990549 CTACTG
1 CTACTG
51990555 GTAGTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (9 bp):
CTACTGTAT
Found at i:51995391 original size:26 final size:26
Alignment explanation
Indices: 51995353--51995405 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
51995343 ATATAAATGC
* *
51995353 ATCCCCAATGATCATTTCTTGTACTA
1 ATCCCCAAGGATCATTTCTTCTACTA
51995379 ATCCCCAAGGATCATTTCTTCTACTA
1 ATCCCCAAGGATCATTTCTTCTACTA
51995405 A
1 A
51995406 CATGGAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.36
Consensus pattern (26 bp):
ATCCCCAAGGATCATTTCTTCTACTA
Found at i:51996388 original size:3 final size:3
Alignment explanation
Indices: 51996382--51996419 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
51996372 CACAACAATT
51996382 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
51996420 TTGTCAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:51997670 original size:5 final size:5
Alignment explanation
Indices: 51997657--51997728 Score: 74
Period size: 5 Copynumber: 14.4 Consensus size: 5
51997647 TTTCATATTG
* * *
51997657 TATCA TATCT TATCA TATCA TAACA TATCA TATCA TACCA TATCGA -ATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATC-A TATCA
* * *
51997707 TAGCA TATCT TATCA TGTCA TA
1 TATCA TATCA TATCA TATCA TA
51997729 GAATGTCCTA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
4 1 0.02
5 51 0.96
6 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (5 bp):
TATCA
Found at i:52001438 original size:40 final size:41
Alignment explanation
Indices: 52001333--52001477 Score: 140
Period size: 40 Copynumber: 3.6 Consensus size: 41
52001323 GCTCCTCGTT
* *
52001333 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGATTATAGTAACTCGCA
* *
52001373 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCAGGACTTAGCCCGGATTATAGTAACTCGCA
* * * *
52001413 CAAATGCCTTC-GGATCTTAGTCCGGA-TATTGTCACTTAGCA
1 CAAATGCCTTCAGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
* *
52001454 C-AA-GACTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCAGGACTTAGCCCGGA
52001478 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
39 19 0.21
40 63 0.71
41 7 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCAGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:52003275 original size:16 final size:16
Alignment explanation
Indices: 52003254--52003284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52003244 TTCAGACTTG
52003254 AATTTTCTCAAGCTTT
1 AATTTTCTCAAGCTTT
*
52003270 AATTTTTTCAAGCTT
1 AATTTTCTCAAGCTT
52003285 GGATTAGCTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (16 bp):
AATTTTCTCAAGCTTT
Found at i:52010070 original size:7 final size:7
Alignment explanation
Indices: 52010058--52010190 Score: 109
Period size: 7 Copynumber: 19.7 Consensus size: 7
52010048 TACTTAGTAT
*
52010058 TCAATCC
1 TCAATTC
*
52010065 TCAATCC
1 TCAATTC
*
52010072 TAAATTC
1 TCAATTC
52010079 TCAATTC
1 TCAATTC
*
52010086 TCAATTT
1 TCAATTC
*
52010093 TCAATCC
1 TCAATTC
*
52010100 TCAATTT
1 TCAATTC
52010107 TC-A-T-
1 TCAATTC
*
52010111 TCAATTG
1 TCAATTC
52010118 TCAATTC
1 TCAATTC
52010125 TCAATTC
1 TCAATTC
52010132 TCAA-TC
1 TCAATTC
52010138 TTCAA-TC
1 -TCAATTC
52010145 -CAATTC
1 TCAATTC
