Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 173 of 325
Found at i:54401816 original size:55 final size:53
Alignment explanation
Indices: 54401676--54401875 Score: 224
Period size: 55 Copynumber: 3.7 Consensus size: 53
54401666 TTTCCTTTTT
* * * * *
54401676 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTACCTTAT-
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATA
* * * *
54401729 GAACTCA-CCATGGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATA
1 GAACTTATCAAT-GCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATA
* * *
54401783 GTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATA
*
54401838 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATG
54401876 ATATCCTTAT
Statistics
Matches: 124, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 39 0.31
54 36 0.29
55 40 0.32
56 5 0.04
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (53 bp):
GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATA
Found at i:54401867 original size:54 final size:54
Alignment explanation
Indices: 54401676--54401883 Score: 242
Period size: 54 Copynumber: 3.9 Consensus size: 54
54401666 TTTCCTTTTT
* * * * * *
54401676 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTACCTTAT-
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * **
54401729 GAACTCA-CCATGGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTATCAAT-GCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* *
54401783 GTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
*
54401838 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
54401884 ATCTTACCAA
Statistics
Matches: 131, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.03
53 39 0.30
54 43 0.33
55 40 0.31
56 5 0.04
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:54401917 original size:47 final size:47
Alignment explanation
Indices: 54401862--54401977 Score: 196
Period size: 47 Copynumber: 2.5 Consensus size: 47
54401852 CATGCCTTGG
* *
54401862 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTCCCAAA
1 CATGGTCTTACATGGTATCCTTATATTACCAAATGCCATGTCCCAAA
* *
54401909 CATGGTCTTACATGGTATCCTTGTATTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATATTACCAAATGCCATGTCCCAAA
54401956 CATGGTCTTACATGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
54401978 TTCCTAGTGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATATTACCAAATGCCATGTCCCAAA
Found at i:54402296 original size:12 final size:12
Alignment explanation
Indices: 54402279--54402305 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
54402269 CACATAACTC
54402279 AATAATAACAAT
1 AATAATAACAAT
54402291 AATAATAACAAT
1 AATAATAACAAT
54402303 AAT
1 AAT
54402306 TGCATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAACAAT
Found at i:54407306 original size:56 final size:56
Alignment explanation
Indices: 54407232--54407518 Score: 328
Period size: 56 Copynumber: 5.2 Consensus size: 56
54407222 TCCCTGACAG
** * * * * *
54407232 GGTCTTACTCATAAACACATATCGGAATCACCTATTGATGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* ** *
54407288 GGTCTTACTCGCACACACATATCACAATCACATATCGATGCCAACAAATTAAATGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * ** * * *
54407344 GG-CTTTACTCACGCACACATATCTTAATCACATCTTGATGCCAACGTATTAAATGT
1 GGTC-TTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * * *
54407400 GGTGTTACTCGCATACAC--ATCAGAATCATATATCGATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* *
54407454 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
54407510 GGTCTTACT
1 GGTCTTACT
54407519 TGTAATCACA
Statistics
Matches: 193, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
54 45 0.23
55 1 0.01
56 147 0.76
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:54407483 original size:110 final size:111
Alignment explanation
Indices: 54407232--54407518 Score: 362
Period size: 110 Copynumber: 2.6 Consensus size: 111
54407222 TCCCTGACAG
* * * *
54407232 GGTCTTACTCATAAACACATATCGGAATCACCTATTGATGCCAATGTATTAAACGTGGTCTTACT
1 GGTCTTACTCACACACACATATCGGAATCACATATTGATGCCAACGTATTAAACGTGGTCTTACT
**
54407297 CGCACACACATATCACAATCACATATCGATGCCAACAAATTAAATGT
66 CGCACACACA-ATCACAATCACATATCGATGCCAACAAATTAAACAT
* ** * * *
54407344 GG-CTTTACTCACGCACACATATCTTAATCACATCTTGATGCCAACGTATTAAATGTGGTGTTAC
1 GGTC-TTACTCACACACACATATCGGAATCACATATTGATGCCAACGTATTAAACGTGGTCTTAC
* * * **
54407408 TCGCATACAC-ATCAGAATCATATATCGATGCCAACGTATTAAACAT
65 TCGCACACACAATCACAATCACATATCGATGCCAACAAATTAAACAT
* * *
54407454 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACATGGTCTTACT
1 GGTCTTACTCACACACACATATCGGAATCACATATTGATGCCAACGTATTAAACGTGGTCTTACT
54407519 TGTAATCACA
Statistics
Matches: 147, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
110 84 0.57
111 2 0.01
112 61 0.41
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (111 bp):
GGTCTTACTCACACACACATATCGGAATCACATATTGATGCCAACGTATTAAACGTGGTCTTACT
CGCACACACAATCACAATCACATATCGATGCCAACAAATTAAACAT
Found at i:54407540 original size:43 final size:43
Alignment explanation
Indices: 54407479--54407659 Score: 263
Period size: 43 Copynumber: 4.2 Consensus size: 43
54407469 CACATATCGG
** * * **
54407479 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTTGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* *
54407522 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
54407565 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
* * *
54407608 AATCACATATTGATGTCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
54407651 AATCACATA
1 AATCACATA
54407660 CTGAAAATCC
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 125 1.00
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
Found at i:54412911 original size:30 final size:30
Alignment explanation
Indices: 54412844--54412914 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
54412834 TCGGCTATAG
*
54412844 AATTATG-AAAAGGAATGGTGATGACCATC
1 AATTATGAAAAAGGAATGGTCATGACCATC
* *
54412873 AGTAATGAAAAAGG-ATGGTCATGACCATC
1 AATTATGAAAAAGGAATGGTCATGACCATC
54412902 AAATTATGAAAAA
1 -AATTATGAAAAA
54412915 TGATAGCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 19 0.54
30 16 0.46
ACGTcount: A:0.46, C:0.10, G:0.21, T:0.23
Consensus pattern (30 bp):
AATTATGAAAAAGGAATGGTCATGACCATC
Found at i:54413013 original size:90 final size:90
Alignment explanation
Indices: 54412903--54413073 Score: 245
Period size: 90 Copynumber: 1.9 Consensus size: 90
54412893 ATGACCATCA
* * * *
54412903 AATTATGAAAAATGATAGCTTCATCTATCGAATTATGAAAAGGGATAACTTCGGCTATCAAATTA
1 AATTATGAAAAATGATAGCTTCAGCTATCGAAATATGAAAAGGGATAACTTCGACTATCAAACTA
*
54412968 TGAAAATGGATAGCTTTGGCTATCT
66 TGAAAAGGGATAGCTTTGGCTATCT
* * * *
54412993 AATTATG-GAAATGGATAGCTTCAGCTATCGAAATATGAAAAGGGATAGCTTTGACTATTAAACT
1 AATTATGAAAAAT-GATAGCTTCAGCTATCGAAATATGAAAAGGGATAACTTCGACTATCAAACT
54413057 ATGAAAAGGGATAGCTT
65 ATGAAAAGGGATAGCTT
54413074 CGACGATCGA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 4 0.06
90 67 0.94
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (90 bp):
AATTATGAAAAATGATAGCTTCAGCTATCGAAATATGAAAAGGGATAACTTCGACTATCAAACTA
TGAAAAGGGATAGCTTTGGCTATCT
Found at i:54413060 original size:30 final size:30
Alignment explanation
Indices: 54412894--54413098 Score: 164
Period size: 30 Copynumber: 6.8 Consensus size: 30
54412884 AGGATGGTCA
* * **
54412894 TGACCATCAAATTATGAAAAATGATAGC-T
1 TGACTATCAAACTATGAAAAGGGATAGCTT
* * * *
54412923 TCATCTATCGAATTATGAAAAGGGATAACTT
1 TGA-CTATCAAACTATGAAAAGGGATAGCTT
* * * *
54412954 CGGCTATCAAATTATGAAAATGGATAGCTT
1 TGACTATCAAACTATGAAAAGGGATAGCTT
* * * * *
54412984 TGGCTATCTAATTATGGAAATGGATAGC-T
1 TGACTATCAAACTATGAAAAGGGATAGCTT
*
54413013 TCAGCTATCGAAA-TATGAAAAGGGATAGCTT
1 TGA-CTATC-AAACTATGAAAAGGGATAGCTT
*
54413044 TGACTATTAAACTATGAAAAGGGATAGCTT
1 TGACTATCAAACTATGAAAAGGGATAGCTT
* * *
54413074 CGACGATCGAACTATGAAAAGGGAT
1 TGACTATCAAACTATGAAAAGGGAT
54413099 GGTGACAACT
Statistics
Matches: 144, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
29 7 0.05
30 131 0.91
31 6 0.04
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (30 bp):
TGACTATCAAACTATGAAAAGGGATAGCTT
Found at i:54413094 original size:60 final size:60
Alignment explanation
Indices: 54412927--54413098 Score: 197
Period size: 60 Copynumber: 2.9 Consensus size: 60
54412917 ATAGCTTCAT
* * * * * *
54412927 CTATCGAATTATGAAAAGGGATAACTTCGGCTATC-AAATTATGAAAATGGATAGCTTTGG
1 CTATCTAACTATGAAAAGGGATAGCTTCGACTATCGAAA-TATGAAAAGGGATAGCTTTGA
* * *
54412987 CTATCTAATTATGGAAATGGATAGCTTC-AGCTATCGAAATATGAAAAGGGATAGCTTTGA
1 CTATCTAACTATGAAAAGGGATAGCTTCGA-CTATCGAAATATGAAAAGGGATAGCTTTGA
* *
54413047 CTAT-TAAACTATGAAAAGGGATAGCTTCGACGATCGAACTATGAAAAGGGAT
1 CTATCT-AACTATGAAAAGGGATAGCTTCGACTATCGAAATATGAAAAGGGAT
54413099 GGTGACAACT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
59 1 0.01
60 91 0.95
61 4 0.04
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (60 bp):
CTATCTAACTATGAAAAGGGATAGCTTCGACTATCGAAATATGAAAAGGGATAGCTTTGA
Found at i:54417976 original size:37 final size:37
Alignment explanation
Indices: 54417915--54417993 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
54417905 TTATTACGAA
* * * *
54417915 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAAGCCCCACACGAAGTCATCGG
* *
54417952 GTCTTACCCGGACAAAAGCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAAGCCCCACACGAAGTCATCGG
