Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 57 of 75
Found at i:18276212 original size:22 final size:22
Alignment explanation
Indices: 18276159--18276222 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
18276149 GCTAGTAGTT
*
18276159 AGAATGGCTAAGAGCTGTAAAC
1 AGAATGGCTAAGAGCTATAAAC
*
18276181 A-AGATAGCTATA-AGCTATAAAC
1 AGA-ATGGCTA-AGAGCTATAAAC
* *
18276203 AGAATGGCTACGAGCCATAA
1 AGAATGGCTAAGAGCTATAA
18276223 GTACATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.19
Consensus pattern (22 bp):
AGAATGGCTAAGAGCTATAAAC
Found at i:18276282 original size:32 final size:32
Alignment explanation
Indices: 18276240--18276448 Score: 185
Period size: 32 Copynumber: 6.5 Consensus size: 32
18276230 AATGTGATTG
* **
18276240 GCACAAAGCCATCAGTAGCAGTGATATGGCCA
1 GCACAAAGCCATCAGTAACAGTGATATGATCA
* * * *
18276272 GCACACAGCCATCAGTAACGGTAACATGATCA
1 GCACAAAGCCATCAGTAACAGTGATATGATCA
* *
18276304 GAACAAAGCCATCAGTAGCAGTGATATGAT-A
1 GCACAAAGCCATCAGTAACAGTGATATGATCA
* *
18276335 GGCACACAA-CCATCAGTAACAATGAAATGATCA
1 -GCACA-AAGCCATCAGTAACAGTGATATGATCA
** *
18276368 GCACACAA-CCATCAGTAATGGTAATATGATCA
1 GCACA-AAGCCATCAGTAACAGTGATATGATCA
* * *
18276400 GCACAAAGCCATCAGTAACGGT-ACTATG-GCT
1 GCACAAAGCCATCAGTAACAGTGA-TATGATCA
18276431 GACACAAAGCCATCAGTA
1 G-CACAAAGCCATCAGTA
18276449 GCATCGCAGC
Statistics
Matches: 146, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
31 6 0.04
32 137 0.94
33 3 0.02
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (32 bp):
GCACAAAGCCATCAGTAACAGTGATATGATCA
Found at i:18276315 original size:64 final size:64
Alignment explanation
Indices: 18276242--18276451 Score: 207
Period size: 64 Copynumber: 3.3 Consensus size: 64
18276232 TGTGATTGGC
*
18276242 ACAAAGCCATCAGTAGCAGTGATATGGCCAGCACACAGCCATCAGTAACGGTAACATGATCAGA
1 ACAAAGCCATCAGTAGCAGTGATATGGACAGCACACAGCCATCAGTAACGGTAACATGATCAGA
* * **
18276306 ACAAAGCCATCAGTAGCAGTGATAT-GATAGGCACACAACCATCAGTAACAATGAA-ATGATCAG
1 ACAAAGCCATCAGTAGCAGTGATATGGACA-GCACACAGCCATCAGTAACGGT-AACATGATCAG
*
18276369 C
64 A
*** * * * *
18276370 ACACAA-CCATCAGTAATGGTAATAT-GATCAGCACAAAGCCATCAGTAACGGT-ACTATG-GCT
1 ACA-AAGCCATCAGTAGCAGTGATATGGA-CAGCACACAGCCATCAGTAACGGTAAC-ATGATCA
18276431 GA
63 GA
18276433 CACAAAGCCATCAGTAGCA
1 -ACAAAGCCATCAGTAGCA
18276452 TCGCAGCAAA
Statistics
Matches: 117, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 6 0.05
64 105 0.90
65 5 0.04
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.17
Consensus pattern (64 bp):
ACAAAGCCATCAGTAGCAGTGATATGGACAGCACACAGCCATCAGTAACGGTAACATGATCAGA
Found at i:18276348 original size:96 final size:96
Alignment explanation
Indices: 18276234--18276416 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 96
18276224 TACATTAATG
* * * * * *
18276234 TGATTGGCACAAAGCCATCAGTAGCAGTGATATGGCCAGCACACAGCCATCAGTAACGGTAACAT
1 TGATAGGCACAAAGCCATCAGTAACAATGAAATGACCAGCACACAACCATCAGTAACGGTAACAT
18276299 GATCAGAACAAAGCCATCAGTAGCAGTGATA
66 GATCAGAACAAAGCCATCAGTAGCAGTGATA
* * *
18276330 TGATAGGCACACAA-CCATCAGTAACAATGAAATGATCAGCACACAACCATCAGTAATGGTAATA
1 TGATAGGCACA-AAGCCATCAGTAACAATGAAATGACCAGCACACAACCATCAGTAACGGTAACA
*
18276394 TGATCAGCACAAAGCCATCAGTA
65 TGATCAGAACAAAGCCATCAGTA
18276417 ACGGTACTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
96 74 0.97
97 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (96 bp):
TGATAGGCACAAAGCCATCAGTAACAATGAAATGACCAGCACACAACCATCAGTAACGGTAACAT
GATCAGAACAAAGCCATCAGTAGCAGTGATA
Found at i:18276444 original size:96 final size:96
Alignment explanation
Indices: 18276241--18276448 Score: 251
Period size: 96 Copynumber: 2.2 Consensus size: 96
18276231 ATGTGATTGG
* * * * *
18276241 CACAAAGCCATCAGTAGCAGTGATATGGCCAGCACACAGCCATCAGTAACGGTAACATGATCAGA
1 CACAAAGCCATCAGTAACAATGAAATGACCAGCACACAACCATCAGTAACGGTAACATGATCAGA
* *
18276306 ACAAAGCCATCAGTAGCAGTGATATGATAGG
66 ACAAAGCCATCAGTAACAGTGATATGATAGA
* * *
18276337 CACACAA-CCATCAGTAACAATGAAATGATCAGCACACAACCATCAGTAATGGTAATATGATCAG
1 CACA-AAGCCATCAGTAACAATGAAATGACCAGCACACAACCATCAGTAACGGTAACATGATCAG
* * *
18276401 CACAAAGCCATCAGTAACGGT-ACTATGGCT-GA
65 AACAAAGCCATCAGTAACAGTGA-TAT-GATAGA
18276433 CACAAAGCCATCAGTA
1 CACAAAGCCATCAGTA
18276449 GCATCGCAGC
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
95 3 0.03
96 88 0.93
97 4 0.04
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.17
Consensus pattern (96 bp):
CACAAAGCCATCAGTAACAATGAAATGACCAGCACACAACCATCAGTAACGGTAACATGATCAGA
ACAAAGCCATCAGTAACAGTGATATGATAGA
Found at i:18276523 original size:25 final size:27
Alignment explanation
Indices: 18276495--18276549 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
18276485 AAAGCTGCTG
18276495 GTAATAGT-A-TGTGGCCA-AGCCACCA
1 GTAATAGTGATTGTGG-CAGAGCCACCA
18276520 GTAATAGTGATTGTGGCAGAGCCACCA
1 GTAATAGTGATTGTGGCAGAGCCACCA
18276547 GTA
1 GTA
18276550 CAGTACTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 8 0.30
26 3 0.11
27 16 0.59
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (27 bp):
GTAATAGTGATTGTGGCAGAGCCACCA
Found at i:18276648 original size:24 final size:23
Alignment explanation
Indices: 18276621--18276676 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 23
18276611 TGCTTAGAAT
18276621 CAGTCATTCAAATCACAGACAAAC
1 CAGTCATTCAAA-CACAGACAAAC
* * *
18276645 CAGTCATACCAAACACAGACGAAT
1 CAGTCAT-TCAAACACAGACAAAC
18276669 CAGTCATT
1 CAGTCATT
18276677 TAACAACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.43, C:0.29, G:0.11, T:0.18
Consensus pattern (23 bp):
CAGTCATTCAAACACAGACAAAC
Found at i:18276766 original size:27 final size:27
Alignment explanation
Indices: 18276736--18276900 Score: 154
Period size: 27 Copynumber: 6.1 Consensus size: 27
18276726 CTCACCAGGT
* * * *
18276736 TATTACAGTCAATTTAACCTACAAGGA
1 TATTACGGTCATTTTAACCTACAGGGG
** *
18276763 TATTACGGTCATTTTTTCCTATAGGGG
1 TATTACGGTCATTTTAACCTACAGGGG
*
18276790 TATTACGGTCATTTT-ACTTACAGGGG
1 TATTACGGTCATTTTAACCTACAGGGG
*
18276816 TATTACGGTCATTTTATCCTACAGGGG
1 TATTACGGTCATTTTAACCTACAGGGG
* *
18276843 CATTACAGTCATTTT-ACTCTACAGGGG
1 TATTACGGTCATTTTAAC-CTACAGGGG
** * * **
18276870 TATTTTGGTCATTATACCCTATGGGGG
1 TATTACGGTCATTTTAACCTACAGGGG
18276897 TATT
1 TATT
18276901 TTTGTATTCT
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
26 24 0.21
27 87 0.78
28 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (27 bp):
TATTACGGTCATTTTAACCTACAGGGG
Found at i:18276825 original size:53 final size:53
Alignment explanation
Indices: 18276736--18276900 Score: 195
Period size: 53 Copynumber: 3.1 Consensus size: 53
18276726 CTCACCAGGT
* * * * *
18276736 TATTACAGTCAATTTAACCTACAAGGATATTACGGTCATTTTTTCCTATAGGGG
1 TATTACAGTC-ATTTTACTTACAGGGGTATTACGGTCATTTTATCCTATAGGGG
* *
18276790 TATTACGGTCATTTTACTTACAGGGGTATTACGGTCATTTTATCCTACAGGGG
1 TATTACAGTCATTTTACTTACAGGGGTATTACGGTCATTTTATCCTATAGGGG
* ** * * *
18276843 CATTACAGTCATTTTACTCTACAGGGGTATTTTGGTCATTATACCCTATGGGGG
1 TATTACAGTCATTTTACT-TACAGGGGTATTACGGTCATTTTATCCTATAGGGG
18276897 TATT
1 TATT
18276901 TTTGTATTCT
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 53 0.56
54 41 0.44
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (53 bp):
TATTACAGTCATTTTACTTACAGGGGTATTACGGTCATTTTATCCTATAGGGG
Found at i:18276901 original size:27 final size:27
Alignment explanation
Indices: 18276849--18276996 Score: 122
Period size: 27 Copynumber: 5.5 Consensus size: 27
18276839 GGGGCATTAC
* **
18276849 AGTCATTTTACTCTACAGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* *
18276876 GGTCATTATACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* * * *
18276903 TGT-ATTCTACCCTACGGTGGTA-TTT
1 AGTCATTTTACCCTATGGGGGTATTTT
* ** * *
18276928 CGATCATTTTACCCTATGAAGGCATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTT
*
18276956 AGTCATTTTACCC-ATCGAGGGTATTTT
1 AGTCATTTTACCCTAT-GGGGGTATTTT
18276983 AGTCATTTTACCCT
1 AGTCATTTTACCCT
18276997 TTAAGGGCAT
Statistics
Matches: 96, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
25 4 0.04
26 19 0.20
27 70 0.73
28 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTT
Found at i:18277003 original size:27 final size:27
Alignment explanation
Indices: 18276931--18277009 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
18276921 GGTATTTCGA
*
18276931 TCATTTTACCCTATGAA-GGCATTTCAG
1 TCATTTTACCCT-TCAAGGGCATTTCAG
* * * *
18276958 TCATTTTACCCATCGAGGGTATTTTAG
1 TCATTTTACCCTTCAAGGGCATTTCAG
*
18276985 TCATTTTACCCTTTAAGGGCATTTC
1 TCATTTTACCCTTCAAGGGCATTTC
18277010 GGTCCATATG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTTCAAGGGCATTTCAG
Found at i:18279589 original size:20 final size:20
Alignment explanation
Indices: 18279564--18279638 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
18279554 ATTTTGTCTA
18279564 CAATATTGACAGCTTATCTG
1 CAATATTGACAGCTTATCTG
*** ** *
18279584 CAATATTGGTGGCTTGCCTA
1 CAATATTGACAGCTTATCTG
* *
18279604 CAATACTGACAGTTTATCTG
1 CAATATTGACAGCTTATCTG
18279624 CAATATTGACAGCTT
1 CAATATTGACAGCTT
18279639 TTTTACAATA
Statistics
Matches: 39, Mismatches: 16, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (20 bp):
CAATATTGACAGCTTATCTG
Found at i:18279647 original size:20 final size:20
Alignment explanation
Indices: 18279601--18279650 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18279591 GGTGGCTTGC
18279601 CTACAATACTGACAGTTTAT
1 CTACAATACTGACAGTTTAT
* *
18279621 CTGCAATATTGACAGCTTT-T
1 CTACAATACTGACAG-TTTAT
*
18279641 TTACAATACT
1 CTACAATACT
18279651 AGTGGTTTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (20 bp):
CTACAATACTGACAGTTTAT
Found at i:18279650 original size:40 final size:40
Alignment explanation
Indices: 18279561--18279638 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
18279551 GGCATTTTGT
* ***
18279561 CTACAATATTGACAGCTTATCTGCAATATTGGTGGCTTGC
1 CTACAATACTGACAGCTTATCTGCAATATTGACAGCTTGC
*
18279601 CTACAATACTGACAGTTTATCTGCAATATTGACAGCTT
1 CTACAATACTGACAGCTTATCTGCAATATTGACAGCTT
18279639 TTTTACAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (40 bp):
CTACAATACTGACAGCTTATCTGCAATATTGACAGCTTGC
Found at i:18279729 original size:100 final size:98
Alignment explanation
Indices: 18279582--18279771 Score: 256
Period size: 100 Copynumber: 1.9 Consensus size: 98
18279572 ACAGCTTATC
* * * * *
18279582 TGCAATATTGGTGGCTTGCCTACAATACTGACAGTTTATCTGCAATATTGACAGCTTTTTTACAA
1 TGCAATATTGGTGGCTTGCCCACAACACTGACAGTTTATCTGCAATATTGACAGCGTGTCTACAA
18279647 TACTAGTGGTTTGTCCAAAATATTGGTAGCTTGTT
66 TACTAGT-GTTTGTCCAAAAT-TTGGTAGCTTGTT
* * *
18279682 TGCAATATTGGTGGCTTGCCCACAACAC-GAATAGTTTATCTGCAATATTGGCAGCGTGTCTGCA
1 TGCAATATTGGTGGCTTGCCCACAACACTG-ACAGTTTATCTGCAATATTGACAGCGTGTCTACA
* *
18279746 ATACTTGTGTTTGTCCACAATTTGGT
65 ATACTAGTGTTTGTCCAAAATTTGGT
18279772 GTGTTATTGG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
98 5 0.06
99 13 0.16
100 61 0.77
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (98 bp):
TGCAATATTGGTGGCTTGCCCACAACACTGACAGTTTATCTGCAATATTGACAGCGTGTCTACAA
TACTAGTGTTTGTCCAAAATTTGGTAGCTTGTT
