Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 72 of 427
Found at i:17864991 original size:46 final size:46
Alignment explanation
Indices: 17864816--17864991 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
17864806 TGTAACCCGC
* * *
17864816 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
17864862 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
17864912 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
17864955 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17864992 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:17867415 original size:30 final size:30
Alignment explanation
Indices: 17867371--17867459 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
17867361 CAAAGATAAC
17867371 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
17867400 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
17867430 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
17867460 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:17867419 original size:15 final size:15
Alignment explanation
Indices: 17867371--17867450 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
17867361 CAAAGATAAC
*
17867371 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
17867385 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
17867400 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
17867415 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
17867430 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
17867445 AAGAAA
1 AAGAAA
17867451 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:17867459 original size:15 final size:15
Alignment explanation
Indices: 17867382--17867459 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
17867372 AGAAAACCGA
17867382 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
17867397 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
17867411 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
17867426 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
17867442 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
17867457 ATA
1 ATA
17867460 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:17870484 original size:93 final size:93
Alignment explanation
Indices: 17870372--17870543 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
17870362 GCCCATAAGT
* *
17870372 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17870437 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17870465 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17870530 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
17870544 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17870539 original size:46 final size:46
Alignment explanation
Indices: 17870364--17870539 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
17870354 TGTAACCCGC
* * *
17870364 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
17870410 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
17870460 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
17870503 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17870540 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:17872300 original size:133 final size:132
Alignment explanation
Indices: 17872053--17872490 Score: 615
Period size: 133 Copynumber: 3.3 Consensus size: 132
17872043 GATCTGCTGT
** ** * *
17872053 AATTTGATCTGCTTTACTCCTGCTCAGTAAAGATAAGATCTTGTATGTTTAGCTTGCTCCACTCC
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
** ** *
17872118 TGCTCAGTGAAGATAAGGCTAATGATTGGAATCTGCTCCATTGCCGATACATGGAGATAAGATTC
64 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTG-CGATACATGGAGATAAGATTC
*
17872183 ATCAA
128 ACCAA
*** * *
17872188 AATTTGATCTGCTTTGCTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCCTGCTTCACTCCTG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
*
17872253 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCGGATACATGGAGAGAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGC-GATACATGGAGATAAGATTCAC
17872318 CAA
130 CAA
* * *
17872321 AACTTGATTTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
*
17872386 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCGATACATAGAGATAAGATTCAC
66 CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTG-CGATACATGGAGATAAGATTCAC
17872451 CAA
130 CAA
* *
17872454 AATTTAATCTGCTCCACTCCTGCTCAGTGAAGATAAG
1 AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAG
17872491 GCTGGTGGCT
Statistics
Matches: 274, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
132 1 0.00
133 231 0.84
134 1 0.00
135 41 0.15
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (132 bp):
AATTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCGATACATGGAGATAAGATTCACC
AA
Found at i:17872471 original size:90 final size:90
Alignment explanation
Indices: 17872372--17872580 Score: 348
Period size: 90 Copynumber: 2.3 Consensus size: 90
17872362 AGTATTTAGC
*
17872372 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCGATACATA
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATA
17872437 GAGATAAGA-TTCACCAAAATTTAAT
66 GAGATAAGACTT-ACCAAAATTTAAT
* *
17872462 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATTTGCTCCATTGCCGATACATG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATA
* *
17872527 GAGATAAGACTTGCCAAAATTTGAT
66 GAGATAAGACTTACCAAAATTTAAT
*
17872552 CTGCTTCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
17872581 ATCTAGTATG
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
90 110 0.98
91 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (90 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATA
GAGATAAGACTTACCAAAATTTAAT
Found at i:17872474 original size:223 final size:224
Alignment explanation
Indices: 17872239--17872715 Score: 744
Period size: 223 Copynumber: 2.1 Consensus size: 224
17872229 AGTATATAGC
*
17872239 CTGCTTCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCGGATACATG
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
* *
17872304 GAGAGAAGA-TTCACCAAAACTTGATTTGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTA-T
66 GAGAGAAGACTT-ACCAAAACTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTAGT
* * *
17872367 TTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGTCGAT
130 TTAGCCTGCCCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCCGAT
17872432 ACATAGAGATAAGA-TTCACCAAAATTTAAT
195 ACATAGAGATAAGACTT-ACCAAAATTTAAT
* *
17872462 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATTTGCTCCATTGCCGATACATG
1 CTGCTTCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
* * * * *
17872527 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGT
66 GAGAGAAGACTTACCAAAACTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTA-GT
*
17872592 TTAGCCTGCCCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCCTAT
130 TTAGCCTGCCCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCCGAT
* * *
17872657 ACATGGAGATAAGACTTGCCAAAATTTGAT
195 ACATAGAGATAAGACTTACCAAAATTTAAT
*
17872687 CTGCTTCACTCCTGCTTAGTGAAGATAAG
1 CTGCTTCACTCCTGCTCAGTGAAGATAAG
17872716 ATCTAGTATG
Statistics
Matches: 231, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
223 114 0.49
224 2 0.01
225 113 0.49
226 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (224 bp):
CTGCTTCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
GAGAGAAGACTTACCAAAACTTGATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTAGTT
TAGCCTGCCCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCCGATA
CATAGAGATAAGACTTACCAAAATTTAAT
Found at i:17872610 original size:45 final size:45
Alignment explanation
Indices: 17872552--17872760 Score: 160
Period size: 45 Copynumber: 4.6 Consensus size: 45
17872542 AAAATTTGAT
*
17872552 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGC
* * * ** **
17872597 CTGCCCCACTCCTGCTCAGTGAAGATAAG-GCTAGT-GGCTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATG-TTTAGC
* * * * * ** *
17872641 CTGCTCCATTGCCT-ATACA-TGGAGATAAGA-CTTGCCAAAATTT-GAT
1 CTGCTCCACT-CCTGCT-CAGTGAAGATAAGATCTAG--TATGTTTAG-C
* *
17872687 CTGCTTCACTCCTGCTTAGTGAAGATAAGATCTAGTATGTTTAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGC
17872732 CTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
17872761 GCTGGTGGAT
Statistics
Matches: 121, Mismatches: 31, Indels: 24
0.69 0.18 0.14
Matches are distributed among these distances:
43 1 0.01
44 28 0.23
45 67 0.55
46 22 0.18
47 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (45 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGC
Found at i:17872617 original size:135 final size:135
Alignment explanation
Indices: 17872462--17872895 Score: 669
Period size: 135 Copynumber: 3.2 Consensus size: 135
17872452 AAAATTTAAT
*
17872462 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATTTGCTCCATTGCCGATACATG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
17872527 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGT
66 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGT
17872592 TTAGC
131 TTAGC
* * *
17872597 CTGCCCCACTCCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCCTATACATG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
*
17872662 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTTAGTGAAGATAAGATCTAGTATGT
66 GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGT
17872727 TTAGC
131 TTAGC
* *
17872732 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGATGAAATCTGCTCCATTGCCGATACATA
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
* * * * * * *
17872797 GAGATAATA-TTCACCAAAATTTAATCTACTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTA--
66 GAGATAAGACTT-GCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATG
17872859 TTTAGC
130 TTTAGC
* * * *
17872865 CTGCTCTACTCTTGCTCAATG-GGATAAGGCT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCT
17872896 TGCCAAAATC
Statistics
Matches: 276, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
132 9 0.03
133 24 0.09
134 2 0.01
135 241 0.87
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (135 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATG
GAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGT
TTAGC
Found at i:17874077 original size:32 final size:32
Alignment explanation
Indices: 17874036--17874099 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
17874026 CAGGCATAGT