54417989 GTCTT
1 GTCTT
54417994 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCAGACAAAAGCCCCACACGAAGTCATCGG
Found at i:54418277 original size:95 final size:96
Alignment explanation
Indices: 54418111--54418640 Score: 838
Period size: 95 Copynumber: 5.5 Consensus size: 96
54418101 CCCTTCGGGA
* * * * * * * *
54418111 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54418176 AC-TTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
54418206 CTTATCACATATATACACTTTCACATCCATCACGTTGGCCACT-GGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54418270 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54418301 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54418364 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54418395 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
54418460 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
54418493 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
54418556 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
54418589 CTTATACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTAT-CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
54418641 CTATCATTTC
Statistics
Matches: 420, Mismatches: 8, Indels: 14
0.95 0.02 0.03
Matches are distributed among these distances:
94 70 0.17
95 152 0.36
96 100 0.24
97 2 0.00
98 96 0.23
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54418362 original size:49 final size:49
Alignment explanation
Indices: 54418111--54418640 Score: 852
Period size: 47 Copynumber: 11.1 Consensus size: 49
54418101 CCCTTCGGGA
* * * * *
54418111 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54418158 CCTGTCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
54418206 CTTATCAC--ATATATACACTTTCACATCCATCACGTTGGCCACT-GGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54418252 CCTGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54418301 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54418348 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54418395 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54418444 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54418493 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54418542 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54418589 CTTAT-ACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54418637 CTTA
1 CTTA
54418641 CTATCATTTC
Statistics
Matches: 452, Mismatches: 21, Indels: 19
0.92 0.04 0.04
Matches are distributed among these distances:
46 21 0.05
47 166 0.37
48 104 0.23
49 161 0.36
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54421989 original size:40 final size:40
Alignment explanation
Indices: 54421914--54422028 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 40
54421904 GAATACACGT
* * * * *
54421914 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAA
** **
54421954 CACCAGCACGAATGCTCTTCGGAACTTAGTTCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAA
*
54421994 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA
1 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGA
54422029 ATTAGTAACT
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAA
Found at i:54422452 original size:29 final size:29
Alignment explanation
Indices: 54422413--54422491 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
54422403 CTTAATAATC
*
54422413 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
54422443 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
54422472 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
54422492 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:54422534 original size:43 final size:43
Alignment explanation
Indices: 54422473--54422575 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
54422463 TGCATTTCAA
54422473 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
54422516 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
54422559 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
54422576 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:54424491 original size:37 final size:37
Alignment explanation
Indices: 54424441--54424519 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
54424431 TTATTACGAA
* * *
54424441 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
54424478 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
54424515 GTCTT
1 GTCTT
54424520 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:54424764 original size:47 final size:47
Alignment explanation
Indices: 54424638--54425167 Score: 880
Period size: 47 Copynumber: 11.1 Consensus size: 47
54424628 CCCTTCGGGA
* * * * * *
54424638 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54424685 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54424734 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54424781 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54424830 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54424877 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54424924 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54424971 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54425020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54425067 CTTCATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTT-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54425115 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54425164 CTTA
1 CTTA
54425168 CTATCATTTC
Statistics
Matches: 458, Mismatches: 16, Indels: 16
0.93 0.03 0.03
Matches are distributed among these distances:
47 239 0.52
48 46 0.10
49 173 0.38
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54424802 original size:96 final size:96
Alignment explanation
Indices: 54424638--54425164 Score: 891
Period size: 96 Copynumber: 5.5 Consensus size: 96
54424628 CCCTTCGGGA
* * * * * * *
54424638 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
54424703 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54424734 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54424799 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
54424830 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54424893 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
54424924 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54424989 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
54425020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCT-TCATCACATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCA-CATATATATA
*
54425083 CACTTTCACATTCATCACATCGGCCGTTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
54425115 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
54425165 TTACTATCAT
Statistics
Matches: 413, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
94 97 0.23
95 50 0.12
96 227 0.55
97 38 0.09
98 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54424898 original size:143 final size:144
Alignment explanation
Indices: 54424640--54425167 Score: 872
Period size: 143 Copynumber: 3.7 Consensus size: 144
54424630 CTTCGGGACT
* * * * * * *
54424640 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
*
54424703 ACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
54424768 TCGGCCATTAGGCCC
130 TCGGCCATTAGGCCC
54424783 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACA
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
54424847 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
54424912 CGGCCATTAGGCCT
131 CGGCCATTAGGCCC
54424926 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
54424989 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
54425054 TCGGCCATTAGG-CC
130 TCGGCCATTAGGCCC
* *
54425068 T-TCATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATATA
1 TATCA-CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATA
54425132 CACTTTCACATTCATCACATCGGCCATTAGGCCTTA
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTA
54425168 CTATCATTTC
Statistics
Matches: 367, Mismatches: 11, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
141 50 0.14
142 3 0.01
143 185 0.50
144 92 0.25
145 37 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (144 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCC
Found at i:54425102 original size:25 final size:25
Alignment explanation
Indices: 54425023--54425102 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
54425013 ATTAGGCCTT
54425023 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
**** *** *
54425048 ATCACAT-CGGCCA-TTAGGCCTTC
1 ATCACATATATACACTTTCACATTC
54425071 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
54425096 ATCACAT
1 ATCACAT
54425103 CGGCCGTTAG
Statistics
Matches: 37, Mismatches: 16, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
23 13 0.35
24 4 0.11
25 20 0.54
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:54428862 original size:20 final size:20
Alignment explanation
Indices: 54428796--54428862 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
54428786 ATTTTAGTAA
*
54428796 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
54428816 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
54428836 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
54428856 ACATGAT
1 ACATGAT