Found at i:18318058 original size:50 final size:50
Alignment explanation
Indices: 18317983--18318162 Score: 168
Period size: 50 Copynumber: 3.6 Consensus size: 50
18317973 ATGGCCCTAT
* ** *
18317983 GTAAGACCATGTCTGGAACATGGCATTGGCACCAAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCCAC
* * * * *
18318033 GTAAGACCATGTCTGGGAGATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCCAC
* * * ** *
18318083 GTAAGACCATATCTAGGATATGGCATTGGCAGTACA-A-GA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACCA-AGATGAGAAC-TCCCAC
* *
18318132 GTAAGACCATATCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
18318163 TGTTATTATC
Statistics
Matches: 109, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.03
49 36 0.33
50 69 0.63
51 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAACTCCCAC
Found at i:18318598 original size:25 final size:25
Alignment explanation
Indices: 18318566--18318616 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
18318556 AGTCCAGTAT
18318566 TTTATGATGATCAATGTTTGAGCTA
1 TTTATGATGATCAATGTTTGAGCTA
18318591 TTTATGATGATCAATGTTTGAGCTA
1 TTTATGATGATCAATGTTTGAGCTA
18318616 T
1 T
18318617 GGCATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (25 bp):
TTTATGATGATCAATGTTTGAGCTA
Found at i:18326552 original size:82 final size:80
Alignment explanation
Indices: 18326405--18326630 Score: 242
Period size: 82 Copynumber: 2.8 Consensus size: 80
18326395 TACCTTTTCA
* * * *
18326405 GGCTTTCGCGGCGTTTTCAAAAAAGCGCCGCTAATGCTCA-GGCTTTTAGCGGCGCTTTTTCAAA
1 GGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCT-AGGGC-TTTAGCGGC-CTTTTTAAAA
* *
18326469 AGCGTCGCTAATGCTGGG
63 AGCGCCGCTAATGCTCGG
* * * *
18326487 GGCTTTAGCGACGTTTTTAAAGAGGCACCGCTAATGCTGGGGGCTTTAGCGGCCTTTTTGAAAAA
1 GGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCT-AGGGCTTTAGCGGCCTTTTT-AAAAA
18326552 GCGCCGCTAATGCTCGG
64 GCGCCGCTAATGCTCGG
* * * * *
18326569 GGTTTTAGCGGC-TTTTTGAAGAAGTGCCGCTAATGCTAAGGGTTTTAGCGG-CGTTTTAAAAA
1 GGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCT-AGGGCTTTAGCGGCCTTTTTAAAAA
18326631 CATTTTATCT
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 5 0.04
80 5 0.04
81 38 0.31
82 70 0.58
83 3 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (80 bp):
GGCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGCTAGGGCTTTAGCGGCCTTTTTAAAAAGC
GCCGCTAATGCTCGG
Found at i:18326598 original size:40 final size:40
Alignment explanation
Indices: 18326427--18326625 Score: 202
Period size: 41 Copynumber: 4.9 Consensus size: 40
18326417 GTTTTCAAAA
* * *
18326427 AAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGCTTTTTCAA-
1 AAGCGCCGCTAATGCTCGGGGTTTTAGC-G-GCTTTTTGAAG
* * * * *
18326468 AAGCGTCGCTAATGCTGGGGGCTTTAGCGACGTTTTTAAAG
1 AAGCGCCGCTAATGCTCGGGGTTTTAGCGGC-TTTTTGAAG
* * * * *
18326509 AGGCACCGCTAATGCTGGGGGCTTTAGCGGCCTTTTTGAAA
1 AAGCGCCGCTAATGCTCGGGGTTTTAGCGG-CTTTTTGAAG
18326550 AAGCGCCGCTAATGCTCGGGGTTTTAGCGGCTTTTTGAAG
1 AAGCGCCGCTAATGCTCGGGGTTTTAGCGGCTTTTTGAAG
* ** *
18326590 AAGTGCCGCTAATGCTAAGGGTTTTAGCGGCGTTTT
1 AAGCGCCGCTAATGCTCGGGGTTTTAGCGGCTTTTT
18326626 AAAAACATTT
Statistics
Matches: 133, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 49 0.37
41 82 0.62
42 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (40 bp):
AAGCGCCGCTAATGCTCGGGGTTTTAGCGGCTTTTTGAAG
Found at i:18327027 original size:21 final size:20
Alignment explanation
Indices: 18326991--18327033 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
18326981 GAGTATGGAT
*
18326991 TTGGGATTATGGTTTAAGGG
1 TTGGGATTAAGGTTTAAGGG
18327011 TTGGGATTTAAGGTTTAAGGG
1 TTGGGA-TTAAGGTTTAAGGG
18327032 TT
1 TT
18327034 AGGGGTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (20 bp):
TTGGGATTAAGGTTTAAGGG
Found at i:18327099 original size:15 final size:14
Alignment explanation
Indices: 18327061--18327109 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
18327051 GGGTTAGACA
* *
18327061 TTAGGGATTAAGAG
1 TTAGGGATTTAGGG
*
18327075 TTAAGGATTTAGGG
1 TTAGGGATTTAGGG
18327089 TTTAGGGATTTAGGGG
1 -TTAGGGATTTA-GGG
18327105 TTAGG
1 TTAGG
18327110 TTAAGGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 11 0.38
15 15 0.52
16 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.39, T:0.35
Consensus pattern (14 bp):
TTAGGGATTTAGGG
Found at i:18327124 original size:7 final size:7
Alignment explanation
Indices: 18327017--18327127 Score: 57
Period size: 7 Copynumber: 15.7 Consensus size: 7
18327007 AGGGTTGGGA
*
18327017 TTTAAGG
1 TTTAGGG
18327024 TTTAAGGG
1 TTT-AGGG
18327032 -TTAGGG
1 TTTAGGG
*
18327038 GTTATGGG
1 TTTA-GGG
18327046 TTTAGGG
1 TTTAGGG
* **
18327053 GTTAGAC
1 TTTAGGG
*
18327060 ATTAGGG
1 TTTAGGG
* *
18327067 ATTAAGAG
1 -TTTAGGG
* *
18327075 TTAAGGA
1 TTTAGGG
18327082 TTTAGGG
1 TTTAGGG
18327089 TTTAGGG
1 TTTAGGG
18327096 ATTTAGGG
1 -TTTAGGG
*
18327104 GTTA-GG
1 TTTAGGG
*
18327110 -TTAAGG
1 TTTAGGG
18327116 TTTAGGG
1 TTTAGGG
18327123 TTTAG
1 TTTAG
18327128 ATTAATTATT
Statistics
Matches: 80, Mismatches: 17, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
5 3 0.04
6 8 0.10
7 49 0.61
8 20 0.25
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.37
Consensus pattern (7 bp):
TTTAGGG
Found at i:18327350 original size:15 final size:15
Alignment explanation
Indices: 18327330--18327372 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
18327320 TTGGGATTTA
18327330 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
18327345 AGGTTTAGGGGTTAG
1 AGGTTTAGGGGTTAG
*
18327360 ACG-TTAGGGGTTA
1 AGGTTTAGGGGTTA
18327373 AGAGTTAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.33
Consensus pattern (15 bp):
AGGTTTAGGGGTTAG
Found at i:18327368 original size:14 final size:13
Alignment explanation
Indices: 18327334--18327382 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
18327324 GATTTAAGGT
18327334 TTAGGGGTTAGAGG
1 TTAGGGGTTAGA-G
18327348 TTTAGGGGTTAGACG
1 -TTAGGGGTTAGA-G
18327363 TTAGGGGTTAAGAG
1 TTAGGGGTT-AGAG
18327377 TTAGGG
1 TTAGGG
18327383 ATTCAGGGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 16 0.50
15 16 0.50
ACGTcount: A:0.22, C:0.02, G:0.45, T:0.31
Consensus pattern (13 bp):
TTAGGGGTTAGAG
Found at i:18327848 original size:39 final size:39
Alignment explanation
Indices: 18327793--18327894 Score: 177
Period size: 39 Copynumber: 2.6 Consensus size: 39
18327783 CGTTGCGGCG
18327793 TTTTTCATAAAAACGCCGCAAAAGGTAAGCGATAGCAGCA
1 TTTTT-ATAAAAACGCCGCAAAAGGTAAGCGATAGCAGCA
*
18327833 TTTTTATAAAAACGCCGCAAAAGGTAAGCGATAGCGGCA
1 TTTTTATAAAAACGCCGCAAAAGGTAAGCGATAGCAGCA
18327872 TTTTTATAAAAAGCGCCGCAAAA
1 TTTTTATAAAAA-CGCCGCAAAA
18327895 ATTATTTTAC
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
39 45 0.75
40 15 0.25
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (39 bp):
TTTTTATAAAAACGCCGCAAAAGGTAAGCGATAGCAGCA
Found at i:18330423 original size:184 final size:186
Alignment explanation
Indices: 18330112--18330483 Score: 694
Period size: 184 Copynumber: 2.0 Consensus size: 186
18330102 GTTCTACAGC
18330112 CTTTTTATTAATATATTTGTGGTCTTTTCTATAAATCCAATATTTTTTTTCTTTTCATTTTGAAA
1 CTTTTTATTAATATATTTGTGGTCTTTTCTATAAATCCAATATTTTTTTTCTTTTCATTTTGAAA
18330177 TTTATGTATATATATAAAAATGAGTAGGTTAATTCCATAAATGTATGCGCTTTAAAGAATGATCT
66 TTTATGTATATATATAAAAATGAGTAGGTTAATTCCATAAATGTATGCGCTTTAAAGAATGATCT
*
18330242 AAAGTTATCATGTGCTATTGTACCTAAAAAATATATTTGCCTTATAGTAATTTTGA
131 AAAGTTATCATGCGCTATTGTACCTAAAAAATATATTTGCCTTATAGTAATTTTGA
18330298 CTTTTTATT-ATATATTTGTGGTCTTTTCTATAAATCCAATA-TTTTTTTCTTTTCATTTTGAAA
1 CTTTTTATTAATATATTTGTGGTCTTTTCTATAAATCCAATATTTTTTTTCTTTTCATTTTGAAA
* *
18330361 TTTATGTATATATATATAAATGATTAGGTTAATTCCATAAATGTATGCGCTTTAAAGAATGATCT
66 TTTATGTATATATATAAAAATGAGTAGGTTAATTCCATAAATGTATGCGCTTTAAAGAATGATCT
*
18330426 AAAGTTATCCTGCGCTATTGTACCTAAAAAATATATTTGCCTTATAGTAATTTTGA
131 AAAGTTATCATGCGCTATTGTACCTAAAAAATATATTTGCCTTATAGTAATTTTGA
18330482 CT
1 CT
18330484 ATCCTAAAGC
Statistics
Matches: 182, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
184 141 0.77
185 32 0.18
186 9 0.05
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (186 bp):
CTTTTTATTAATATATTTGTGGTCTTTTCTATAAATCCAATATTTTTTTTCTTTTCATTTTGAAA
TTTATGTATATATATAAAAATGAGTAGGTTAATTCCATAAATGTATGCGCTTTAAAGAATGATCT
AAAGTTATCATGCGCTATTGTACCTAAAAAATATATTTGCCTTATAGTAATTTTGA
Found at i:18333268 original size:43 final size:43
Alignment explanation
Indices: 18333221--18333441 Score: 225
Period size: 43 Copynumber: 5.1 Consensus size: 43
18333211 GAACGGTACT
* **
18333221 TTTAGCGGCGGTTGT-GATAAAAGCGGTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGAT-AAAGCGCCGCTAAAGGTCATGTTC
* * * * * *
18333264 TTTAGCGGTGTTTGTGGGTAAAGTGCCACTAAAGGTCAGGATC
1 TTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAGGTCATGTTC
* * *
18333307 TTTAGCGGCATTTGT-GATAAAAGCACCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGAT-AAAGCGCCGCTAAAGGTCATGTTC
* *
18333350 TTTA-CTGGCGTTTATGGGTAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGC-GGCGTTTGTGGATAAAGCGCCGCTAAAGGTCATGTTC
* * *
18333393 TTTAGCGGCGTTTGTCGG-TGAAGCGCCACTAAAGATCATGTTC
1 TTTAGCGGCGTTTGT-GGATAAAGCGCCGCTAAAGGTCATGTTC
18333436 TTTAGC
1 TTTAGC
18333442 AGCTTTTTTT
Statistics
Matches: 145, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
42 3 0.02
43 135 0.93
44 7 0.05
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGATAAAGCGCCGCTAAAGGTCATGTTC
Found at i:18333351 original size:86 final size:87
Alignment explanation
Indices: 18333221--18333441 Score: 277
Period size: 86 Copynumber: 2.6 Consensus size: 87
18333211 GAACGGTACT
* ** * * *
18333221 TTTAGCGGCGGTTGTGATAAAAGCGGTGCTAAAGGTCATGTTCTTTAGC-GGTGTTTGTGGGTAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGCTGGCGTTTATGGGTAA
*
18333285 AGTGCCACTAAAGGTCAGGATC
66 AGCGCCACTAAAGGTCAGGATC
* *
18333307 TTTAGCGGCATTTGTGATAAAAGCACCGCTAAAGATCATGTTCTTTA-CTGGCGTTTATGGGTAA
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGCTGGCGTTTATGGGTAA
* * *
18333371 AGCGCCGCTAAAGGTCATGTTC
66 AGCGCCACTAAAGGTCAGGATC
* * *
18333393 TTTAGCGGCGTTTGTCGGT-GAAGCGCCACTAAAGATCATGTTCTTTAGC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGATCATGTTCTTTAGC
18333442 AGCTTTTTTT
Statistics
Matches: 115, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.01
86 111 0.97
87 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (87 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGTTCTTTAGCTGGCGTTTATGGGTAA
AGCGCCACTAAAGGTCAGGATC
Found at i:18335179 original size:62 final size:59
Alignment explanation
Indices: 18335106--18335222 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 59
18335096 AATGATTATC
* * *
18335106 TTAATATTAAATTTAATT-TAATGTTTATCTTGTAGATAAATATTCTATT-ATTTCAATAAGAT
1 TTAATATTAAATTT-ATTCTAATATTCATCTTG-AG--AAATATTATATTAATTT-AATAAGAT
18335168 TTAATATTAAATTTATTCTAATATTCATCTTGAGAAATATTATATTAATTTAATA
1 TTAATATTAAATTTATTCTAATATTCATCTTGAGAAATATTATATTAATTTAATA
18335223 TTAAAGTGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
59 15 0.30
60 4 0.08