52010151 TCAATTC
1 TCAATTC
*
52010158 TGAA-TC
1 TCAATTC
*
52010164 ATCAATCC
1 -TCAATTC
*
52010172 TTAATTC
1 TCAATTC
52010179 TCAATTC
1 TCAATTC
52010186 TCAAT
1 TCAAT
52010191 CATCAATCAT
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
4 2 0.02
5 5 0.05
6 8 0.08
7 87 0.84
8 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.41
Consensus pattern (7 bp):
TCAATTC
Found at i:52010081 original size:14 final size:14
Alignment explanation
Indices: 52010058--52010211 Score: 113
Period size: 14 Copynumber: 11.4 Consensus size: 14
52010048 TACTTAGTAT
*
52010058 TCAATCCTCAATCC
1 TCAATTCTCAATCC
* *
52010072 TAAATTCTCAATTC
1 TCAATTCTCAATCC
*
52010086 TCAATTTTCAATCC
1 TCAATTCTCAATCC
*
52010100 TCAATTTTC-AT--
1 TCAATTCTCAATCC
* *
52010111 TCAATTGTCAATTC
1 TCAATTCTCAATCC
*
52010125 TCAATTCTCAATCT
1 TCAATTCTCAATCC
*
52010139 TCAA-TC-CAATTC
1 TCAATTCTCAATCC
* *
52010151 TCAATTCTGAATCA
1 TCAATTCTCAATCC
* * *
52010165 TCAATCCTTAATTC
1 TCAATTCTCAATCC
*
52010179 TCAATTCTCAATCA
1 TCAATTCTCAATCC
*
52010193 TCAA-TCATCAATCA
1 TCAATTC-TCAATCC
52010207 TCAAT
1 TCAAT
52010212 CATCAATTTT
Statistics
Matches: 110, Mismatches: 23, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
11 8 0.07
12 10 0.09
13 8 0.07
14 84 0.76
ACGTcount: A:0.32, C:0.27, G:0.01, T:0.39
Consensus pattern (14 bp):
TCAATTCTCAATCC
Found at i:52010102 original size:21 final size:21
Alignment explanation
Indices: 52010078--52010225 Score: 97
Period size: 21 Copynumber: 7.0 Consensus size: 21
52010068 ATCCTAAATT
52010078 CTCAATTCTCAATTTTCAATC
1 CTCAATTCTCAATTTTCAATC
* *
52010099 CTCAATTTTCATTCAATTGTCAATT
1 CTCAA--TTC--TCAATTTTCAATC
*
52010124 CTCAATTCTCAATCTTCAAT-
1 CTCAATTCTCAATTTTCAATC
* *
52010144 C-CAATTCTCAATTCTGAATC
1 CTCAATTCTCAATTTTCAATC
* * * * *
52010164 ATCAATCCTTAATTCTCAATT
1 CTCAATTCTCAATTTTCAATC
**
52010185 CTCAA-TCATCAATCATCAATC
1 CTCAATTC-TCAATTTTCAATC
*
52010206 ATCAA-TCATCAATTTTCAAT
1 CTCAATTC-TCAATTTTCAAT
52010226 TATTTTTTAA
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
19 15 0.15
20 2 0.02
21 60 0.61
23 6 0.06
25 16 0.16
ACGTcount: A:0.32, C:0.26, G:0.01, T:0.40
Consensus pattern (21 bp):
CTCAATTCTCAATTTTCAATC
Found at i:52010122 original size:32 final size:33
Alignment explanation
Indices: 52010058--52010226 Score: 137
Period size: 35 Copynumber: 5.0 Consensus size: 33
52010048 TACTTAGTAT
* * *
52010058 TCAATCCTCAATCCTAAATTCTCAATTCTCAATTT
1 TCAATCCTCAATCTTCAA-T-TCAATTCTCAATTC
* *
52010093 TCAATCCTCAATTTTC-ATTCAATTGTCAATTC
1 TCAATCCTCAATCTTCAATTCAATTCTCAATTC
* *
52010125 TCAATTCTCAATCTTCAATCCAATTCTCAATTC
1 TCAATCCTCAATCTTCAATTCAATTCTCAATTC
* *
52010158 TGAATCATCAATCCTT-AATTCTCAATTCTCAA-TC
1 TCAATCCTCAAT-CTTCAA-T-TCAATTCTCAATTC
* * *
52010192 ATCAATCATCAATCATCAATCATCAATTTTCAATT
1 -TCAATCCTCAATCTTCAAT--TCAATTCTCAATT
52010227 ATTTTTTAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
32 26 0.24
33 26 0.24
34 10 0.09
35 46 0.42
36 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.01, T:0.40
Consensus pattern (33 bp):
TCAATCCTCAATCTTCAATTCAATTCTCAATTC
Found at i:52010196 original size:7 final size:7
Alignment explanation
Indices: 52010160--52010218 Score: 68
Period size: 7 Copynumber: 8.4 Consensus size: 7