17874036 AAGACTACTGTATGCCCCACTTTCGATCCAAA
1 AAGACTACTGTATGCCCCACTTTCGATCCAAA
17874068 AAGACTACTGTATGCCCCACTTTCGATCCAAA
1 AAGACTACTGTATGCCCCACTTTCGATCCAAA
17874100 TTCGAGCCGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.25
Consensus pattern (32 bp):
AAGACTACTGTATGCCCCACTTTCGATCCAAA
Found at i:17874220 original size:24 final size:25
Alignment explanation
Indices: 17874193--17874252 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
17874183 TCTCCTTTGC
17874193 TTTTCTTTTCTTTCT-CTTTTT-TAT
1 TTTTCTTTTCTTTCTCCTTTTTCT-T
* *
17874217 TTTTCTCTTCTTTTTCCTTTTTCTT
1 TTTTCTTTTCTTTCTCCTTTTTCTT
17874242 TTTTCTCTTTC
1 TTTTCT-TTTC
17874253 CTTTTTCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 13 0.43
25 13 0.43
26 4 0.13
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (25 bp):
TTTTCTTTTCTTTCTCCTTTTTCTT
Found at i:17874244 original size:25 final size:24
Alignment explanation
Indices: 17874193--17874272 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
17874183 TCTCCTTTGC
* *
17874193 TTTTCTTTTCTTTCT-CTTTTTTAT
1 TTTTCTCTTCTTTTTCCTTTTTT-T
17874217 TTTTCTCTTCTTTTTCCTTTTTCTT
1 TTTTCTCTTCTTTTTCCTTTTT-TT
*
17874242 TTTTCTCTTTCCTTTTTCTCTTCTTTT
1 TTTTCTC-TT-CTTTTTC-CTTTTTTT
17874269 TTTT
1 TTTT
17874273 GAAAGTGAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 13 0.27
25 14 0.29
26 3 0.06
27 13 0.27
28 5 0.10
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTCTCTTCTTTTTCCTTTTTTT
Found at i:17876816 original size:21 final size:21
Alignment explanation
Indices: 17876790--17876834 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
17876780 GCTGGCTCAT
*
17876790 CATGTTGTTCTGTGACTCAAG
1 CATGTTGTTCTGGGACTCAAG
* *
17876811 CATGTTTTTCTGGGACTCCAG
1 CATGTTGTTCTGGGACTCAAG
17876832 CAT
1 CAT
17876835 TTAATCCCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCAAG
Found at i:17880564 original size:18 final size:18
Alignment explanation
Indices: 17880541--17880613 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
17880531 ATAACAAGTA
*
17880541 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
17880559 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
17880577 ATGGT-TTAGTAGGGTA-TGG
1 -GGGTGAT-GGA-GGTAGTGG
17880596 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
17880614 ATAGTTTAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
17 4 0.09
18 26 0.60
19 9 0.21
20 4 0.09
ACGTcount: A:0.18, C:0.00, G:0.55, T:0.27
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:17880606 original size:37 final size:38
Alignment explanation
Indices: 17880556--17880633 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 38
17880546 ATGGAGTTAG
*
17880556 TGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT-A
1 TGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGTGA
17880593 TGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGTGA
1 TGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGTGA
17880631 TGG
1 TGG
17880634 AGTTAGTGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 35 0.90
38 4 0.10
ACGTcount: A:0.19, C:0.00, G:0.51, T:0.29
Consensus pattern (38 bp):
TGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGTGA
Found at i:17880647 original size:18 final size:18
Alignment explanation
Indices: 17880626--17880661 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
17880616 AGTTTAGTAG
*
17880626 GGTGATGGAGTTAGTGGA
1 GGTGATGGAGGTAGTGGA
17880644 GGTGATGGAGGTAGTGGA
1 GGTGATGGAGGTAGTGGA
17880662 TGGTTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.53, T:0.25
Consensus pattern (18 bp):
GGTGATGGAGGTAGTGGA
Found at i:17884501 original size:2 final size:2
Alignment explanation
Indices: 17884494--17884533 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
17884484 TACTAACTTT
17884494 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17884534 TAGAAGGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:17885047 original size:23 final size:24
Alignment explanation
Indices: 17885020--17885065 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
17885010 TTCATAGAAA
*
17885020 ATTTAA-TTGAATAATATATTTTT
1 ATTTAACTTGAAAAATATATTTTT
*
17885043 ATTTAACTTTAAAAATATATTTT
1 ATTTAACTTGAAAAATATATTTT
17885066 AAAGTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTAACTTGAAAAATATATTTTT
Found at i:17885209 original size:25 final size:26
Alignment explanation
Indices: 17885172--17885226 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
17885162 TAAATTCAAA
17885172 ATTT-ATTATCATAAAAA-AAAAATT
1 ATTTAATTATCATAAAAATAAAAATT
*
17885196 ATTTAATTATCATAAAAATAAATATT
1 ATTTAATTATCATAAAAATAAAAATT
17885222 ATTTA
1 ATTTA
17885227 TCTTAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 4 0.14
25 13 0.46
26 11 0.39
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTTAATTATCATAAAAATAAAAATT
Found at i:17889435 original size:2 final size:2
Alignment explanation
Indices: 17889430--17889454 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17889420 AGTAAAAAAT
17889430 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
17889455 TTAGCTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17899007 original size:17 final size:17
Alignment explanation
Indices: 17898987--17899020 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17898977 AGATTTAGGT
17898987 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
**
17899004 TTAAATTTTTTAATTAA
1 TTAAAAATTTTAATTAA
17899021 AAATCTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:17904425 original size:13 final size:14
Alignment explanation
Indices: 17904394--17904433 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
17904384 AATAATTTAA
*
17904394 AATTTAAAATAAAT
1 AATTCAAAATAAAT
17904408 AATTCAAAA-AAAT
1 AATTCAAAATAAAT
*
17904421 GATTCAAAATAAA
1 AATTCAAAATAAA
17904434 CAATATATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (14 bp):
AATTCAAAATAAAT
Found at i:17904430 original size:34 final size:33
Alignment explanation
Indices: 17904363--17904430 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
17904353 ATATAAAAGG
* *
17904363 TTTAAAATAGATAATAAATAAAATAATTTAAAA
1 TTTAAAATAAATAATAAATAAAATAATTCAAAA
*
17904396 TTTAAAATAAATAATTCAAA-AAAATGATTCAAAA
1 TTTAAAATAAATAA-T-AAATAAAATAATTCAAAA
17904430 T
1 T
17904431 AAACAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 13 0.43
34 14 0.47
35 3 0.10
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (33 bp):
TTTAAAATAAATAATAAATAAAATAATTCAAAA
Found at i:17904615 original size:27 final size:26
Alignment explanation
Indices: 17904394--17904759 Score: 318
Period size: 26 Copynumber: 14.0 Consensus size: 26
17904384 AATAATTTAA
17904394 AATTTAAAATAAATAAT-TCA-AAAA-
1 AATTTAAAATAAATAATAT-ATAAAAC
* *
17904418 AATGATTCAAAATAAACAATATATGAAAAT
1 AAT--TT-AAAATAAATAATATAT-AAAAC
* *
17904448 GATTTAACATAAATAA-AGTATAAAAC
1 AATTTAAAATAAATAATA-TATAAAAC
* **
17904474 AATTTGAAATAAATAAT-T-TAATGC
1 AATTTAAAATAAATAATATATAAAAC
* *
17904498 AATTTAAAATAAACAATACATAAAAC
1 AATTTAAAATAAATAATATATAAAAC
* * * *
17904524 AATCTAAAAGAAATAATATGTGGAAAAA
1 AATTTAAAATAAATAATATAT--AAAAC
*
17904552 AATCTAAAATAAATAATATATATAAATC
1 AATTTAAAATAAATAATATATA-AAA-C
* *
17904580 AGTTTAAAATAAAATAATATATAAAGC
1 AATTTAAAAT-AAATAATATATAAAAC
*
17904607 AATTCAAAATAAATAATATATAAAAC
1 AATTTAAAATAAATAATATATAAAAC
* *
17904633 AATTTAAAATAAATAATAATCTAAAAT
1 AATTTAAAATAAATAAT-ATATAAAAC
*
17904660 GATTTAAAATAAAT-A-ATATAAAAC
1 AATTTAAAATAAATAATATATAAAAC
* *
17904684 AATTTAATATAAATAATATATAAGA-
1 AATTTAAAATAAATAATATATAAAAC
* *
17904709 ATTTTAAAATAAATAAAATATAAAAC
1 AATTTAAAATAAATAATATATAAAAC
** *
17904735 TGTTTAAAATAAATAATGTATAAAA
1 AATTTAAAATAAATAATATATAAAA
17904760 AATGAATAAA
Statistics
Matches: 275, Mismatches: 47, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
24 41 0.15
25 23 0.08
26 101 0.37
27 56 0.20
28 36 0.13
29 16 0.06
30 2 0.01
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (26 bp):
AATTTAAAATAAATAATATATAAAAC
Found at i:17904757 original size:51 final size:51
Alignment explanation
Indices: 17904426--17904757 Score: 266
Period size: 51 Copynumber: 6.4 Consensus size: 51
17904416 AAAATGATTC
* * *
17904426 AAAATAAACAATATATGAA-AATGATTTAACATAAATAAAGTATAAAACAATTT
1 AAAATAAATAATATAT-AAGAAT--TTTAAAATAAATAAAATATAAAACAATTT
* * * * *
17904479 GAAATAAATAAT-T-TAATGCAA-TTTAAAATAAACAATACATAAAACAATCT
1 AAAATAAATAATATATAA-G-AATTTTAAAATAAATAAAATATAAAACAATTT
* * * * * * *
17904529 AAAAGAAATAATATGTGGAAAAAAATCTAAAATAAATAATATATATAAATCAGTTT
1 AAAATAAATAATATAT---AAGAATTTTAAAATAAATAA-A-ATATAAAACAATTT
* *
17904585 AAAATAAAATAATATATAAAGCAA-TTCAAAATAAATAATATATAAAACAATTT
1 AAAAT-AAATAATATAT-AAG-AATTTTAAAATAAATAAAATATAAAACAATTT
*
17904638 AAAATAAATAATAATCTAA-AATGATTTAAAATAAAT--AATATAAAACAATTT
1 AAAATAAATAAT-ATATAAGAAT--TTTAAAATAAATAAAATATAAAACAATTT
* **
17904689 AATATAAATAATATATAAGAATTTTAAAATAAATAAAATATAAAACTGTTT
1 AAAATAAATAATATATAAGAATTTTAAAATAAATAAAATATAAAACAATTT
*
17904740 AAAATAAATAATGTATAA
1 AAAATAAATAATATATAA
17904758 AAAATGAATA
Statistics
Matches: 224, Mismatches: 35, Indels: 42
0.74 0.12 0.14
Matches are distributed among these distances:
49 12 0.05
50 42 0.19
51 59 0.26
52 11 0.05
53 45 0.20
54 12 0.05
55 17 0.08
56 16 0.07
57 10 0.04
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.30
Consensus pattern (51 bp):
AAAATAAATAATATATAAGAATTTTAAAATAAATAAAATATAAAACAATTT
Found at i:17907576 original size:18 final size:18
Alignment explanation
Indices: 17907541--17907577 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
17907531 AGTGAGTGGA
*
17907541 ACAAAAGCATGGTTAGTG
1 ACAAAAGCATGGTGAGTG
*
17907559 ACAAAAGCATTGTGAGTG
1 ACAAAAGCATGGTGAGTG
17907577 A
1 A
17907578 AAATTATTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.22
Consensus pattern (18 bp):
ACAAAAGCATGGTGAGTG
Found at i:17911230 original size:22 final size:22
Alignment explanation
Indices: 17911202--17911244 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
17911192 GAATTGCATC
17911202 GCAATGAGCAAGCCCCGAAGTT
1 GCAATGAGCAAGCCCCGAAGTT
17911224 GCAATGAGCAAGCCCCGAAGT
1 GCAATGAGCAAGCCCCGAAGT
17911245 CGTGATGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.12
Consensus pattern (22 bp):
GCAATGAGCAAGCCCCGAAGTT
Found at i:17911758 original size:19 final size:18
Alignment explanation