61 5 0.10
62 26 0.52
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTATTCTAATATTCATCTTGAGAAATATTATATTAATTTAATAAGAT
Found at i:18335360 original size:26 final size:22
Alignment explanation
Indices: 18335331--18335378 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
18335321 AGTTGTAAAG
18335331 AGAAAATTCTCTGAAGAGATTATTTT
1 AGAAAATT-TCT--AGAGA-TATTTT
18335357 AGAAAATTTCTAGAGATATTTT
1 AGAAAATTTCTAGAGATATTTT
18335379 TCTGATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
25 3 0.14
26 8 0.36
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (22 bp):
AGAAAATTTCTAGAGATATTTT
Found at i:18345738 original size:22 final size:22
Alignment explanation
Indices: 18345712--18345756 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
18345702 AGATCAACAC
18345712 AAATAT-AATCGCATACATATCA
1 AAATATCAATCGCA-ACATATCA
*
18345734 AAATATCAATCTCAACATATCA
1 AAATATCAATCGCAACATATCA
18345756 A
1 A
18345757 TTATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (22 bp):
AAATATCAATCGCAACATATCA
Found at i:18350561 original size:16 final size:17
Alignment explanation
Indices: 18350527--18350567 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
18350517 ATCAATATAG
18350527 TCAAATTT-A-TCTCAT
1 TCAAATTTAATTCTCAT
18350542 TCAAATTTAATTCT-AT
1 TCAAATTTAATTCTCAT
18350558 TC-AATTTAAT
1 TCAAATTTAAT
18350568 CCAAAAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 16 0.67
16 5 0.21
17 3 0.12
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.49
Consensus pattern (17 bp):
TCAAATTTAATTCTCAT
Found at i:18351773 original size:12 final size:12
Alignment explanation
Indices: 18351756--18351785 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
18351746 CCTCACACGC
*
18351756 CCGTGTGTTAGG
1 CCGTGTGCTAGG
18351768 CCGTGTGCTAGG
1 CCGTGTGCTAGG
18351780 CCGTGT
1 CCGTGT
18351786 AACTGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:18353768 original size:141 final size:142
Alignment explanation
Indices: 18353597--18353880 Score: 561
Period size: 141 Copynumber: 2.0 Consensus size: 142
18353587 CGAATCCCTA
18353597 TGCAGGCAAGGGTATTATTTTTTTGCTCAGATTTCAGGATAGAGTTGTGTAATAGGGGGACTTTT
1 TGCAGGCAAGGGTATTATTTTTTTGCTCAGATTTCAGGATAGAGTTGTGTAATAGGGGGACTTTT
18353662 AGTAGTGGATGTGTAGTGGGAATTTTCCAAAAAAAATTATGCCATCTATTCTTCTCCCTCTCCTC
66 AGTAGTGGATGTGTAGTGGGAATTTTCCAAAAAAAATTATGCCATCTATTCTTCTCCCTCTCCTC
18353727 TTGCCAAAATTC
131 TTGCCAAAATTC
18353739 TGCAGGCAA-GGTATTATTTTTTTGCTCAGATTTCAGGATAGAGTTGTGTAATAGGGGGACTTTT
1 TGCAGGCAAGGGTATTATTTTTTTGCTCAGATTTCAGGATAGAGTTGTGTAATAGGGGGACTTTT
18353803 AGTAGTGGATGTGTAGTGGGAATTTTCCAAAAAAAATTATGCCATCTATTCTTCTCCCTCTCCTC
66 AGTAGTGGATGTGTAGTGGGAATTTTCCAAAAAAAATTATGCCATCTATTCTTCTCCCTCTCCTC
18353868 TTGCCAAAATTC
131 TTGCCAAAATTC
18353880 T
1 T
18353881 CTGAGTTTTT
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
141 133 0.94
142 9 0.06
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (142 bp):
TGCAGGCAAGGGTATTATTTTTTTGCTCAGATTTCAGGATAGAGTTGTGTAATAGGGGGACTTTT
AGTAGTGGATGTGTAGTGGGAATTTTCCAAAAAAAATTATGCCATCTATTCTTCTCCCTCTCCTC
TTGCCAAAATTC
Found at i:18362126 original size:30 final size:29
Alignment explanation
Indices: 18362090--18362153 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
18362080 GTACTTTATG
*
18362090 TTAATTT-TTTTAATTTTTAAAATTAATTTT
1 TTAATTTCTTTTAATTTTT-AAATT-ATTTA
18362120 TTAATTTCTTTTAATTTTTAAATTATTTA
1 TTAATTTCTTTTAATTTTTAAATTATTTA
18362149 TTAAT
1 TTAAT
18362154 ATGATATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 9 0.28
30 12 0.38
31 11 0.34
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
TTAATTTCTTTTAATTTTTAAATTATTTA
Found at i:18362807 original size:15 final size:15
Alignment explanation
Indices: 18362789--18362819 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
18362779 CTTATGATAT
18362789 ACTTTATTATTATAA
1 ACTTTATTATTATAA
18362804 ACTTTATTATTATAA
1 ACTTTATTATTATAA
18362819 A
1 A
18362820 ATTTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
ACTTTATTATTATAA
Found at i:18370600 original size:27 final size:27
Alignment explanation
Indices: 18370570--18370625 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
18370560 GTGTTTTGTG
*
18370570 ATCTTGACATCAAAAATGGTAGCTTAA
1 ATCTTGACATAAAAAATGGTAGCTTAA
*
18370597 ATCTTGACATAAAAAATTGTAGCTTAA
1 ATCTTGACATAAAAAATGGTAGCTTAA
18370624 AT
1 AT
18370626 AATGTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (27 bp):
ATCTTGACATAAAAAATGGTAGCTTAA
Found at i:18371897 original size:38 final size:38
Alignment explanation
Indices: 18371846--18371922 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
18371836 GCGTGGTGGG
*
18371846 GGAGTGTAAGAGTGATTTTAGGAGGGAAATATGGGATT
1 GGAGTGTAAGAGTGATTTTAGGAGGAAAATATGGGATT
**
18371884 GGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
1 GGAGTGTAAGAGTGATTTTAGGAGGAAAATATGGGATT
18371922 G
1 G
18371923 TGGAGTTATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.00, G:0.40, T:0.30
Consensus pattern (38 bp):
GGAGTGTAAGAGTGATTTTAGGAGGAAAATATGGGATT
Found at i:18372015 original size:23 final size:24
Alignment explanation
Indices: 18371964--18372016 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
18371954 TGGCATAGTT
*
18371964 TTTTCTTTTCTTTTTGCTCCACCA
1 TTTTCTTTTCCTTTTGCTCCACCA
18371988 TTTTCTTTTCCTTTT-CTTCC-CCA
1 TTTTCTTTTCCTTTTGC-TCCACCA
18372011 TTTTCT
1 TTTTCT
18372017 GTCATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.06, C:0.30, G:0.02, T:0.62
Consensus pattern (24 bp):
TTTTCTTTTCCTTTTGCTCCACCA
Found at i:18385023 original size:27 final size:27
Alignment explanation
Indices: 18384953--18385009 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
18384943 GTTAATTCAT
*
18384953 AAACCATTTCTGATATTGCTACATACC
1 AAACCATTTCTGACATTGCTACATACC
*
18384980 AAACCATTTCTGACATTGCTACATATC
1 AAACCATTTCTGACATTGCTACATACC
18385007 AAA
1 AAA
18385010 TCCTTTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.32
Consensus pattern (27 bp):
AAACCATTTCTGACATTGCTACATACC
Found at i:18387445 original size:42 final size:42
Alignment explanation
Indices: 18387365--18387446 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
18387355 CATTTTCTCT
* * **
18387365 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATAGTCTTACACATATGCACATATTG
*
18387407 ATGCCATAGCCCAGCTATAGTCTTACACA-ATAGCACATAT
1 ATGCCATAGCCCAACTATAGTCTTACACATAT-GCACATAT
18387447 CACACCGATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATAGTCTTACACATATGCACATATTG
Found at i:18390158 original size:51 final size:50
Alignment explanation
Indices: 18390091--18390286 Score: 214
Period size: 51 Copynumber: 3.9 Consensus size: 50
18390081 CAATGATGTT
* * * *
18390091 CGGTTCACATAGTAGCCTGCACATAGTACTACATATGTTACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATC
* * * * * *
18390142 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATC
* * * *
18390193 CGGTACTCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TC
* *
18390243 CGGTACATGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAT
18390287 CATTTTCACT
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 74 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (50 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATACCATC
Found at i:18390282 original size:101 final size:101
Alignment explanation
Indices: 18390089--18390282 Score: 291
Period size: 101 Copynumber: 1.9 Consensus size: 101
18390079 ATCAATGATG
* * **
18390089 TTCGGTTCACATAGTAGCCTGCACATAGTACTACATATGTTACCATTACCATCCGATACACGTAG
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAG
18390154 TAGCCTGCACATAGTACTACACACGTGATCGAAACTA
65 TAGCCTGCACATAGTACTACACACGTGATCGAAACTA
* * * *
18390191 TTCGGTACTCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACATGTAG
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAG
18390255 TAGCCTGCACATAGTACTACACACGTGA
65 TAGCCTGCACATAGTACTACACACGTGA
18390283 CCATCATTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 4 0.05
101 40 0.48
102 39 0.47
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (101 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGT
AGCCTGCACATAGTACTACACACGTGATCGAAACTA
Found at i:18395769 original size:22 final size:22
Alignment explanation
Indices: 18395744--18395786 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
18395734 AAGTGGTATC
18395744 AGTGGTAG-TTTATCTGTAAATT
1 AGTGGTAGCTTT-TCTGTAAATT
*
18395766 AGTGGTGGCTTTTCTGTAAAT
1 AGTGGTAGCTTTTCTGTAAAT
18395787 GGTGTTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.23, C:0.07, G:0.26, T:0.44
Consensus pattern (22 bp):
AGTGGTAGCTTTTCTGTAAATT
Found at i:18398241 original size:26 final size:26
Alignment explanation
Indices: 18398218--18398266 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
18398208 GAGGTTCCAG
* *
18398218 ATTAAAGGCTCTTTGTGAGCTTCCTA
1 ATTAAAGGCCCTTCGTGAGCTTCCTA
*
18398244 ATTAATGGCCCTTCG-GAGCTTCC
1 ATTAAAGGCCCTTCGTGAGCTTCC
18398267 CAATATGGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
ATTAAAGGCCCTTCGTGAGCTTCCTA
Found at i:18411240 original size:12 final size:12
Alignment explanation
Indices: 18411225--18411261 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
18411215 CTCAACACTC
18411225 GGCCTAGCACAT
1 GGCCTAGCACAT
*
18411237 GGCCTACCACAT
1 GGCCTAGCACAT
*
18411249 GGCCTGGCACAT
1 GGCCTAGCACAT
18411261 G
1 G
18411262 TCCCACCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (12 bp):
GGCCTAGCACAT
Found at i:18411278 original size:24 final size:24
Alignment explanation
Indices: 18411224--18411283 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
18411214 GCTCAACACT
* *
18411224 CGGCCTAGCACATGGCCTACCACA
1 CGGCCTGGCACATGGCCCACCACA
* *
18411248 TGGCCTGGCACATGTCCCACCACA
1 CGGCCTGGCACATGGCCCACCACA
*
18411272 CGGCCTGACACA
1 CGGCCTGGCACA
18411284 CAGCAGTGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.23, C:0.42, G:0.22, T:0.13
Consensus pattern (24 bp):
CGGCCTGGCACATGGCCCACCACA
Found at i:18416766 original size:16 final size:16
Alignment explanation
Indices: 18416741--18416774 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18416731 ATCATAACAT
*
18416741 ATTATTAATTAATAAA
1 ATTATAAATTAATAAA
*
18416757 ATTATAAATTTATAAA
1 ATTATAAATTAATAAA
18416773 AT
1 AT
18416775 CTTTAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTATAAATTAATAAA
Found at i:18420470 original size:22 final size:24
Alignment explanation
Indices: 18420442--18420485 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
18420432 ATTTTTTTCA
18420442 ATTTTAA-CTTTTAT-TCAAAAAC
1 ATTTTAATCTTTTATATCAAAAAC
*
18420464 ATTTTAATTTTTTATATCAAAA
1 ATTTTAATCTTTTATATCAAAA
18420486 CATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 6 0.32
24 6 0.32
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTTAATCTTTTATATCAAAAAC
Found at i:18422570 original size:20 final size:20
Alignment explanation
Indices: 18422541--18422593 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
18422531 AACCCAATAT
*
