Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 85 of 373
Found at i:26766260 original size:29 final size:29
Alignment explanation
Indices: 26766197--26766264 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
26766187 TAATCAACCG
*
26766197 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
26766226 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
26766255 CGCACACTTA
1 CGCACACTTA
26766265 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:26766434 original size:29 final size:29
Alignment explanation
Indices: 26766371--26766438 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
26766361 TAATCAACCG
26766371 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
26766400 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
26766429 CGCACACTTA
1 CGCACACTTA
26766439 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:26766608 original size:29 final size:29
Alignment explanation
Indices: 26766545--26766612 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
26766535 TAATCAACCG
26766545 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
26766574 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
26766603 CGCACACTTA
1 CGCACACTTA
26766613 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:26766755 original size:29 final size:29
Alignment explanation
Indices: 26766721--26766792 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
26766711 ATCAACCGCG
* * *
26766721 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
26766750 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
26766779 CACACTTAGTGCCA
1 CACACTTAGTGCCA
26766793 ATCTCATGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:26766786 original size:174 final size:174
Alignment explanation
Indices: 26766086--26766761 Score: 1298
Period size: 174 Copynumber: 3.9 Consensus size: 174
26766076 ATCTCAAGGT
* *
26766086 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
26766151 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
26766216 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
26766260 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
26766325 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
26766390 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
26766434 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
26766499 GAAAATATATATTGGGTTTGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
26766564 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
26766608 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
26766673 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
26766738 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
26766762 TGTACAATTT
Statistics
Matches: 494, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 494 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:26772865 original size:29 final size:29
Alignment explanation
Indices: 26772802--26772869 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
26772792 TAATCAACCG
*
26772802 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
26772831 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
26772860 CGCACACTTA
1 CGCACACTTA
26772870 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:26773039 original size:29 final size:29
Alignment explanation
Indices: 26772976--26773043 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
26772966 TAATCAACCG
26772976 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
26773005 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
26773034 CGCACACTTA
1 CGCACACTTA
26773044 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:26773360 original size:29 final size:29
Alignment explanation
Indices: 26773326--26773397 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
26773316 ATCAACCGCG
* * *
26773326 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
** *
26773355 CACACTTAGTGCTGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
26773384 CACACTTAGTGCCA
1 CACACTTAGTGCCA
26773398 ATCTCATGAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.26
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:26773391 original size:174 final size:174
Alignment explanation
Indices: 26772691--26773366 Score: 1264
Period size: 174 Copynumber: 3.9 Consensus size: 174
26772681 AACTCAAGGT
* *
26772691 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
26772756 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
26772821 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
26772865 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
26772930 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
26772995 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
26773039 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
26773104 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
26773169 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGTAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* *
26773213 ACTTACCTTTTCCGCAT-TCCAAAATCGACTCGGCAAAGTCACACCCTTAATGTAAATAATTTAT
1 ACTTACCTTTTCCGC-TGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTAT
26773277 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
65 AGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATG
26773342 CACTTTAAACTCACACACTTAGTGC
130 CACTTTAAACTCACACACTTAGTGC
26773367 TGTACAATTT
Statistics
Matches: 492, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
174 491 1.00
175 1 0.00
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:26775744 original size:7 final size:7
Alignment explanation
Indices: 26775732--26775765 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
26775722 CATATTTCTA
26775732 CTCATCC
1 CTCATCC
26775739 CTCATCC
1 CTCATCC
26775746 CTCATCC
1 CTCATCC
26775753 CTCATCC
1 CTCATCC
26775760 CTCATC
1 CTCATC
26775766 ATTCATCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.56, G:0.00, T:0.29
Consensus pattern (7 bp):
CTCATCC
Found at i:26775771 original size:14 final size:14
Alignment explanation
Indices: 26775732--26775772 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
26775722 CATATTTCTA
*
26775732 CTCATCCCTCATCC
1 CTCATCACTCATCC
*
26775746 CTCATCCCTCATCC
1 CTCATCACTCATCC
*
26775760 CTCATCATTCATC
1 CTCATCACTCATC
26775773 ATGCTCTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.17, C:0.51, G:0.00, T:0.32
Consensus pattern (14 bp):
CTCATCACTCATCC
Found at i:26775771 original size:21 final size:21
Alignment explanation
Indices: 26775732--26775772 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26775722 CATATTTCTA
*
26775732 CTCATCCCTCATCCCTCATCC
1 CTCATCCCTCATCACTCATCC
*
26775753 CTCATCCCTCATCATTCATC
1 CTCATCCCTCATCACTCATC
26775773 ATGCTCTCCT
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:0.17, C:0.51, G:0.00, T:0.32
Consensus pattern (21 bp):
CTCATCCCTCATCACTCATCC
Found at i:26781898 original size:43 final size:43
Alignment explanation
Indices: 26781850--26781951 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
26781840 TCCTAGATAT
* * * *
26781850 GGTCTTACATGTTATCAC-ATATCGATGCCACTGTCCCACATAA
1 GGTCTTACATGTAATCACAATA-CAATGCCAATGTCCCACACAA
* * * *
26781893 GGTCTTACACGAAATCACAATACAATGCCAATGTCCCATACAT
1 GGTCTTACATGTAATCACAATACAATGCCAATGTCCCACACAA
26781936 GGTCTTACATGTAATC
1 GGTCTTACATGTAATC
26781952 CATGTCCCAG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 45 0.94
44 3 0.06
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAATCACAATACAATGCCAATGTCCCACACAA
Found at i:26785235 original size:28 final size:29
Alignment explanation
Indices: 26785162--26785249 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 29
26785152 AGCATGGCTG
* * * *
26785162 CCAGATACAGA-AA-ATGTGACAGAGTCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
*
26785189 CCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAATTTGTGGCA-TAGCCA
26785218 CCAGA-ACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAATTTGTGGCATAGCCA
26785246 CCAG
1 CCAG
26785250 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 12 0.24
28 25 0.49
29 14 0.27
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (29 bp):
CCAGATACAGATAATTTGTGGCATAGCCA
Found at i:26790071 original size:40 final size:40
Alignment explanation
Indices: 26790027--26790290 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
26790017 GCTCCTCGTT
* *
26790027 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
26790067 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
26790107 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
26790147 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
26790187 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
26790226 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
26790267 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
26790291 CAGCATTCAA
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 48 0.24
40 146 0.72
41 8 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:26794754 original size:44 final size:43
Alignment explanation
Indices: 26794628--26794780 Score: 166
Period size: 44 Copynumber: 3.6 Consensus size: 43
26794618 GTCTCAGATG
* * * *
26794628 TGGTCTTACATGTAATCACATATCGATGCCATTGTCCCAGACA
1 TGGTCTTACACGAAATCACATATCGATGCTAATGTCCCAGACA
* * * *
26794671 GGGTCTTACAC-AAA-CTCATATACTATGCTGATGTCCCAGACA
1 TGGTCTTACACGAAATCACATAT-CGATGCTAATGTCCCAGACA
* * * *
26794713 TGGTCTTACACGTAAATCACAAATCGATGCTAACGTTCCAGACG
1 TGGTCTTACACG-AAATCACATATCGATGCTAATGTCCCAGACA
26794757 TGGTCTTACACGAAATCACATATC
1 TGGTCTTACACGAAATCACATATC
26794781 AGAATCCTAT
Statistics
Matches: 89, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 6 0.07
42 28 0.31
43 20 0.22
44 30 0.34
45 5 0.06
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACGAAATCACATATCGATGCTAATGTCCCAGACA
Found at i:26797829 original size:31 final size:31
Alignment explanation
Indices: 26797789--26797871 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
26797779 TCAGTCTCGA
*
26797789 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCAAAAAT
*
26797819 CATATCACTGGGCTGAAGCCTTTTCAAAAAT
1 CATATCACTGGGCCGAAGCCTTTTCAAAAAT
26797850 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