Indices: 17911721--17911755 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17911711 TCAAAACTGG
17911721 TCGGTTAACCGAAAAAAT
1 TCGGTTAACCGAAAAAAT
*
17911739 TCGGTTAATCGAAAAAA
1 TCGGTTAACCGAAAAAA
17911756 ATTAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
TCGGTTAACCGAAAAAAT
Found at i:17911878 original size:13 final size:13
Alignment explanation
Indices: 17911860--17911884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17911850 CAAGTACCCA
17911860 ACCCAACCCAATT
1 ACCCAACCCAATT
17911873 ACCCAACCCAAT
1 ACCCAACCCAAT
17911885 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:17911922 original size:5 final size:6
Alignment explanation
Indices: 17911909--17911952 Score: 61
Period size: 6 Copynumber: 7.0 Consensus size: 6
17911899 ATAATTTAAT
*
17911909 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA
17911953 GAAACATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 29 0.85
8 5 0.15
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:17911989 original size:9 final size:9
Alignment explanation
Indices: 17911975--17912006 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17911965 TTTATACAAA
17911975 TAATTCGGT
1 TAATTCGGT
*
17911984 TAATTCGAT
1 TAATTCGGT
17911993 TAATTCGGT
1 TAATTCGGT
17912002 TAATT
1 TAATT
17912007 TTATACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:17912960 original size:18 final size:18
Alignment explanation
Indices: 17912937--17912987 Score: 77
Period size: 18 Copynumber: 2.8 Consensus size: 18
17912927 TAATAGTCAG
*
17912937 TTATTCAGTAACGAT-ATA
1 TTATTCAGTAACAATCA-A
17912955 TTATTCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
17912973 TTATTCAGTAACAAT
1 TTATTCAGTAACAAT
17912988 TTTTTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 30 0.97
19 1 0.03
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:17913026 original size:18 final size:18
Alignment explanation
Indices: 17913005--17913057 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
17912995 TATGCAATAG
17913005 CAGTCAGTTA-TCTAGTAA
1 CAGTCAGTTATTC-AGTAA
17913023 CAGTCAGTTATTCAGTAA
1 CAGTCAGTTATTCAGTAA
* *
17913041 CAGTTAATTATTCAGTA
1 CAGTCAGTTATTCAGTA
17913058 CCTTTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
18 30 0.94
19 2 0.06
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (18 bp):
CAGTCAGTTATTCAGTAA
Found at i:17913285 original size:51 final size:53
Alignment explanation
Indices: 17913182--17913297 Score: 146
Period size: 51 Copynumber: 2.2 Consensus size: 53
17913172 TAACGATAAA
* * * *
17913182 AGTAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAATAAATCCGGAAC
1 AGTAACAGTAACAGTAGAGGTA-ACAGAATACCTCATCAGAACAAATCCGGAAC
* * *
17913236 AGTAACAGTAACAGTA-AGGT-ACAGAATACCTCTTCAGAACGAATTCGGAAC
1 AGTAACAGTAACAGTAGAGGTAACAGAATACCTCATCAGAACAAATCCGGAAC
17913287 AGTAACAGTAA
1 AGTAACAGTAA
17913298 GGCGACACTT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
51 36 0.65
53 3 0.05
54 16 0.29
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (53 bp):
AGTAACAGTAACAGTAGAGGTAACAGAATACCTCATCAGAACAAATCCGGAAC
Found at i:17914318 original size:19 final size:17
Alignment explanation
Indices: 17914290--17914325 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
17914280 AAATCCCTAG
17914290 TTTTTCCTTTTCTTTTCT
1 TTTTTCC-TTTCTTTTCT
17914308 TTTTCTCCTTTCTTTTCT
1 TTTT-TCCTTTCTTTTCT
17914326 CCTTTCTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTCCTTTCTTTTCT
Found at i:17914323 original size:12 final size:13
Alignment explanation
Indices: 17914303--17914354 Score: 70
Period size: 12 Copynumber: 3.8 Consensus size: 13
17914293 TTCCTTTTCT
17914303 TTTCTTTTTCTCC
1 TTTCTTTTTCTCC
17914316 TTTC-TTTTCTCC
1 TTTCTTTTTCTCC
17914328 TTTCTGTTCTTCCTCC
1 TTTCT-TT-TT-CTCC
17914344 TTTCTTTTTCT
1 TTTCTTTTTCT
17914355 TTTGTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 12 0.34
13 6 0.17
14 4 0.11
15 4 0.11
16 9 0.26
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTCTTTTTCTCC
Found at i:17914364 original size:15 final size:16
Alignment explanation
Indices: 17914344--17914373 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17914334 TTCTTCCTCC
17914344 TTTCTTT-TTCTTTTG
1 TTTCTTTATTCTTTTG
17914359 TTTCTTTATTCTTTT
1 TTTCTTTATTCTTTT
17914374 ATAACATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTCTTTATTCTTTTG
Found at i:17914386 original size:2 final size:2
Alignment explanation
Indices: 17914379--17914406 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
17914369 CTTTTATAAC
17914379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17914407 TAGTTTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17914558 original size:31 final size:28
Alignment explanation
Indices: 17914517--17914584 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
17914507 TGTTTACCTC
*
17914517 ATAAAAATCTTATAATTTAATTAATTATCAA
1 ATAAAAATCTT-TAATTTAA-TAATAAT-AA
* *
17914548 ATAAACATCTTTTATTTAATAATAATAA
1 ATAAAAATCTTTAATTTAATAATAATAA
17914576 ATAATAAAT
1 ATAA-AAAT
17914585 ATCTATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.19
29 9 0.28
30 7 0.22
31 10 0.31
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (28 bp):
ATAAAAATCTTTAATTTAATAATAATAA
Found at i:17914793 original size:34 final size:33
Alignment explanation
Indices: 17914719--17914831 Score: 124
Period size: 38 Copynumber: 3.3 Consensus size: 33
17914709 ATTATTTAAT
*
17914719 TAATAATTATCT-TTTACTT-AATAAATA-TAAA
1 TAATAAATATCTATTTACTTAAATAAA-AGTAAA
17914750 TAATAAATATCTATTTACTTAAATAAAAGTAATTAAA
1 TAATAAATATCTATTTACTTAAATAAAAG----TAAA
*
17914787 TAAATATATATCTATTTACTTAAATAAAAGTAAA
1 T-AATAAATATCTATTTACTTAAATAAAAGTAAA
17914821 TAAATAAATAT
1 T-AATAAATAT
17914832 ATCACAATTG
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
31 11 0.15
32 8 0.11
33 6 0.08
34 14 0.20
37 5 0.07
38 27 0.38
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (33 bp):
TAATAAATATCTATTTACTTAAATAAAAGTAAA
Found at i:17914802 original size:38 final size:38
Alignment explanation
Indices: 17914745--17914833 Score: 153
Period size: 38 Copynumber: 2.4 Consensus size: 38
17914735 CTTAATAAAT
*
17914745 ATAAAT-AATAAATATCTATTTACTTAAATAAAAGTAA
1 ATAAATAAATATATATCTATTTACTTAAATAAAAGTAA
*
17914782 TTAAATAAATATATATCTATTTACTTAAATAAAAGTAA
1 ATAAATAAATATATATCTATTTACTTAAATAAAAGTAA
17914820 ATAAATAAATATAT
1 ATAAATAAATATAT
17914834 CACAATTGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 5 0.10
38 43 0.90
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.37
Consensus pattern (38 bp):
ATAAATAAATATATATCTATTTACTTAAATAAAAGTAA
Found at i:17915960 original size:15 final size:16
Alignment explanation
Indices: 17915940--17915974 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
17915930 AATCCAGGCA
*
17915940 AAAATAATA-ATAGAT
1 AAAATAATATAGAGAT
17915955 AAAATAATATAGAGAT
1 AAAATAATATAGAGAT
17915971 AAAA
1 AAAA
17915975 ATGGAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (16 bp):
AAAATAATATAGAGAT
Found at i:17916096 original size:3 final size:3
Alignment explanation
Indices: 17916082--17916560 Score: 146
Period size: 3 Copynumber: 157.3 Consensus size: 3
17916072 AATAGGATGG
* * * *
17916082 ATA ATA AAA ATA ATA GTA ATA ATA ATA ATA A-A TATA ATG GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA
* * * * * * *
17916127 ATA TTA AAA ATA TATA TATA ATG ATG ATA ATA GTG TTA A-A A-A ATA
1 ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * **
17916172 ATA ATA ATA A-A CA-A ACG AT- ATA TTA ATG ATA ATA GAAA ATA ACG
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* *
17916216 ATA ATA ATA ATGGA AGTA ATGA A-A ACA ATA ATA ATA GA-A ACA ATA
1 ATA ATA ATA AT--A A-TA AT-A ATA ATA ATA ATA ATA -ATA ATA ATA
* * * *
17916261 GTA ATA A-A AGTA ATA ATA A-A ATA GAAA ATA ACA ATG ATA CATTA ATA
1 ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA -A-TA ATA
* * * * ** * *
17916308 ATA AT- ATA TGTG CTA ATA ATA ATA ACA ATA CGA AAA AAA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
17916353 CT- ATA TTA ATA AAA ATA ATA ATA GTA GGTTA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA
* * * * * *
17916399 A-A AGGTA A-A A-A ATA ATA ATG A-A ATA ATA AAA ATA CTA TTGCG TTA
1 ATA A--TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT--A ATA
* * * * * * * * * *
17916444 CTA CTA ATA AAA AAA AGA AAA AGA A-A ACA GTA ATA GTA TATA GAATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA -A-TA
17916491 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
17916539 ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
17916561 CACTCTGTCC
Statistics
Matches: 358, Mismatches: 82, Indels: 72
0.70 0.16 0.14
Matches are distributed among these distances:
2 28 0.08
3 291 0.81
4 26 0.07
5 12 0.03
6 1 0.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:17916198 original size:25 final size:25
Alignment explanation
Indices: 17916168--17916226 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
17916158 AGTGTTAAAA
*
17916168 AATAATAATAATA-AACA-AACGAT
1 AATAATAATAATAGAAAATAACGAT
*
17916191 ATATTAATGATAATAGAAAATAACGAT
1 A-A-TAATAATAATAGAAAATAACGAT
17916218 AATAATAAT
1 AATAATAAT
17916227 GGAAGTAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 1 0.03
24 1 0.03
25 16 0.55
26 4 0.14
27 7 0.24
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (25 bp):
AATAATAATAATAGAAAATAACGAT
Found at i:17916372 original size:23 final size:23
Alignment explanation
Indices: 17916340--17916398 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
17916330 TAACAATACG
* *
17916340 AAAAAAAATAATACTATATTAAT
1 AAAAATAATAATACTAGATTAAT
* *
17916363 AAAAATAATAATAGTAGGTTAAT
1 AAAAATAATAATACTAGATTAAT
*
17916386 AATAATAATAATA
1 AAAAATAATAATA
17916399 AAAGGTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (23 bp):
AAAAATAATAATACTAGATTAAT
Found at i:17916404 original size:23 final size:23
Alignment explanation
Indices: 17916358--17916417 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
17916348 TAATACTATA
* **
17916358 TTAATAAAAATAATAATAGTAGG
1 TTAATAATAATAATAATAAAAGG
17916381 TTAATAATAATAATAATAAAAGG
1 TTAATAATAATAATAATAAAAGG
* *
17916404 TAAAAAATAATAAT
1 TTAATAATAATAAT
17916418 GAAATAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (23 bp):
TTAATAATAATAATAATAAAAGG
Found at i:17917027 original size:13 final size:13
Alignment explanation
Indices: 17917009--17917055 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