18422541 GTATCGATATTTTTATACAA
1 GTATCGATATTTTTATAAAA
*
18422561 GTATCAATATTTTTATAAAA
1 GTATCGATATTTTTATAAAA
18422581 GTATCGATATTTT
1 GTATCGATATTTT
18422594 GGGTGTAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (20 bp):
GTATCGATATTTTTATAAAA
Found at i:18423635 original size:3 final size:3
Alignment explanation
Indices: 18423627--18423653 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18423617 AAATTTTGTA
18423627 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
18423654 TAATACAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:18427614 original size:22 final size:24
Alignment explanation
Indices: 18427586--18427629 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
18427576 ATTTTGTTCA
18427586 ATTTTAACTT-TTAT-TCAAAAAC
1 ATTTTAACTTGTTATATCAAAAAC
*
18427608 ATTTTAATTTGTTATATCAAAA
1 ATTTTAACTTGTTATATCAAAA
18427630 CATATAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTTAACTTGTTATATCAAAAAC
Found at i:18430736 original size:77 final size:76
Alignment explanation
Indices: 18430631--18430809 Score: 245
Period size: 77 Copynumber: 2.3 Consensus size: 76
18430621 ACCAATGTGA
*
18430631 AAATGTCAATATAAATTTATCTTCACAAGATAAATT-GGAAAATATATAAATAAAT-AAAAATTA
1 AAATGTTAATATAAATTTATCTTCACAAGATAAATTCGG-AAATATATAAAT-AATGAAAAATTA
*
18430694 AAATATGCAATAT
64 AAATATGCAAGAT
**
18430707 AAATGTTAATATAAATTTTATCTTCACAAGATAAATTCGGAAATATATAAATTTTGAAAAATTAA
1 AAATGTTAATATAAA-TTTATCTTCACAAGATAAATTCGGAAATATATAAATAATGAAAAATTAA
*
18430772 AATGTGCAAGAT
65 AATATGCAAGAT
* *
18430784 ATATGCTAATATAAACTTTATCTTCA
1 AAATGTTAATATAAA-TTTATCTTCA
18430810 TAAATTTTCA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
76 15 0.16
77 75 0.82
78 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (76 bp):
AAATGTTAATATAAATTTATCTTCACAAGATAAATTCGGAAATATATAAATAATGAAAAATTAAA
ATATGCAAGAT
Found at i:18434252 original size:50 final size:50
Alignment explanation
Indices: 18434081--18434277 Score: 191
Period size: 51 Copynumber: 3.9 Consensus size: 50
18434071 AAAATGATAC
* * * * *
18434081 CCGGTTCACATAGTAGCTTGCACATAGTACTACACATGTGACCATTTTCATT
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACC-TATT-ATT
** * * * ** *
18434133 -CAATACACGTAGTAGCCTGCACATGGTACTACACACGTGATCGAAGCTA-T
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGA-CCTA-TTATT
* * *
18434183 CCGGTACGCATAGTAGCCTACACATAGTACTACACATGCGACCTATTATT
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCTATTATT
*
18434233 CCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCTA
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCTA
18434278 GCAACTTCAC
Statistics
Matches: 115, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
49 2 0.02
50 45 0.39
51 66 0.57
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCTATTATT
Found at i:18434270 original size:101 final size:102
Alignment explanation
Indices: 18434089--18434273 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
18434079 ACCCGGTTCA
* * * * *
18434089 CATAGTAGCTTGCACATAGTACTACACATGTGACCATTTTCATTCAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATTCATTCAATACACGTAGTAGCCTACA
*
18434154 CATGGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
**
18434191 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATT-ATTCCGGTACACGTAGTAGCCTAC
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATATTCATT-CAATACACGTAGTAGCCTAC
18434254 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
18434274 CCTAGCAACT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 3 0.04
101 39 0.53
102 32 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATATTCATTCAATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:18435787 original size:71 final size:71
Alignment explanation
Indices: 18435707--18435929 Score: 199
Period size: 71 Copynumber: 3.1 Consensus size: 71
18435697 GATCGAAATT
18435707 AATTAATATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTAT
1 AATTAATATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTAT
18435772 GAATCA
66 GAATCA
* * * *** * * ** *
18435778 AATTCATATATTAAT-TATATTCTTTCCAAA---AG-AATAT-TAATTTTCATGTTTTTTATATT
1 AATT-A-ATATAAATGTTTA-TATTAATAAATTCAGTAATATAT-A-TAT-ATATAATTAATATT
* **
18435837 TTG-ACCGAATTT
60 TTGTA-TGAATCA
18435849 AATTAATATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTAT
1 AATTAATATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTAT
18435914 GAATCA
66 GAATCA
*
18435920 AATTCATATA
1 AATTAATATA
18435930 TTAATTATAT
Statistics
Matches: 109, Mismatches: 29, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
68 1 0.01
69 19 0.17
70 9 0.08
71 51 0.47
72 9 0.08
73 19 0.17
74 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (71 bp):
AATTAATATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTAT
GAATCA
Found at i:18435904 original size:142 final size:142
Alignment explanation
Indices: 18435648--18435939 Score: 523
Period size: 142 Copynumber: 2.1 Consensus size: 142
18435638 TAGAAAAATG
* *
18435648 AATTATATTCTTTGCAAAAGAATATTAACTTCTATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAACTTCTATGTCTTTTATATTTTGACCGAAATTAATTAA
18435713 TATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTATGAATCA
66 TATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTATGAATCA
18435778 AATTCATATATT
131 AATTCATATATT
* * *
18435790 AATTATATTCTTTCCAAAAGAATATTAA-TTTTCATGTTTTTTATATTTTGACCGAATTTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAACTTCT-ATGTCTTTTATATTTTGACCGAAATTAATTA
18435854 ATATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTATGAATC
65 ATATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTATGAATC
18435919 AAATTCATATATT
130 AAATTCATATATT
18435932 AATTATAT
1 AATTATAT
18435940 CTATGTTCTC
Statistics
Matches: 144, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
141 3 0.02
142 141 0.98
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (142 bp):
AATTATATTCTTTCCAAAAGAATATTAACTTCTATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAAATGTTTATATTAATAAATTCAGTAATATATATATATATAATTAATATTTTGTATGAATCA
AATTCATATATT
Found at i:18442762 original size:28 final size:26
Alignment explanation
Indices: 18442723--18442790 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
18442713 GGCAGGAACT
18442723 TAAG-CAAATTAAAATCATGTAATAAGC
1 TAAGACAAATTAAAA-CATGTAATAA-C
* *
18442750 TAAGACAAATTAATGACATGTATTAAC
1 TAAGACAAATTAA-AACATGTAATAAC
*
18442777 TAAGACATATTAAA
1 TAAGACAAATTAAA
18442791 TGCATTCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 17 0.49
28 17 0.49
29 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (26 bp):
TAAGACAAATTAAAACATGTAATAAC
Found at i:18446249 original size:17 final size:17
Alignment explanation
Indices: 18446227--18446262 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18446217 CAAGAGTCTA
* *
18446227 CCTACAGTTTTCGTTTT
1 CCTACAGTCTTAGTTTT
18446244 CCTACAGTCTTAGTTTT
1 CCTACAGTCTTAGTTTT
18446261 CC
1 CC
18446263 CTAATTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.28, G:0.11, T:0.47
Consensus pattern (17 bp):
CCTACAGTCTTAGTTTT
Found at i:18447087 original size:28 final size:28
Alignment explanation
Indices: 18447054--18447136 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
18447044 TAGTATCAGT
* *
18447054 ACAGTGTGAGCCTTAGCCCATTACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAATA
* *
18447082 ACAGTGTGTGGGCCTTATCCCAATACAGTA
1 ACA--GTGTGGGCCTTAGCCCAATACAATA
* *
18447112 ATAGTGGGGGCCTTAGCCCAATACA
1 ACAGTGTGGGCCTTAGCCCAATACA
18447137 GTAATCAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.50
30 23 0.50
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAATA
Found at i:18447137 original size:28 final size:30
Alignment explanation
Indices: 18447057--18447141 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 30
18447047 TATCAGTACA
* * * *
18447057 GTGTGAGCCTTAGCCCATTACAATAACAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATAGT
*
18447087 GTGTGGGCCTTATCCCAATACAGTAATAGT
1 GTGTGGGCCTTAGCCCAATACAGTAATAGT
18447117 G-G-GGGCCTTAGCCCAATACAGTAAT
1 GTGTGGGCCTTAGCCCAATACAGTAAT
18447142 CAATGCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 22 0.45
29 1 0.02
30 26 0.53
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (30 bp):
GTGTGGGCCTTAGCCCAATACAGTAATAGT
Found at i:18447305 original size:26 final size:26
Alignment explanation
Indices: 18447251--18447353 Score: 100
Period size: 26 Copynumber: 4.0 Consensus size: 26
18447241 TAACCAATAT
* * *
18447251 CGCAGCAAAGCTGCCAGTGATAGTGA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
*
18447277 CGCACCAAAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
* * *
18447303 CGCAGTAAAGTTGCTAGTAACAGTATA
1 CGCAGCAAAGCTGCCAGTAACAGTA-A
* **
18447330 CGTAGCAAAGCCACCAGT-ACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
18447354 TACTTCCCTT
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
26 49 0.79
27 13 0.21
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:18447532 original size:27 final size:27
Alignment explanation
Indices: 18447502--18447697 Score: 196
Period size: 27 Copynumber: 7.3 Consensus size: 27
18447492 AGGTATAAAA
* *
18447502 GTCATTTTACCATTTGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
18447529 GTCATTTTACCCTTCAAGGGTATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
18447556 ATCATTTTACCCTTCGGGGGTATATCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * *
18447583 GTTATTTTACCCTTCGAGGGCATTTTG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
18447610 ATCATTTTACTCTTCAAGGGTATTTCA
1 GTCATTTTACCCTTCGAGGGTATTTCG
* *
18447637 GTCATTTTATCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCGAGGGTATTTCG
* * * *
18447664 ATCATTTTACTCTTC-AGGGGTCTTTCA
1 GTCATTTTACCCTTCGA-GGGTATTTCG
18447691 GTCATTT
1 GTCATTT
18447698 GCCCATGAAT
Statistics
Matches: 133, Mismatches: 35, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTTCGAGGGTATTTCG
Found at i:18447561 original size:54 final size:53
Alignment explanation
Indices: 18447503--18447697 Score: 221
Period size: 54 Copynumber: 3.6 Consensus size: 53
18447493 GGTATAAAAG
* *
18447503 TCATTTTACCATTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTTGA
1 TCATTTTACC-TTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTTGA
* * * *
18447557 TCATTTTACCCTTCGGGGGTATATCGGTTATTTTACCCTTCGAGGGCATTTTGA
1 TCATTTTA-CCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTTGA
* * * * *
18447611 TCATTTTACTCTTCAAGGGTATTTCAGTCATTTTATCCTTCGGGGGTATTTCGA
1 TCATTTTAC-CTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTTGA
* *
18447665 TCATTTTACTCTTC-AGGGGTCTTTCAGTCATTT
1 TCATTTTAC-CTTCGA-GGGTATTTCGGTCATTT
18447698 GCCCATGAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 2 0.02
54 118 0.97
55 2 0.02
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (53 bp):
TCATTTTACCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTTGA
Found at i:18447615 original size:81 final size:81
Alignment explanation