26797872 ACTATAAGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 17 0.35
31 32 0.65
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCAAAAAT
Found at i:26798119 original size:25 final size:25
Alignment explanation
Indices: 26798091--26798160 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
26798081 CTCTTTTAAT
*
26798091 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
26798116 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
26798141 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
26798161 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:26798384 original size:27 final size:28
Alignment explanation
Indices: 26798320--26798385 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
26798310 TAGTCACTTG
*
26798320 CCCACAAGGGTAAAATAGTCATTTAACA
1 CCCACAAGGGTAAAATAGTAATTTAACA
* * * *
26798348 CCC-TAGGGGTAAAATGGTAATTTTAC-
1 CCCACAAGGGTAAAATAGTAATTTAACA
26798374 CCCACAAGGGTA
1 CCCACAAGGGTA
26798386 TCTCGGTAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.10
27 24 0.80
28 3 0.10
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (28 bp):
CCCACAAGGGTAAAATAGTAATTTAACA
Found at i:26798393 original size:27 final size:27
Alignment explanation
Indices: 26798363--26798561 Score: 274
Period size: 27 Copynumber: 7.4 Consensus size: 27
26798353 GGGGTAAAAT
* * * *
26798363 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
26798390 GGTAATTCTACCCTAC-GGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
26798416 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
26798443 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
26798470 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
26798497 GGTAATTCTACCCTATAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
26798524 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
26798551 GATAATTCTAC
1 GGTAATTCTAC
26798562 AAATCGAGAG
Statistics
Matches: 154, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
26 23 0.15
27 131 0.85
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:26798575 original size:81 final size:81
Alignment explanation
Indices: 26798409--26798584 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
26798399 ACCCTACGGG
*
26798409 GTATTTCGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATA
1 GTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATA
** *
26798474 ATTCTACCCTATAGGG
66 ATTCTACCAAATAGGA
* * *
26798490 GTATTTCGGTAATTCTACCCTA-TAGGGTTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
1 GTATTTCGGTAATTCTACCCTACAAGGG-TATTTCGATAATTCTACCCTACAGGGGTATTTCAAT
*
26798554 AATTCTA-CAAATCGAGA
65 AATTCTACCAAATAG-GA
*
26798571 GTATTTCGATAATT
1 GTATTTCGGTAATT
26798585 TCACAAATCA
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
80 8 0.10
81 76 0.90
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
GTATTTCGGTAATTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATA
ATTCTACCAAATAGGA
Found at i:26798576 original size:54 final size:52
Alignment explanation
Indices: 26798365--26798584 Score: 190
Period size: 54 Copynumber: 4.1 Consensus size: 52
26798355 GGTAAAATGG
* * * * * ** * *
26798365 TAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACAAT-CAGGGTATTTCGA
* * ** *
26798418 TATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACAAT-CA-GGGTATTTCGA
* * * *
26798472 TAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTAT-AGGGTTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTA--CAATCAGGG-TATTTCGA
*
26798526 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACAAATCGAGAGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTAC-AATC-AGGGTATTTCGA
26798580 TAATT
1 TAATT
26798585 TCACAAATCA
Statistics
Matches: 139, Mismatches: 21, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
52 1 0.01
53 41 0.29
54 92 0.66
55 3 0.02
56 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (52 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACAATCAGGGTATTTCGA
Found at i:26798601 original size:27 final size:27
Alignment explanation
Indices: 26798539--26798782 Score: 226
Period size: 27 Copynumber: 9.0 Consensus size: 27
26798529 TTCTACCCTA
* * *
26798539 CAGGGGTATTTCGATAATTCTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
* * * *
26798566 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTTGGTAATTTTACAAAT
*
26798593 CAGGGGTATTTTGGTAATTTTAC-AAG
1 CAGGGGTATTTTGGTAATTTTACAAAT
* *
26798619 CTAGGGGTATTTTGTTAATTTTAC-AAG
1 C-AGGGGTATTTTGGTAATTTTACAAAT
26798646 CTAGGGGTATTTTGGTAATTTTACAAA-
1 C-AGGGGTATTTTGGTAATTTTACAAAT
* *
26798673 CTAGGGGTATTTTAGTAATTTTACAAAC
1 C-AGGGGTATTTTGGTAATTTTACAAAT
* **
26798701 CAAGGGTATTTTGGTAATTTTACTGAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
* ** *
26798728 CAAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAT
* * *
26798755 CAAGGGTATTTTAGTAATTTTATAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
26798782 C
1 C
26798783 GAGGTAAAAC
Statistics
Matches: 188, Mismatches: 24, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
26 4 0.02
27 180 0.96
28 4 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:26798603 original size:81 final size:81
Alignment explanation
Indices: 26798434--26798611 Score: 209
Period size: 81 Copynumber: 2.2 Consensus size: 81
26798424 TACCCTACAA
* ** * *
26798434 GGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTATAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCAAATAGGAGTATTTCGA
**
26798499 TAATTCTACCCTATAG
66 TAATTCTACCAAATAG
* * *
26798515 GGTTATTTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTA-CAAATCGAGAGTATTTCG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCAAATAG-GAGTATTTCG
26798579 ATAATT-T-CACAAATCAG
65 ATAATTCTAC-CAAAT-AG
*
26798596 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
26798612 TTACAAGCTA
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.01
80 8 0.10
81 73 0.89
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCAAATAGGAGTATTTCGA
TAATTCTACCAAATAG
Found at i:26798708 original size:81 final size:81
Alignment explanation
Indices: 26798542--26798776 Score: 249
Period size: 81 Copynumber: 2.9 Consensus size: 81
26798532 TACCCTACAG
* * * * * * * * * *
26798542 GGGTATTTCGATAATTCTACAAATCGAGAGTATTTCGATAATTTCACAAA-TCAGGGGTATTTTG
1 GGGTATTTTGGTAATTTTACAGATCAAGGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTA
* * *
26798606 GTAATTTTACAAGCTAG
65 GTAATTTTACAAACCAA
* * *
26798623 GGGTATTTTGTTAATTTTACA-AGCTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA
1 GGGTATTTTGGTAATTTTACAGATC-AAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTA
26798687 GTAATTTTACAAACCAA
65 GTAATTTTACAAACCAA
* ** * *
26798704 GGGTATTTTGGTAATTTTACTGATCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAGATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAG
26798769 TAATTTTA
66 TAATTTTA
26798777 TAAATCGAGG
Statistics
Matches: 129, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
80 2 0.02
81 124 0.96
82 3 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAGATCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAG
TAATTTTACAAACCAA
Found at i:26798876 original size:27 final size:27
Alignment explanation
Indices: 26798542--26798886 Score: 189
Period size: 27 Copynumber: 12.8 Consensus size: 27
26798532 TACCCTACAG
* * * *
26798542 GGGTATTTCGATAATTCTACAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
* * * * *
26798569 GAGTATTTCGATAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTATAAATCGA
* * *
26798595 GGGGTATTTTGGTAATTTTA-CAAGCTA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * * *
26798622 GGGGTATTTTGTTAATTTTA-CAAGCTA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* *
26798649 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* * * *
26798676 GGGGTATTTTAGTAATTTTACAAACCAA
1 -GGGTATTTTGGTAATTTTATAAATCGA
* *
26798704 GGGTATTTTGGTAATTTTACT-GATCAA
1 GGGTATTTTGGTAATTTTA-TAAATCGA
* * *
26798731 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA
*
26798758 GGGTATTTTAGTAATTTTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** * * *
26798785 -GGTAAAACGATAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
**** * *
26798811 GGGTAAAACGATAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*** *
26798838 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTATTTTGGTAATTTTATAAATCGA
*
26798865 GGGTACTTTGGTAATTTTATAA
1 GGGTATTTTGGTAATTTTATAA
26798887 TTTAAGGGCA
Statistics
Matches: 271, Mismatches: 40, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
26 23 0.08
27 244 0.90
28 4 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.37
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCGA
Found at i:26802831 original size:48 final size:48
Alignment explanation
Indices: 26802755--26802875 Score: 152
Period size: 48 Copynumber: 2.5 Consensus size: 48
26802745 GCCATGTCTT
* ** * *
26802755 AGACATGGTCTTACACGAAATCATATATCGATGCCAACACCATATCAT
1 AGACATGGTCTTACATGGGATCACATATCGATGCCAACACCATATCAC
* * * * *
26802803 AGATATGGTCTTACTTGGGATCACATATCGATGCCAATACCATGTCCC
1 AGACATGGTCTTACATGGGATCACATATCGATGCCAACACCATATCAC
26802851 AGACATGGTCTTACATGGGATCACA
1 AGACATGGTCTTACATGGGATCACA
26802876 CATAACCCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (48 bp):
AGACATGGTCTTACATGGGATCACATATCGATGCCAACACCATATCAC
Found at i:26813560 original size:44 final size:42
Alignment explanation
Indices: 26813497--26813653 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 42
26813487 TGAGTTATCG
* * ** *
26813497 TGTAAGACCACGTCTGGGACGTTTTCTTCGAT-TTAAGATTTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATATT-AGATTT-CA
*
26813541 TGTAAGACCATGTCTGGGACATTGGCATCATATTTGATTTCA
1 TGTAAGACCATGTCTGGGACATTGGCATCATATTAGATTTCA
* * * *
26813583 TGTAAGACCCTGTCTGGGACAGTGGCATCGATATTCGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATC-ATATTAGATTTCA
* * *
26813626 TATAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACATTGGCAT
26813654 TGTACAAGCT
Statistics
Matches: 96, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
42 29 0.30
43 41 0.43
44 26 0.27
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATATTAGATTTCA
Found at i:26813597 original size:42 final size:43
Alignment explanation
Indices: 26813533--26813653 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
26813523 TTCGATTTAA
* *
26813533 GATTTACATGTAAGACCATGTCTGGGACATTGGCATC-ATATTT
1 GATTT-CATGTAAGACCCTGTCTGGGACATTGGCATCGATATTC
*
26813576 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCGATATTC
1 GATTTCATGTAAGACCCTGTCTGGGACATTGGCATCGATATTC
* * *
26813619 GATTACATATAAGACCAC-GTCTGGGACGTTGGCAT
1 GATTTCATGTAAGACC-CTGTCTGGGACATTGGCAT
26813654 TGTACAAGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 29 0.42
43 39 0.57
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTTCATGTAAGACCCTGTCTGGGACATTGGCATCGATATTC
Found at i:26813860 original size:21 final size:21
Alignment explanation
Indices: 26813836--26813875 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
26813826 AAGTATGAGA
26813836 AAATATGCT-ATATGTGAAAAT
1 AAAT-TGCTAATATGTGAAAAT
*
26813857 AAATTGGTAATATGTGAAA
1 AAATTGCTAATATGTGAAA
26813876 TGTATATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (21 bp):
AAATTGCTAATATGTGAAAAT
Found at i:26814797 original size:28 final size:29
Alignment explanation
Indices: 26814754--26814839 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
26814744 TACATACTTA
* *
26814754 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
26814782 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* * *
26814811 CATACGGCCCATCAGGCCCGAATCA-ATT
1 CATATGGCCCATTAGGCCCAAATCACATT
26814839 C
1 C
26814840 CAAGCCATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
28 22 0.42
29 30 0.58
ACGTcount: A:0.28, C:0.35, G:0.15, T:0.22
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:26817642 original size:33 final size:33
Alignment explanation
Indices: 26817605--26817670 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
26817595 GAGGAAAGGC
*
26817605 CTTATTACACCCCAAATATAAAATAATAATTTA
1 CTTATTACACCCCAAATAAAAAATAATAATTTA
26817638 CTTATTACACCCCAAATAAAAAATAATAATTTA
1 CTTATTACACCCCAAATAAAAAATAATAATTTA
26817671 AAATCAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (33 bp):
CTTATTACACCCCAAATAAAAAATAATAATTTA
Found at i:26818674 original size:28 final size:29
Alignment explanation
Indices: 26818637--26818727 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
26818627 AAGTCTACAT
*
26818637 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
26818665 TCATTCATATGGCCCATTATGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
26818694 ACATTCATATGGCCCATCT-GGCCCTAATC
1 ACATTCATATGGCCCA-CTAGGCCCAAATC
26818723 A-ATTC
1 ACATTC
26818728 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.45
29 28 0.53
30 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:26833496 original size:28 final size:28
Alignment explanation
Indices: 26833433--26833530 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
26833423 ATATTAAGTC
*
26833433 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
26833460 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
26833488 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
26833517 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26833531 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:26839115 original size:40 final size:40
Alignment explanation
Indices: 26839017--26839318 Score: 371
Period size: 40 Copynumber: 7.6 Consensus size: 40
26839007 TCCTCGTTCA
* * * ** *
26839017 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
26839056 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
26839096 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
26839136 AATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
26839175 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
26839215 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
26839255 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
26839295 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
26839319 CAGCATTCAA
Statistics
Matches: 237, Mismatches: 20, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
39 76 0.32
40 153 0.65
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:26839118 original size:79 final size:80
Alignment explanation
Indices: 26839017--26839318 Score: 378
Period size: 79 Copynumber: 3.8 Consensus size: 80
26839007 TCCTCGTTCA
* * * * *
26839017 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
26839081 TTAACAACTCGCACG
66 TTAACAACTCGCACG
* *
26839096 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTC-GGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
26839160 TTAACAACTCGCACG
66 TTAACAACTCGCACG
*
26839175 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
** * *
26839240 TTAGTATCTCGCACA
66 TTAACAACTCGCACG
* * * * * * * *
26839255 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACGAATGCCTTCGGGACTTAACCCGG
26839318 A
64 A
26839319 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 113 0.57
80 82 0.41
81 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCACG
Found at i:26839194 original size:119 final size:118
Alignment explanation
Indices: 26839015--26839318 Score: 385
Period size: 119 Copynumber: 2.5 Consensus size: 118
26839005 GCTCCTCGTT
* * * ** * *
26839015 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
26839080 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
65 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
26839134 CGAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGGA
* ** *
26839199 TTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
65 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * * *
26839253 CAAAGGCCTTCGGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCCG
26839317 GA
63 GA
26839319 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
118 23 0.14
119 95 0.59
120 37 0.23
121 6 0.04
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (118 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGAT
TTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:26841956 original size:13 final size:13
Alignment explanation
Indices: 26841938--26841965 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26841928 GCGTGTAGGT
26841938 TCACACGACCGTG
1 TCACACGACCGTG
26841951 TCACACGACCGTG
1 TCACACGACCGTG
26841964 TC
1 TC
26841966 TAGCTTCGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.21, T:0.18
Consensus pattern (13 bp):
TCACACGACCGTG
Found at i:26847239 original size:10 final size:11
Alignment explanation
Indices: 26847211--26847241 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
26847201 AAACACAGAA
26847211 AATAATTTTTT
1 AATAATTTTTT
26847222 AATAATTTTTT
1 AATAATTTTTT
26847233 AAT-ATTTTT
1 AATAATTTTT
26847242 CTAACTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.30
11 14 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
AATAATTTTTT
Found at i:26851330 original size:19 final size:20
Alignment explanation
Indices: 26851306--26851343 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
26851296 GGTACCACCA
26851306 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
26851325 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
26851344 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:26851759 original size:46 final size:45
Alignment explanation
Indices: 26851568--26851751 Score: 169
Period size: 46 Copynumber: 4.0 Consensus size: 45
26851558 AACCCGCCCC
* * *
26851568 TAAGTGAACTCGGACTCAACTCAACGAGCTCCGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGCATTCTCAACCA
* * ** * *
26851614 TAAATGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTTACATC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GCATTCTCA-ACCA
* * *
26851662 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCT-CAACCA
26851707 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATTCTCAACCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCTCAACCA
26851751 T
1 T
26851752 CCTAGTGACA
Statistics
Matches: 110, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
44 12 0.11
45 8 0.07
46 57 0.52
47 26 0.24
48 6 0.05
49 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCTCAACCA
Found at i:26852197 original size:30 final size:30
Alignment explanation
Indices: 26852163--26852222 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
26852153 ATTTAATACG
26852163 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
26852193 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
26852223 GGCTCAAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:26857888 original size:19 final size:20
Alignment explanation
Indices: 26857851--26857888 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
26857841 ATAAGGTGGT
26857851 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
26857871 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
26857889 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:26858125 original size:93 final size:93
Alignment explanation
Indices: 26857966--26858136 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
26857956 GCCCCTAAGT
* * *
26857966 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCAGACTCAACTCAA
*
26858031 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGACTTCGGATGCCTAGTTACATCTCAC
* ** *
26858059 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCAGACTCAACTCAA
26858124 CGACTTCGGATGC
66 CGACTTCGGATGC
26858137 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAATGAACTCAGACTCAACTCAA
CGACTTCGGATGCCTAGTTACATCTCAC
Found at i:26858133 original size:46 final size:46
Alignment explanation
Indices: 26857961--26858133 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
26857951 AACCCGCCCC
* * *
26857961 TAAGTGAACTCGGACTCAACTCAACGAGC-TCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGA-CTTCGGACATTTACATCCA
* * *
26858007 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGACTTCGGA---C-ATTTACATCCA
* * * *
26858055 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGACTTCGGACATTTACATCCA
*
26858100 TAAGTGAACTCAGACTCAACTCAACGACTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGACTTCGGA
26858134 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.54
47 29 0.28