52010150 CTCAATTCTG
52010160 AATCATC
1 AATCATC
* *
52010167 AATCCTT
1 AATCATC
52010174 AATTC-TC
1 AA-TCATC
52010181 AATTC-TC
1 AA-TCATC
52010188 AATCATC
1 AATCATC
52010195 AATCATC
1 AATCATC
52010202 AATCATC
1 AATCATC
52010209 AATCATC
1 AATCATC
52010216 AAT
1 AAT
52010219 TTTCAATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
6 2 0.04
7 43 0.91
8 2 0.04
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (7 bp):
AATCATC
Found at i:52010287 original size:20 final size:20
Alignment explanation
Indices: 52010249--52010287 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
52010239 CTTTTTCTGA
*
52010249 ATTTTATTCTCTTAGATTTT
1 ATTTTATTCTCTTAAATTTT
52010269 ATTTTATTC-CTTATAATTT
1 ATTTTATTCTCTTA-AATTT
52010288 GTAAAATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTTTATTCTCTTAAATTTT
Found at i:52021797 original size:13 final size:13
Alignment explanation
Indices: 52021758--52021789 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
52021748 TGGTTCCCTC
52021758 TTATGGGCGTGTG
1 TTATGGGCGTGTG
*
52021771 CTATGGGCGTGTG
1 TTATGGGCGTGTG
52021784 TTATGG
1 TTATGG
52021790 CTGTGTGTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.44, T:0.38
Consensus pattern (13 bp):
TTATGGGCGTGTG
Found at i:52022988 original size:18 final size:20
Alignment explanation
Indices: 52022965--52023006 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
52022955 AGCAAGATGA
52022965 AAATAATATT-AA-TAAAC-T
1 AAATAA-ATTGAATTAAACAT
52022983 AAATAAATTGAATTAAACAT
1 AAATAAATTGAATTAAACAT
52023003 AAAT
1 AAAT
52023007 CTACTCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.14
18 8 0.38
19 5 0.24
20 5 0.24
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATAAATTGAATTAAACAT
Found at i:52027674 original size:38 final size:38
Alignment explanation
Indices: 52027632--52027708 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
52027622 TGAGATTGAT
*
52027632 AGCAGGAATGAGGAGTATAAACTCCTCAAACCACCATG
1 AGCAGGAATGAGGAGAATAAACTCCTCAAACCACCATG
52027670 AGCAGGAATGAGGAGAATAAACTCCTCAAACCACCATG
1 AGCAGGAATGAGGAGAATAAACTCCTCAAACCACCATG
52027708 A
1 A
52027709 TTATTCAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (38 bp):
AGCAGGAATGAGGAGAATAAACTCCTCAAACCACCATG
Found at i:52028075 original size:55 final size:55
Alignment explanation
Indices: 52027976--52028086 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 55
52027966 CAAGCCTGCC
* * *
52027976 AAAACAACACGGGCGTGCAACACGCCCGTGTGGAAGACCCGTGGTTGAACTTATT
1 AAAACAACACGGGCGTGCAACACGCCCGTGTCGAACACCCGTGGTTGAACCTATT
* ** * * *
52028031 AAAACAGCACGGGCGTGTGACACGCCCGTGTCTAACACCTGTGGTTTAACCTATT
1 AAAACAACACGGGCGTGCAACACGCCCGTGTCGAACACCCGTGGTTGAACCTATT
52028086 A
1 A
52028087 GATTGACACG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.28, C:0.26, G:0.25, T:0.21
Consensus pattern (55 bp):
AAAACAACACGGGCGTGCAACACGCCCGTGTCGAACACCCGTGGTTGAACCTATT
Found at i:52030804 original size:90 final size:90
Alignment explanation
Indices: 52030651--52030830 Score: 342
Period size: 90 Copynumber: 2.0 Consensus size: 90
52030641 AGGTATTTGA
* *
52030651 TGAGTTGGCTCGAGAACTCCATCAGGGTTACATTGGAATTCTTTCAAGAGGAGTTCCGAAAGAAA