Indices: 18447503--18447682 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
18447493 GGTATAAAAG
* * * * *
18447503 TCATTTTACCATTTGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTT-TGATCATTTTACC
1 TCATTTTACCCTTCGAGGGCATTTCGATCATTTTACCCTTCAAGGGTATTTCAG-TCATTTTACC
*
18447567 CTTCGGGGGTATATCGG
65 CTTCGGGGGTATATCGA
* * * *
18447584 TTATTTTACCCTTCGAGGGCATTTTGATCATTTTACTCTTCAAGGGTATTTCAGTCATTTTATCC
1 TCATTTTACCCTTCGAGGGCATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
*
18447649 TTCGGGGGTATTTCGA
66 TTCGGGGGTATATCGA
*
18447665 TCATTTTACTCTTC-AGGG
1 TCATTTTACCCTTCGAGGG
18447683 GTCTTTCAGT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
80 4 0.05
81 80 0.94
82 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTTCGAGGGCATTTCGATCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
TTCGGGGGTATATCGA
Found at i:18448424 original size:20 final size:20
Alignment explanation
Indices: 18448377--18448430 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
18448367 TAGAATGAAG
* **
18448377 AGGAGAAGAAGAGAAGAGATG
1 AGGAG-AGAAGAGAAAAGAAA
*
18448398 AGTAGAGAAGAGAAAAGAAA
1 AGGAGAGAAGAGAAAAGAAA
*
18448418 AGGAGAGATGAGA
1 AGGAGAGAAGAGA
18448431 GGATTCGACA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 23 0.85
21 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.39, T:0.06
Consensus pattern (20 bp):
AGGAGAGAAGAGAAAAGAAA
Found at i:18448780 original size:19 final size:19
Alignment explanation
Indices: 18448756--18448794 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
18448746 ACGGGACTCG
18448756 AACCTCAGACCTTAAAAGT
1 AACCTCAGACCTTAAAAGT
18448775 AACCTCAGACCTTAAAAGT
1 AACCTCAGACCTTAAAAGT
18448794 A
1 A
18448795 CTTCACATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.10, T:0.21
Consensus pattern (19 bp):
AACCTCAGACCTTAAAAGT
Found at i:18451127 original size:50 final size:50
Alignment explanation
Indices: 18451020--18451254 Score: 317
Period size: 50 Copynumber: 4.7 Consensus size: 50
18451010 CATGCCAAAA
* ** * * *
18451020 CCATGTCCCAGACATGGTCTTACATAGGATGTTCTCATATCGGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAACG
* ** **
18451071 TCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAATA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
* *
18451121 CCATGTCCCAGACACGGTCTTACATGGGACCTCTCATCTTGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
*
18451171 CCATGTCCCAGACATGGTGTTACATGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
* *
18451221 CCATGTCCCAGACATGGTCCTATATGGGACCTCT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCT
18451255 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 22, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
50 137 0.85
51 25 0.15
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
Found at i:18451626 original size:30 final size:29
Alignment explanation
Indices: 18451592--18451661 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
18451582 CCTCGACTCT
18451592 AACTTTGGAAAAATTACGATTTTGCCCCTA
1 AACTTTGGAAAAATTACGATTTTGCCCC-A
* * *
18451622 AACTTT-TACATAATTACGCTTTTGCCCCA
1 AACTTTGGA-AAAATTACGATTTTGCCCCA
*
18451651 AAGTTTGGAAA
1 AACTTTGGAAA
18451662 TTAAACTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (29 bp):
AACTTTGGAAAAATTACGATTTTGCCCCA
Found at i:18458573 original size:50 final size:50
Alignment explanation
Indices: 18458498--18458689 Score: 303
Period size: 50 Copynumber: 3.8 Consensus size: 50
18458488 GATAATAACA
* * ** *
18458498 TGCCAAAGCCATGTCCCAGGCATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * *
18458548 TGCCAACGCCGTGTCCCAGCCATGGTCTTACATGGGACCTCTCATCTTAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
*
18458598 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
18458648 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
18458690 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 130 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.24
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:18459450 original size:124 final size:125
Alignment explanation
Indices: 18459223--18459472 Score: 493
Period size: 124 Copynumber: 2.0 Consensus size: 125
18459213 AACTCAACTT
18459223 TTGCACTTTTTACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACG
1 TTGCACTTTTTACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACG
18459288 AAATTTTCACGAAATCTTTGCTTAAATTTGGGCCATTACAAGTTTTATTAAGGTTAATAA
66 AAATTTTCACGAAATCTTTGCTTAAATTTGGGCCATTACAAGTTTTATTAAGGTTAATAA
18459348 TTGCAC-TTTTACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACG
1 TTGCACTTTTTACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACG
18459412 AAATTTTCACGAAATCTTTGCTTAAATTTGGGCCATTACAAGTTTTATTAAGGTTAATAA
66 AAATTTTCACGAAATCTTTGCTTAAATTTGGGCCATTACAAGTTTTATTAAGGTTAATAA
18459472 T
1 T
18459473 GAAAGTTTTA
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
124 119 0.95
125 6 0.05
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (125 bp):
TTGCACTTTTTACAATTTAGTCCTTTTGACTAAATTGAGTGCCCAAACGTCAAAATTTTTGAACG
AAATTTTCACGAAATCTTTGCTTAAATTTGGGCCATTACAAGTTTTATTAAGGTTAATAA
Found at i:18460970 original size:27 final size:28
Alignment explanation
Indices: 18460918--18460970 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
18460908 AAAATAATTA
*
18460918 AAATTAAATATGTTAATAATTTAAGTGC
1 AAATTAAATATGTTAATAATTAAAGTGC
* *
18460946 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAAATATGTTAATAATTAAAGT
18460971 ATGAATTACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGC
Found at i:18464966 original size:25 final size:25
Alignment explanation
Indices: 18464892--18464969 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
18464882 TCATTAGGGT
* *
18464892 TACCGATTC-TCAGCTCATATGAGCT
1 TACCGATTCAT-AGCTCGTATGAGCA
* *
18464917 TACCGATTTACAGCTCGTGA-GAGCA
1 TACCGATTCATAGCTCGT-ATGAGCA
18464942 TACCGATTCATAGCTCGTATGAGCA
1 TACCGATTCATAGCTCGTATGAGCA
18464967 TAC
1 TAC
18464970 ATGTATAGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (25 bp):
TACCGATTCATAGCTCGTATGAGCA
Found at i:18468155 original size:29 final size:30
Alignment explanation
Indices: 18468123--18468233 Score: 143
Period size: 30 Copynumber: 3.7 Consensus size: 30
18468113 GGTGATGATC
*
18468123 ATCAAACTATG-AAAGGGATGGCTTCAACT
1 ATCAAACTATGAAAAGGGATGGCTTCAGCT
* *
18468152 ATCAAACTATGAAAAAGGATGGCTTCGGCT
1 ATCAAACTATGAAAAGGGATGGCTTCAGCT
* * *
18468182 ATCAATCTATGAAAAGGAATAGCTTCAGCT
1 ATCAAACTATGAAAAGGGATGGCTTCAGCT
* *
18468212 ATCAAATTATGAAATGGGATGG
1 ATCAAACTATGAAAAGGGATGG
18468234 TGACGACCAT
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
29 11 0.16
30 57 0.84
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (30 bp):
ATCAAACTATGAAAAGGGATGGCTTCAGCT
Found at i:18468252 original size:60 final size:59
Alignment explanation
Indices: 18468072--18468258 Score: 173
Period size: 60 Copynumber: 3.2 Consensus size: 59
18468062 TCATCAACGA
* * * * *
18468072 ATGAAAAGGAATAGCTTCGGCTATC-GATTATGTAAAGGGATGGTGATGATCATCAAACT
1 ATGAAAAGGAATAGCTTCAGCTATCAAATTATG-AAAGGGATGGTGACGACCATTAAACT
* * * * * * * * * *
18468131 ATG-AAAGGGATGGCTTCAACTATCAAACTATGAAAAAGGATGGCT-TCGGCTATCAATCT
1 ATGAAAAGGAATAGCTTCAGCTATCAAATTATG-AAAGGGATGG-TGACGACCATTAAACT
*
18468190 ATGAAAAGGAATAGCTTCAGCTATCAAATTATGAAATGGGATGGTGACGACCATTGAACT
1 ATGAAAAGGAATAGCTTCAGCTATCAAATTATGAAA-GGGATGGTGACGACCATTAAACT
18468250 ATGAAAAGG
1 ATGAAAAGG
18468259 GATGGTGGCG
Statistics
Matches: 98, Mismatches: 25, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
58 17 0.17
59 32 0.33
60 49 0.50
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.25
Consensus pattern (59 bp):
ATGAAAAGGAATAGCTTCAGCTATCAAATTATGAAAGGGATGGTGACGACCATTAAACT
Found at i:18468253 original size:30 final size:30
Alignment explanation
Indices: 18468100--18468291 Score: 124
Period size: 30 Copynumber: 6.4 Consensus size: 30
18468090 GGCTATCGAT
* * *
18468100 TATGTAAAGGGATGGTGATGATCATCAAAC
1 TATGAAAAGGGATGGTGACGACCATCAAAC
* * *
18468130 TATG-AAAGGGATGGCT-TCAACTATCAAAC
1 TATGAAAAGGGATGG-TGACGACCATCAAAC
* * * * *
18468159 TATGAAAAAGGATGGCT-TCGGCTATCAATC
1 TATGAAAAGGGATGG-TGACGACCATCAAAC
* * * * *
18468189 TATGAAAAGGAATAGCT-TC-AGCTATCAAAT
1 TATGAAAAGGGAT-GGTGACGA-CCATCAAAC
* **
18468219 TATGAAATGGGATGGTGACGACCATTGAAC
1 TATGAAAAGGGATGGTGACGACCATCAAAC
* *
18468249 TATGAAAAGGGATGGTGGCGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCAAAC
18468279 TATGAAAAGGGAT
1 TATGAAAAGGGAT
18468292 AACTTTAGTT
Statistics
Matches: 128, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
29 24 0.19
30 102 0.80
31 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAC
Found at i:18475690 original size:250 final size:251
Alignment explanation
Indices: 18475249--18475754 Score: 768
Period size: 250 Copynumber: 2.0 Consensus size: 251
18475239 TCTTTGAAGT
* * * *
18475249 AACCTCACACGCTCGTGTGCCAGGCCATGTGCTAGGCCGTGTAACAGCCTGACTTGCAAACCTTT
1 AACCTCACACGCCCGTGTCCCAGGCCATGTGCTAGGCCGTGTAACAACCTAACTTGCAAACCTTT
* * * *
18475314 GAAAGCTACAGAGGACACACGGCTGTGTGTCACACACGATTGAGACACACACTCGTGTCTCTGCC
66 GAAAGCTACAGAGGACACACGGCTGTGTGTCACACACAACTAAGACACACACTCGTATCTCTGCC
* *
18475379 TGTGTGGATGAAAATAGGCTATTTTACTAGTCATTTTTCTCACCCAACTTGGCATGTACCTACAA
131 TGTGTGGATGAAAATAGGCTATTTTACAAGCCATTTTTCTCACCCAACTTGGCATGTACCTACAA
*
18475444 CCACAATTGCAC-AAACTTACAAGCCATAGCAAGGCAACGAAATCAAGCATAAACA
196 CCACAATTGCACAAAACTTACAAGCCATAGCAAGGCAACCAAATCAAGCATAAACA
* ***
18475499 AACCTCACATGCCCGTGTCCCAGGTTGTGTGCTAGGCCGTGTAACAACCTAACTTGCAAACCTTT
1 AACCTCACACGCCCGTGTCCCAGGCCATGTGCTAGGCCGTGTAACAACCTAACTTGCAAACCTTT
* *
18475564 GAAAGGTACA-AGGGACACACTGCTGTGTGTCACACACAACTAAGACACACAC-CAGTATCTCTG
66 GAAAGCTACAGA-GGACACACGGCTGTGTGTCACACACAACTAAGACACACACTC-GTATCTCTG
*
18475627 ACC-GTGTGGATGAAAATAGGCTATTTTACAAGCCATTTTTCTCACCCAATTTGGCATGTACCTA
129 -CCTGTGTGGATGAAAATAGGCTATTTTACAAGCCATTTTTCTCACCCAACTTGGCATGTACCTA
* * *
18475691 CAACCACAATTGTACAAAACTTTCAAGCCATAGCAAGGCATCCAAATCAAGCATAAACA
193 CAACCACAATTGCACAAAACTTACAAGCCATAGCAAGGCAACCAAATCAAGCATAAACA
18475750 AACCT
1 AACCT
18475755 TAAACATATG
Statistics
Matches: 231, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
249 2 0.01
250 182 0.79
251 47 0.20
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (251 bp):
AACCTCACACGCCCGTGTCCCAGGCCATGTGCTAGGCCGTGTAACAACCTAACTTGCAAACCTTT
GAAAGCTACAGAGGACACACGGCTGTGTGTCACACACAACTAAGACACACACTCGTATCTCTGCC
TGTGTGGATGAAAATAGGCTATTTTACAAGCCATTTTTCTCACCCAACTTGGCATGTACCTACAA
CCACAATTGCACAAAACTTACAAGCCATAGCAAGGCAACCAAATCAAGCATAAACA
Found at i:18476184 original size:25 final size:25
Alignment explanation
Indices: 18476139--18476192 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
18476129 AAACATAATC
*
18476139 CAAATCATATGGCCACAATTA-CAA
1 CAAAACATATGGCCACAATTAGCAA
18476163 CAAAACATATAGGCCA-ACATTAGCAA
1 CAAAACATAT-GGCCACA-ATTAGCAA
18476189 -AAAA
1 CAAAA
18476193 TAACCTATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 10 0.38
25 13 0.50
26 3 0.12
ACGTcount: A:0.52, C:0.22, G:0.09, T:0.17