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGACTTCGGACATTTACATCCA
Found at i:26861599 original size:14 final size:14
Alignment explanation
Indices: 26861580--26861613 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
26861570 CACGCCTGTA
*
26861580 TGTCTATGCCCATG
1 TGTCTAAGCCCATG
*
26861594 TGTCTAAGCCCGTG
1 TGTCTAAGCCCATG
26861608 TGTCTA
1 TGTCTA
26861614 CATGGCCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (14 bp):
TGTCTAAGCCCATG
Found at i:26868115 original size:40 final size:40
Alignment explanation
Indices: 26868032--26868123 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
26868022 TCGGTATCGC
* *
26868032 ACACTTAGTGCCTTATGTAGCCGAAGCTATTCCAACTCTT
1 ACACTTAGTGCCTTATGTAGCCAAAGCTATTCCAACTCGT
* **
26868072 ACACTTAGTTCCATT-TGTAGCCAAAGCTATTTTGAAC-CGT
1 ACACTTAGTGCC-TTATGTAGCCAAAGCTA-TTCCAACTCGT
26868112 ACACTTAGTGCC
1 ACACTTAGTGCC
26868124 AAACATAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
40 37 0.84
41 7 0.16
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (40 bp):
ACACTTAGTGCCTTATGTAGCCAAAGCTATTCCAACTCGT
Found at i:26877828 original size:15 final size:16
Alignment explanation
Indices: 26877810--26877839 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26877800 ATGGAAACTA
26877810 TGATAT-ATGAAATAT
1 TGATATAATGAAATAT
26877825 TGATATAATGAAATA
1 TGATATAATGAAATA
26877840 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (16 bp):
TGATATAATGAAATAT
Found at i:26881824 original size:40 final size:40
Alignment explanation
Indices: 26881764--26882008 Score: 224
Period size: 40 Copynumber: 6.2 Consensus size: 40
26881754 GATGATAACT
*
26881764 GGGCTAAGTCCC-AAGAGCATTTGAGCTAGTGGCTAAT-TCC
1 GGGCTAAGTCCCGAAG-GCATTTGAGCGAGT-GCTAATATCC
* * *
26881804 GGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TGCTAATATCC
* *
26881844 GGGCTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGCTA--ATATCC
* *
26881884 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTATACC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGCTAATAT-CC
* * *
26881923 GGGCTAAGTCCCGAAGGCATTTGTA-CAAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTG-AGCGAG-TGCTAATATCC
*
26881963 GGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT-GCTAATATCC
26882003 -GGCTAA
1 GGGCTAA
26882009 ACTCCGAAGG
Statistics
Matches: 174, Mismatches: 16, Indels: 31
0.79 0.07 0.14
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 38 0.22
40 124 0.71
41 6 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGAGCGAGTGCTAATATCC
Found at i:26881966 original size:79 final size:80
Alignment explanation
Indices: 26881802--26881985 Score: 280
Period size: 79 Copynumber: 2.3 Consensus size: 80
26881792 GTGGCTAATT
* *
26881802 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * * *
26881867 TGCGAGCTATTATAT
66 TACAAGCTACTATAA
* *
26881882 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
26881946 TACAAGTTACTATAA
66 TACAAGCTACTATAA
26881961 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
26881986 AGCTAGTGGC
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 59 0.62
80 36 0.38
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TACAAGCTACTATAA
Found at i:26882018 original size:79 final size:79
Alignment explanation
Indices: 26881802--26882008 Score: 274
Period size: 79 Copynumber: 2.6 Consensus size: 79
26881792 GTGGCTAATT
* *
26881802 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * * *
26881867 TGCGAGCTATTATAT
65 TACAAGCTACTATAA
*
26881882 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
26881946 TACAAGTTACTATAA
65 TACAAGCTACTATAA
* * *
26881961 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
26882009 ACTCCGAAGG
Statistics
Matches: 112, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
78 1 0.01
79 73 0.65
80 38 0.34
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
ACAAGCTACTATAA
Found at i:26886232 original size:14 final size:15
Alignment explanation
Indices: 26886213--26886241 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26886203 GATCTAGATG
26886213 TTTAAA-AATTGAAA
1 TTTAAATAATTGAAA
26886227 TTTAAATAATTGAAA
1 TTTAAATAATTGAAA
26886242 ACCATCTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (15 bp):
TTTAAATAATTGAAA
Found at i:26888118 original size:29 final size:29
Alignment explanation
Indices: 26888042--26888111 Score: 113
Period size: 29 Copynumber: 2.4 Consensus size: 29
26888032 AATCGTATTC
* * *
26888042 ATATGGCCCACTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATCT
26888071 ATATGGCCCATTAGGCCCAAATCACATCT
1 ATATGGCCCATTAGGCCCAAATCACATCT
26888100 ATATGGCCCATT
1 ATATGGCCCATT
26888112 CAGCCCAGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATCT
Found at i:26897999 original size:39 final size:40
Alignment explanation
Indices: 26897954--26898125 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
26897944 GCTCCTCGTT
* * *
26897954 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
26897994 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
26898033 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
26898073 CAAACGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
26898113 CAAATGCCTTCGG
1 CAAATGCCTTCGG
26898126 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:26898054 original size:40 final size:39
Alignment explanation
Indices: 26897956--26898178 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
26897946 TCCTCGTTCA
* * * *
26897956 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
26897995 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
26898034 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
26898074 AAACGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
26898114 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
26898155 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
26898179 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:26898138 original size:80 final size:79
Alignment explanation
Indices: 26897954--26898178 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
26897944 GCTCCTCGTT
* * * * *
26897954 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
26898018 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
26898033 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAACGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
26898098 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
26898113 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
26898177 GA
63 GA
26898179 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:26898187 original size:41 final size:41
Alignment explanation
Indices: 26898110--26898187 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
26898100 TTTGTATCTC
* * *
26898110 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
26898151 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
26898188 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:26905193 original size:39 final size:40
Alignment explanation
Indices: 26905148--26905319 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
26905138 GCTCCTCGTT
* * *
26905148 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
26905188 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
26905227 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
26905267 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
26905307 CAAATGCCTTCGG
1 CAAATGCCTTCGG
26905320 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:26905248 original size:40 final size:39
Alignment explanation
Indices: 26905150--26905372 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
26905140 TCCTCGTTCA
* * * *
26905150 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
26905189 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
26905228 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
26905268 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
26905308 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
26905349 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
26905373 CAGCATTTAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:26905332 original size:80 final size:79
Alignment explanation
Indices: 26905148--26905372 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
26905138 GCTCCTCGTT
* * * * *
26905148 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
26905212 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
26905227 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
26905292 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
26905307 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
26905371 GA
63 GA
26905373 CAGCATTTAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:26911716 original size:180 final size:180
Alignment explanation
Indices: 26911476--26911801 Score: 485
Period size: 180 Copynumber: 1.8 Consensus size: 180
26911466 ACTTTCTCAG
* * * * *
26911476 AAACTAGACTCACATATATTCTTACCATAAAATTTTTAGAATTTTTTGTTTAGCCAATTAGTATA
1 AAACTAGACTCACATATATTCTTACAATAAAATTTTCAGAATTTTTGGTATAGCCAATTAGTACA
* * *
26911541 GTTTTTTCATTAAAGT-TACCCCTATTTCATTGTCCAACAATTCCGAT-ATTTCTTCACTAACAA
66 GTTTATTCATTAAA-TATACCCCTATTTCACTGTCCAACAATTCCGATCA-TTCTTCACTAAAAA
*
26911604 TTATTTATCTCATGGTACGGGACTCCAAATTAAGAACCACTAATTTTCCCAA
129 TTATTCATCTCATGGTACGGGACTCCAAATTAAGAACCACTAATTTTCCCAA
26911656 AAACTAGACTCACATATATTCTTACAATAAAATTTTCAGAATTTTTGGTATAGCCAATTAGTACA
1 AAACTAGACTCACATATATTCTTACAATAAAATTTTCAGAATTTTTGGTATAGCCAATTAGTACA
* * * * * *
26911721 GTTTATTCATTAAATATACCCTTGTTTCACTGTCCTATAGTTCTGATCATTCTTCACTAAAAATT
66 GTTTATTCATTAAATATACCCCTATTTCACTGTCCAACAATTCCGATCATTCTTCACTAAAAATT
26911786 ATTCATCTCATGGTAC
131 ATTCATCTCATGGTAC
26911802 AGATCTCGGA
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
179 1 0.01
180 127 0.98
181 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.39
Consensus pattern (180 bp):
AAACTAGACTCACATATATTCTTACAATAAAATTTTCAGAATTTTTGGTATAGCCAATTAGTACA
GTTTATTCATTAAATATACCCCTATTTCACTGTCCAACAATTCCGATCATTCTTCACTAAAAATT
ATTCATCTCATGGTACGGGACTCCAAATTAAGAACCACTAATTTTCCCAA
Found at i:26912457 original size:49 final size:50
Alignment explanation
Indices: 26912369--26912501 Score: 223