54428863 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:54428980 original size:25 final size:24
Alignment explanation
Indices: 54428912--54428988 Score: 129
Period size: 23 Copynumber: 3.2 Consensus size: 24
54428902 GAGGAAGTGC
54428912 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
54428936 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
54428959 AAAAGGGCTTTTTGCCCCAGTTATT
1 AAAAGGGC-TTATGCCCCAGTTATT
54428984 AAAAG
1 AAAAG
54428989 AGACTAGGCC
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
23 23 0.46
24 7 0.14
25 20 0.40
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:54429232 original size:31 final size:31
Alignment explanation
Indices: 54429197--54429256 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
54429187 CGTTTACAGT
54429197 AAAGGCTTCAGCCCAGTAATATGAAATATAA
1 AAAGGCTTCAGCCCAGTAATATGAAATATAA
* **
54429228 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCAGCCCAGTAATATGAAATAT
54429257 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATAA
Found at i:54435136 original size:47 final size:47
Alignment explanation
Indices: 54435082--54435460 Score: 607
Period size: 47 Copynumber: 8.1 Consensus size: 47
54435072 TTAGGATTTT
** * * *
54435082 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54435129 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54435176 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54435223 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54435270 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54435317 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54435364 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
54435411 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
54435458 ATG
1 ATG
54435461 CGAAATGTGT
Statistics
Matches: 316, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
47 313 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54435417 original size:22 final size:22
Alignment explanation
Indices: 54435342--54435417 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
54435332 ACATGCATAT
*
54435342 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
54435364 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
54435388 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
54435411 ATGTGAT
1 ATGTGAT
54435418 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:54435490 original size:46 final size:46
Alignment explanation
Indices: 54435434--54435616 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
54435424 GGAAGTGTAT
* *
54435434 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
54435480 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
54435526 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
54435572 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
54435617 TGTATATATA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:54440330 original size:29 final size:29
Alignment explanation
Indices: 54440215--54440317 Score: 145
Period size: 29 Copynumber: 3.6 Consensus size: 29
54440205 AAGTCTACAT
* *
54440215 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54440243 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
54440272 ACATTAATATGGCCCATTAAGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
54440301 ACGTTCATATGGCCCAT
1 ACATTCATATGGCCCAT
54440318 CTGTCCCGAA
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 21 0.32
29 45 0.68
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:54443952 original size:27 final size:26
Alignment explanation
Indices: 54443916--54444003 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
54443906 ATTCTTTTAG
*
54443916 AGTTTACCATACTTACTACACCTTCAA
1 AGTTTGCCATACTTA-TACACCTTCAA
* * ** *
54443943 ATTTTGCCATACATATTATTCCTTCAG
1 AGTTTGCCATACTTA-TACACCTTCAA
**
54443970 AGTTCACCATACTTATCACACCTTCAA
1 AGTTTGCCATACTTAT-ACACCTTCAA
54443997 AGTTTGC
1 AGTTTGC
54444004 TAAGAATACC
Statistics
Matches: 44, Mismatches: 16, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (26 bp):
AGTTTGCCATACTTATACACCTTCAA
Found at i:54443979 original size:54 final size:54
Alignment explanation
Indices: 54443896--54444003 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
54443886 CAGATTTCAT
* * * *
54443896 CATACACATTATTCTTTTAGAGTTTACCATACTTA-CTACACCTTCAAATTTTGC
1 CATACACATTATTCCTTCAGAGTTCACCATACTTATC-ACACCTTCAAAGTTTGC
*
54443950 CATACATATTATTCCTTCAGAGTTCACCATACTTATCACACCTTCAAAGTTTGC
1 CATACACATTATTCCTTCAGAGTTCACCATACTTATCACACCTTCAAAGTTTGC
54444004 TAAGAATACC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.38
Consensus pattern (54 bp):
CATACACATTATTCCTTCAGAGTTCACCATACTTATCACACCTTCAAAGTTTGC
Found at i:54444174 original size:26 final size:26
Alignment explanation
Indices: 54444113--54444343 Score: 196
Period size: 26 Copynumber: 8.8 Consensus size: 26
54444103 GTCATTATTA
* * * *
54444113 GCCACAAAGGCATCCTTTTCCATAAAC
1 GCCACAAAGGCTTCCATTT-CAGATAC
* *
54444140 TGCCACAAAAGCTTCCATTTTAGATAC
1 -GCCACAAAGGCTTCCATTTCAGATAC
54444167 GCCACAAAGGCTTCCATTTCAGATAC
1 GCCACAAAGGCTTCCATTTCAGATAC
** * * *
54444193 ATCACAGAGGCTTTCATTGT-AGATAT
1 GCCACAAAGGCTTCCATT-TCAGATAC
* * * *
54444219 GCCATAAAGACTTCCATTTCAAATAT
1 GCCACAAAGGCTTCCATTTCAGATAC
* *
54444245 GTCACAAAGGCTTCCATTTCAGAAAC
1 GCCACAAAGGCTTCCATTTCAGATAC
* * * * *
54444271 ACCACAAAGGCTTCTATTTTAAATAT
1 GCCACAAAGGCTTCCATTTCAGATAC
54444297 GCCACAAAGGCTTCCATTTCA-AGTAC
1 GCCACAAAGGCTTCCATTTCAGA-TAC
* *
54444323 GTCACATAGGCTTCCATTTCA
1 GCCACAAAGGCTTCCATTTCA
54444344 TAGATTGTTA
Statistics
Matches: 161, Mismatches: 39, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
25 2 0.01
26 138 0.86
27 5 0.03
28 16 0.10
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (26 bp):
GCCACAAAGGCTTCCATTTCAGATAC
Found at i:54444282 original size:78 final size:77
Alignment explanation
Indices: 54444140--54444343 Score: 257
Period size: 78 Copynumber: 2.6 Consensus size: 77
54444130 TTCCATAAAC
* * * * * *
54444140 TGCCACAAAAGCTTCCATTTTAGATACGCCACAAAGGCTTCCATTTCAGATACATCACAGAGGCT
1 TGCCAC-AAAGCTTCCATTTCAAATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
*
54444205 T-TCATTGTAGATA
65 TCT-ATTGTAAATA
* *
54444218 TGCCATAAAGACTTCCATTTCAAATATGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
1 TGCCACAAAG-CTTCCATTTCAAATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
*
54444283 TCTATTTTAAATA
65 TCTATTGTAAATA
* *
54444296 TGCCACAAAGGCTTCCATTTCAAGTACGTCACATAGGCTTCCATTTCA
1 TGCCACAAA-GCTTCCATTTCAAATACGTCACAAAGGCTTCCATTTCA
54444344 TAGATTGTTA
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
77 4 0.04
78 103 0.94
79 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (77 bp):
TGCCACAAAGCTTCCATTTCAAATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCTT
CTATTGTAAATA
Found at i:54444315 original size:52 final size:52
Alignment explanation
Indices: 54444113--54444368 Score: 223
Period size: 52 Copynumber: 4.9 Consensus size: 52
54444103 GTCATTATTA
* * * *
54444113 GCCACAAAGGCATCCTTTTCCATAA-ACTGCCACAAAAGCTTCCATTTTAGATAC
1 GCCACAAAGGCTTCCATTT-CA-AATA-TGCCACAAAGGCTTCCATTTCAGATAC
* *** * * *
54444167 GCCACAAAGGCTTCCATTTCAGATACATCACAGAGGCTTTCATTGT-AGATAT
1 GCCACAAAGGCTTCCATTTCAAATATGCCACAAAGGCTTCCATT-TCAGATAC
* * * *
54444219 GCCATAAAGACTTCCATTTCAAATATGTCACAAAGGCTTCCATTTCAGAAAC
1 GCCACAAAGGCTTCCATTTCAAATATGCCACAAAGGCTTCCATTTCAGATAC
* * *
54444271 ACCACAAAGGCTTCTATTTTAAATATGCCACAAAGGCTTCCATTTCA-AGTAC
1 GCCACAAAGGCTTCCATTTCAAATATGCCACAAAGGCTTCCATTTCAGA-TAC
* * **
54444323 GTCACATAGGCTTCCATTTCATAGAT-TGTTACAAAGGCTTCCATTT
1 GCCACAAAGGCTTCCATTTCA-A-ATATGCCACAAAGGCTTCCATTT
54444369 TCTAACGTGT
Statistics
Matches: 163, Mismatches: 33, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
51 2 0.01
52 119 0.73
53 23 0.14
54 19 0.12
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (52 bp):
GCCACAAAGGCTTCCATTTCAAATATGCCACAAAGGCTTCCATTTCAGATAC
Found at i:54444368 original size:27 final size:26
Alignment explanation
Indices: 54444143--54444368 Score: 140
Period size: 26 Copynumber: 8.7 Consensus size: 26
54444133 CATAAACTGC
* * *
54444143 CACAAAAGCTTCCATTT-TAGATACGC
1 CACAAAGGCTTCCATTTCAAG-TACGT
*
54444169 CACAAAGGCTTCCATTTC-AGATACAT
1 CACAAAGGCTTCCATTTCAAG-TACGT
* * * *
54444195 CACAGAGGCTTTCATTGT--AGATATGC
1 CACAAAGGCTTCCATT-TCAAG-TACGT
* * * *
54444221 CATAAAGACTTCCATTTCAAATATGT
1 CACAAAGGCTTCCATTTCAAGTACGT
* **
54444247 CACAAAGGCTTCCATTTC-AGAAACAC
1 CACAAAGGCTTCCATTTCAAG-TACGT
* * * * *
54444273 CACAAAGGCTTCTATTTTAAATATGC
1 CACAAAGGCTTCCATTTCAAGTACGT
54444299 CACAAAGGCTTCCATTTCAAGTACGT
1 CACAAAGGCTTCCATTTCAAGTACGT
* *
54444325 CACATAGGCTTCCATTTCATAG-ATTGT
1 CACAAAGGCTTCCATTTCA-AGTA-CGT
*
54444352 TACAAAGGCTTCCATTT
1 CACAAAGGCTTCCATTT
54444369 TCTAACGTGT
Statistics
Matches: 156, Mismatches: 36, Indels: 15
0.75 0.17 0.07
Matches are distributed among these distances:
25 2 0.01
26 132 0.85
27 22 0.14
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (26 bp):
CACAAAGGCTTCCATTTCAAGTACGT
Found at i:54444379 original size:27 final size:25
Alignment explanation
Indices: 54444300--54444379 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 25
54444290 TAAATATGCC
*
54444300 ACAAAGGCTTCCATTTC-AAGTACGTC
1 ACAAAGGCTTCCATTTCTAAGT--GTT
* *
54444326 ACATAGGCTTCCATTTCATAGATTGTT
1 ACAAAGGCTTCCATTTC-TA-AGTGTT