1 TGAGTTGGCTCGAGAACACCATCAGGGGTACATTGGAATTCTTTCAAGAGGAGTTCCGAAAGAAA
52030716 TATATTAGTCAGAGATTCATCGATT
66 TATATTAGTCAGAGATTCATCGATT
52030741 TGAGTTGGCTCGAGAACACCATCAGGGGTACATTGGAATTCTTTCAAGAGGAGTTCCGAAAGAAA
1 TGAGTTGGCTCGAGAACACCATCAGGGGTACATTGGAATTCTTTCAAGAGGAGTTCCGAAAGAAA
52030806 TATATTAGTCAGAGATTCATCGATT
66 TATATTAGTCAGAGATTCATCGATT
52030831 AGAAATGTAA
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (90 bp):
TGAGTTGGCTCGAGAACACCATCAGGGGTACATTGGAATTCTTTCAAGAGGAGTTCCGAAAGAAA
TATATTAGTCAGAGATTCATCGATT
Found at i:52031185 original size:66 final size:66
Alignment explanation
Indices: 52031079--52031210 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
52031069 GAAGAGGAAA
*
52031079 GCTGAATGTGAAGCTAAAGATTTGATGAAAAGACCGATGAGTAAGTCATTTCCATATCATTAAAA
1 GCTGAATGTGAAGCTAAAGATTTGACGAAAAGACCGATGAGTAAGTCATTTCCATATCATTAAAA
52031144 G
66 G
52031145 GCTGAATGTGAAGCTAAAGATTTGACGAAAAGACCGATGAGTAAGTCATTTCCATATCATTAAAA
1 GCTGAATGTGAAGCTAAAGATTTGACGAAAAGACCGATGAGTAAGTCATTTCCATATCATTAAAA
52031210 G
66 G
52031211 AAATCTAAAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (66 bp):
GCTGAATGTGAAGCTAAAGATTTGACGAAAAGACCGATGAGTAAGTCATTTCCATATCATTAAAA
G
Found at i:52033454 original size:52 final size:51
Alignment explanation
Indices: 52033345--52033518 Score: 192
Period size: 52 Copynumber: 3.4 Consensus size: 51
52033335 TGGATACTCG
* ** * * *
52033345 GTGGCCTACACATAGTACCACCCTTGT-AGTCAAAGCTACCTTATTCACAAA
1 GTGGCCTTCACATAGTACCACAATTGTGA-CCAAAGCTACTTTCTTCACAAA
* * *
52033396 GCGGCCTTCATATAGAACCACAATTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACAATTGTGACCAAAGCTA-CTTTCTTCACAAA
* * * *
52033448 GTGGCCTACACATAGTACCACACTTGTGACC-AAGCTA-TATCTTCTCAAA
1 GTGGCCTTCACATAGTACCACAATTGTGACCAAAGCTACTTTCTTCACAAA
52033497 GTGGCCTTCACATAGTACCACA
1 GTGGCCTTCACATAGTACCACA
52033519 CCTGAGTCAC
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
49 31 0.30
51 35 0.34
52 38 0.37
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACAATTGTGACCAAAGCTACTTTCTTCACAAA
Found at i:52039798 original size:42 final size:42
Alignment explanation
Indices: 52039701--52039806 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
52039691 TTAGGGTTAC
* * *
52039701 CGAGGCTATGTGTAAGACCATATCTGGGATATGGCATCATTA
1 CGAGACTATGTGTAAGACCATATCTAGGATATGGCATCAATA
** * *
52039743 TTAGACTACGTGTAAAACCATATCTAGGATATGGCATCAATA
1 CGAGACTATGTGTAAGACCATATCTAGGATATGGCATCAATA
* *
52039785 CGAGATTTTGTGTAAGACCATA
1 CGAGACTATGTGTAAGACCATA
52039807 GCTGGGTTAT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (42 bp):
CGAGACTATGTGTAAGACCATATCTAGGATATGGCATCAATA
Found at i:52044076 original size:45 final size:45
Alignment explanation
Indices: 52044017--52044107 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
52044007 CCAAAACATG
*
52044017 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTTAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
* * *
52044062 TGTCATATATATCATGAACTCAGACCACAACTCGATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
52044107 T
1 T
52044108 CCCATAGTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:52046552 original size:44 final size:44
Alignment explanation
Indices: 52046502--52046602 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