Period size: 49 Copynumber: 2.7 Consensus size: 50
26912359 CTCTGGTATG
* *
26912369 CGTAGTAGCCTGCACTTAGTACTACACATGCGACGTATCAATCTGGAACA
1 CGTAGTAGCCTGCACTTAGTACTACACACGTGACGTATCAATCTGGAACA
* *
26912419 CGTAGTAGCCTGCA-TTAGTACTACACACGTGACTTATCAATCTGGTACA
1 CGTAGTAGCCTGCACTTAGTACTACACACGTGACGTATCAATCTGGAACA
26912468 CGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 CGTAGTAGCCTGCACTTAGTACTACACACGTGAC
26912502 CTAACCATCT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
49 45 0.58
50 33 0.42
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (50 bp):
CGTAGTAGCCTGCACTTAGTACTACACACGTGACGTATCAATCTGGAACA
Found at i:26912512 original size:50 final size:50
Alignment explanation
Indices: 26912360--26912524 Score: 224
Period size: 50 Copynumber: 3.3 Consensus size: 50
26912350 ACCGAAGCTC
** * * *
26912360 TCTGGTATGCGTAGTAGCCTGCACTTAGTACTACACATGCGACGTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* *
26912410 TCTGGAACACGTAGTAGCCTGCA-TTAGTACTACACACGTGACTTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* *
26912459 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* *
26912509 TCTGATACACTTAGTA
1 TCTGGTACACGTAGTA
26912525 CTACACACAT
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 45 0.44
50 57 0.56
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:26914438 original size:40 final size:41
Alignment explanation
Indices: 26914303--26914488 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
26914293 TACTCGAATG
*
26914303 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
26914344 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
26914385 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
26914425 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
26914465 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
26914489 CTTGTGCGAG
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.47
41 69 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:26914445 original size:81 final size:82
Alignment explanation
Indices: 26914305--26914458 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
26914295 CTCGAATGAT
* * *
26914305 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
26914370 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
26914387 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
26914450 TTTATGCTA
65 TTTATGCTA
26914459 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:26922367 original size:180 final size:181
Alignment explanation
Indices: 26922089--26922452 Score: 545
Period size: 180 Copynumber: 2.0 Consensus size: 181
26922079 TATCTGGAGC
* * * * *
26922089 TACGGAACTCCAAATTAATATCTGTTAATTTTTCCCAGAAACTAGATTCACATATATTCTTACCA
1 TACGGAACTCCAAATTAAGAACCGCTAATTTTTCCCAGAAACTAGACTCACATATATTCTTACCA
* * * *
26922154 TAAAATTTTTAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAAGT-TACCTCTATT
66 TAAAATGTTAAGAATTTTTGGTTTAGCCAATTAGTACAGCTTATTCATTAAA-TATACCCCTATT
** * *
26922218 TCACTGTCCGACAGTTCCTATCTTTCTTCACTAAAAATTC-TTTATCTCATGG
130 TCACTACCCAACAGTTCCGATCTTTCTTCACTAAAAA-TCATTTATCTCATGG
*
26922270 TACGGGACTCCAAATTAAGAACCGCTAA-TTTTCCCAGAAACTAGACTCACATATATTCTTACCA
1 TACGGAACTCCAAATTAAGAACCGCTAATTTTTCCCAGAAACTAGACTCACATATATTCTTACCA
*
26922334 TAAAATGTTAAGAATTTTTGGTTTAGCCAATTAGTACCGCTTATTCATTAAATATACCCCTATTT
66 TAAAATGTTAAGAATTTTTGGTTTAGCCAATTAGTACAGCTTATTCATTAAATATACCCCTATTT
*
26922399 CACTACCCAACAGTTTCGATCTTTCTTCACTAAAAATCATTTATCTCATGG
131 CACTACCCAACAGTTCCGATCTTTCTTCACTAAAAATCATTTATCTCATGG
26922450 TAC
1 TAC
26922453 AGATCTCGGA
Statistics
Matches: 165, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
179 3 0.02
180 139 0.84
181 23 0.14
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.38
Consensus pattern (181 bp):
TACGGAACTCCAAATTAAGAACCGCTAATTTTTCCCAGAAACTAGACTCACATATATTCTTACCA
TAAAATGTTAAGAATTTTTGGTTTAGCCAATTAGTACAGCTTATTCATTAAATATACCCCTATTT
CACTACCCAACAGTTCCGATCTTTCTTCACTAAAAATCATTTATCTCATGG
Found at i:26923655 original size:21 final size:21
Alignment explanation
Indices: 26923629--26923671 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
26923619 GAAATATTAT
26923629 TTACATACAAACTTACCTCGG
1 TTACATACAAACTTACCTCGG
26923650 TTACATACAAACTTACCTCGG
1 TTACATACAAACTTACCTCGG
26923671 T
1 T
26923672 GCAAAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (21 bp):
TTACATACAAACTTACCTCGG
Found at i:26931498 original size:40 final size:40
Alignment explanation
Indices: 26931449--26931540 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
26931439 TCTCGGTATT
* *
26931449 GCACACTTAGTGCC-TTATATAGCCGAAGCTA-TTCCAACAC
1 GCACACTTAGTGCCATT-TATAGCCAAAGCAATTTCCAAC-C
* *
26931489 GCACACTTAGTGCCATTTGTAGCCAAAGCAATTTCGAACC
1 GCACACTTAGTGCCATTTATAGCCAAAGCAATTTCCAACC
26931529 GCACACTTAGTG
1 GCACACTTAGTG
26931541 TCGAACATAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
40 38 0.83
41 8 0.17
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (40 bp):
GCACACTTAGTGCCATTTATAGCCAAAGCAATTTCCAACC
Found at i:26934160 original size:35 final size:34
Alignment explanation
Indices: 26934115--26934351 Score: 133
Period size: 35 Copynumber: 6.7 Consensus size: 34
26934105 CTCCCTAATT
*
26934115 ATTTCGTCAGTTTATCCGACTAGCGCT-GAGCACA
1 ATTTCATCAGTTTATCCGACTAGCGCTAG-GCACA
** * * *
26934149 ATTTCCATCAGTTTATCTAACTAGTGTTGGGCACA
1 ATTT-CATCAGTTTATCCGACTAGCGCTAGGCACA
* * *
26934184 CA-TTC-GCTAGTTTGTCCAACTAGCGCT-GAGCACAA
1 -ATTTCATC-AGTTTATCCGACTAGCGCTAG-GCAC-A
* ** * *
26934219 ATATCATTGGTTTATCCAACTAGAGCTAGGCTTACCAA
1 ATTTCATCAGTTTATCCGACTAGCGCTAGGC--A-C-A
** *
26934257 TTATTTCATCAGTTTATCCGACTAGTACTAGGCGCA
1 --ATTTCATCAGTTTATCCGACTAGCGCTAGGCACA
* * *
26934293 ACTTTCATCAGTATATCTGACTAGTGCTAGGCACA
1 A-TTTCATCAGTTTATCCGACTAGCGCTAGGCACA
26934328 TATTT-ATCAGTTTATCCGACTAGC
1 -ATTTCATCAGTTTATCCGACTAGC
26934352 ATTGGGTGCA
Statistics
Matches: 157, Mismatches: 30, Indels: 32
0.72 0.14 0.15
Matches are distributed among these distances:
33 2 0.01
34 42 0.27
35 78 0.50
36 5 0.03
37 2 0.01
38 3 0.02
40 25 0.16
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (34 bp):
ATTTCATCAGTTTATCCGACTAGCGCTAGGCACA
Found at i:26934318 original size:144 final size:144
Alignment explanation
Indices: 26934058--26934327 Score: 366
Period size: 144 Copynumber: 1.9 Consensus size: 144
26934048 AATTCGTTCC
* * * * *
26934058 ACTAGCACTGGGCACAAATACCATTTGTTTATCCAACTAGAGCTGGGCTCCCTAATTATTTCGTC
1 ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGCTACCTAATTATTTCATC
* * * *
26934123 AGTTTATCCGACTAGCGCTGAGCACAATTTCCATCAGTTTATCTAACTAGTGTTGGGCACACATT
66 AGTTTATCCGACTAGCACTGAGCACAATTTCCATCAGTATATCTAACTAGTGCTAGGCACACATT
26934188 CGCTAGTTTGTCCA
131 CGCTAGTTTGTCCA
* *
26934202 ACTAGCGCTGAGCACAAATATCATTGGTTTATCCAACTAGAGCTAGGCTTACC-AATTATTTCAT
1 ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGC-TACCTAATTATTTCAT
* * *
26934266 CAGTTTATCCGACTAGTACT-AGGCGCAACTTT-CATCAGTATATCTGACTAGTGCTAGGCACA
65 CAGTTTATCCGACTAGCACTGA-GCACAA-TTTCCATCAGTATATCTAACTAGTGCTAGGCACA
26934328 TATTTATCAG
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
143 1 0.01
144 102 0.94
145 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (144 bp):
ACTAGCACTGAGCACAAATACCATTGGTTTATCCAACTAGAGCTAGGCTACCTAATTATTTCATC
AGTTTATCCGACTAGCACTGAGCACAATTTCCATCAGTATATCTAACTAGTGCTAGGCACACATT
CGCTAGTTTGTCCA
Found at i:26936568 original size:47 final size:47
Alignment explanation
Indices: 26936470--26936597 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
26936460 AATCAATAAG
** * * ** *
26936470 TACCTATACCATGGCCTGTAGCCAAATCAATGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
* *
26936517 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCCTCTCAAAA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
* * *
26936564 TACCTATATCATGGTCCATTGCCAAATCAAGGTA
1 TACCTATACCATGGCCCATAGCCAAATCAAGGTA
26936598 TTATTCGCAC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (47 bp):
TACCTATACCATGGCCCATAGCCAAATCAAGGTAACTCATCCCAAAA
Found at i:26939245 original size:40 final size:40
Alignment explanation
Indices: 26939155--26939375 Score: 171
Period size: 40 Copynumber: 5.5 Consensus size: 40
26939145 ACCCAAGTAT
* * ** * *
26939155 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * * *
26939193 CTTCGGGTCTTAGCCCGGATATGGTCACTATCATAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
26939233 CTTCGAGACTTAGCCTGGATATAGTCGCCAGCACAAATGC
1 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * *
26939273 CTTC-AGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGA-GACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
26939313 CTTCG-GATCTTAGTCCGGATATAGTCACTTAGCACAAAAGT
1 CTTCGAGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* *
26939354 GTTCGGGACTTAGCCCGGATAT
1 CTTCGAGACTTAGCCCGGATAT
26939376 CATTCGAATA
Statistics
Matches: 141, Mismatches: 35, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
38 11 0.08
39 16 0.11
40 86 0.61
41 26 0.18
42 2 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:26939291 original size:80 final size:80
Alignment explanation
Indices: 26939191--26939375 Score: 194
Period size: 80 Copynumber: 2.3 Consensus size: 80
26939181 CTCGCACAAG
* * * * *
26939191 GCCTTCGGGTCTTAGCCCGGATATGGTCACTATCATAAATGCCTTCGAGA-CTTAG-CCTGGATA
1 GCCTTCAGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCG-GATCTTAGTCC-GGATA
26939254 TAGTCGCCAGCACAAAT
64 TAGTCGCCAGCACAAAT
* * *
26939271 GCCTTCAGGTTTTGGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATA
1 GCCTTCAGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATA
* * *
26939336 GTCACTTAGCACAAAA
66 GTCGC-CAGCACAAAT
** * *
26939352 GTGTTCGGGACTTAGCCCGGATAT
1 GCCTTCAGGTCTTAGCCCGGATAT
26939376 CATTCGAATA
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.02
80 55 0.65
81 28 0.33
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (80 bp):
GCCTTCAGGTCTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATA
GTCGCCAGCACAAAT
Found at i:26947319 original size:40 final size:40
Alignment explanation
Indices: 26947236--26947456 Score: 232
Period size: 40 Copynumber: 5.5 Consensus size: 40
26947226 TCCCAAGTAT
** * *
26947236 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