54444353 ACAAAGGCTTCCATTTTCTAACGTGTT
1 ACAAAGGCTTCCA-TTTCTAA-GTGTT
54444380 TACGATAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
26 17 0.39
27 20 0.45
28 5 0.11
29 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (25 bp):
ACAAAGGCTTCCATTTCTAAGTGTT
Found at i:54444561 original size:50 final size:50
Alignment explanation
Indices: 54444468--54444563 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
54444458 TTAGTTCTTC
** * **
54444468 CCATATGATGCCATAACCCACCAGTTATGGTCTTATATGATATGGTGTTT
1 CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGTGTTT
* *
54444518 CCATATGATGCCATAGCCCACCAAATCTGGTCTTACACAATATGGT
1 CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGT
54444564 CCTTTCATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (50 bp):
CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGTGTTT
Found at i:54445082 original size:24 final size:24
Alignment explanation
Indices: 54445054--54445120 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
54445044 CTCCTTAAAT
** *
54445054 CTCTCCATAAATCACTCTTTGATT
1 CTCTCCATAAATCACTCCATGATA
* *
54445078 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCATGATA
*
54445102 CACTCCATAAATCACTCCA
1 CTCTCCATAAATCACTCCA
54445121 ACCTCCCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCATGATA
Found at i:54445642 original size:21 final size:21
Alignment explanation
Indices: 54445618--54445659 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
54445608 ATCAGAACCC
54445618 CATAACCTTCATGTAAAGCCT
1 CATAACCTTCATGTAAAGCCT
54445639 CATAACCTTCATGTAAAGCCT
1 CATAACCTTCATGTAAAGCCT
54445660 TACTTCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
CATAACCTTCATGTAAAGCCT
Found at i:54448078 original size:16 final size:16
Alignment explanation
Indices: 54448059--54448089 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
54448049 AACTTTCGAC
54448059 TTTTCGGTATTTCAGT
1 TTTTCGGTATTTCAGT
54448075 TTTTCGGTATTTCAG
1 TTTTCGGTATTTCAG
54448090 GATTTGTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTTCGGTATTTCAGT
Found at i:54451453 original size:27 final size:26
Alignment explanation
Indices: 54451417--54451504 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 26
54451407 ATTCTTTTAG
*
54451417 AGTTTACCATACTTACTACACCTTCAA
1 AGTTTGCCATACTTA-TACACCTTCAA
* * ** *
54451444 ATTTTGCCATACATATTATTCCTTCAG
1 AGTTTGCCATACTTA-TACACCTTCAA
**
54451471 AGTTCACCATACTTATCACACCTTCAA
1 AGTTTGCCATACTTAT-ACACCTTCAA
54451498 AGTTTGC
1 AGTTTGC
54451505 TAAGAATACC
Statistics
Matches: 44, Mismatches: 16, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
26 1 0.02
27 43 0.98
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (26 bp):
AGTTTGCCATACTTATACACCTTCAA
Found at i:54451480 original size:54 final size:54
Alignment explanation
Indices: 54451397--54451504 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
54451387 CAGATTTCAT
* * * *
54451397 CATACACATTATTCTTTTAGAGTTTACCATACTTA-CTACACCTTCAAATTTTGC
1 CATACACATTATTCCTTCAGAGTTCACCATACTTATC-ACACCTTCAAAGTTTGC
*
54451451 CATACATATTATTCCTTCAGAGTTCACCATACTTATCACACCTTCAAAGTTTGC
1 CATACACATTATTCCTTCAGAGTTCACCATACTTATCACACCTTCAAAGTTTGC
54451505 TAAGAATACC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 47 0.98
55 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.06, T:0.38
Consensus pattern (54 bp):
CATACACATTATTCCTTCAGAGTTCACCATACTTATCACACCTTCAAAGTTTGC
Found at i:54451675 original size:26 final size:26
Alignment explanation
Indices: 54451614--54451844 Score: 196
Period size: 26 Copynumber: 8.8 Consensus size: 26
54451604 GTCATTATTA
* * * *
54451614 GCCACAAAGGCATCCTTTTCCATAAAC
1 GCCACAAAGGCTTCCATTT-CAGATAC
* *
54451641 TGCCACAAAAGCTTCCATTTTAGATAC
1 -GCCACAAAGGCTTCCATTTCAGATAC
54451668 GCCACAAAGGCTTCCATTTCAGATAC
1 GCCACAAAGGCTTCCATTTCAGATAC
** * * *
54451694 ATCACAGAGGCTTTCATTGT-AGATAT
1 GCCACAAAGGCTTCCATT-TCAGATAC
* * * *
54451720 GCCATAAAGACTTCCATTTCAAATAT
1 GCCACAAAGGCTTCCATTTCAGATAC
* *
54451746 GTCACAAAGGCTTCCATTTCAGAAAC
1 GCCACAAAGGCTTCCATTTCAGATAC
* * * * *
54451772 ACCACAAAGGCTTCTATTTTAAATAT
1 GCCACAAAGGCTTCCATTTCAGATAC
54451798 GCCACAAAGGCTTCCATTTCA-AGTAC
1 GCCACAAAGGCTTCCATTTCAGA-TAC
* *
54451824 GTCACATAGGCTTCCATTTCA
1 GCCACAAAGGCTTCCATTTCA
54451845 TAGATTGTTA
Statistics
Matches: 161, Mismatches: 39, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
25 2 0.01
26 138 0.86
27 5 0.03
28 16 0.10
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (26 bp):
GCCACAAAGGCTTCCATTTCAGATAC
Found at i:54451783 original size:78 final size:77
Alignment explanation
Indices: 54451641--54451844 Score: 257
Period size: 78 Copynumber: 2.6 Consensus size: 77
54451631 TTCCATAAAC
* * * * * *
54451641 TGCCACAAAAGCTTCCATTTTAGATACGCCACAAAGGCTTCCATTTCAGATACATCACAGAGGCT
1 TGCCAC-AAAGCTTCCATTTCAAATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
*
54451706 T-TCATTGTAGATA
65 TCT-ATTGTAAATA
* *
54451719 TGCCATAAAGACTTCCATTTCAAATATGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
1 TGCCACAAAG-CTTCCATTTCAAATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
*
54451784 TCTATTTTAAATA
65 TCTATTGTAAATA
* *
54451797 TGCCACAAAGGCTTCCATTTCAAGTACGTCACATAGGCTTCCATTTCA
1 TGCCACAAA-GCTTCCATTTCAAATACGTCACAAAGGCTTCCATTTCA
54451845 TAGATTGTTA
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
77 4 0.04
78 103 0.94
79 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (77 bp):
TGCCACAAAGCTTCCATTTCAAATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCTT
CTATTGTAAATA
Found at i:54451816 original size:52 final size:52
Alignment explanation
Indices: 54451614--54451869 Score: 223
Period size: 52 Copynumber: 4.9 Consensus size: 52
54451604 GTCATTATTA
* * * *
54451614 GCCACAAAGGCATCCTTTTCCATAA-ACTGCCACAAAAGCTTCCATTTTAGATAC
1 GCCACAAAGGCTTCCATTT-CA-AATA-TGCCACAAAGGCTTCCATTTCAGATAC
* *** * * *
54451668 GCCACAAAGGCTTCCATTTCAGATACATCACAGAGGCTTTCATTGT-AGATAT
1 GCCACAAAGGCTTCCATTTCAAATATGCCACAAAGGCTTCCATT-TCAGATAC
* * * *
54451720 GCCATAAAGACTTCCATTTCAAATATGTCACAAAGGCTTCCATTTCAGAAAC
1 GCCACAAAGGCTTCCATTTCAAATATGCCACAAAGGCTTCCATTTCAGATAC
* * *
54451772 ACCACAAAGGCTTCTATTTTAAATATGCCACAAAGGCTTCCATTTCA-AGTAC
1 GCCACAAAGGCTTCCATTTCAAATATGCCACAAAGGCTTCCATTTCAGA-TAC
* * **
54451824 GTCACATAGGCTTCCATTTCATAGAT-TGTTACAAAGGCTTCCATTT
1 GCCACAAAGGCTTCCATTTCA-A-ATATGCCACAAAGGCTTCCATTT
54451870 TCTAACGTGT
Statistics
Matches: 163, Mismatches: 33, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
51 2 0.01
52 119 0.73
53 23 0.14
54 19 0.12
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (52 bp):
GCCACAAAGGCTTCCATTTCAAATATGCCACAAAGGCTTCCATTTCAGATAC
Found at i:54451869 original size:27 final size:26
Alignment explanation
Indices: 54451644--54451869 Score: 140
Period size: 26 Copynumber: 8.7 Consensus size: 26
54451634 CATAAACTGC
* * *
54451644 CACAAAAGCTTCCATTT-TAGATACGC
1 CACAAAGGCTTCCATTTCAAG-TACGT
*
54451670 CACAAAGGCTTCCATTTC-AGATACAT
1 CACAAAGGCTTCCATTTCAAG-TACGT
* * * *
54451696 CACAGAGGCTTTCATTGT--AGATATGC
1 CACAAAGGCTTCCATT-TCAAG-TACGT
* * * *
54451722 CATAAAGACTTCCATTTCAAATATGT
1 CACAAAGGCTTCCATTTCAAGTACGT
* **
54451748 CACAAAGGCTTCCATTTC-AGAAACAC
1 CACAAAGGCTTCCATTTCAAG-TACGT
* * * * *
54451774 CACAAAGGCTTCTATTTTAAATATGC
1 CACAAAGGCTTCCATTTCAAGTACGT
54451800 CACAAAGGCTTCCATTTCAAGTACGT
1 CACAAAGGCTTCCATTTCAAGTACGT
* *
54451826 CACATAGGCTTCCATTTCATAG-ATTGT
1 CACAAAGGCTTCCATTTCA-AGTA-CGT
*
54451853 TACAAAGGCTTCCATTT
1 CACAAAGGCTTCCATTT
54451870 TCTAACGTGT
Statistics
Matches: 156, Mismatches: 36, Indels: 15
0.75 0.17 0.07
Matches are distributed among these distances:
25 2 0.01
26 132 0.85
27 22 0.14
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (26 bp):
CACAAAGGCTTCCATTTCAAGTACGT
Found at i:54451880 original size:27 final size:25
Alignment explanation
Indices: 54451801--54451880 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 25
54451791 TAAATATGCC
*
54451801 ACAAAGGCTTCCATTTC-AAGTACGTC
1 ACAAAGGCTTCCATTTCTAAGT--GTT
* *
54451827 ACATAGGCTTCCATTTCATAGATTGTT
1 ACAAAGGCTTCCATTTC-TA-AGTGTT
54451854 ACAAAGGCTTCCATTTTCTAACGTGTT
1 ACAAAGGCTTCCA-TTTCTAA-GTGTT
54451881 TACGATAGGG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
26 17 0.39
27 20 0.45
28 5 0.11
29 2 0.05
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (25 bp):
ACAAAGGCTTCCATTTCTAAGTGTT
Found at i:54452062 original size:50 final size:50
Alignment explanation
Indices: 54451969--54452064 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
54451959 TTAGTTCTTC
** * **
54451969 CCATATGATGCCATAACCCACCAGTTATGGTCTTATATGATATGGTGTTT
1 CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGTGTTT
* *
54452019 CCATATGATGCCATAGCCCACCAAATCTGGTCTTACACAATATGGT
1 CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGT
54452065 CCTTTCATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (50 bp):
CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGTGTTT
Found at i:54452583 original size:24 final size:24
Alignment explanation
Indices: 54452555--54452621 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
54452545 CTCCTTAAAT
** *
54452555 CTCTCCATAAATCACTCTTTGATT
1 CTCTCCATAAATCACTCCATGATA
* *
54452579 TTCTCC-TAATATCTCTCCATGATA
1 CTCTCCATAA-ATCACTCCATGATA
*
54452603 CACTCCATAAATCACTCCA
1 CTCTCCATAAATCACTCCA