17916999 TTTGTAAGCA
17917009 AGTGGGGTGGTTT
1 AGTGGGGTGGTTT
*
17917022 AGTGGGATGGTTT
1 AGTGGGGTGGTTT
* *
17917035 AGT-GGTTAGTTT
1 AGTGGGGTGGTTT
17917047 AGTGGGGTG
1 AGTGGGGTG
17917056 TTAATTGGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.13, C:0.00, G:0.49, T:0.38
Consensus pattern (13 bp):
AGTGGGGTGGTTT
Found at i:17917331 original size:22 final size:22
Alignment explanation
Indices: 17917306--17917347 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17917296 TAATCATTCC
*
17917306 AAATTTTTTCATCAAACAAACA
1 AAATTTTCTCATCAAACAAACA
17917328 AAATTTTCTCATCAAACAAA
1 AAATTTTCTCATCAAACAAA
17917348 AAAGATAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATTTTCTCATCAAACAAACA
Found at i:17919318 original size:27 final size:27
Alignment explanation
Indices: 17919277--17919341 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
17919267 ACAAATGGAC
*
17919277 CAATTGAACATATAAAATTAGACTCGAG
1 CAATTGCA-ATATAAAATTAGACTCGAG
17919305 CAATTGCAATATAAAATTAGACTCGAG
1 CAATTGCAATATAAAATTAGACTCGAG
17919332 CAATTGCAAT
1 CAATTGCAAT
17919342 TATGTCTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 29 0.81
28 7 0.19
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.26
Consensus pattern (27 bp):
CAATTGCAATATAAAATTAGACTCGAG
Found at i:17920556 original size:66 final size:66
Alignment explanation
Indices: 17920450--17920586 Score: 274
Period size: 66 Copynumber: 2.1 Consensus size: 66
17920440 GAAGAAAAAA
17920450 ATAAAGGAAGAAAATTTTGTTTAATTTAATTTCTATAATTTTGTAAATTTTTAATATATTTTATT
1 ATAAAGGAAGAAAATTTTGTTTAATTTAATTTCTATAATTTTGTAAATTTTTAATATATTTTATT
17920515 T
66 T
17920516 ATAAAGGAAGAAAATTTTGTTTAATTTAATTTCTATAATTTTGTAAATTTTTAATATATTTTATT
1 ATAAAGGAAGAAAATTTTGTTTAATTTAATTTCTATAATTTTGTAAATTTTTAATATATTTTATT
17920581 T
66 T
17920582 ATAAA
1 ATAAA
17920587 ATTTTAATAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 71 1.00
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.52
Consensus pattern (66 bp):
ATAAAGGAAGAAAATTTTGTTTAATTTAATTTCTATAATTTTGTAAATTTTTAATATATTTTATT
T
Found at i:17920929 original size:20 final size:20
Alignment explanation
Indices: 17920881--17920932 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
17920871 TAGCAAGTAC
* *
17920881 CAAAATTTATAACAAAATAT
1 CAAAATTTCTAACAAAATAA
* *
17920901 CAAAATTTCTGACACAATAA
1 CAAAATTTCTAACAAAATAA
17920921 CAAAATTTCTAA
1 CAAAATTTCTAA
17920933 TGGTCACCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.29
Consensus pattern (20 bp):
CAAAATTTCTAACAAAATAA
Found at i:17923389 original size:19 final size:19
Alignment explanation
Indices: 17923367--17923405 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
17923357 ACTAGTTTTA
17923367 AAAATTATTAG-AAATTATT
1 AAAA-TATTAGAAAATTATT
17923386 AAAATATTAGAAAATTATT
1 AAAATATTAGAAAATTATT
17923405 A
1 A
17923406 GAAAATAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAATATTAGAAAATTATT
Found at i:17923434 original size:10 final size:10
Alignment explanation
Indices: 17923364--17923459 Score: 69
Period size: 10 Copynumber: 10.0 Consensus size: 10
17923354 ATTACTAGTT
17923364 TTAAAAATTA
1 TTAAAAATTA
*
17923374 TTAGAAATTA
1 TTAAAAATTA
17923384 TT-AAAA-TA
1 TTAAAAATTA
17923392 TTAGAAAATTA
1 TTA-AAAATTA
17923403 TTAGAAAA-TA
1 TTA-AAAATTA
* **
17923413 GTAAATGTTA
1 TTAAAAATTA
*
17923423 TTAAAAAGTA
1 TTAAAAATTA
**
17923433 TTAAATGTTA
1 TTAAAAATTA
17923443 -TAAAAA-T-
1 TTAAAAATTA
17923450 TTAAAAATTA
1 TTAAAAATTA
17923460 CAACTCCTTT
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
8 11 0.17
9 10 0.15
10 34 0.52
11 10 0.15
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:17924197 original size:26 final size:26
Alignment explanation
Indices: 17924168--17924218 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
17924158 ATATACATAT
17924168 AAATCTCGAGTCAAAAGTTGACTTAA
1 AAATCTCGAGTCAAAAGTTGACTTAA
* *
17924194 AAATTTGGAGTCAAAAGTTGACTTA
1 AAATCTCGAGTCAAAAGTTGACTTA
17924219 TTGATGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (26 bp):
AAATCTCGAGTCAAAAGTTGACTTAA
Found at i:17927739 original size:127 final size:126
Alignment explanation
Indices: 17927506--17927828 Score: 468
Period size: 127 Copynumber: 2.5 Consensus size: 126
17927496 GAAAATTCCT
* * *
17927506 TAAAACGAAGGCAATGTTTGATGTTTGAAAATTCGGGAAATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTTAATGTTTGGAAATTCGAG-AATCGTGCCCTATCGTGCTGGGTTTCG
* *
17927571 ATTTCCCGTTTGTTCAAAATAATCGAATATTGCTTTAGAATTTTACTCGTGTTCTCCAAATTC
64 ATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTCTCCAAATTC
* * *
17927634 TAAAACAAGGCAATATTCAATGTTTGGAAATTCAGAGAATCGTGCCCTATCGTGCTGGGTTTTGA
1 TAAAACAAGGCAATGTTTAATGTTTGGAAATTC-GAGAATCGTGCCCTATCGTGCTGGGTTTCGA
* * * *
17927699 TTTCCGGTTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTCGTGTTTTCTAAATTC
65 TTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTCTCCAAATTC
* *
17927761 TAAAGCAAGGCAATGTTTAATGTTTGGAAATTCGAGGAATCGTGTCCTA-CTGTGCTGGGTTTCG
1 TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGA-GAATCGTGCCCTATC-GTGCTGGGTTTCG
17927825 ATTT
64 ATTT
17927829 TTCGTTGAGC
Statistics
Matches: 175, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
126 3 0.02
127 164 0.94
128 8 0.05
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (126 bp):
TAAAACAAGGCAATGTTTAATGTTTGGAAATTCGAGAATCGTGCCCTATCGTGCTGGGTTTCGAT
TTCCCGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTGTTCTCCAAATTC
Found at i:17931122 original size:19 final size:19
Alignment explanation
Indices: 17931098--17931138 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
17931088 GATGCCTCAT
*
17931098 TTACATT-CATGCATTTGCA
1 TTACATTACAT-CATATGCA
17931117 TTACATTACATCATATGCA
1 TTACATTACATCATATGCA
17931136 TTA
1 TTA
17931139 AAGGCCATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.41
Consensus pattern (19 bp):
TTACATTACATCATATGCA
Found at i:17933870 original size:27 final size:26
Alignment explanation
Indices: 17933835--17933946 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
17933825 AGCATGGCTG
* *
17933835 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
17933861 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
17933889 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
17933916 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
17933943 CCAG
1 CCAG
17933947 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:17933927 original size:54 final size:54
Alignment explanation
Indices: 17933835--17933946 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
17933825 AGCATGGCTG
* *
17933835 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
17933889 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
17933943 CCAG
1 CCAG
17933947 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:17942597 original size:45 final size:45
Alignment explanation
Indices: 17942542--17942874 Score: 258
Period size: 45 Copynumber: 7.6 Consensus size: 45
17942532 AAGTAACAAG
* * * *
17942542 TCTTGTCTCCCTGAAGTTGTAGTGGAGCAGACTAAAAATAGCAGA
1 TCTTGTCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* * * *
17942587 TCTTGCCTCCCTAAAGTTGCAGCGGAGTAGA-T--CGA-AGCA-A
1 TCTTGTCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* *
17942627 GTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGA
1 -TCTTGTCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* * * *
17942673 TCTTGTCTCCCTGAAGCTGCAGTGGAACAGA-TCGAAG-TAAC-GA
1 TCTTGTCTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGATAGCAGA
* * * * * *
17942716 GTCTTATCTCCCTGAAGTTGTACTGGAGTAGACTGAAGATAGTAGA
1 -TCTTGTCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
* **
17942762 TCTTGTCTCCCTAAAGTTGCAGTGGGGCAGA-TCGAAGCCA-C-GA
1 TCTTGTCTCCCTAAAGTTGCAGTGGAGCAGACT-GAAGATAGCAGA
* * * * ** * *
17942805 TCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAACAAA
1 T-CTTGTCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
17942850 TCTTGTCTCCCTAAAGTTGCAGTGG
1 TCTTGTCTCCCTAAAGTTGCAGTGG
17942875 GGCAAATCGA
Statistics
Matches: 224, Mismatches: 48, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
40 1 0.00
41 30 0.13
42 2 0.01
43 6 0.03
44 86 0.38
45 96 0.43
46 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (45 bp):
TCTTGTCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAGA
Found at i:17942729 original size:44 final size:44
Alignment explanation
Indices: 17942531--17942921 Score: 237
Period size: 44 Copynumber: 8.9 Consensus size: 44
17942521 AGAGCGGGTT
* * * *
17942531 GAAGTAACAAGTCTTGTCTCCCTGAAGTTGTAGTGGAGCAGACTA
1 GAAGTAACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TC
* * * ** * * *
17942576 AAAATAGC-AGATCTTGCCTCCCTAAAGTTGCAGCGGAGTAGATC
1 GAAGTAACGAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * *
17942620 GAAG---CAAGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGA-C
1 GAAGTAACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * *
17942660 TGAAGATAGC-AGATCTTGTCTCCCTGAAGCTGCAGTGGAACAGATC
1 -GAAG-TAACGAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * *
17942706 GAAGTAACGAGTCTTATCTCCCTGAAGTTGTACTGGAGTAGA-C
1 GAAGTAACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * *
17942749 TGAAG-ATA-GTAGATCTTGTCTCCCTAAAGTTGCAGTGGGGCAGATC
1 -GAAGTA-ACG-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
** * * * *
17942795 GAAGCCACGA-TCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTT
1 GAAGTAACGAGT-CTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
* * * * * *
17942839 GAAGTAACAAATCTTGTCTCCCTAAAGTTGCAGTGGGGCAAATC
1 GAAGTAACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
** * *
17942883 GAAGCCACGA-TCCTTATCTCTCTGAAGTTGCAGTAGAGC
1 GAAGTAACGAGT-CTTATCTCCCTGAAGTTGCAGTGGAGC
17942922 GGGTTGAAAT
Statistics
Matches: 265, Mismatches: 61, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.00
41 31 0.12
42 2 0.01
43 5 0.02
44 127 0.48
45 96 0.36
46 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (44 bp):
GAAGTAACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATC
Found at i:17942750 original size:89 final size:89
Alignment explanation
Indices: 17942531--17942921 Score: 443
Period size: 89 Copynumber: 4.4 Consensus size: 89
17942521 AGAGCGGGTT
* * * * * *
17942531 GAAGTAACAAGTCTTGTCTCCCTGAAGTTGTAGTGGAGCAGACTAAAAATAGCAGATCTTGCCTC
1 GAAGCAACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTTGTCTC
* *
17942596 CCTAAAGTTGCAGCGGAGTAGATC
66 CCTAAAGTTGCAGTGGAGCAGATC
*
17942620 GAAGC-A--AGTCTTATCTCCCTAAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTTGTCTC
1 GAAGCAACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTTGTCTC
* * *
17942682 CCTGAAGCTGCAGTGGAACAGATC
66 CCTAAAGTTGCAGTGGAGCAGATC
* * * *
17942706 GAAGTAACGAGTCTTATCTCCCTGAAGTTGTACTGGAGTAGACTGAAGATAGTAGATCTTGTCTC
1 GAAGCAACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTTGTCTC
*
17942771 CCTAAAGTTGCAGTGGGGCAGATC
66 CCTAAAGTTGCAGTGGAGCAGATC
* * * * ** * *
17942795 GAAGCCACGA-TCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAACAAATCTTGTCT
1 GAAGCAACGAGT-CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTTGTCT
* *
17942858 CCCTAAAGTTGCAGTGGGGCAAATC
65 CCCTAAAGTTGCAGTGGAGCAGATC
* * * *
17942883 GAAGCCACGA-TCCTTATCTCTCTGAAGTTGCAGTAGAGC
1 GAAGCAACGAGT-CTTATCTCCCTGAAGTTGTAGTGGAGC
17942922 GGGTTGAAAT
Statistics
Matches: 265, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
86 74 0.28
87 1 0.00
88 77 0.29
89 113 0.43
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (89 bp):
GAAGCAACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAGATCTTGTCTC
CCTAAAGTTGCAGTGGAGCAGATC
Found at i:17942999 original size:46 final size:45
Alignment explanation
Indices: 17942892--17943002 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 45
17942882 CGAAGCCACG
* * * **
17942892 ATCCTTATCTCTCTGAAGTTGCAGTAGAGCGGGTTGAAATAACAA
1 ATCCTTATCTCTCTGAAGTTACAATAGAGCGGATAAAAATAACAA
* *
17942937 ATCCGTATCTCTCTGAAGTTACAATAGAGCAGGATAAAAATATGCAA
1 ATCCTTATCTCTCTGAAGTTACAATAGAGC-GGATAAAAATA-ACAA
*
17942984 A-CCTTATCTCCCTGAAGTT
1 ATCCTTATCTCTCTGAAGTT
17943003 GCAGTGGAGC
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
45 27 0.49
46 24 0.44
47 4 0.07
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCCTTATCTCTCTGAAGTTACAATAGAGCGGATAAAAATAACAA
Found at i:17943013 original size:46 final size:46
Alignment explanation
Indices: 17942892--17943014 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
17942882 CGAAGCCACG
* **
17942892 ATCCTTATCTCTCTGAAGTTGCAGTAGAGC-GGGTTGAAATAACAA
1 ATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATAACAA
* * * *
17942937 ATCCGTATCTCTCTGAAGTTACAATAGAGCAGGATAAAAATATGCAA
1 ATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATA-ACAA
* *
17942984 A-CCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 ATCCTTATCTCTCTGAAGTTGCAGTAGAGCAG
17943015 TTGCAGTAGA
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
45 27 0.42
46 33 0.52
47 4 0.06
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (46 bp):
ATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAAATAACAA
Found at i:17945003 original size:2 final size:2
Alignment explanation
Indices: 17944996--17945025 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17944986 CTTTTTGTAA
17944996 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17945026 TAATATTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17945735 original size:127 final size:127
Alignment explanation
Indices: 17945558--17945876 Score: 435
Period size: 127 Copynumber: 2.5 Consensus size: 127
17945548 GAAAATTCCT
** * *
17945558 TAAAACGAAGGCAATGTTTGATGTTTGAAAATTCGGGAAATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCG
* * *
17945623 ATTTCCCG-TTTGTTCAAAATAATCGAATATTGCTTTAGAATTTCACTCGTGTTTTCCAAATTC
65 ATTT-CCGATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTAGTGTTTTCCAAATTA
* * * *
17945686 TAAAACAAGGCAATATTCAATATTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTGGA
1 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA
* * **
17945751 TTTCTGATTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTAGTGTTTTTTAAATTA
66 TTTCCGATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTAGTGTTTTCCAAATTA
** *
17945813 TAAAGTAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTA-CTGTGCTGGGTTTCG
1 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATC-GTGCTGGGTTTCG
17945877 GTTTTTCGTT
Statistics
Matches: 167, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
126 3 0.02
127 158 0.95
128 6 0.04
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.37
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTCCGATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTAGTGTTTTCCAAATTA
Found at i:17946434 original size:19 final size:19
Alignment explanation
Indices: 17946387--17946423 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17946377 TTTTTTAAAA
17946387 TATAAA-ATTTGGAATTTT
1 TATAAATATTTGGAATTTT
17946405 TATAAATATTTGGAATTTT
1 TATAAATATTTGGAATTTT
17946424 AAAAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:17947206 original size:3 final size:3
Alignment explanation
Indices: 17947198--17947252 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
17947188 ATAATATACT
17947198 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
17947246 TTA TTA T
1 TTA TTA T
17947253 CTCTTAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17959007 original size:14 final size:16
Alignment explanation
Indices: 17958988--17959021 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
17958978 TCTTTTCTTC
17958988 TTTCG-TTCTT-TCTA
1 TTTCGTTTCTTCTCTA
17959002 TTTCGTTTCTTCTCTA
1 TTTCGTTTCTTCTCTA
17959018 TTTC
1 TTTC
17959022 TTTTTCTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 5 0.28
16 8 0.44
ACGTcount: A:0.06, C:0.24, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTCGTTTCTTCTCTA
Found at i:17959022 original size:26 final size:25
Alignment explanation
Indices: 17958971--17959024 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
17958961 ATTTCTCCTT
* * *
17958971 TTTCTTTTCTTTTCTTCTTTCGTTC
1 TTTCTTTTCGTTTCTTCTCTAGTTC
*
17958996 TTTCTATTTCGTTTCTTCTCTATTTC
1 TTTCT-TTTCGTTTCTTCTCTAGTTC
17959022 TTT
1 TTT
17959025 TTCTTGTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.04, C:0.22, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTCTTTTCGTTTCTTCTCTAGTTC
Found at i:17959213 original size:3 final size:3
Alignment explanation
Indices: 17959205--17959250 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
17959195 TTGATAAAAT
17959205 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
17959251 GTAAATATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:17961596 original size:2 final size:2
Alignment explanation
Indices: 17961589--17961617 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
17961579 TGTTTGCGTG
17961589 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17961618 CATCGTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17970956 original size:13 final size:13
Alignment explanation
Indices: 17970938--17970962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17970928 TATGTGATAT
17970938 GTGTGAAAATTTC
1 GTGTGAAAATTTC
17970951 GTGTGAAAATTT
1 GTGTGAAAATTT
17970963 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:17971743 original size:42 final size:43
Alignment explanation
Indices: 17971622--17971775 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
17971612 CATAGGAATT
* **
17971622 TCGATATGT-ATTATCGTGTAAGACCAC-GTCTGGGATGTTGGCA
1 TCGATATCTGATT-TCGTGTAAGACC-CTGTCTGGGACATTGGCA
* * * *
17971665 TCGATTTGTGATTTACGTGTAAGACCATGTCAGGGACATTGGCA
1 TCGATATCTGATTT-CGTGTAAGACCCTGTCTGGGACATTGGCA
*
17971709 TCG-TATCTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCA
1 TCGATATCTGATTTCGTGTAAGACCCTGTCTGGGACATTGGCA
* * *
17971751 TCGATATTTGATTACATGTAAGACC
1 TCGATATCTGATTTCGTGTAAGACC
17971776 ACATCTAGGA
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 29 0.31
43 35 0.37
44 30 0.32
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGATATCTGATTTCGTGTAAGACCCTGTCTGGGACATTGGCA
Found at i:17975488 original size:22 final size:23
Alignment explanation
Indices: 17975462--17975508 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
17975452 TAAAAGAAAT
17975462 AGAATAAAGAAAAGA-AACAAAA
1 AGAATAAAGAAAAGAGAACAAAA
* *
17975484 AGAATAGAGAAAAGAGAACAGAA
1 AGAATAAAGAAAAGAGAACAAAA
17975507 AG
1 AG
17975509 CATTCGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.70, C:0.04, G:0.21, T:0.04
Consensus pattern (23 bp):
AGAATAAAGAAAAGAGAACAAAA
Found at i:17975497 original size:27 final size:30
Alignment explanation
Indices: 17975453--17975507 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 30
17975443 TAAAGTAAAT
17975453 AAAAGAAATAGAATAAAGA-AA-AGAAACA
1 AAAAGAAATAGAATAAAGAGAACAGAAACA
17975481 AAAAG-AATAGAGA-AAAGAGAACAGAAA
1 AAAAGAAATAGA-ATAAAGAGAACAGAAA
17975508 GCATTCGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 11 0.46
28 8 0.33
29 5 0.21
ACGTcount: A:0.73, C:0.04, G:0.18, T:0.05
Consensus pattern (30 bp):
AAAAGAAATAGAATAAAGAGAACAGAAACA
Found at i:17977032 original size:23 final size:23
Alignment explanation
Indices: 17977006--17977080 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 23
17976996 AGGCACTTGA
17977006 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
*
17977029 TGTGTCGTA--TCAGGCATCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* * **
17977050 TGTGTC--ATTTTAGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
17977071 TGTGTCGTAT
1 TGTGTCGTAT
17977081 ACTGATCAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.02
21 30 0.71
23 11 0.26
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:17979844 original size:2 final size:2
Alignment explanation
Indices: 17979839--17979881 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
17979829 TTTTAGGATA
17979839 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17979881 A
1 A
17979882 GTGATACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:17980828 original size:21 final size:20
Alignment explanation
Indices: 17980779--17980829 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
17980769 AGAGTGTTTT
17980779 CAATCAAAAAAAGTAAAAAA
1 CAATCAAAAAAAGTAAAAAA
* *
17980799 AAGACCAAATAAACAG-AAAAAA
1 CA-ATCAAA-AAA-AGTAAAAAA
17980821 CAATCAAAA
1 CAATCAAAA
17980830 TTCAAAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
20 2 0.08
21 10 0.42
22 10 0.42
23 2 0.08
ACGTcount: A:0.73, C:0.14, G:0.06, T:0.08
Consensus pattern (20 bp):
CAATCAAAAAAAGTAAAAAA
Found at i:17981070 original size:19 final size:19
Alignment explanation
Indices: 17981024--17981070 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 19