26947274 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
26947314 CTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAACGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
26947354 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
26947394 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
* *
26947435 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGTCTTAGCCCGGATAT
26947457 CATTCGAATA
Statistics
Matches: 148, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 93 0.63
41 28 0.19
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:26954342 original size:34 final size:34
Alignment explanation
Indices: 26954304--26954382 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
26954294 ATATCAGTTC
* * *
26954304 GGCCTTAGCCTATTTCAGTAATAGTAGCAGTCTG
1 GGCCTAAGCCCATTCCAGTAATAGTAGCAGTCTG
* * *
26954338 GGCCTGAGCCCGTTCCAGTAATAGTAGTAGTCTG
1 GGCCTAAGCCCATTCCAGTAATAGTAGCAGTCTG
26954372 GGCCTAAGCCC
1 GGCCTAAGCCC
26954383 GTTTAACATT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.27
Consensus pattern (34 bp):
GGCCTAAGCCCATTCCAGTAATAGTAGCAGTCTG
Found at i:26954383 original size:34 final size:34
Alignment explanation
Indices: 26954319--26954385 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
26954309 TAGCCTATTT
*
26954319 CAGTAATAGTAGCAGTCTGGGCCTGAGCCCGTTC
1 CAGTAATAGTAGCAGTCTGGGCCTAAGCCCGTTC
*
26954353 CAGTAATAGTAGTAGTCTGGGCCTAAGCCCGTT
1 CAGTAATAGTAGCAGTCTGGGCCTAAGCCCGTT
26954386 TAACATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (34 bp):
CAGTAATAGTAGCAGTCTGGGCCTAAGCCCGTTC
Found at i:26961246 original size:34 final size:34
Alignment explanation
Indices: 26961208--26961290 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
26961198 ATATCAGTTA
* *
26961208 GGCCTTAGCCTATTTCAGTAATAGTAGCAGTCTG
1 GGCCTAAGCCCATTTCAGTAATAGTAGCAGTCTG
* * *
26961242 GGCCTAAGCCCGTTCCAGTAATAGTAGCAGTCTT
1 GGCCTAAGCCCATTTCAGTAATAGTAGCAGTCTG
26961276 GGCCTAAGCCCATTT
1 GGCCTAAGCCCATTT
26961291 AACATTCCAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (34 bp):
GGCCTAAGCCCATTTCAGTAATAGTAGCAGTCTG
Found at i:26966712 original size:28 final size:28
Alignment explanation
Indices: 26966674--26966883 Score: 350
Period size: 28 Copynumber: 7.5 Consensus size: 28
26966664 TAAATTGTAC
26966674 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
26966702 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
26966730 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
**
26966758 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
26966786 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
26966814 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
26966842 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
26966869 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
26966884 GACTTAATAT
Statistics
Matches: 177, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
27 24 0.14
28 153 0.86
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:26974931 original size:27 final size:26
Alignment explanation
Indices: 26974893--26974943 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
26974883 TAAATTGTAC
26974893 AGCACTAAGTGTGCGAGTTGATTATGT
1 AGCACTAAGTGTGCGA-TTGATTATGT
26974920 AGCACTAAGTGTGCGATTGATTAT
1 AGCACTAAGTGTGCGATTGATTAT
26974944 ATTGCATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGATTATGT
Found at i:26974990 original size:28 final size:28
Alignment explanation
Indices: 26974950--26975085 Score: 211
Period size: 28 Copynumber: 4.9 Consensus size: 28
26974940 TTATATTGCA
26974950 TTGATTATGTAGCACTAAGTGTGCGAAT
1 TTGATTATGTAGCACTAAGTGTGCGAAT
*
26974978 TTGATTATGTAGCACTAAGTGTGCGAGT
1 TTGATTATGTAGCACTAAGTGTGCGAAT
*
26975006 TTGATTATGTAGCACTAAGTGTGCGAGT
1 TTGATTATGTAGCACTAAGTGTGCGAAT
* *
26975034 TTGATTATATAGCACTAAGTGTGCG-AG
1 TTGATTATGTAGCACTAAGTGTGCGAAT
* *
26975061 TTGATTATATAGCACTGAGTGTGCG
1 TTGATTATGTAGCACTAAGTGTGCG
26975086 GACTTAATAT
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.23
28 79 0.77
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.35
Consensus pattern (28 bp):
TTGATTATGTAGCACTAAGTGTGCGAAT
Found at i:26983130 original size:28 final size:28
Alignment explanation
Indices: 26983092--26983273 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
26983082 TAAATTGTAC
*
26983092 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
26983120 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
26983148 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
26983176 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
26983204 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
26983232 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
26983259 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
26983274 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:26991359 original size:28 final size:28
Alignment explanation
Indices: 26991321--26991530 Score: 350
Period size: 28 Copynumber: 7.5 Consensus size: 28
26991311 TAAATTGTAC
26991321 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
26991349 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
26991377 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
**
26991405 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
26991433 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
* *
26991461 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
26991489 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
26991516 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
26991531 GACTTAATAT
Statistics
Matches: 177, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
27 24 0.14
28 153 0.86
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:27004859 original size:14 final size:14
Alignment explanation
Indices: 27004840--27004872 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
27004830 ATTCACTATA
27004840 AATTAACCAGAGAT
1 AATTAACCAGAGAT
27004854 AATTAACCAGAGAT
1 AATTAACCAGAGAT
27004868 AATTA
1 AATTA
27004873 GAAACAAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (14 bp):
AATTAACCAGAGAT
Found at i:27011773 original size:40 final size:40
Alignment explanation
Indices: 27011690--27011905 Score: 309
Period size: 39 Copynumber: 5.5 Consensus size: 40
27011680 CGGATGATAA
* *
27011690 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
27011730 CC-GGCTAAGTCCCGAAGGCTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTTGTGCGAGTTACTATAT
27011770 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
27011810 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
27011849 CCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
27011888 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27011906 TACTTGGTTG
Statistics
Matches: 164, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
38 9 0.05
39 86 0.52
40 51 0.31
41 18 0.11
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:27011825 original size:80 final size:79
Alignment explanation
Indices: 27011686--27011905 Score: 322
Period size: 80 Copynumber: 2.8 Consensus size: 79
27011676 TATTCGGATG
* *
27011686 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGCTAAGTCCCGAAGGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGCTAAGTCCCGAAGGC-
27011750 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
*
27011766 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC-GGCTAAGTCCCGAAGGCA
27011830 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* * *
27011845 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCGAG-TAGCTATGTCCGGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGCTAAGTCCCGAAGG
27011906 TACTTGGTTG
Statistics
Matches: 129, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
77 9 0.07
78 32 0.25
79 30 0.23
80 49 0.38
81 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:27028161 original size:93 final size:93
Alignment explanation
Indices: 27028030--27028201 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
27028020 ACCCATAAGT
* * * *
27028030 GAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGAGTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27028095 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* * *
27028123 GAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
27028188 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
27028202 CAAACATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAAAGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:27028194 original size:46 final size:46
Alignment explanation
Indices: 27028022--27028191 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
27028012 TGTAACCCAC
* * * * *
27028022 CCATAAGTGAACTCGGACTCAACTCAAAGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
* * *
27028068 CCATAAGTGAACTCGGAGTCAACTCAACGAGCTCAGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGA---C-ATTTGCAT
* *
27028118 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
27028161 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
27028192 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 56 0.55
47 27 0.27
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGACATTTGCAT
Found at i:27028216 original size:46 final size:46
Alignment explanation
Indices: 27028073--27028216 Score: 134
Period size: 46 Copynumber: 3.1 Consensus size: 46
27028063 CGCATCCATA
* *
27028073 AGTGAACTCGGAGTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTA--TACATC-CT
* * * *
27028122 --CGAACTCGGACTCAACTCAACGAGTTCAGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTATACATCC-T
* * *
27028165 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTATACATCCT
27028212 AGTGA
1 AGTGA
27028217 CATGTCACTT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 33 0.43
47 28 0.37
48 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTATACATCCT
Found at i:27031250 original size:28 final size:28
Alignment explanation
Indices: 27031182--27031391 Score: 316
Period size: 28 Copynumber: 7.5 Consensus size: 28
27031172 CATGAGATTG
* * *
27031182 GCACTAAGTGTGCGGGTTTAAAT-TGTACA
1 GCACTAAGTGTGCGAGTTTGATTATGT--A
27031211 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