54452622 ACCTCCCATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (24 bp):
CTCTCCATAAATCACTCCATGATA
Found at i:54453143 original size:21 final size:21
Alignment explanation
Indices: 54453119--54453160 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
54453109 ATCAGAACCC
54453119 CATAACCTTCATGTAAAGCCT
1 CATAACCTTCATGTAAAGCCT
54453140 CATAACCTTCATGTAAAGCCT
1 CATAACCTTCATGTAAAGCCT
54453161 TACTTCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (21 bp):
CATAACCTTCATGTAAAGCCT
Found at i:54455578 original size:16 final size:16
Alignment explanation
Indices: 54455559--54455589 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
54455549 GACTTTCGAC
54455559 TTTTCGGTATTTCAGT
1 TTTTCGGTATTTCAGT
54455575 TTTTCGGTATTTCAG
1 TTTTCGGTATTTCAG
54455590 GATTTGTCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTTCGGTATTTCAGT
Found at i:54458992 original size:54 final size:54
Alignment explanation
Indices: 54458899--54459004 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
54458889 GATTTCATCA
* * * *
54458899 TACACATTATTCTTTTAGAGTTTACCATACTTACTACACCTTCAAATTTTGCCG
1 TACACATTATTCCTTCAGAGTTCACCATACTTACTACACCTTCAAAGTTTGCCG
*
54458953 TACATATTATTCCTTCAGAGTTCACCATACTTA-TCACACCTTCAAAGTTTGC
1 TACACATTATTCCTTCAGAGTTCACCATACTTACT-ACACCTTCAAAGTTTGC
54459005 TAAGAATACC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.02
54 45 0.98
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (54 bp):
TACACATTATTCCTTCAGAGTTCACCATACTTACTACACCTTCAAAGTTTGCCG
Found at i:54459175 original size:26 final size:26
Alignment explanation
Indices: 54459114--54459344 Score: 194
Period size: 26 Copynumber: 8.8 Consensus size: 26
54459104 GTCATTATTA
* * * *
54459114 GCCACAAAGGCATCCTTTTCCATAAAC
1 GCCACAAAGGCTTCCATTT-CAGATAC
* *
54459141 TGCCACAAAAGCTTCCATTTTAGATAC
1 -GCCACAAAGGCTTCCATTTCAGATAC
**
54459168 GCCACAAAGGCTTTTATTTCAGATAC
1 GCCACAAAGGCTTCCATTTCAGATAC
** * * *
54459194 ATCACAGAGGCTTTCATTGT-AGATAT
1 GCCACAAAGGCTTCCATT-TCAGATAC
* * *
54459220 GCCACAAAGACTTCCATTTCAAATAT
1 GCCACAAAGGCTTCCATTTCAGATAC
* *
54459246 GTCACAAAGGCTTCCATTTCAGAAAC
1 GCCACAAAGGCTTCCATTTCAGATAC
* * * * *
54459272 ACCACAAAGGCTTCTATTTTAAATAT
1 GCCACAAAGGCTTCCATTTCAGATAC
*
54459298 GCCACAAAGGCTTCCATTTCAGGTAC
1 GCCACAAAGGCTTCCATTTCAGATAC
* *
54459324 GTCACATAGGCTTCCATTTCA
1 GCCACAAAGGCTTCCATTTCA
54459345 TAGATTGTTA
Statistics
Matches: 160, Mismatches: 41, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
25 1 0.01
26 138 0.86
27 5 0.03
28 16 0.10
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (26 bp):
GCCACAAAGGCTTCCATTTCAGATAC
Found at i:54459283 original size:78 final size:78
Alignment explanation
Indices: 54459141--54459344 Score: 250
Period size: 78 Copynumber: 2.6 Consensus size: 78
54459131 TTCCATAAAC
* * ** * * *
54459141 TGCCACAAA-AGCTTCCATTTTAGATACGCCACAAAGGCTTTTATTTCAGATACATCACAGAGGC
1 TGCCACAAAGA-CTTCCATTTCAGATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGC
*
54459205 TT-TCATTGTAGATA
65 TTCT-ATTGTAAATA
* *
54459219 TGCCACAAAGACTTCCATTTCAAATATGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
1 TGCCACAAAGACTTCCATTTCAGATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
*
54459284 TCTATTTTAAATA
66 TCTATTGTAAATA
* * *
54459297 TGCCACAAAGGCTTCCATTTCAGGTACGTCACATAGGCTTCCATTTCA
1 TGCCACAAAGACTTCCATTTCAGATACGTCACAAAGGCTTCCATTTCA
54459345 TAGATTGTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
78 106 0.98
79 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.29
Consensus pattern (78 bp):
TGCCACAAAGACTTCCATTTCAGATACGTCACAAAGGCTTCCATTTCAGAAACACCACAAAGGCT
TCTATTGTAAATA
Found at i:54459369 original size:27 final size:26
Alignment explanation
Indices: 54459144--54459369 Score: 186
Period size: 26 Copynumber: 8.7 Consensus size: 26
54459134 CATAAACTGC
* * *
54459144 CACAAAAGCTTCCATTTTAGATACGC
1 CACAAAGGCTTCCATTTCAGATACGT
** *
54459170 CACAAAGGCTTTTATTTCAGATACAT
1 CACAAAGGCTTCCATTTCAGATACGT
* * * *
54459196 CACAGAGGCTTTCATTGT-AGATATGC
1 CACAAAGGCTTCCATT-TCAGATACGT
* * *
54459222 CACAAAGACTTCCATTTCAAATATGT
1 CACAAAGGCTTCCATTTCAGATACGT
* **
54459248 CACAAAGGCTTCCATTTCAGAAACAC
1 CACAAAGGCTTCCATTTCAGATACGT
* * * * *
54459274 CACAAAGGCTTCTATTTTAAATATGC
1 CACAAAGGCTTCCATTTCAGATACGT
*
54459300 CACAAAGGCTTCCATTTCAGGTACGT
1 CACAAAGGCTTCCATTTCAGATACGT
* *
54459326 CACATAGGCTTCCATTTCATAGAT-TGT
1 CACAAAGGCTTCCATTTC--AGATACGT
*
54459353 TACAAAGGCTTCCATTT
1 CACAAAGGCTTCCATTT
54459370 TCTTACGTGT
Statistics
Matches: 157, Mismatches: 39, Indels: 7
0.77 0.19 0.03
Matches are distributed among these distances:
25 1 0.01
26 135 0.86
27 18 0.11
28 3 0.02
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (26 bp):
CACAAAGGCTTCCATTTCAGATACGT
Found at i:54459562 original size:50 final size:50
Alignment explanation
Indices: 54459469--54459564 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
54459459 TTAGTTCTTC
** * **
54459469 CCATATGATGCCATAACCCACCAGTTATGGTCTTATATGATATGGTGTTT
1 CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGTGTTT
* *
54459519 CCATATGATGCCATAGCCCACCAAATCTGGTCTTACACAATATGGT
1 CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGT
54459565 CCTTTCATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (50 bp):
CCATATGATGCCATAACCCACCAAATATGGTCTTACACAATATGGTGTTT
Found at i:54460083 original size:24 final size:24
Alignment explanation
Indices: 54460056--54460121 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
54460046 TCCTTAAATA
** **
54460056 TCTCCATAAATCACTCTTTGATTT
1 TCTCCATAAATCACTCCATGATAC
*
54460080 TCTCC-TAATATCTCTCCATGATAC
1 TCTCCATAA-ATCACTCCATGATAC
*
54460104 ACTCCATAAATCACTCCA
1 TCTCCATAAATCACTCCA
54460122 ACCTCCCATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.36
Consensus pattern (24 bp):
TCTCCATAAATCACTCCATGATAC
Found at i:54460598 original size:6 final size:6
Alignment explanation
Indices: 54460568--54460655 Score: 56
Period size: 6 Copynumber: 14.3 Consensus size: 6
54460558 AAGAAGCATT
* * *
54460568 ATCAGA A-CTAGA ATCAAA ATAAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
54460617 ATCGGA ATCAGT ATCAGGTA AT-AGA ATCACA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
54460656 GTGTATGCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
5 5 0.08
6 48 0.77
7 6 0.10
8 3 0.05
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:54460624 original size:25 final size:25
Alignment explanation
Indices: 54460589--54460655 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
54460579 AATCAAAATA
*
54460589 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* * *
54460614 AGAATCGGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGGTAAC
*
54460639 AGAATCACAATCAGAAT
1 AGAATCAGAATCAGAAT
54460656 GTGTATGCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:54460812 original size:27 final size:26
Alignment explanation
Indices: 54460772--54460872 Score: 121
Period size: 27 Copynumber: 3.8 Consensus size: 26
54460762 AGCATGGCTG
* * *
54460772 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
54460798 CCAGATACATATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
54460825 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
54460852 CCAGAATCAGATAATGTGGCA
1 CCAGAA-CAGATATTGTGGCA
54460873 ACGCCACTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
26 11 0.17
27 48 0.74
28 6 0.09
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:54461452 original size:27 final size:27
Alignment explanation
Indices: 54461422--54464931 Score: 2527
Period size: 27 Copynumber: 130.0 Consensus size: 27
54461412 GGGGCAAAAT
* * *
54461422 GGTAATTTTACCCTACGAAGGTATCTC
1 GGTAATTCTACCCTACGAGGGTATTTC
54461449 GGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** * *
54461476 AATATTTTTACCCTACGAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
54461503 GGTAATTCTACCCTAC-AGGGGTATTAT-
1 GGTAATTCTACCCTACGA-GGGTATT-TC
* *
54461530 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54461557 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54461584 AGTAATTCTACTCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * * * *
54461611 AGTTATTCTATCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54461638 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACGAGGGTATTTC
* *
54461665 AGTAATTCTACCATAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54461692 AGTAATTCTACCCTA-AAGAGGTATTTC
1 GGTAATTCTACCCTACGAG-GGTATTTC
* * *
54461719 GATAATTGTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54461746 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** * *
54461773 AATAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54461800 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54461827 AGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54461854 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54461881 GGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** * *
54461908 AATAATTCTACCTTAC-AGGGGTATATC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54461935 AATAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54461962 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
*
54461989 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462016 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462043 AGTAATTCTACCCTGC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * * * *
54462070 GGTTATTCTATCTTAC-AGGGGAATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462097 AGTAATTCTACCCTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * * *
54462124 AGTAAATCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
* *
54462151 AGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462178 GATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462205 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54462232 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54462259 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54462286 AGTAATTCTACCCTA-AAGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54462313 GGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54462340 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54462367 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54462394 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462421 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462448 GGTAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462475 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54462502 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54462529 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54462556 AGTAATTCTACCCTA-AAGGGGTGTTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462583 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54462610 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** * *
54462637 AATAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462664 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462691 GGTAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462718 AGTAATTCTACCCTA-AAGAGGTATTTC
1 GGTAATTCTACCCTACGAG-GGTATTTC
* * *
54462745 GATAATTGTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
**
54462772 AATAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54462799 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54462826 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462853 AGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54462880 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
**
54462907 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
** *
54462934 AATAATTCTACCTTAC-AGGGGTATATT-
1 GGTAATTCTACCCTACGA-GGGTAT-TTC
** *
54462961 AATAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54462988 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
* *
54463015 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463042 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463069 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * * * *
54463096 GGTTATTCTATCTTAC-AGGGGAATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54463123 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACGAGGGTATTTC
* * **
54463150 AGTAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
* *
54463177 AGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463204 GATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463231 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54463258 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463285 GGTAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54463312 AGTAATTCTACCTTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463339 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463366 AGTAATTCTACCCTGC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * * * *
54463393 GGTTATTCTATCTTAC-AGGGGAATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463420 AGTAATTCTACCCTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * * *
54463447 AGTAAATCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
* *
54463474 AGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463501 GATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463528 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54463555 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463582 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54463609 AGTAATTCTACCCTA-AAGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463636 GGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463663 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463690 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54463717 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463744 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463771 GGTAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463798 TGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54463825 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463852 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54463879 AGTAATTCTACCCTA-AAGGGGTGTTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463906 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54463933 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** * *
54463960 AATAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54463987 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464014 GGTAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464041 AGTAATTCTACCCTA-AAGAGGTATTTC
1 GGTAATTCTACCCTACGAG-GGTATTTC
* * *
54464068 GATAATTGTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54464095 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
** *
54464122 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54464149 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464176 AGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464203 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
**
54464230 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
** *
54464257 AATAATTCTACCTTAC-AGGGGTATATT-
1 GGTAATTCTACCCTACGA-GGGTAT-TTC
** *
54464284 AATAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464311 GGTAATTCTACTCTACAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
* *
54464338 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464365 GGTAATTCTACCTTAC-AGGGGTATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54464392 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * * * *
54464419 GGTTATTCTATCTTAC-AGGGGAATTTT
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54464446 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACGAGGGTATTTC
* * **
54464473 AGTAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
* *
54464500 AGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464527 GATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54464554 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54464581 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464608 GGTAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * *
54464635 AGTAATTCTACCTTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54464662 GGTAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464689 AGTAATTCTACCCTAC-AGGGGGATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54464716 AATAATTCTACCTTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464743 AGTAATTCTACCCTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* *
54464770 GGTAATTCTACCTTA-TAGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
*
54464797 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
* * * *
54464824 GATAATTCTACCTTACAAGGGTATTTT
1 GGTAATTCTACCCTACGAGGGTATTTC
*
54464851 GGTAATTCTACCTTA-GAAGGGTATTTC
1 GGTAATTCTACCCTACG-AGGGTATTTC
*
54464878 AGTAATTCTACCCTAC-AGGGGTATTTC
1 GGTAATTCTACCCTACGA-GGGTATTTC
** *
54464905 AATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACGAGGGTATTTC
54464932 AATAATTTTG
Statistics
Matches: 3042, Mismatches: 350, Indels: 182
0.85 0.10 0.05
Matches are distributed among these distances:
26 26 0.01
27 2994 0.98
28 22 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACGAGGGTATTTC
Found at i:54461486 original size:54 final size:54
Alignment explanation
Indices: 54461441--54464938 Score: 4547
Period size: 54 Copynumber: 64.8 Consensus size: 54
54461431 ACCCTACGAA
* * * * * *
54461441 GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAATATTTTTACCCTAC-GAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAG-G
* * *
54461495 GGTATTTCGGTAATTCTACCCTACAGGGGTATTAT-AGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATT-TCAGTAATTCTACCTTACAGG
* * *
54461549 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTA-CTCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCT-TACAGG
* * * * * *
54461603 GGTATTTCAGTTATTCTATCTTACAGGGGTATTTTAGTAATTCTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * *
54461657 GGTATTTTAGTAATTCTACCATACAGGGGTATTTCAGTAATTCTACCCTAAAGA
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54461711 GGTATTTC-GATAATTGTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54461765 GGTATTTCAATAATTCTACCTTATAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* *
54461819 GGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
** * *
54461873 GGTATTTTGGTAATTCTACCCTATAGGGGTATTTCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * * *
54461927 GGTATATCAATAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
*
54461981 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * *
54462035 GGTATTTTAGTAATTCTACCCTGCAGGGGTATTTCGGTTATTCTATCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * *
54462089 GGAATTTTAGTAATTCTACCCTACAGGGGTATTTTAGTAAATCTACCTTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
*
54462143 GGTATTTCAGTAATTCTACCCTAAAGGGGTATTTC-GATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCTTACAGG
* *
54462197 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54462251 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
** * *
54462305 GGTATTTTGGTAATTCTACCCTAAAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
*
54462359 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54462413 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* *
54462467 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54462521 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * *
54462575 GGTGTTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * *
54462629 GGTATTTCAATAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * * *
54462683 GGTATTTCGGTAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTAAAGA
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54462737 GGTATTTC-GATAATTGTACCTTACAGGGGTATTTCAATAATTCTACCCTACAGG
1 GGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54462791 GGTATTTCAATAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* *
54462845 GGTATTTCAGTAATTCTACCCTAAAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
** * * *
54462899 GGTATTTTGGTAATTCTACCCTATAAGGGTATTTCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * *
54462953 GGTATATT-AATAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAAG
1 GGTAT-TTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* *
54463007 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54463061 GGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTTATTCTATCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * * *
54463115 GGAATTTTAGTAATTCTACCCTACAAGGGTATTTTAGTAATTCTACCTTATAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
*
54463169 GGTATTTCAGTAATTCTACCCTAAAGGGGTATTTC-GATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCTTACAGG
*
54463223 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54463277 GGTATTTCGGTAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCTTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54463331 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTGCAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * * * *
54463385 GGTATTTCGGTTATTCTATCTTACAGGGGAATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * * *
54463439 GGTATTTTAGTAAATCTACCTTACAAGGGTATTTCAGTAATTCTACCCTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54463493 GGTATTTC-GATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54463547 GGTATTTCAATAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* ** * *
54463601 GGTATTTCAGTAATTCTACCCTAAAGGGGTATTTTGGTAATTCTACCCTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54463655 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54463709 GGTATTTCAATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * * *
54463763 GGTATTTCGGTAATTCTACCTTATAGGGGTATTTCTGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54463817 GGTATTTCAATAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54463871 GGTATTTCAGTAATTCTACCCTAAAGGGGTGTTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54463925 GGTATTTTAGTAATTCTACCCTACAGGGGTATTTCAATAATTCTACCTTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54463979 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54464033 GGTATTTCAGTAATTCTACCCTAAAGAGGTATTTC-GATAATTGTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCTTACAGG
* * *
54464087 GGTATTTCAATAATTCTACCCTACAAGGGTATTTCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54464141 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * ** * * *
54464195 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTTGGTAATTCTACCCTATAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * *
54464249 GGTATTTCAATAATTCTACCTTACAGGGGTATATT-AATAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTAT-TTCAGTAATTCTACCTTACAGG
* * * * *
54464303 GGTATTTCGGTAATTCTACTCTACAAGGGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54464357 GGTATTTCGGTAATTCTACCTTACAGGGGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * * * * *
54464411 GGTATTTCGGTTATTCTATCTTACAGGGGAATTTTAGTAATTCTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * * * *
54464465 GGTATTTTAGTAATTCTACCTTATAAGGGTATTTCAGTAATTCTACCCTAAAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* *
54464519 GGTATTTC-GATAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAG-TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * * *
54464573 GGTATTTCAATAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCTTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54464627 GGTATTTCAGTAATTCTACCTTAAAGGGGTATTTCGGTAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* *
54464681 GGTATTTCAGTAATTCTACCCTACAGGGGGATTTCAATAATTCTACCTTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54464735 GGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCTTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
*
54464789 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTC-GATAATTCTACCTTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCTTACAGG
** * * * *
54464843 GGTATTTTGGTAATTCTACCTTAGAAGGGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
* * *
54464897 GGTATTTCAATAATTCTACCCTACAAGGGTATTTCAATAATT
1 GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATT
54464939 TTGTAAATCG
Statistics
Matches: 3096, Mismatches: 323, Indels: 50
0.89 0.09 0.01
Matches are distributed among these distances:
53 14 0.00
54 3074 0.99
55 8 0.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (54 bp):
GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGG
Found at i:54464988 original size:27 final size:27
Alignment explanation
Indices: 54464934--54465035 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 27
54464924 GGTATTTCAA
* * ***
54464934 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTTTATAAGTCGAGGGTACTTTGG
* * *
54464961 TAATTCTATAAATCGAGGGTGCTTTGG
1 TAATTTTATAAGTCGAGGGTACTTTGG
* * *
54464988 TAATTTTACAAGTCGAGGGTATTTTAG
1 TAATTTTATAAGTCGAGGGTACTTTGG
*
54465015 TAATTTTATAGGTCGAGGGTA
1 TAATTTTATAAGTCGAGGGTA
54465036 TTTCAGTAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.37
Consensus pattern (27 bp):
TAATTTTATAAGTCGAGGGTACTTTGG
Found at i:54465018 original size:54 final size:52
Alignment explanation
Indices: 54464960--54465128 Score: 144
Period size: 54 Copynumber: 3.1 Consensus size: 52
54464950 GGGTAAAATG
* *
54464960 GTAATTCTATAAATCGAGGGTGCTTTGGTAATTTTACAAGTCGAGGGTATTTTA
1 GTAATTTTATAAATCGAGGGT-ATTTGGTAATTTTACAA-TCGAGGGTATTTTA
** * * * *
54465014 GTAATTTTATAGGTCGAGGGTATTTCAGTAATTTCACAAAT-TAGGGGTATTTTG
1 GTAATTTTATAAATCGAGGGTATTT-GGTAATTTTAC-AATCGA-GGGTATTTTA
* * * *
54465068 GTAATTTTACAAA-CTAGGAGTATTTTGGTAATTTTGCTAATCGAGGGTATTTCA
1 GTAATTTTATAAATCGAGG-GTA-TTTGGTAATTTTAC-AATCGAGGGTATTTTA
54465122 GTAATTT
1 GTAATTT
54465129 GGTAAACTAA
Statistics
Matches: 90, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
53 8 0.09
54 76 0.84
55 6 0.07
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.41
Consensus pattern (52 bp):
GTAATTTTATAAATCGAGGGTATTTGGTAATTTTACAATCGAGGGTATTTTA
Found at i:54465036 original size:27 final size:27
Alignment explanation
Indices: 54464973--54465128 Score: 129
Period size: 27 Copynumber: 5.8 Consensus size: 27
54464963 ATTCTATAAA
** *
54464973 TCGAGGGTGCTTTGGTAATTTTACAAG
1 TCGAGGGTATTTTAGTAATTTTACAAG
* *
54465000 TCGAGGGTATTTTAGTAATTTTATAGG
1 TCGAGGGTATTTTAGTAATTTTACAAG
* * *
54465027 TCGAGGGTATTTCAGTAATTTCACAAA
1 TCGAGGGTATTTTAGTAATTTTACAAG
* *
54465054 T-TAGGGGTATTTTGGTAATTTTACAA-
1 TCGA-GGGTATTTTAGTAATTTTACAAG
* * * *
54465080 ACTAGGAGTATTTTGGTAATTTTGCTAA-
1 TCGAGG-GTATTTTAGTAATTTTAC-AAG
*
54465108 TCGAGGGTATTTCAGTAATTT
1 TCGAGGGTATTTTAGTAATTT
54465129 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.03
27 96 0.91
28 6 0.06
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (27 bp):
TCGAGGGTATTTTAGTAATTTTACAAG
Found at i:54465045 original size:81 final size:81
Alignment explanation
Indices: 54464977--54465128 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
54464967 TATAAATCGA
* * *
54464977 GGGTGCTTTGGTAATTTTACAAGTCGAGG-GTATTTTAGTAATTTT-ATAGGTCGAGGGTATTTC
1 GGGTACTTTGGTAATTTTACAA-ACGAGGAGTATTTTAGTAATTTTGATA-ATCGAGGGTATTTC
*
54465040 AGTAATTTCACAAATTAG
64 AGTAATTTCACAAATGAG
* * * *
54465058 GGGTATTTTGGTAATTTTACAAACTAGGAGTATTTTGGTAATTTTGCTAATCGAGGGTATTTCAG
1 GGGTACTTTGGTAATTTTACAAACGAGGAGTATTTTAGTAATTTTGATAATCGAGGGTATTTCAG
54465123 TAATTT
66 TAATTT
54465129 GGTAAACTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 4 0.06
81 56 0.90
82 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.41
Consensus pattern (81 bp):
GGGTACTTTGGTAATTTTACAAACGAGGAGTATTTTAGTAATTTTGATAATCGAGGGTATTTCAG
TAATTTCACAAATGAG
Found at i:54468129 original size:46 final size:46
Alignment explanation
Indices: 54468072--54468244 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
54468062 TGGTTGAGCA
*
54468072 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
54468118 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
54468163 CATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