52046492 AAGAACTCGT
* * * *
52046502 ACACTTAGTGCCAAAATGATT-AGCCTAAGTTATAACGATATCGC
1 ACACTTAGTGCCAAAA-CATTAAACCGAAGTTATAACAATATCGC
** **
52046546 ACACTTAGTGCCATCACATTAAACCGAAGTTATCTCAATATCGC
1 ACACTTAGTGCCAAAACATTAAACCGAAGTTATAACAATATCGC
52046590 ACACTTAGTGCCA
1 ACACTTAGTGCCA
52046603 GATATAGCCG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 3 0.06
44 45 0.94
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (44 bp):
ACACTTAGTGCCAAAACATTAAACCGAAGTTATAACAATATCGC
Found at i:52047141 original size:88 final size:88
Alignment explanation
Indices: 52047028--52047203 Score: 343
Period size: 88 Copynumber: 2.0 Consensus size: 88
52047018 TTGAATAAGA
*
52047028 TCCATGCTTAGCCAAATTACCATAGTGCCCCTAACTGTCCATATTTCGCATTTATTTCACATTTC
1 TCCATGCTTAGCCAAATCACCATAGTGCCCCTAACTGTCCATATTTCGCATTTATTTCACATTTC
52047093 AACCCTAAATTTACAAATTTCAC
66 AACCCTAAATTTACAAATTTCAC
52047116 TCCATGCTTAGCCAAATCACCATAGTGCCCCTAACTGTCCATATTTCGCATTTATTTCACATTTC
1 TCCATGCTTAGCCAAATCACCATAGTGCCCCTAACTGTCCATATTTCGCATTTATTTCACATTTC
52047181 AACCCTAAATTTACAAATTTCAC
66 AACCCTAAATTTACAAATTTCAC
52047204 AATGTAATCC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 87 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.35
Consensus pattern (88 bp):
TCCATGCTTAGCCAAATCACCATAGTGCCCCTAACTGTCCATATTTCGCATTTATTTCACATTTC
AACCCTAAATTTACAAATTTCAC
Found at i:52056793 original size:18 final size:19
Alignment explanation
Indices: 52056760--52056795 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52056750 TATTATAATC
52056760 TATATGATAATAATATTTA
1 TATATGATAATAATATTTA
*
52056779 TATATG-TATTAATATTT
1 TATATGATAATAATATTT
52056796 TTAGTAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
TATATGATAATAATATTTA
Found at i:52075988 original size:16 final size:16
Alignment explanation
Indices: 52075969--52076005 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
52075959 GTTGAAATAC
52075969 CGAAAAGTCAAAAAGT
1 CGAAAAGTCAAAAAGT
*
52075985 CGAAAAGTCAAAAATT
1 CGAAAAGTCAAAAAGT
52076001 CGAAA
1 CGAAA
52076006 TGCTGAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (16 bp):
CGAAAAGTCAAAAAGT
Found at i:52076287 original size:29 final size:29
Alignment explanation
Indices: 52076237--52076351 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
52076227 GCATGAAAAT
* * *
52076237 AATATGATTTGGGCATAATGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* *
52076266 AATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* *
52076295 AATATGAATTGGGTC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
*
52076324 AATAAG-ATTGGGCCTAGTGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
52076352 CATGTATGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
28 19 0.26
29 53 0.74
ACGTcount: A:0.29, C:0.12, G:0.31, T:0.28
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:52080773 original size:29 final size:28
Alignment explanation
Indices: 52080741--52080825 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 28
52080731 TGGGATATAT
52080741 GAATGTGAATTGGGCCTAGTGGGCCATAA
1 GAAT-TGAATTGGGCCTAGTGGGCCATAA
* **
52080770 GAATATGAACTGGGCC-AGATGGGCCATTT
1 GAAT-TGAATTGGGCCTAG-TGGGCCATAA