17981014 TCCAAGAATT
*
17981024 TGATAGAATTTTGAGAGGA
1 TGATAGAGTTTTGAGAGGA
17981043 T-AT-GAGTTTTGAGAGGA
1 TGATAGAGTTTTGAGAGGA
17981060 TGATAGAGTTT
1 TGATAGAGTTT
17981071 AGGTCACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 14 0.56
18 4 0.16
19 7 0.28
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (19 bp):
TGATAGAGTTTTGAGAGGA
Found at i:17984204 original size:13 final size:14
Alignment explanation
Indices: 17984186--17984219 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
17984176 GAGAGATGTT
17984186 TAATTAGTT-AATA
1 TAATTAGTTAAATA
*
17984199 TAATTACTTAAATA
1 TAATTAGTTAAATA
17984213 TAATTAG
1 TAATTAG
17984220 ATAACAAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (14 bp):
TAATTAGTTAAATA
Found at i:17984273 original size:65 final size:67
Alignment explanation
Indices: 17984149--17984279 Score: 196
Period size: 65 Copynumber: 2.0 Consensus size: 67
17984139 CAACTTGAAG
17984149 AGATAACAAGACAAAAGCAAGGTCTGAGAGAGATGTTTAATTAGTTAATATAATTACTTAAATAT
1 AGATAACAAGACAAAAGCAAGGTCT--GAGAGATGTTTAATTAGTTAATATAATTACTTAAATAT
17984214 AATT
64 AATT
* *
17984218 AGATAACAAGACAAAAGCAAGGT-T-AG-TATTTTATAATTAGTTAATATAATTACTTAAATATA
1 AGATAACAAGACAAAAGCAAGGTCTGAGAGATGTT-TAATTAGTTAATATAATTACTTAAATATA
17984280 GCAACCTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
64 4 0.07
65 31 0.53
68 1 0.02
69 23 0.39
ACGTcount: A:0.47, C:0.07, G:0.14, T:0.32
Consensus pattern (67 bp):
AGATAACAAGACAAAAGCAAGGTCTGAGAGATGTTTAATTAGTTAATATAATTACTTAAATATAA
TT
Found at i:17985386 original size:28 final size:29
Alignment explanation
Indices: 17985346--17985402 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
17985336 AATATGAGGC
*
17985346 TTCAGATAAGACAT-CAAAAAAAAATGAA
1 TTCAGATAAGACATAAAAAAAAAAATGAA
17985374 TTCAGATAAGACATAAAAAAAAAAATGAA
1 TTCAGATAAGACATAAAAAAAAAAATGAA
17985403 CACTGATGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.63, C:0.09, G:0.11, T:0.18
Consensus pattern (29 bp):
TTCAGATAAGACATAAAAAAAAAAATGAA
Found at i:17985753 original size:18 final size:18
Alignment explanation
Indices: 17985730--17985768 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
17985720 GAGGAGAATA
17985730 TGGGGTTGGTACCACTAG
1 TGGGGTTGGTACCACTAG
17985748 TGGGGTTGGTACCACTAG
1 TGGGGTTGGTACCACTAG
17985766 TGG
1 TGG
17985769 ATATTTTCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.41, T:0.28
Consensus pattern (18 bp):
TGGGGTTGGTACCACTAG
Found at i:17990702 original size:21 final size:21
Alignment explanation
Indices: 17990676--17990719 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
17990666 TTACTGCTTA
17990676 AACATGACAAGTTTTCTAAGC
1 AACATGACAAGTTTTCTAAGC
17990697 AACATGACAAGTTTTCTAAGC
1 AACATGACAAGTTTTCTAAGC
17990718 AA
1 AA
17990720 ACAATGCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (21 bp):
AACATGACAAGTTTTCTAAGC
Found at i:17991521 original size:18 final size:17
Alignment explanation
Indices: 17991461--17991524 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 17
17991451 TAATTAAAAG
*
17991461 ATAAATTATTATAAAATA
1 ATAAATTGTTAT-AAATA
17991479 ATAATATATGTTAAATAATATA
1 ATAA-AT-TGTT--ATAA-ATA
17991501 ATAAATTGTTGATAAATA
1 ATAAATTGTT-ATAAATA
17991519 ATAAAT
1 ATAAAT
17991525 AATAAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 13 0.33
19 6 0.15
20 7 0.18
21 4 0.10
22 9 0.23
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
ATAAATTGTTATAAATA
Found at i:17991524 original size:7 final size:7
Alignment explanation
Indices: 17991512--17991544 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
17991502 TAAATTGTTG
17991512 ATAAATA
1 ATAAATA
17991519 ATAAATA
1 ATAAATA
17991526 ATAAATA
1 ATAAATA
17991533 ATAAATA
1 ATAAATA
17991540 ATAAA
1 ATAAA
17991545 ATATAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
ATAAATA
Found at i:17995836 original size:25 final size:24
Alignment explanation
Indices: 17995778--17995874 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 24
17995768 ATTGGCTCGT
*
17995778 ATGAGCTTCCCGTTAATGGCTCTC
1 ATGAGCTTCCCGTTAATGGCTCAC
* * *
17995802 -CGAAGTTTCCTGTTACATGGCTCAC
1 ATG-AGCTTCCCGTTA-ATGGCTCAC
17995827 ATGAGCTTCCCGATTAATGGCTCGA-
1 ATGAGCTTCCCG-TTAATGGCTC-AC
* *
17995852 AAGAGCTTCCCGTTTATGTGCTC
1 ATGAGCTTCCCGTTAATG-GCTC
17995875 GTAAGAGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.02
24 15 0.26
25 37 0.64
26 5 0.09
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCCCGTTAATGGCTCAC
Found at i:17995875 original size:25 final size:25
Alignment explanation
Indices: 17995829--17995890 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
17995819 TGGCTCACAT
17995829 GAGCTTCCCGATTAATGGCTCGAAA
1 GAGCTTCCCGATTAATGGCTCGAAA
* *
17995854 GAGCTTCCCG-TTTATGTGCTCGTAA
1 GAGCTTCCCGATTAATG-GCTCGAAA
17995879 GAGCATTCCCGA
1 GAGC-TTCCCGA
17995891 ATATGAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 5 0.16
25 21 0.66
26 6 0.19
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (25 bp):
GAGCTTCCCGATTAATGGCTCGAAA
Found at i:17996878 original size:18 final size:17
Alignment explanation
Indices: 17996824--17996878 Score: 62
Period size: 18 Copynumber: 3.3 Consensus size: 17
17996814 CACTTTTTCA
17996824 ATCATCCCTCATCA--C
1 ATCATCCCTCATCATTC
*
17996839 -TCATCCCTCATCCTTC
1 ATCATCCCTCATCATTC
17996855 ATTCATCCCTCACTCATTC
1 A-TCATCCCTCA-TCATTC
17996874 ATCAT
1 ATCAT
17996879 TCTCTCCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 12 0.36
16 1 0.03
18 14 0.42
19 6 0.18
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.35
Consensus pattern (17 bp):
ATCATCCCTCATCATTC
Found at i:18004772 original size:10 final size:10
Alignment explanation
Indices: 18004757--18004783 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18004747 GCCTAAGATG
18004757 TGAATTGGAC
1 TGAATTGGAC
18004767 TGAATTGGAC
1 TGAATTGGAC
18004777 TGAATTG
1 TGAATTG
18004784 AATATGAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (10 bp):
TGAATTGGAC
Found at i:18005192 original size:25 final size:24
Alignment explanation
Indices: 18005130--18005199 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 24
18005120 TAGCTCGAAA
*
18005130 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCTTCCCGTTATTAGCTCTCAT
** * * *
18005154 GAGCTTCCTATTATATGGTTCTTAT
1 GAGCTTCCCGTTAT-TAGCTCTCAT
18005179 GAGCTTCCCGTTATTAGCTCT
1 GAGCTTCCCGTTATTAGCTCT
18005200 TCGGAGCATC
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
24 16 0.46
25 19 0.54
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (24 bp):
GAGCTTCCCGTTATTAGCTCTCAT
Found at i:18005206 original size:24 final size:24
Alignment explanation
Indices: 18005130--18005212 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
18005120 TAGCTCGAAA
*
18005130 GAGCGTCCCGTTATTAGCTC-TCAT
1 GAGCTTCCCGTTATTAGCTCTTC-T
** * * *
18005154 GAGCTTCCTATTATATGGTTCTTAT
1 GAGCTTCCCGTTAT-TAGCTCTTCT
*
18005179 GAGCTTCCCGTTATTAGCTCTTCG
1 GAGCTTCCCGTTATTAGCTCTTCT
*
18005203 GAGCATCCCG
1 GAGCTTCCCG
18005213 ATCGGTTGTG
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
24 26 0.59
25 17 0.39
26 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (24 bp):
GAGCTTCCCGTTATTAGCTCTTCT
Found at i:18013777 original size:26 final size:26
Alignment explanation
Indices: 18013748--18013829 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
18013738 TGATACAAAT
18013748 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18013774 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18013800 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18013826 TGAT
1 TGAT
18013830 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18020756 original size:26 final size:26
Alignment explanation
Indices: 18020727--18020834 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
18020717 TGATACAAAT
18020727 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
18020753 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
18020779 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18020805 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
18020831 TGAT
1 TGAT
18020835 TGGAATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:18021324 original size:41 final size:41
Alignment explanation
Indices: 18021256--18021393 Score: 251
Period size: 41 Copynumber: 3.4 Consensus size: 41
18021246 CGTTCTAGAA
*
18021256 AAAACGCCGCT-AAAACCAAAGCATTAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
*
18021296 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCACTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
18021337 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
18021378 AAAACGCCGCTAAAAA
1 AAAACGCCGCTAAAAA
18021394 TCTCATAACC
Statistics
Matches: 94, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 11 0.12
41 83 0.88
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.18
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGT
Found at i:18021573 original size:14 final size:14
Alignment explanation
Indices: 18021551--18021590 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
18021541 TTAATTATCA
* *
18021551 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
18021565 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
18021579 ATATGGTTTAAG
1 TTATGGTTTAAG
18021591 CATGTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:18021704 original size:14 final size:14
Alignment explanation
Indices: 18021687--18021725 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
18021677 GGATTATGAT
18021687 TTAGGGTTTAAAGG
1 TTAGGGTTTAAAGG
18021701 TTAGGGTTTAAAGG
1 TTAGGGTTTAAAGG
18021715 TTAGGGTTTAA
1 TTAGGGTTTAA
18021726 TTAAGTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.33, T:0.38
Consensus pattern (14 bp):
TTAGGGTTTAAAGG
Found at i:18023555 original size:18 final size:17
Alignment explanation
Indices: 18023534--18023576 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
18023524 ATGATCTTAA
18023534 TGATGATGATGTTGATAC
1 TGATGATGATGTTGAT-C
*
18023552 TGATGTTGATGTTGATC
1 TGATGATGATGTTGATC
18023569 TCGATGAT
1 T-GATGAT
18023577 TATACCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.23, C:0.07, G:0.28, T:0.42
Consensus pattern (17 bp):
TGATGATGATGTTGATC
Found at i:18024136 original size:61 final size:61
Alignment explanation
Indices: 18024023--18024204 Score: 337
Period size: 61 Copynumber: 3.0 Consensus size: 61