Consensus pattern (25 bp):
CAAAACATATGGCCACAATTAGCAA
Found at i:18482415 original size:42 final size:41
Alignment explanation
Indices: 18482302--18482424 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 41
18482292 TCAAACGCTC
* * *
18482302 ATACAATGCCAATGTCCCAAACGTGGTCTCACATGTAATCA
1 ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCA
* * * *
18482343 ATTAACGATGCCACTGTCCCAGATAGGGTCTTACATGTAATCA
1 A-T-ACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCA
* *
18482386 TATACGATGCCAATGTCTCAAACATGGTCTTACACGTAA
1 -ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAA
18482425 ATCTCAAATT
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
41 1 0.02
42 31 0.47
43 33 0.50
44 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (41 bp):
ATACGATGCCAATGTCCCAAACATGGTCTTACATGTAATCA
Found at i:18491766 original size:130 final size:130
Alignment explanation
Indices: 18491528--18491791 Score: 458
Period size: 130 Copynumber: 2.0 Consensus size: 130
18491518 ATCCCCCATG
*
18491528 AGAGGATTAGTTTCTCATGGATTTCATAAACATAATAAATTTGATACTAAAAATAAACATAAATA
1 AGAGGATTAGTTTCTCATGGATTTCATAAACACAATAAATTTGATACTAAAAATAAACATAAATA
*
18491593 ATGAATCAAAAGAAAAGGGTTTAAGAGAATCCTGAATTATATTGAATGAAGTGCAAAACCCACAA
66 ATGAATCAAAAGAAAAGGGTTTAAGACAATCCTGAATTATATTGAATGAAGTGCAAAACCCACAA
18491658 AGAGGATTAGTTTCTCATGGATTTCATAAACACAATAAATTTGATACTAAAAATAAACATAAATA
1 AGAGGATTAGTTTCTCATGGATTTCATAAACACAATAAATTTGATACTAAAAATAAACATAAATA
* * * *
18491723 ATGAATCAAGAGGAAAA-GGTTTAAGACAATCTTGAATTGTATTGAATGAAGTGCAAAATCCACA
66 ATGAATCAA-AAGAAAAGGGTTTAAGACAATCCTGAATTATATTGAATGAAGTGCAAAACCCACA
18491787 A
130 A
18491788 AGAG
1 AGAG
18491792 TTGATCGAGT
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
130 121 0.95
131 6 0.05
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.27
Consensus pattern (130 bp):
AGAGGATTAGTTTCTCATGGATTTCATAAACACAATAAATTTGATACTAAAAATAAACATAAATA
ATGAATCAAAAGAAAAGGGTTTAAGACAATCCTGAATTATATTGAATGAAGTGCAAAACCCACAA
Found at i:18498455 original size:21 final size:21
Alignment explanation
Indices: 18498426--18498472 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18498416 CAGACTTTTA
18498426 GCGGCGCCGCTAAAAGTATTT
1 GCGGCGCCGCTAAAAGTATTT
*
18498447 GCGGTGCCGCTAAAAGTATTT
1 GCGGCGCCGCTAAAAGTATTT
18498468 GCGGC
1 GCGGC
18498473 ACTTCCACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.32, T:0.23
Consensus pattern (21 bp):
GCGGCGCCGCTAAAAGTATTT
Found at i:18498604 original size:43 final size:43
Alignment explanation
Indices: 18498557--18498809 Score: 249
Period size: 43 Copynumber: 5.9 Consensus size: 43
18498547 CCACTAAAAG
* *
18498557 TCATGACCTTTAGCGACGCTTATCCCACAAATGCCGCTATAGA
1 TCATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGA
** * ** *
18498600 TCATGATTTTTAGCGGCGCTTTTCCCACAAACGCTACTATAGG
1 TCATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGA
* * * * *
18498643 TCATGACTTTTAGCGGCGTTTTTCCCACAAATGGCGCTATAGA
1 TCATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGA
** * * *
18498686 TCATCTCTTTTAGCGACGCTTTTCCCACAAACGTCGCTATAAA
1 TCATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGA
* * * **
18498729 ACA-GATCTTTAACGACGCTTTTTCATACAAACGCCGCTATAGA
1 TCATGACCTTTAGCGACGC-TTTTCCCACAAACGCCGCTATAGA
* * *
18498772 ACA-GACCTTTAGCGGCGCTTTTCACACAAACGCCGCTA
1 TCATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTA
18498810 AAAACATATC
Statistics
Matches: 173, Mismatches: 36, Indels: 3
0.82 0.17 0.01
Matches are distributed among these distances:
42 29 0.17
43 144 0.83
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (43 bp):
TCATGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTATAGA
Found at i:18504721 original size:41 final size:40
Alignment explanation
Indices: 18504672--18504850 Score: 227
Period size: 41 Copynumber: 4.4 Consensus size: 40
18504662 GTGCTTTCAA
* *
18504672 AAAAACGCCGCTAAAAACCCGAGCATTAGTGGCGCCTT-TTC
1 AAAAACGCCGCT-AAAACCCGAGCATTAGCGGCG-CTTAATC
*
18504713 AAAAACGCCGCTAAAACCTCAAGCATTAGCGGCGCTTAATC
1 AAAAACGCCGCTAAAACC-CGAGCATTAGCGGCGCTTAATC
*
18504754 ATAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTAATC
1 AAAAACGCCGCTAAAACCC-GAGCATTAGCGGCGCTTAATC
* *
18504795 ATAAACGCCGCTAAAACCCCGAGCATTAGCGGCGC-TACTC
1 AAAAACGCCGCTAAAA-CCCGAGCATTAGCGGCGCTTAATC
*
18504835 TAAAAACGCCACTAAA
1 -AAAAACGCCGCTAAA
18504851 GCCTCCGATA
Statistics
Matches: 125, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
40 14 0.11
41 108 0.86
42 3 0.02
ACGTcount: A:0.35, C:0.30, G:0.18, T:0.17
Consensus pattern (40 bp):
AAAAACGCCGCTAAAACCCGAGCATTAGCGGCGCTTAATC
Found at i:18506881 original size:25 final size:24
Alignment explanation
Indices: 18506853--18506900 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
18506843 AAAATTGGTA
*
18506853 TTTACAAAGATATTTTGTTGTTAGC
1 TTTACAAA-ATATTTTGTTATTAGC
* *
18506878 TTTACCAAATGTTTTGTTATTAG
1 TTTACAAAATATTTTGTTATTAG
18506901 GTAAGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (24 bp):
TTTACAAAATATTTTGTTATTAGC
Found at i:18507106 original size:20 final size:20
Alignment explanation
Indices: 18507081--18507120 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18507071 CTTAGATGAG
*
18507081 TTGTAAGATATTTTGTTATT
1 TTGTAAGATATTTTATTATT
*
18507101 TTGTAAGGTATTTTATTATT
1 TTGTAAGATATTTTATTATT
18507121 AACTTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (20 bp):
TTGTAAGATATTTTATTATT
Found at i:18521958 original size:1 final size:1
Alignment explanation
Indices: 18521952--18521976 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
18521942 TTGCAACAAC
18521952 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
18521977 TCCTAACAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18525690 original size:51 final size:50
Alignment explanation
Indices: 18525635--18525732 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
18525625 AAATTTCCTC
* *
18525635 TCAATTTGCTGTCAAATTCATTC-AAATTTTCTCTTAAATCCTTATTTAATT
1 TCAATTTGCTCTCAAATTC-TTCTAAA-TTTCTCTTAAATCCCTATTTAATT
*
18525686 TCAATTTGCTCTCAAGTTCTTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCTTC-TAAATTTCTCTTAAATCCCTATTT
18525733 TTAAATAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 3 0.07
51 36 0.86
52 3 0.07
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (50 bp):
TCAATTTGCTCTCAAATTCTTCTAAATTTCTCTTAAATCCCTATTTAATT
Found at i:18527451 original size:18 final size:18
Alignment explanation
Indices: 18527428--18527467 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
18527418 CAGGTGCATT
18527428 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
18527446 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
18527464 TCCT
1 TCCT
18527468 TTTCTGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.25, C:0.30, G:0.05, T:0.40
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:18532499 original size:5 final size:5
Alignment explanation
Indices: 18532489--18532513 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18532479 AATAGTATAA
18532489 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
18532514 TTATAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:18536250 original size:18 final size:18
Alignment explanation
Indices: 18536227--18536264 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
18536217 GCCAGGGGAG
*
18536227 GGCATACTGACCTGTTGT
1 GGCATACTGACCTATTGT
18536245 GGCATACTGACCTATTGT
1 GGCATACTGACCTATTGT
18536263 GG
1 GG
18536265 AGGACTACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (18 bp):
GGCATACTGACCTATTGT
Found at i:18541860 original size:16 final size:17
Alignment explanation
Indices: 18541830--18541863 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
18541820 GAAATTGAAA
18541830 TAACTAAATTAATTTTC
1 TAACTAAATTAATTTTC
18541847 TAACTAAA-TAATTTTC
1 TAACTAAATTAATTTTC
18541863 T
1 T
18541864 TAATCCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
TAACTAAATTAATTTTC
Found at i:18543396 original size:25 final size:26
Alignment explanation
Indices: 18543342--18543396 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
18543332 ATCATTACGG
*
18543342 TTTGATCTAGTTAACCCAGAGGTCAG
1 TTTGATCTAGTTAACCCAGAGGTCAA
*
18543368 TTTGATCTAGTTAACCC-GGGGTCAA
1 TTTGATCTAGTTAACCCAGAGGTCAA
18543393 TTTG
1 TTTG
18543397 TTAAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (26 bp):
TTTGATCTAGTTAACCCAGAGGTCAA
Found at i:18545744 original size:27 final size:27
Alignment explanation
Indices: 18545706--18546075 Score: 370
Period size: 27 Copynumber: 13.7 Consensus size: 27
18545696 AATGGGCCAC
*
18545706 TAAAGTTACCGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
*
18545733 TAAAATTACCGAAATACCC-CAATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* *
18545759 TAAAATTATCAAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
*
18545786 TAAAATTATCGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* * **
18545813 TAATATGACTAAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* * *
18545840 TAAAATTATCGATATACCCTTGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* * * *
18545867 TAAAATGACCTAAATACCCTTGATGGT
1 TAAAATTACCGAAATACCCTCGATGGG
*
18545894 TAAAATTACCAAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
*** *
18545921 TAAAATTATTAAAATACCCTTGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* *
18545948 TAAAATTACTGAAATACCC-CTATAGGG
1 TAAAATTACCGAAATACCCTCGAT-GGG
* * ** * *
18545975 TAAAATAATCGTTATACCC-CTAAAGGG
1 TAAAATTACCGAAATACCCTC-GATGGG
*
18546002 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGG
* *
18546029 TAAAATTATCGAAATACCC-CTATAGGG
1 TAAAATTACCGAAATACCCTCGAT-GGG
* **
18546056 TAAAATGACCGTTATACCCT
1 TAAAATTACCGAAATACCCT
18546076 TAGGAGATGA
Statistics
Matches: 283, Mismatches: 54, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
26 28 0.10
27 253 0.89
28 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGATGGG
Found at i:18546249 original size:26 final size:26
Alignment explanation
Indices: 18546220--18546322 Score: 136
Period size: 26 Copynumber: 4.0 Consensus size: 26
18546210 TTGCCACAAA
*
18546220 TACTGTTATTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
18546246 TACTGATACTGGCAG-TTCTGCTGCAT
1 TACTGTTACTGGCAGCTT-TGCTGCGT
*
18546272 TATTGTTACTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCTTTGCTGCGT
* *
18546298 TACTATTACTGGTAGCTTTGCTGCG
1 TACTGTTACTGGCAGCTTTGCTGCG
18546323 ATATTGGTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
25 2 0.03
26 62 0.94
27 2 0.03
ACGTcount: A:0.15, C:0.20, G:0.25, T:0.40
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTGCGT
Found at i:18546464 original size:30 final size:30
Alignment explanation
Indices: 18546427--18546506 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
18546417 TACTGCATTT
18546427 ACACTGTTACTGTATTGGGCTAAGGCCCAC
1 ACACTGTTACTGTATTGGGCTAAGGCCCAC
* * *
18546457 ACTCTGTTACTGTATTAGGCTATGGCCCAC
1 ACACTGTTACTGTATTGGGCTAAGGCCCAC
** *
18546487 ACACTACTACTGTATAGGGC
1 ACACTGTTACTGTATTGGGC