** *
52080799 GAATAAAATTAGGCCTAGTGGGCCATA
1 GAATTGAATTGGGCCTAGTGGGCCATA
52080826 TGCATGTATG
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
28 17 0.38
29 28 0.62
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (28 bp):
GAATTGAATTGGGCCTAGTGGGCCATAA
Found at i:52085230 original size:37 final size:37
Alignment explanation
Indices: 52085189--52085263 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
52085179 GCACACTCAA
*
52085189 AGGTTTGAACACGTGACCTAAAGATACACTAATACAC
1 AGGTTCGAACACGTGACCTAAAGATACACTAATACAC
52085226 AGGTTCGAACACGTGACCTAAAGATACACTAATACAC
1 AGGTTCGAACACGTGACCTAAAGATACACTAATACAC
52085263 A
1 A
52085264 ACTAACCACC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.20
Consensus pattern (37 bp):
AGGTTCGAACACGTGACCTAAAGATACACTAATACAC
Found at i:52086975 original size:27 final size:26
Alignment explanation
Indices: 52086920--52086982 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
52086910 TAAGTAATTA
*
52086920 ATATAAAATATTTGTAAAATTGGTGAT
1 ATATAAAATATTTGTAAAATT-GTAAT
*
52086947 ATATAAAATATTTTTAAAAATT-TAA-
1 ATATAAAATATTTGT-AAAATTGTAAT
52086972 ATATAATAATA
1 ATATAA-AATA
52086983 AATAAGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
25 6 0.19
26 6 0.19
27 14 0.44
28 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.41
Consensus pattern (26 bp):
ATATAAAATATTTGTAAAATTGTAAT
Found at i:52087016 original size:31 final size:31
Alignment explanation
Indices: 52086959--52087100 Score: 108
Period size: 31 Copynumber: 4.5 Consensus size: 31
52086949 ATAAAATATT
* *
52086959 TTTAAA-AATTTAAATATAATAATAAATAAGA
1 TTTAAATAATTT-AATATAATGATAAATAATA
* *
52086990 TTTAAATAATTTAATATAATGGTAAATGATA
1 TTTAAATAATTTAATATAATGATAAATAATA
* * * *
52087021 TTTAAGTCATTTAACATAACGATATGTAA-AATA
1 TTTAAATAATTTAATATAATGATA---AATAATA
* * *
52087054 TTTAAATAATTTAATATAATAATATATAAAA
1 TTTAAATAATTTAATATAATGATAAATAATA
* *
52087085 TATAATTTAATTTAAT
1 TTTAA-ATAATTTAAT
52087101 TTTTTATACA
Statistics
Matches: 86, Mismatches: 19, Indels: 11
0.74 0.16 0.09
Matches are distributed among these distances:
30 1 0.01
31 47 0.55
32 14 0.16
33 22 0.26
34 2 0.02
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (31 bp):
TTTAAATAATTTAATATAATGATAAATAATA
Found at i:52087056 original size:33 final size:33
Alignment explanation
Indices: 52087018--52087087 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
52087008 ATGGTAAATG
* * * *
52087018 ATATTTAAGTCATTTAACATAACGATATGTAAA
1 ATATTTAAATAATTTAACATAACAATATATAAA
* *
52087051 ATATTTAAATAATTTAATATAATAATATATAAA
1 ATATTTAAATAATTTAACATAACAATATATAAA
52087084 ATAT
1 ATAT
52087088 AATTTAATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (33 bp):
ATATTTAAATAATTTAACATAACAATATATAAA
Found at i:52087560 original size:19 final size:21
Alignment explanation
Indices: 52087538--52087588 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
52087528 AGAATTTTAC
52087538 TTATTTTTA-ATTAA-ATATT
1 TTATTTTTATATTAATATATT
52087557 TTA-TTTTATATTAATTATATT
1 TTATTTTTATATTAA-TATATT
52087578 TTA-TTTTATAT
1 TTATTTTTATAT
52087589 CTAAGTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.17
19 8 0.28
21 16 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTTTATATTAATATATT
Done.