27031239 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
27031267 GCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
27031295 GCACTAAGTGTGCGAGCTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
27031323 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
27031351 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATGTA
*
27031378 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
27031392 GACTTAACAT
Statistics
Matches: 173, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
27 24 0.14
28 126 0.73
29 20 0.12
30 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATGTA
Found at i:27039435 original size:28 final size:28
Alignment explanation
Indices: 27039378--27039557 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
27039368 TAAATTGTGC
*
27039378 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
27039405 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
27039433 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
27039461 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
27039488 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
27039516 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
27039543 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27039558 GACTTATTAT
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 67 0.46
28 80 0.54
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:27039441 original size:55 final size:55
Alignment explanation
Indices: 27039378--27039557 Score: 290
Period size: 55 Copynumber: 3.3 Consensus size: 55
27039368 TAAATTGTGC
*
27039378 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
27039433 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * *
27039488 AGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
27039543 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27039558 GACTTATTAT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
55 91 0.77
56 27 0.23
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:27039519 original size:83 final size:82
Alignment explanation
Indices: 27039378--27039557 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
27039368 TAAATTGTGC
*
27039378 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
*
27039443 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* *
27039461 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
*
27039526 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
27039543 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
27039558 GACTTATTAT
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 22 0.24
83 69 0.76
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATATAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:27044581 original size:79 final size:81
Alignment explanation
Indices: 27044479--27044663 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
27044469 GCTCCTCGTT
* *
27044479 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
27044542 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
27044559 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
27044623 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
27044639 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27044664 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:27044663 original size:40 final size:40
Alignment explanation
Indices: 27044479--27044663 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
27044469 GCTCCTCGTT
* *
27044479 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
27044519 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
27044559 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
27044598 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
27044639 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
27044664 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:27057832 original size:24 final size:24
Alignment explanation
Indices: 27057800--27057848 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
27057790 CGATGCCACG
27057800 ACATTCACTTTTGTGTAAATTCAA
1 ACATTCACTTTTGTGTAAATTCAA
* *
27057824 ACATTCACTTTTGTTTCAATTCAA
1 ACATTCACTTTTGTGTAAATTCAA
27057848 A
1 A
27057849 GGCTATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (24 bp):
ACATTCACTTTTGTGTAAATTCAA
Found at i:27061867 original size:2 final size:2
Alignment explanation
Indices: 27061860--27061890 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27061850 GGATTGTGGG
27061860 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
27061891 AGTGGTACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:27063630 original size:31 final size:32
Alignment explanation
Indices: 27063577--27063640 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
27063567 TAATATTAGA
* *
27063577 TTTCGGAAATTTTTTTTATCATGTTTCGGTTT
1 TTTCGGAAATTTTTATTATCATGTCTCGGTTT
*
27063609 TTTCGGAAA-TTTTATTATCATGTCTGGGTTT
1 TTTCGGAAATTTTTATTATCATGTCTCGGTTT
27063640 T
1 T
27063641 AAACATTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.56
Consensus pattern (32 bp):
TTTCGGAAATTTTTATTATCATGTCTCGGTTT
Found at i:27065485 original size:24 final size:24
Alignment explanation
Indices: 27065441--27065486 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
27065431 TTAAATGAAA
* *
27065441 ATATACTCATTGAGCTTTAATTTC
1 ATATACTCATTCAGCTCTAATTTC
27065465 ATAT-CTCATTCAGCCTCTAATT
1 ATATACTCATTCAG-CTCTAATT
27065487 AAATTCCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (24 bp):
ATATACTCATTCAGCTCTAATTTC
Found at i:27075420 original size:20 final size:20
Alignment explanation
Indices: 27075395--27075435 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27075385 ATAGTGGCCA
*
27075395 TACCTCGTTCTAAAAGTAGT
1 TACCTCGTTCTAAAAGCAGT
27075415 TACCTCGTTCTAAAAGCAGT
1 TACCTCGTTCTAAAAGCAGT
27075435 T
1 T
27075436 TTAGGCACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (20 bp):
TACCTCGTTCTAAAAGCAGT
Found at i:27078314 original size:40 final size:40
Alignment explanation
Indices: 27078259--27078440 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
27078249 TATTCGAATG
27078259 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
27078299 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
27078339 ATATCCGGGCCAAGTCCCGAAGTCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
27078379 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
27078419 ATA-CCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
27078441 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 16 0.12
40 112 0.86
41 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:27090691 original size:13 final size:13
Alignment explanation
Indices: 27090673--27090698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27090663 TAAGCAATCC
27090673 CACACGGGCGTGT
1 CACACGGGCGTGT
27090686 CACACGGGCGTGT
1 CACACGGGCGTGT
27090699 TCCTGTCCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:27102089 original size:40 final size:41
Alignment explanation
Indices: 27102034--27102129 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
27102024 TATCTCGGTA
*
27102034 TCGCACACTTAGTGCC-TCATGTAGCTGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCAT-ATGTAGCCGAAGCTATTTCCAAC
* * *
27102074 TCGCACACTTAGTGCCATTTGTAGCCGAAGTTATTTCGAAC
1 TCGCACACTTAGTGCCATATGTAGCCGAAGCTATTTCCAAC
*
27102115 -CGCACACTTAATGCC
1 TCGCACACTTAGTGCC
27102130 GAACTTAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 42 0.86
41 7 0.14
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATATGTAGCCGAAGCTATTTCCAAC
Found at i:27105716 original size:47 final size:48
Alignment explanation
Indices: 27105645--27105817 Score: 214
Period size: 47 Copynumber: 3.7 Consensus size: 48
27105635 AGGTAAGGTA
*
27105645 CCGATGCCTTGTCCCAGACATGGTCTTACACTAGCTCAT-ATCTCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATG
** * *
27105692 TTGATGCCATGTCCCAAACATGGTCTTACACT-GACT-ATCATCTCGTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCATCTCAT-G
* *
27105740 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-TCGTCTCGATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTC-ATG
27105786 CCGATGCCATGTCCCAGACATGGTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
27105818 GGCTTAGTGG
Statistics
Matches: 107, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
46 27 0.25
47 65 0.61
48 15 0.14
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCATCTCATG
Found at i:27105854 original size:88 final size:90
Alignment explanation
Indices: 27105645--27105860 Score: 260
Period size: 94 Copynumber: 2.4 Consensus size: 90
27105635 AGGTAAGGTA
* * **
27105645 CCGATGCCTTGTCCCAGACATGGTCTTACACTAGCTCATATCTCATGTTGATGCCATGTCCCAAA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAAA
27105710 CATGGTCTTACACTGACTATCATCTCGTAG
64 CATGGTCTTACACTGACTATCA---CGTAG
* *
27105740 CCGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCGATGCCGATGCCATGTCCCAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACAT-ATCTC-ATGCCGATGCCATGTCCCAAA
* *
27105804 CATGGTCTTACACTGGCT-T-A-GTGG
64 CATGGTCTTACACTGACTATCACGTAG
*
27105828 CTGATGCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGC
27105861 CCACAATGAC
Statistics
Matches: 110, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
88 35 0.32
92 2 0.02
93 19 0.17
94 48 0.44
95 6 0.05
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (90 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAAACA
TGGTCTTACACTGACTATCACGTAG
Found at i:27122208 original size:49 final size:49
Alignment explanation
Indices: 27122141--27122411 Score: 178
Period size: 49 Copynumber: 5.6 Consensus size: 49
27122131 ACATCAAAGT
*
27122141 CGATGCCATGTCCCAGACAGGTCTTACATTGATTTTCATATGTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATGTCGAGGC
* * * ** * * * *
27122190 CGATGCCATATCCTAGACATGGTCTTAC-TCTGGCTAGCACA--TCAAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACAT-TGACTTTCATATGTCGAGGC
* * * *
27122238 CGATGCCATGTCCCAGATAGCTCTTACACTGAGTTTCATATGTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATGTCGAGGC
* ** * * * * *
27122287 CGATGCCGTGTCCCAGACAGGTCTTACACAGACTCTCATCTATTG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATGTCGAG-GC