18546507 GCAGGCTCAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (30 bp):
ACACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:18558729 original size:26 final size:26
Alignment explanation
Indices: 18558661--18558729 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
18558651 TAATTATATA
18558661 TGCTCACACGAGCTGTGAAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
** * * *
18558687 TAATCACATGAGTTGTGAAATGGGCT
1 TGCTCACACGAGCTGTGAAATGGGCC
*
18558713 TGCTCCCACGAGCTGTG
1 TGCTCACACGAGCTGTG
18558730 GGTCGGGCTG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:18565983 original size:25 final size:26
Alignment explanation
Indices: 18565909--18565984 Score: 109
Period size: 26 Copynumber: 3.0 Consensus size: 26
18565899 ATGAATTTTC
18565909 TCAAAATTTTACCAAGGGTAAAATTG
1 TCAAAATTTTACCAAGGGTAAAATTG
* * *
18565935 TCGAAATTTTATCGAGGGTAAAATTG
1 TCAAAATTTTACCAAGGGTAAAATTG
*
18565961 TCAAAATTTTA-CTAGGGTAAAATT
1 TCAAAATTTTACCAAGGGTAAAATT
18565985 AGGGTGAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 12 0.27
26 33 0.73
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACCAAGGGTAAAATTG
Found at i:18566988 original size:12 final size:12
Alignment explanation
Indices: 18566973--18567014 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
18566963 ATCGAGCTAC
18566973 AAATATTTTTAT
1 AAATATTTTTAT
**
18566985 AAATA--TTCGT
1 AAATATTTTTAT
18566995 AAATATTTTTAT
1 AAATATTTTTAT
18567007 AAATATTT
1 AAATATTT
18567015 ACAGAGCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 8 0.33
12 16 0.67
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (12 bp):
AAATATTTTTAT
Found at i:18570867 original size:129 final size:129
Alignment explanation
Indices: 18570637--18570885 Score: 311
Period size: 129 Copynumber: 1.9 Consensus size: 129
18570627 AATGTTGTGC
* * * * *
18570637 AATTTGCCAATAGCAAAGAACAGTAAAATCAACAAAAGAAGTAGTCAATAAGAATCAAATAGTAC
1 AATTTGCAAAGAGCAAAGAACAGCAAAATCAACAAAAGAAGCAATCAATAAGAATCAAATAGTAC
* * * *
18570702 AAGAAACTAAAAACAGATAAACCAATTTAAATTTGAACTGAAAGGACACAAAAGCAAATATTGT
66 AAAAAACTAAAAACAGACAAACCAATTTAAAGTTGAACTGAAAGAACACAAAAGCAAATATTGT
* * ** *
18570766 AATTTGCAAAGAGCTAATAACAGCAAAATCAACAAAAGGGGCAATCAATAATAATCAAATAGTAC
1 AATTTGCAAAGAGCAAAGAACAGCAAAATCAACAAAAGAAGCAATCAATAAGAATCAAATAGTAC
* * * * *
18570831 AAAAAAAGTAAAAATAGACAAACCCATTT-TAGTTGAACTGAAAGAACACGAAAGC
66 -AAAAAACTAAAAACAGACAAACCAATTTAAAGTTGAACTGAAAGAACACAAAAGC
18570886 GAAGACTGTA
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
129 77 0.77
130 23 0.23
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (129 bp):
AATTTGCAAAGAGCAAAGAACAGCAAAATCAACAAAAGAAGCAATCAATAAGAATCAAATAGTAC
AAAAAACTAAAAACAGACAAACCAATTTAAAGTTGAACTGAAAGAACACAAAAGCAAATATTGT
Found at i:18573088 original size:20 final size:20
Alignment explanation
Indices: 18573055--18573099 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
18573045 TAAATTCACA
18573055 TAATTAAAACAAGACAC-AAT
1 TAATTAAAACAAGAC-CTAAT
**
18573075 TAATTAAATTAAGACCTAAT
1 TAATTAAAACAAGACCTAAT
18573095 TAATT
1 TAATT
18573100 CGGTTAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.31
Consensus pattern (20 bp):
TAATTAAAACAAGACCTAAT
Found at i:18580503 original size:65 final size:63
Alignment explanation
Indices: 18580412--18580534 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 63
18580402 GAGAATCATT
* * *
18580412 AGAAAAGCTGGTGTTATTTTAGCA-TTTTATGTTGTTTTTAAGTATGTTTTGTTTTCTTGCATAA
1 AGAAAAGCTGGTGTTATTTTAGCATTTTTATGTT-ATTTTAAATATG-TTTATTTTCTTGCATAA
* *
18580476 AGAATAAGTTGGTGTTATTTTGGCATTTTTATGTTATTTTAAATATGTTTATTTTCTTG
1 AGAA-AAGCTGGTGTTATTTTAGCATTTTTATGTTATTTTAAATATGTTTATTTTCTTG
18580535 ATTCAAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
64 15 0.29
65 28 0.54
66 9 0.17
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.54
Consensus pattern (63 bp):
AGAAAAGCTGGTGTTATTTTAGCATTTTTATGTTATTTTAAATATGTTTATTTTCTTGCATAA
Found at i:18580547 original size:65 final size:65
Alignment explanation
Indices: 18580420--18580547 Score: 163
Period size: 65 Copynumber: 2.0 Consensus size: 65
18580410 TTAGAAAAGC
* * * *
18580420 TGGTGTTATTTTAGCATTTTATGTTGTTTTTAAGTATGTTTTGTTTTCTTGCATAAAGAATAAGT
1 TGGTGTTATTTTAGCATTTTATGTTGATTTTAAATATGTTTTATTTTCTTGCATAAAAAATAAGT
*
18580485 TGGTGTTATTTTGGCATTTTTATGTT-ATTTTAAATATG-TTTATTTTCTTG-ATTCAAAAAATA
1 TGGTGTTATTTTAGCA-TTTTATGTTGATTTTAAATATGTTTTATTTTCTTGCA-T-AAAAAATA
18580547 A
63 A
18580548 AAAAAAAGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
63 1 0.02
64 12 0.22
65 33 0.60
66 9 0.16
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.54
Consensus pattern (65 bp):
TGGTGTTATTTTAGCATTTTATGTTGATTTTAAATATGTTTTATTTTCTTGCATAAAAAATAAGT
Found at i:18589338 original size:541 final size:541
Alignment explanation
Indices: 18588316--18589398 Score: 2166
Period size: 541 Copynumber: 2.0 Consensus size: 541
18588306 GATGTCCCAC
18588316 TGGTTTGATACTGTATGCCCTGATTTTATGCATGATATTATGTTTTAGCATGTCATAGATGTATA
1 TGGTTTGATACTGTATGCCCTGATTTTATGCATGATATTATGTTTTAGCATGTCATAGATGTATA
18588381 TTGCATTGGATTGGGGTGGGGTTATATTGTTCGGAGGAAGTGCACTGAAAGGCCTCGAGCCTAAA
66 TTGCATTGGATTGGGGTGGGGTTATATTGTTCGGAGGAAGTGCACTGAAAGGCCTCGAGCCTAAA
18588446 TTATTTGCGGCTCAGCTGCAAACTACTGTCTAATGCCGCATTCAATGTTACTTATAGTGTAGGGA
131 TTATTTGCGGCTCAGCTGCAAACTACTGTCTAATGCCGCATTCAATGTTACTTATAGTGTAGGGA
18588511 TGAATGGGTTGATTAGAAACCCATATGGAGTGTAGGTTTGGACGGAGTTAGAGTGTAGAGGTTGG
196 TGAATGGGTTGATTAGAAACCCATATGGAGTGTAGGTTTGGACGGAGTTAGAGTGTAGAGGTTGG
18588576 CTGGGTAGGATTTGATACTGCATATCTGTTACTGTACTGAGTATTGATAATGTAATGCGCCAAGG
261 CTGGGTAGGATTTGATACTGCATATCTGTTACTGTACTGAGTATTGATAATGTAATGCGCCAAGG
18588641 CCCAAATGCATGACTGCTTCTGTATTGTAATGGGCTAAGGCCCTAACTGAAACTGAAACTGTTAC
326 CCCAAATGCATGACTGCTTCTGTATTGTAATGGGCTAAGGCCCTAACTGAAACTGAAACTGTTAC
18588706 CGAAATGAACATAGGCCAAGACTATGATTGCATACTATCTGCTTGTTTATGCGGGGATTGCATAC
391 CGAAATGAACATAGGCCAAGACTATGATTGCATACTATCTGCTTGTTTATGCGGGGATTGCATAC
18588771 TAAGTTTTCGTAAACTCACCCTTCTGATTCATCTGTTTAGGTGATCCCCAGACTCAGGCGGACTG
456 TAAGTTTTCGTAAACTCACCCTTCTGATTCATCTGTTTAGGTGATCCCCAGACTCAGGCGGACTG
18588836 AAGCGGCGGAGGGCTCAGCTG
521 AAGCGGCGGAGGGCTCAGCTG
18588857 TGGTTTGATACTGTATGCCCTGATTTTATGCATGATATTATGTTTTAGCATGTCATAGATGTATA
1 TGGTTTGATACTGTATGCCCTGATTTTATGCATGATATTATGTTTTAGCATGTCATAGATGTATA
18588922 TTGCATTGGATTGGGGTGGGGTTATATTGTTCGGAGGAAGTGCACTGAAAGGCCTCGAGCCTAAA
66 TTGCATTGGATTGGGGTGGGGTTATATTGTTCGGAGGAAGTGCACTGAAAGGCCTCGAGCCTAAA
18588987 TTATTTGCGGCTCAGCTGCAAACTACTGTCTAATGCCGCATTCAATGTTACTTATAGTGTAGGGA
131 TTATTTGCGGCTCAGCTGCAAACTACTGTCTAATGCCGCATTCAATGTTACTTATAGTGTAGGGA
18589052 TGAATGGGTTGATTAGAAACCCATATGGAGTGTAGGTTTGGACGGAGTTAGAGTGTAGAGGTTGG
196 TGAATGGGTTGATTAGAAACCCATATGGAGTGTAGGTTTGGACGGAGTTAGAGTGTAGAGGTTGG
18589117 CTGGGTAGGATTTGATACTGCATATCTGTTACTGTACTGAGTATTGATAATGTAATGCGCCAAGG
261 CTGGGTAGGATTTGATACTGCATATCTGTTACTGTACTGAGTATTGATAATGTAATGCGCCAAGG
18589182 CCCAAATGCATGACTGCTTCTGTATTGTAATGGGCTAAGGCCCTAACTGAAACTGAAACTGTTAC
326 CCCAAATGCATGACTGCTTCTGTATTGTAATGGGCTAAGGCCCTAACTGAAACTGAAACTGTTAC
18589247 CGAAATGAACATAGGCCAAGACTATGATTGCATACTATCTGCTTGTTTATGCGGGGATTGCATAC
391 CGAAATGAACATAGGCCAAGACTATGATTGCATACTATCTGCTTGTTTATGCGGGGATTGCATAC
18589312 TAAGTTTTCGTAAACTCACCCTTCTGATTCATCTGTTTAGGTGATCCCCAGACTCAGGCGGACTG
456 TAAGTTTTCGTAAACTCACCCTTCTGATTCATCTGTTTAGGTGATCCCCAGACTCAGGCGGACTG
18589377 AAGCGGCGGAGGGCTCAGCTG
521 AAGCGGCGGAGGGCTCAGCTG
18589398 T
1 T
18589399 TGCCACGGTA
Statistics
Matches: 542, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
541 542 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (541 bp):
TGGTTTGATACTGTATGCCCTGATTTTATGCATGATATTATGTTTTAGCATGTCATAGATGTATA
TTGCATTGGATTGGGGTGGGGTTATATTGTTCGGAGGAAGTGCACTGAAAGGCCTCGAGCCTAAA
TTATTTGCGGCTCAGCTGCAAACTACTGTCTAATGCCGCATTCAATGTTACTTATAGTGTAGGGA
TGAATGGGTTGATTAGAAACCCATATGGAGTGTAGGTTTGGACGGAGTTAGAGTGTAGAGGTTGG
CTGGGTAGGATTTGATACTGCATATCTGTTACTGTACTGAGTATTGATAATGTAATGCGCCAAGG
CCCAAATGCATGACTGCTTCTGTATTGTAATGGGCTAAGGCCCTAACTGAAACTGAAACTGTTAC
CGAAATGAACATAGGCCAAGACTATGATTGCATACTATCTGCTTGTTTATGCGGGGATTGCATAC
TAAGTTTTCGTAAACTCACCCTTCTGATTCATCTGTTTAGGTGATCCCCAGACTCAGGCGGACTG
AAGCGGCGGAGGGCTCAGCTG
Found at i:18599135 original size:25 final size:24
Alignment explanation
Indices: 18599067--18599135 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 24
18599057 TAATAATCAG
*
18599067 TCATACAATAAGATAAAT-ATATT
1 TCATATAATAAGATAAATAATATT
* * *
18599090 TCAAAT-TTAA-ACAAATGAATATT
1 TCATATAATAAGATAAAT-AATATT
18599113 TACATATAATAAGATAAATAATA
1 T-CATATAATAAGATAAATAATA
18599136 ATAAATAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
21 5 0.15
22 3 0.09
23 10 0.29
24 4 0.12
25 7 0.21
26 5 0.15
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (24 bp):
TCATATAATAAGATAAATAATATT
Found at i:18600840 original size:44 final size:44
Alignment explanation
Indices: 18600658--18600854 Score: 111
Period size: 44 Copynumber: 4.5 Consensus size: 44
18600648 AATCTGACCT
** * *
18600658 ACTGCAACTTCAGAGGTATAAGATTTGTGGTTTTAATCCGCTCC
1 ACTGCAACTTCAGAGAAATAAGATCTGTGGTTTTAATCCACTCC
* * ** * *
18600702 ACTACAACTTCAG-GAAGATAGGAT-TGAATTCTTTT-GTCTACTCC
1 ACTGCAACTTCAGAGAA-ATAAGATCTG--TGGTTTTAATCCACTCC
* *** ** **
18600746 ACTGCAACTTCA-AGAAGATAAGA-C--TGGATGCGATCTGCTTT
1 ACTGCAACTTCAGAGAA-ATAAGATCTGTGGTTTTAATCCACTCC
*
18600787 ACTACAACTTCAGAGAAATAAGATCTGTGGTTTTAATCCACTCC
1 ACTGCAACTTCAGAGAAATAAGATCTGTGGTTTTAATCCACTCC
* * *
18600831 ACTGCAACTTTAGGGAGATAAGAT
1 ACTGCAACTTCAGAGAAATAAGAT
18600855 TGGTTTCTTT
Statistics
Matches: 110, Mismatches: 33, Indels: 20
0.67 0.20 0.12
Matches are distributed among these distances:
40 2 0.02
41 22 0.20
42 5 0.05
43 3 0.03
44 73 0.66
45 5 0.05
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAAATAAGATCTGTGGTTTTAATCCACTCC
Found at i:18600881 original size:129 final size:129
Alignment explanation
Indices: 18600656--18600965 Score: 406
Period size: 129 Copynumber: 2.4 Consensus size: 129
18600646 TTAATCTGAC
** * * *
18600656 CTACTGCAACTTCAGAGGTATAAGATTTGTGGTTTTAATCCGCTCCACTACAACTTCAGGAAGAT
1 CTACTGCAACTTCAGAGAAATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGAT
* *
18600721 AGGATTGAATTCTTTTGTCTACTCCACTGCAACTTCAAGAAGATAAGACTGGATGCGATCTGCT
66 AAGATTGAATTCTTTTGTCTACTCCACTGCAACTTCAAGAAGATAAGACTGGATGCGATATGCT
* * * *
18600785 TTACTACAACTTCAGAGAAATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTTAGGGAGAT
1 CTACTGCAACTTCAGAGAAATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGAT
** * * * *
18600850 AAGATTGGTTTCTTTTGTCTACTCCATTGCAACTTCAGGGAGATAAGACTGGATGTGATATGCT
66 AAGATTGAATTCTTTTGTCTACTCCACTGCAACTTCAAGAAGATAAGACTGGATGCGATATGCT
* * **
18600914 CTACTGTAACTTCAGAGAGATAAGATCTGTAATCTTTAA-CCTACTCCACTGC
1 CTACTGCAACTTCAGAGAAATAAGATCTGTGGT-TTTAATCC-ACTCCACTGC
18600966 TGCTCAGGGA
Statistics
Matches: 156, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
129 141 0.90
130 15 0.10
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (129 bp):
CTACTGCAACTTCAGAGAAATAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGAAGAT
AAGATTGAATTCTTTTGTCTACTCCACTGCAACTTCAAGAAGATAAGACTGGATGCGATATGCT
Found at i:18601182 original size:131 final size:131
Alignment explanation
Indices: 18600930--18601501 Score: 821
Period size: 131 Copynumber: 4.4 Consensus size: 131
18600920 TAACTTCAGA
** *
18600930 GAGATAAGATCTGTAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGG-CTGGAT-GC--
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGAT-AGGACTGG-TGGCTT
* * *
18600991 -GATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT
64 AAATCTGCTT-CCTACTACCTCGGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT
18601055 TAGG
128 TAGG
*
18601059 GAGATAAGAACTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* * *
18601124 ATCTGCTTCCTACTATCTCGGGAAGACAAGATTCGCCATCTTCGTTCTGCTCCACTACTGCTTAG
66 ATCTGCTTCCTACTACCTCGGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
18601189 G
131 G
*
18601190 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAGGAGATAGGACTGGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* * * * ** **
18601255 ATCTTCTTCCTACCATCTCGAGAAGACAAGATTTACCGTCTTCGATCTGCTCCACTACTGCCCAG
66 ATCTGCTTCCTACTACCTCGGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
18601320 G
131 G
*
18601321 GAGATAAGATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
* ** * * *
18601386 ATTTGCTTCCTACTACCTTAGGAAGATAAGATTCGCTGTCTTCGATATGCTCCACTACTGCTTAG
66 ATCTGCTTCCTACTACCTCGGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
18601451 G
131 G
* * *
18601452 GAGATAAGATCTGCAATCTTCGACCTACTCCACTGTTGCTCAGGGAGATA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATA
18601502 AGGCTTTATA
Statistics
Matches: 397, Mismatches: 41, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
128 4 0.01
129 51 0.13
131 334 0.84
132 8 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (131 bp):
GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
ATCTGCTTCCTACTACCTCGGGAAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAG
G
Found at i:18601472 original size:44 final size:44
Alignment explanation
Indices: 18600925--18601503 Score: 190
Period size: 44 Copynumber: 13.3 Consensus size: 44
18600915 TACTGTAACT
* * ** * * *
18600925 TCAGAGAGATAAGATCTGTAATCTTTAACCTACTCCACTGCTGC
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGCTCCACTACTGC
* * * *
18600969 TCAGGGAGATAAG-GCTG-GA--TGCGATCTGCTTCC-CTACTAC
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGC-TCCACTACTGC
* **
18601009 -CTTGGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGC
1 TC-AGGG-AGATAAGATCT-GCAATCTTCGATCTGCTCCACTACTGC
* * * * * * *
18601054 TTAGGGAGATAAGAACTACAATCTTCAACCTACTCCACTGCTGC
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGCTCCACTACTGC
* **** **
18601098 TCAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCCTACTA-T-C
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGC-TCC-ACTACTGC
* * *
18601141 TC-GGGAAGACAAGAT-TCGCCATCTTCGTTCTGCTCCACTACTGC
1 TCAGGG-AGATAAGATCT-GCAATCTTCGATCTGCTCCACTACTGC
* * * * * *
18601185 TTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGC
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGCTCCACTACTGC
* * **** ** * *
18601229 TCAAGGAGATAGGA-CTGGTGGCTTAAATCTTCTTC-CTACCAT-C
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGCTCCACTA-C-TGC
* * * * **
18601272 TC-GAGAAGACAAGATTTACCGTCTTCGATCTGCTCCACTACTGC
1 TCAG-GGAGATAAGATCTGCAATCTTCGATCTGCTCCACTACTGC
* * ** * * *
18601316 CCAGGGAGATAAGATCTACAATCTTTAACCTACTCCACTGCTGC
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGCTCCACTACTGC
* **** ** *
18601360 TCAGGGAGATAGGA-CTGGTGGCTTAAATTTGCTTCCTACTAC--C
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGC-TCC-ACTACTGC
* * ** *
18601403 TTAGGAAGATAAGAT-TCGCTGTCTTCGATATGCTCCACTACTGC
1 TCAGGGAGATAAGATCT-GCAATCTTCGATCTGCTCCACTACTGC
* * * **
18601447 TTAGGGAGATAAGATCTGCAATCTTCGACCTACTCCACTGTTGC
1 TCAGGGAGATAAGATCTGCAATCTTCGATCTGCTCCACTACTGC
18601491 TCAGGGAGATAAG
1 TCAGGGAGATAAG
18601504 GCTTTATATG
Statistics
Matches: 380, Mismatches: 121, Indels: 68
0.67 0.21 0.12
Matches are distributed among these distances:
39 1 0.00
40 13 0.03
41 11 0.03
42 16 0.04
43 76 0.20
44 228 0.60
45 35 0.09
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (44 bp):
TCAGGGAGATAAGATCTGCAATCTTCGATCTGCTCCACTACTGC
Found at i:18602147 original size:46 final size:45
Alignment explanation
Indices: 18602046--18602148 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 45
18602036 AGCAAAGCTC
* * *
18602046 AAAATGAATGAATCAATCAAGATAGCAAATTTTGCTAGAATACAA
1 AAAATGAATAAATCAATCAAGATAGCAAATTTTGCAAAAATACAA
* * * **
18602091 AATGA-GAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAA
1 AA-AATGAATAAATCAATCAAGATAGCAAATTTTG-CAAAAATACAA
18602137 AAAATGAATAAA
1 AAAATGAATAAA
18602149 ATGGAAATAG
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
45 27 0.59
46 19 0.41
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (45 bp):
AAAATGAATAAATCAATCAAGATAGCAAATTTTGCAAAAATACAA
Found at i:18602429 original size:11 final size:11
Alignment explanation
Indices: 18602415--18602466 Score: 67
Period size: 11 Copynumber: 5.1 Consensus size: 11
18602405 TTGGCCTCTC
18602415 CTTTTTCTTTT
1 CTTTTTCTTTT
18602426 CTTTTTC--TT
1 CTTTTTCTTTT
18602435 C-TTTTCTTTT
1 CTTTTTCTTTT
18602445 CTTTTTCTTTT
1 CTTTTTCTTTT
*
18602456 CATTTT-TTTT
1 CTTTTTCTTTT
18602466 C
1 C
18602467 AAGTGAAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
8 5 0.14
9 3 0.08
10 8 0.22
11 21 0.57
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:18602431 original size:6 final size:6
Alignment explanation
Indices: 18602415--18602455 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
18602405 TTGGCCTCTC
18602415 CTTTTT C-TTTT CTTTTT CTTCTTT -TCTTTT CTTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT CTT-TTT CT-TTTT CTTTTT CTTTT
18602456 CATTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
5 5 0.16
6 21 0.68
7 5 0.16
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
CTTTTT
Found at i:18602461 original size:6 final size:5
Alignment explanation
Indices: 18602417--18602466 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
18602407 GGCCTCTCCT
*
18602417 TTTTC TTTTC TTTT- TCTTC TTTTC TTTTC TTTTTC TTTTC ATTTT- TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC -TTTTC TTTTC
18602467 AAGTGAAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
4 7 0.18
5 23 0.59
6 9 0.23
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:18602463 original size:19 final size:19
Alignment explanation
Indices: 18602417--18602453 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
18602407 GGCCTCTCCT
18602417 TTTTCTTTTCTTTTTCTTC
1 TTTTCTTTTCTTTTTCTTC
18602436 TTTTCTTTTCTTTTTCTT
1 TTTTCTTTTCTTTTTCTT
18602454 TTCATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTTCTTTTCTTTTTCTTC
Found at i:18606680 original size:30 final size:30
Alignment explanation
Indices: 18606665--18606728 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
18606655 GATAGTAGTG
18606665 ATAATATTAATAATAAAAGTAATACTAATA
1 ATAATATTAATAATAAAAGTAATACTAATA
* *
18606695 ATAATATTAATAATAACAA-AAATAATAATA
1 ATAATATTAATAATAA-AAGTAATACTAATA
18606725 ATAA
1 ATAA
18606729 AAGTAATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (30 bp):
ATAATATTAATAATAAAAGTAATACTAATA
Found at i:18606695 original size:15 final size:15
Alignment explanation
Indices: 18606672--18606735 Score: 65
Period size: 15 Copynumber: 4.1 Consensus size: 15
18606662 GTGATAATAT
18606672 TAATAATAAAAGTAATA
1 TAATAATAAAAGT-A-A
* *
18606689 CTAATAATAATATTAA
1 -TAATAATAAAAGTAA
* *
18606705 TAATAACAAAAATAA
1 TAATAATAAAAGTAA
18606720 TAATAATAAAAGTAA
1 TAATAATAAAAGTAA
18606735 T
1 T
18606736 CAAGATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
15 26 0.67
16 1 0.03
17 1 0.03
18 11 0.28
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (15 bp):
TAATAATAAAAGTAA
Found at i:18606748 original size:3 final size:3
Alignment explanation
Indices: 18606640--18606728 Score: 72
Period size: 3 Copynumber: 29.3 Consensus size: 3
18606630 ATATAGGAAT
* * * * *
18606640 ATA ATAA ATA ATA ATG ATA GTA GTG ATA ATA TTA ATA ATA A-A AGTA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * *
18606686 ATA CTA ATA ATA ATA TTA ATA ATA ACA AAA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
18606729 AAGTAATCAA
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
2 2 0.03
3 61 0.90
4 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:18608519 original size:23 final size:25
Alignment explanation
Indices: 18608483--18608528 Score: 78
Period size: 23 Copynumber: 1.9 Consensus size: 25
18608473 TTAAATTTTT
18608483 TAAATAATATATATTTA-TAATTTC
1 TAAATAATATATATTTACTAATTTC
18608507 TAAAT-ATATATATTTACTAATT
1 TAAATAATATATATTTACTAATT
18608529 AAATCAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
TAAATAATATATATTTACTAATTTC
Found at i:18608531 original size:21 final size:22
Alignment explanation
Indices: 18608481--18608532 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
18608471 TTTTAAATTT
18608481 TTTAAATAATATATATTTATAA
1 TTTAAATAATATATATTTATAA
18608503 TTTCTAAAT-ATATATATTTACTAA
1 -TT-TAAATAATATATATTTA-TAA
18608527 -TTAAAT
1 TTTAAAT
18608533 CAGAATGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.19
22 1 0.04
23 13 0.48
24 8 0.30
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAATAATATATATTTATAA
Found at i:18617172 original size:44 final size:44
Alignment explanation
Indices: 18617077--18617210 Score: 216
Period size: 44 Copynumber: 3.0 Consensus size: 44
18617067 CAATAGAGGC
* * *
18617077 GTAATGGAATAGAGGCGTAATAGCAAATC-AATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-TATTCTTA-TGTTTGGTTGAAT
18617122 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTGAAT
18617166 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTGAAT
18617210 G
1 G
18617211 GAATAGAGAT
Statistics
Matches: 85, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
44 61 0.72
45 24 0.28
ACGTcount: A:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTGAAT
Found at i:18617225 original size:39 final size:42
Alignment explanation
Indices: 18617077--18617227 Score: 175
Period size: 44 Copynumber: 3.5 Consensus size: 42
18617067 CAATAGAGGC
* * *
18617077 GTAATGGAATAGAGGCGTAATAGCAAATC-AATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-TATTCTTA-TGTTTGGTT--AT
18617122 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTT--AT
18617166 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTAT
**
18617206 G-AATGGAATAGAGATGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
18617228 CATAATGGAA
Statistics
Matches: 100, Mismatches: 5, Indels: 8
0.88 0.04 0.07
Matches are distributed among these distances:
39 19 0.19
40 2 0.02
43 1 0.01
44 54 0.54
45 24 0.24
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (42 bp):
GTAATGGAATAGAGGCGTAATAGTATTCTTATGTTTGGTTAT
Done.