18024013 CCAAAATTTG
18024023 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGGAAAATTC
1 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGAT-TTTTTGTTCTGAAATGGAAAATTC
18024085 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTGAAATGGAAAATTC
1 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTGAAATGGAAAATTC
*
18024146 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTTGTTCTGAAATGCAAAA
1 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGA-TTTTTTGTTCTGAAATGGAAAA
18024205 ACTAGTTTGT
Statistics
Matches: 118, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
61 60 0.51
62 58 0.49
ACGTcount: A:0.19, C:0.08, G:0.18, T:0.55
Consensus pattern (61 bp):
ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTGAAATGGAAAATTC
Found at i:18024256 original size:123 final size:121
Alignment explanation
Indices: 18024023--18024257 Score: 273
Period size: 123 Copynumber: 1.9 Consensus size: 121
18024013 CCAAAATTTG
* *
18024023 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGGAAAATTCATT
1 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGAAAAACTCATT
* *** *
18024088 TCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTGTTCTGAAATGGAAAATTC
66 TCTTTTTTGACAGTTTTATG--TGTTCAATGGATTTTTTGATCTGAAATGGAAAATTC
*
18024146 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATTTTTTTGTTCTGAAATGCAAAAACT-AG
1 ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATG-AAAAACTCA-
*
18024210 TTTGTGCTTTTTT-ACTGTTTT-TG-GTTCAAT-GATTTCTTCTGATCTGAA
64 -TT-T-CTTTTTTGACAGTTTTATGTGTTCAATGGATTT-TT-TGATCTGAA
18024258 TTCTCTACCA
Statistics
Matches: 96, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
121 5 0.05
122 6 0.06
123 62 0.65
124 5 0.05
125 4 0.04
126 7 0.07
127 7 0.07
ACGTcount: A:0.18, C:0.09, G:0.17, T:0.55
Consensus pattern (121 bp):
ATTTCTTTTTTGTCAGTTTTATGTCTGTTGTTTGGATATTTTTGTTCTGAAATGAAAAACTCATT
TCTTTTTTGACAGTTTTATGTGTTCAATGGATTTTTTGATCTGAAATGGAAAATTC
Found at i:18026086 original size:49 final size:49
Alignment explanation
Indices: 18026031--18026334 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
18026021 TTTTACATTA
18026031 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
18026080 GCCATTAGGCCTTATCACATATACATACACTTTTACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
18026129 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
18026169 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
18026218 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
18026267 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
18026316 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
18026335 CACATATGTA
Statistics
Matches: 236, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
40 36 0.15
41 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 194 0.82
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:18026145 original size:89 final size:89
Alignment explanation
Indices: 18026052--18026329 Score: 421
Period size: 89 Copynumber: 3.0 Consensus size: 89
18026042 TTATCACATA
*
18026052 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTTACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
18026117 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
18026141 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
18026206 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
*
18026230 CATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAC
1 --T-AC--AT--A--CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATAC
* * * *
18026295 ACTTTCACATTCATCGCATTGGCCATTCGGCCT
57 ACTTTCACATTCACCACATCGGCCATTAGGCCT
18026328 TA
1 TA
18026330 TCACACACAT
Statistics
Matches: 174, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 88 0.51
91 1 0.01
92 2 0.01
94 2 0.01
95 1 0.01
96 2 0.01
98 78 0.45
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (89 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
TTCACCACATCGGCCATTAGGCCT
Found at i:18026279 original size:138 final size:138
Alignment explanation
Indices: 18026031--18026280 Score: 464
Period size: 138 Copynumber: 1.8 Consensus size: 138
18026021 TTTTACATTA
*
18026031 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
*
18026096 ACATATACATACACTTTTACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
18026161 CCACATCG
131 CCACATCG
18026169 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
* *
18026234 ACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTA
18026281 TCACATATAC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (138 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
CCACATCG
Found at i:18030012 original size:40 final size:40
Alignment explanation
Indices: 18029950--18030194 Score: 364
Period size: 40 Copynumber: 6.1 Consensus size: 40
18029940 CGAATACACG
* * * * *
18029950 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
*
18029990 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
* * * *
18030030 TCACTAGCACGAATGCTCTTCGGGACTTTGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
*
18030070 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
*
18030110 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
* *
18030150 TCACTAGCATGAATGCTCTTCGGAACTTAGTCTGGATATA
1 TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
18030190 TCACT
1 TCACT
18030195 CTCAATTCTC
Statistics
Matches: 190, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 190 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGAACTTAGTCCGGATACA
Found at i:18032216 original size:49 final size:49
Alignment explanation
Indices: 18032161--18032464 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
18032151 TTTTACATTA
18032161 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
18032210 GCCATTAGGCCTTATCACATATACATACACTTTTACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
18032259 GCCATTAGG------C-C-T-TACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
18032299 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
18032348 GCCATTAGGCCTCATCACATATACATCCACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* * *
18032397 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCGCATTG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
18032446 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
18032465 CACATATGTA
Statistics
Matches: 236, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
40 36 0.15
41 1 0.00
42 1 0.00
43 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 194 0.82
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:18032275 original size:89 final size:89
Alignment explanation
Indices: 18032182--18032459 Score: 421
Period size: 89 Copynumber: 3.0 Consensus size: 89
18032172 TTATCACATA
*
18032182 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTTACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
18032247 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
18032271 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
1 TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
18032336 TTCACCACATCGGCCATTAGGCCT
66 TTCACCACATCGGCCATTAGGCCT
*
18032360 CATCACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATAC
1 --T-AC--AT--A--CACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATAC
* * * *
18032425 ACTTTCACATTCATCGCATTGGCCATTCGGCCT
57 ACTTTCACATTCACCACATCGGCCATTAGGCCT
18032458 TA
1 TA
18032460 TCACACACAT
Statistics
Matches: 174, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 88 0.51
91 1 0.01
92 2 0.01
94 2 0.01
95 1 0.01
96 2 0.01
98 78 0.45
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (89 bp):
TACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCACATATACATACACTTTCACA
TTCACCACATCGGCCATTAGGCCT
Found at i:18032409 original size:138 final size:138
Alignment explanation
Indices: 18032161--18032410 Score: 464
Period size: 138 Copynumber: 1.8 Consensus size: 138
18032151 TTTTACATTA
*
18032161 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
*
18032226 ACATATACATACACTTTTACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
18032291 CCACATCG
131 CCACATCG
18032299 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
* *
18032364 ACATATACATCCACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTA
18032411 TCACATATAC
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (138 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTCATC
ACATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTACATACACTTTCACATTCA
CCACATCG
Found at i:18037308 original size:289 final size:290
Alignment explanation
Indices: 18036305--18037600 Score: 2508
Period size: 290 Copynumber: 4.5 Consensus size: 290
18036295 CCAACCTTAT
18036305 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
18036370 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
18036434 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
18036499 TCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTA-T
18036564 TTTTTTATATTAATAATGTTTGATTTTAATA
260 TTTTTTATATTAATAATGTTTGATTTTAATA
18036595 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
18036660 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
18036725 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
18036790 TCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
18036855 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
* *
18036885 TTTAAATATTTTAAAGATTTAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATGTCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
18036950 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
18037015 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
*
18037080 TCTGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTA-T
196 TCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
18037144 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
*
18037174 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
18037239 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
18037304 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
131 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
*
18037369 TCCAATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
196 TCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
18037434 TTTTTATATTAATAATGTTTGATTTTAATA
261 TTTTTATATTAATAATGTTTGATTTTAATA
18037464 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