* * * * *
27122336 CGATGCTATGTCCCAGACAAGTCTTACACT-AGCTTGT-ATATCTTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACATTGA-CTT-TCATATGTCGAGGC
* * *
27122385 CAATG-CATGTCCCAGGCATGTCTTACA
1 CGATGCCATGTCCCAGACAGGTCTTACA
27122412 CTAGCTCTCA
Statistics
Matches: 168, Mismatches: 45, Indels: 19
0.72 0.19 0.08
Matches are distributed among these distances:
47 13 0.08
48 41 0.24
49 98 0.58
50 16 0.10
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACATTGACTTTCATATGTCGAGGC
Found at i:27122263 original size:97 final size:97
Alignment explanation
Indices: 27122095--27122315 Score: 354
Period size: 97 Copynumber: 2.3 Consensus size: 97
27122085 TAAGATTCCA
*
27122095 ATGCCATGTCCCAGACATGGTCTTACACTGGGTAGCACATCAAAGTCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACA
* * *
27122160 GGTCTTACATTGATTTTCATATGTCGAGGCCG
66 GCTCTTACACTGAGTTTCATATGTCGAGGCCG
* * * *
27122192 ATGCCATATCCTAGACATGGTCTTACTCTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGATA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACA
27122257 GCTCTTACACTGAGTTTCATATGTCGAGGCCG
66 GCTCTTACACTGAGTTTCATATGTCGAGGCCG
*
27122289 ATGCCGTGTCCCAGACA-GGTCTTACAC
1 ATGCCATGTCCCAGACATGGTCTTACAC
27122316 AGACTCTCAT
Statistics
Matches: 112, Mismatches: 12, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
96 9 0.08
97 103 0.92
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (97 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTCGATGCCATGTCCCAGACA
GCTCTTACACTGAGTTTCATATGTCGAGGCCG
Found at i:27122384 original size:98 final size:97
Alignment explanation
Indices: 27122139--27122424 Score: 251
Period size: 97 Copynumber: 2.9 Consensus size: 97
27122129 GCACATCAAA
* * * * * * * *
27122139 GTCGATGCCATGTCCCAGACAGGTCTTACATTGATTTTCATATGTCGAGGCCGATGCCATATCCT
1 GTCGATGCCATGTCCCAGAAAGCTCTTACACTGAGTTTCATATCTCGAGGCCAATG-CATGTCCC
* * ** ****
27122204 AGACATGGTCTTACTCTGGCTAGCA-C-ATCAAA
65 AGACA-GGTCTTACACTAGCTCTCATCTATTGGT
* * * *
27122236 GTCGATGCCATGTCCCAGATAGCTCTTACACTGAGTTTCATATGTCGAGGCCGATGCCGTGTCCC
1 GTCGATGCCATGTCCCAGAAAGCTCTTACACTGAGTTTCATATCTCGAGGCCAATG-CATGTCCC
27122301 AGACAGGTCTTACAC-AGACTCTCATCTATTGGT
65 AGACAGGTCTTACACTAG-CTCTCATCTATTGGT
* *
27122334 GTCGATGCTATGTCCCAGACAAG-TCTTACACT-AGCTTGT-ATATCTTGAGGCCAATGCATGTC
1 GTCGATGCCATGTCCCAGA-AAGCTCTTACACTGAG-TT-TCATATCTCGAGGCCAATGCATGTC
* *
27122396 CCAGGCATGTCTTACACTAGCTCTCATCT
63 CCAGACAGGTCTTACACTAGCTCTCATCT
27122425 CAATGCCGAT
Statistics
Matches: 159, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
95 1 0.01
96 13 0.08
97 95 0.60
98 47 0.30
99 3 0.02
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (97 bp):
GTCGATGCCATGTCCCAGAAAGCTCTTACACTGAGTTTCATATCTCGAGGCCAATGCATGTCCCA
GACAGGTCTTACACTAGCTCTCATCTATTGGT
Found at i:27122454 original size:46 final size:48
Alignment explanation
Indices: 27122336--27122462 Score: 132
Period size: 46 Copynumber: 2.7 Consensus size: 48
27122326 CTATTGGTGT
* * * **
27122336 CGATGCTATGTCCCAGACAAGTCTTACACTAGCTTGTATATCTTGAGGC
1 CGATG-TATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGC
* * * *
27122385 CAATGCATGTCCCAGGCATGTCTTACACTAGC-TCT-CATCTCAATGC
1 CGATGTATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGC
* *
27122431 CGATGTATGTCCTAGACATGTCTTACATTAGC
1 CGATGTATGTCCCAGACATGTCTTACACTAGC
27122463 ACACATATCA
Statistics
Matches: 64, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
46 34 0.53
47 2 0.03
48 24 0.38
49 4 0.06
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (48 bp):
CGATGTATGTCCCAGACATGTCTTACACTAGCTTCTACATCTCAAGGC
Found at i:27124911 original size:27 final size:27
Alignment explanation
Indices: 27124881--27124987 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
27124871 GGCTGCGAGA
* **
27124881 ACAGATAATGTGACAGAGTTACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
* *
27124908 ACAGATAATCGTGGCAGAGCCACTA-AA
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
27124935 ACAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
*
27124963 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
27124988 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
26 1 0.01
27 53 0.78
28 14 0.21
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:27124970 original size:54 final size:54
Alignment explanation
Indices: 27124880--27124984 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 54
27124870 TGGCTGCGAG
**
27124880 AACAGATAATGTGACAGAGTTACCAGATACAGATAATCGTGGCAGAGCCACTAA
1 AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACTAA
* * *
27124934 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCAC
1 AACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCAC
27124985 CAGGACGCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 28 0.62
55 17 0.38
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACTAA
Found at i:27131964 original size:30 final size:30
Alignment explanation
Indices: 27131930--27131989 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
27131920 ATTTAATACG
27131930 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
27131960 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
27131990 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:27134466 original size:16 final size:16
Alignment explanation
Indices: 27134441--27134472 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27134431 CAATCTTTAT
*
27134441 AAAATTTTTGTTTTCG
1 AAAATCTTTGTTTTCG
27134457 AAAATCTTTGTTTTCG
1 AAAATCTTTGTTTTCG
27134473 TAAACCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.53
Consensus pattern (16 bp):
AAAATCTTTGTTTTCG
Found at i:27135508 original size:27 final size:26
Alignment explanation
Indices: 27135434--27135540 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 26
27135424 TGGCTGCCAT
* * *
27135434 AACAGATAATGTGACAGAGTCACCAA
1 AACAGATAATGTGGCAGAGCCACCAG
*
27135460 ATACAAATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
27135488 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* *
27135515 ATCAGATAATTGTGGCATAGCCACCA
1 AACAGATAA-TGTGGCAGAGCCACCA
27135541 AGACGCTTCC
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
26 2 0.03
27 52 0.74
28 16 0.23
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.17
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:27135530 original size:54 final size:54
Alignment explanation
Indices: 27135434--27135540 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
27135424 TGGCTGCCAT
*
27135434 AACAGATAATGTGACAGAGTCACCAAATACAAATAATCGTGGCAGAGCCACCAG
1 AACAGATAATGTGACAGAGCCACCAAATACAAATAATCGTGGCAGAGCCACCAG
* * * * *
27135488 AACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCA
1 AACAGATA-ATGTGACAGAGCCACCAAATACAAATAATCGTGGCAGAGCCACCA
27135541 AGACGCTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.17
Consensus pattern (54 bp):
AACAGATAATGTGACAGAGCCACCAAATACAAATAATCGTGGCAGAGCCACCAG
Found at i:27138599 original size:13 final size:13
Alignment explanation
Indices: 27138581--27138606 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27138571 TGGCATCATT
27138581 ACTTGTAACACCC
1 ACTTGTAACACCC
27138594 ACTTGTAACACCC
1 ACTTGTAACACCC
27138607 CTTACACGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (13 bp):
ACTTGTAACACCC
Found at i:27140142 original size:54 final size:54
Alignment explanation
Indices: 27139956--27140152 Score: 204
Period size: 55 Copynumber: 3.6 Consensus size: 54
27139946 GAATTACCAT
* * * *
27139956 TGCCATGTCTTGAG-ATGGTCTTACGTGGTATT-CTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTG-GCATGGTCTTACATGAT-TTCCTTGCCTTATAGAACTCATCAA
* *** *
27140009 TGCAATGCCTTGGCATGGTCTTACATG-GGACCTTTGCATTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATTTCC-TTGCCTTATAG-AACTCATCAA
* * * *
27140064 TGCCATGTCTTGACATGGTTTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
*
27140118 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGGCATGGTCTTACATGATTTCCTT
27140153 ATCTTACCAA
Statistics
Matches: 117, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 30 0.26
54 41 0.35
55 42 0.36
56 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAACTCATCAA
Found at i:27140186 original size:47 final size:47
Alignment explanation
Indices: 27140131--27140251 Score: 224
Period size: 47 Copynumber: 2.6 Consensus size: 47
27140121 CATGCCTTGG
* *
27140131 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
27140178 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
27140225 CATGGTCTTACATGGTATCCTTGTCTT
1 CATGGTCTTACATGGTATCCTTGTCTT
27140252 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:27140992 original size:30 final size:31
Alignment explanation
Indices: 27140949--27141006 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
27140939 CTAACTCAAA
*
27140949 CTTTGGCAAAATTACAATTTTGTCCCTAAAC
1 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
*
27140980 CTTT-GCAGAATTACAATTTTGCCCCTA
1 CTTTGGCAAAATTACAATTTTGCCCCTA
27141007 GGCTCAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.36
Consensus pattern (31 bp):
CTTTGGCAAAATTACAATTTTGCCCCTAAAC
Found at i:27152461 original size:22 final size:23
Alignment explanation
Indices: 27152423--27152465 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
27152413 ACACACGCTC
*
27152423 GTGTCTCTACCCGTGTGGACAGT
1 GTGTCTCTAACCGTGTGGACAGT
27152446 GTGTCTC-AACCGTGTGGACA
1 GTGTCTCTAACCGTGTGGACA
27152466 AAAATAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (23 bp):
GTGTCTCTAACCGTGTGGACAGT
Found at i:27153470 original size:43 final size:44
Alignment explanation
Indices: 27153422--27153526 Score: 115
Period size: 43 Copynumber: 2.4 Consensus size: 44
27153412 TTTTAGATAT
* * * *
27153422 GGTCTTACATGTTATCACA-TATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATGTAATCACATTAACAATGCCAATGTCCCAGACAG
*** * *
27153465 GGTCTTACAAAAAATCA-ATTAACAATGCCAATGTCCCAGCCAT
1 GGTCTTACATGTAATCACATTAACAATGCCAATGTCCCAGACAG
27153508 GGTCTTACATGTAATCACA
1 GGTCTTACATGTAATCACA
27153527 ATACAATAAC
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
42 1 0.02
43 46 0.96
44 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (44 bp):
GGTCTTACATGTAATCACATTAACAATGCCAATGTCCCAGACAG
Done.