18037529 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
18037593 AAAGACTT
131 AAAGACTT
18037601 TTTATCACAA
Statistics
Matches: 993, Mismatches: 11, Indels: 5
0.98 0.01 0.00
Matches are distributed among these distances:
289 301 0.30
290 554 0.56
291 138 0.14
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (290 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAA
AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
TCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
TTTTTATATTAATAATGTTTGATTTTAATA
Found at i:18037404 original size:579 final size:579
Alignment explanation
Indices: 18036305--18037600 Score: 2513
Period size: 579 Copynumber: 2.2 Consensus size: 579
18036295 CCAACCTTAT
18036305 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
18036370 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAA
18036435 AAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATTT
131 AAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATTT
18036500 CCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTT
196 CCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTA-TT
18036565 TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
260 TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
*
18036630 GAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAAC
325 GAAACCTGACAGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAAC
18036695 GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
390 GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
*
18036760 TATTGAATATTTATATAACATTAATTTATTTCCGATTTACTTATAAAAATTAAACTACGATTCTT
455 TATTGAATATTTATATAACATTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
18036825 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATA
520 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATA
* *
18036885 TTTAAATATTTTAAAGATTTAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATGTCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
*
18036950 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACACCACGTATGATGAATCTTAAAAAATTCAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTT-AAAAATTCAA
18037015 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
130 AAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATT
*
18037080 TCTGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTA-T
195 TCCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATT
18037144 TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
260 TTTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTG
18037209 GAAACCTGACAGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAAC
325 GAAACCTGACAGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAAC
18037274 GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
390 GCCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTAC
18037339 TATTGAATATTTATATAACATTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
455 TATTGAATATTTATATAACATTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTT
18037404 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATA
520 TTTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATA
18037464 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
1 TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
18037529 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAA
66 GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAA
18037594 AAGACTT
131 AAGACTT
18037601 TTTATCACAA
Statistics
Matches: 706, Mismatches: 9, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
578 18 0.03
579 435 0.62
580 116 0.16
581 137 0.19
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (579 bp):
TTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCT
GCAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAATTCAAA
AAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACATTAATTTATTT
CCGATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTT
TTTTATATTAATAATGTTTGATTTTAATATTTAAATATTTTAAAGATTCAAAGTATATAGGCTGG
AAACCTGACAGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGTAACAACG
CCACGTATGATGAATCTTAAAAAATTCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACT
ATTGAATATTTATATAACATTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGATTCTTT
TTTGATATTATTATATTCAAATTACTATTTTTTTATATTAATAATGTTTGATTTTAATA
Found at i:18037849 original size:15 final size:15
Alignment explanation
Indices: 18037805--18037860 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
18037795 AACGACATGT
*
18037805 ATATTACTTAATTAAA
1 ATATTATTTAATT-AA
18037821 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
18037834 ATATTATTTAATTAA
1 ATATTATTTAATTAA
18037849 ATATTATTTAAT
1 ATATTATTTAAT
18037861 CCTGCTACTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 3 0.09
13 7 0.20
14 2 0.06
15 16 0.46
16 4 0.11
17 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:18038005 original size:9 final size:9
Alignment explanation
Indices: 18037965--18038116 Score: 171
Period size: 9 Copynumber: 17.0 Consensus size: 9
18037955 TATTTGATAT
*
18037965 CATAATTTA
1 CATAACTTA
*
18037974 TATAACTTA
1 CATAACTTA
* *
18037983 CAAAACGTA
1 CATAACTTA
18037992 CATAACTTA
1 CATAACTTA
*
18038001 TATAACTTA
1 CATAACTTA
* *
18038010 GATAA-ATA
1 CATAACTTA
*
18038018 TATAACTTA
1 CATAACTTA
*
18038027 TATAACTTA
1 CATAACTTA
*
18038036 CATAACTCA
1 CATAACTTA
* *
18038045 TATAACATA
1 CATAACTTA
18038054 CATAACTTA
1 CATAACTTA
18038063 CATAACTTA
1 CATAACTTA
*
18038072 TATAACTTA
1 CATAACTTA
18038081 CATAACTTA
1 CATAACTTA
18038090 CATAACTTA
1 CATAACTTA
*
18038099 TATAACTTA
1 CATAACTTA
18038108 CATAACTTA
1 CATAACTTA
18038117 TATGTTGTCA
Statistics
Matches: 119, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
8 6 0.05
9 113 0.95
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:18043559 original size:15 final size:15
Alignment explanation
Indices: 18043536--18043565 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18043526 GCAACAACTT
18043536 AGAGCGAGGCAGCAG
1 AGAGCGAGGCAGCAG
*
18043551 AGAGGGAGGCAGCAG
1 AGAGCGAGGCAGCAG
18043566 CTGCAGCGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.50, T:0.00
Consensus pattern (15 bp):
AGAGCGAGGCAGCAG
Found at i:18043883 original size:33 final size:33
Alignment explanation
Indices: 18043833--18043914 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 33
18043823 TTAGAATTAA
* *
18043833 TGTTTTTGGTTGTATTTTTTATGTTAAATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
* *
18043866 TGTTTTTGGCTGCA--TTTTATATTATATTTGT
1 TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
* *
18043897 TGTATTTGGTTGGATTTT
1 TGTTTTTGGTTGCATTTT
18043915 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 26 0.65
33 14 0.35
ACGTcount: A:0.15, C:0.02, G:0.20, T:0.63
Consensus pattern (33 bp):
TGTTTTTGGTTGCATTTTTTATATTAAATTTGT
Found at i:18044105 original size:43 final size:43
Alignment explanation
Indices: 18043966--18044109 Score: 184
Period size: 43 Copynumber: 3.3 Consensus size: 43
18043956 ATCTGCCAAA
* * *
18043966 TTTAGCGGCG-TTTGTAAAAAAAACGCCGCTAAAAGCTTTAACC
1 TTTAGCGGCGCTTT-TCAAAAAAACGCCGCTAAAAGCCTTGACC
* *
18044009 TTTAGCGGCAC-TTGCAAAAAAAGCGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGCTTTTCAAAAAAA-CGCCGCTAAAAGCCTTGACC
** *
18044052 TTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACC
1 TTTAGCGGCGCTTTTCAAAAAAACGCCGCTAAAAGCCTTGACC
18044095 TTTAGCGGCGCTTTT
1 TTTAGCGGCGCTTTT
18044110 TTCCAATAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
42 7 0.08
43 74 0.84
44 7 0.08
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTCAAAAAAACGCCGCTAAAAGCCTTGACC
Found at i:18046316 original size:68 final size:66
Alignment explanation
Indices: 18046169--18046354 Score: 193
Period size: 68 Copynumber: 2.8 Consensus size: 66
18046159 ATATAGTTCG
* * * *
18046169 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGTAACCTAGC--CA-ATTTATCTCGT
1 GCTCTCTTGTACACATGGTGTACACTCAGTATCACCCATGTGACCTAGCTACATATATATCTCGT
18046231 A
66 A
* *
18046232 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGCTACATCATAATGTC
1 GCTCTCTTGTAC-ACATGGTGTACAC-TCAGTATCACCCATGTGACCTAGCTACAT-AT-ATATC
*
18046295 TTGTA
62 TCGTA
* * * **
18046300 GCTCTCTTGTACACATGATGTGCACTCAGCATCATACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACACTCAGTATCACCCATGTGACCTAGCTACATA
18046355 CTATCTGTAT
Statistics
Matches: 101, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
62 1 0.01
63 41 0.41
64 1 0.01
65 2 0.02
67 4 0.04
68 51 0.50
69 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (66 bp):
GCTCTCTTGTACACATGGTGTACACTCAGTATCACCCATGTGACCTAGCTACATATATATCTCGT
A
Found at i:18051115 original size:31 final size:31
Alignment explanation
Indices: 18051077--18051140 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
18051067 CCTTTTCATA
18051077 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
* *
18051108 TTTCATATTTCATATTATTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
18051139 TT
1 TT
18051141 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:18051494 original size:23 final size:24
Alignment explanation
Indices: 18051332--18051494 Score: 221
Period size: 23 Copynumber: 7.0 Consensus size: 24
18051322 GCTTTATCAT
* *
18051332 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
18051357 ATAACTGGGGCAAAAG-CCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
18051380 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
18051403 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
18051426 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTG
18051449 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
18051473 ATAACT-GGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
18051495 TCACTTCCTC
Statistics
Matches: 129, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.02
23 97 0.75
24 19 0.15
25 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:18051570 original size:20 final size:20
Alignment explanation
Indices: 18051545--18051604 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
18051535 TATGATTACC
18051545 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
18051565 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
18051585 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
18051605 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Done.