54468211 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
54468245 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54468228 original size:93 final size:93
Alignment explanation
Indices: 54468069--54468239 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
54468059 GGATGGTTGA
* * * *
54468069 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGGATGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
54468134 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
54468162 GCATCCGAACTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
54468227 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
54468240 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54470322 original size:43 final size:43
Alignment explanation
Indices: 54470275--54470408 Score: 123
Period size: 42 Copynumber: 3.1 Consensus size: 43
54470265 AGACGTTGTT
* * *
54470275 TTACATGTGA-TCAAATATTGATGCCACTGTCCCAGACAGGGTC
1 TTACATGTAATTCAAATA-TAATGCCAATGTCCCAGACAGGGTC
* *
54470318 TTACATG-AATTCATATATAATGCCAATGTCCCAGACATGGTC
1 TTACATGTAATTCAAATATAATGCCAATGTCCCAGACAGGGTC
** * *
54470360 TTACATGTACATCTCAAAT-CGACGCCAACGTCCCAGAC-GTGGTC
1 TTACATGTA-AT-TCAAATATAATGCCAATGTCCCAGACAG-GGTC
54470404 TTACA
1 TTACA
54470409 CGATAACTCA
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
42 30 0.40
43 14 0.19
44 26 0.35
45 5 0.07
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
TTACATGTAATTCAAATATAATGCCAATGTCCCAGACAGGGTC
Found at i:54472978 original size:18 final size:18
Alignment explanation
Indices: 54472955--54472993 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
54472945 AGATTTTTCG
54472955 GAACACAAATCTAATCTC
1 GAACACAAATCTAATCTC
54472973 GAACACAAATCTAATCTC
1 GAACACAAATCTAATCTC
54472991 GAA
1 GAA
54472994 AACTCAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.21
Consensus pattern (18 bp):
GAACACAAATCTAATCTC
Found at i:54475014 original size:27 final size:26
Alignment explanation
Indices: 54474967--54475017 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
54474957 TGAGGCTGCC
*
54474967 AGATATTGTGACGAAGTCACCAGAAA
1 AGATATTGTGACGAAGCCACCAGAAA
* *
54474993 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
54475018 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAA
Found at i:54477727 original size:25 final size:26
Alignment explanation
Indices: 54477654--54477725 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
54477644 GAGGAAGTGC
* * *
54477654 AAAAGGGC-TTTGCCCTAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTATCA
54477679 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
54477705 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
54477726 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
25 8 0.19
26 35 0.81
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:54477738 original size:25 final size:26
Alignment explanation
Indices: 54477653--54477738 Score: 92
Period size: 26 Copynumber: 3.4 Consensus size: 26
54477643 GGAGGAAGTG
* *
54477653 CAAAAG-GGC-TTTGCCCTAGTTTAC
1 CAAAAGAGGCTTTTGCCCCAGTTTAT
54477677 CGAAAAG-GGCTTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTTGCCCCAGTTTAT
54477703 CAAAA-AGGGCTTTTGCCCCAG-TTAT
1 CAAAAGA-GGCTTTTGCCCCAGTTTAT
*
54477728 TAAAAGAGGCT
1 CAAAAGAGGCT
54477739 AGGCCTCTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
24 1 0.02
25 24 0.44
26 29 0.54
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (26 bp):
CAAAAGAGGCTTTTGCCCCAGTTTAT
Found at i:54477982 original size:31 final size:31
Alignment explanation
Indices: 54477944--54478027 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
54477934 TTGTTACAGT
54477944 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
54477975 AAAGGCTTCGGCCCAGTGATATGAGTAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
54478006 AAAGGCCTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
54478028 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:54485473 original size:38 final size:38
Alignment explanation
Indices: 54485393--54485512 Score: 150
Period size: 38 Copynumber: 3.1 Consensus size: 38
54485383 TCCAGTCACT
* * *
54485393 AGCACGAAACCTGCGGGACTTTAAGCTCAGATATAATACC
1 AGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACC
* *
54485433 AGCACTAGGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
* * *
54485471 AGCACGAAGCCTGTGGGATTTAACCCGGATATATTTCC
1 AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
54485509 AGCA
1 AGCA
54485513 TATAGCCTGT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
38 50 0.71
39 5 0.07
40 15 0.21
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
AGCACGAAGCCTGCGGGATTTAACCCGGATATAATACC
Found at i:54485520 original size:38 final size:38
Alignment explanation
Indices: 54485393--54485541 Score: 147
Period size: 38 Copynumber: 3.8 Consensus size: 38
54485383 TCCAGTCACT
* * * *
54485393 AGCACGAAACCTGCGGGACTTTAAGCTCAGATATAATACC
1 AGCACGAAGCCTGTGGGA-TTTAA-CCCGGATATAATACC
* * *
54485433 AGCACTAGGCCTGCGGGATTTAACCCGGATATAATACC
1 AGCACGAAGCCTGTGGGATTTAACCCGGATATAATACC
* *
54485471 AGCACGAAGCCTGTGGGATTTAACCCGGATATATTTCC
1 AGCACGAAGCCTGTGGGATTTAACCCGGATATAATACC
* *
54485509 AGCA-TATAGCCTGTGGGTCTTTAAGCCCGGATA
1 AGCACGA-AGCCTGTGGG-ATTTAA-CCCGGATA
54485542 CACATCAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 60 0.64
39 10 0.11
40 23 0.24
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (38 bp):
AGCACGAAGCCTGTGGGATTTAACCCGGATATAATACC
Found at i:54491976 original size:39 final size:40
Alignment explanation
Indices: 54491922--54492057 Score: 163
Period size: 39 Copynumber: 3.5 Consensus size: 40
54491912 CAACCAAGTA
** *
54491922 CCTTCGGGGTTTAG-CCGGATATAGCT-ATTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAATTCGCACAAATG
* *
54491961 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
* *
54492001 -CTTCGGGACTTAGCCCGGA-ATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAATTCGCACAAATG
54492040 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
54492058 ATTATCATCC
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 46 0.55
40 37 0.44
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
Found at i:54495106 original size:49 final size:49
Alignment explanation
Indices: 54495032--54495515 Score: 763
Period size: 49 Copynumber: 10.1 Consensus size: 49
54495022 CCCTTCGGGA
* * *
54495032 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54495079 CCTATCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
54495128 CTTATCAC--ATATATACACTCTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54495175 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54495224 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54495271 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54495320 CTTATCAC--ATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54495367 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54495416 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54495463 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54495512 CTTA
1 CTTA
54495516 CTATCATTTC
Statistics
Matches: 400, Mismatches: 27, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
47 186 0.47
48 1 0.00
49 213 0.53
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54495196 original size:96 final size:96
Alignment explanation
Indices: 54495032--54495515 Score: 833
Period size: 96 Copynumber: 5.0 Consensus size: 96
54495022 CCCTTCGGGA
* * * *
54495032 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTCGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
54495097 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
54495128 CTTATCACATATATACACTCTCACATTCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
54495193 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54495224 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54495289 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
54495320 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54495385 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
54495416 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54495481 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54495512 CTTA
1 CTTA
54495516 CTATCATTTC
Statistics
Matches: 372, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 372 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54506275 original size:39 final size:40
Alignment explanation
Indices: 54506221--54506357 Score: 172
Period size: 40 Copynumber: 3.5 Consensus size: 40
54506211 CAACCAAGTA
** *
54506221 CCTTCGGGGTTTAG-CCGGATATAGCT-ATTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAATTCGCACAAATG
* *
54506260 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
* *
54506300 CCTTCGGGACTTAGCCCGGA-ATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAATTCGCACAAATG
54506340 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
54506358 ATTATCATCC
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 14 0.16
40 72 0.84
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
Found at i:54509449 original size:47 final size:47
Alignment explanation
Indices: 54509327--54509807 Score: 739
Period size: 47 Copynumber: 10.1 Consensus size: 47
54509317 CCCTTCGGGA
* * * *
54509327 CTTATCACATTTATACACTTTCACATCCATCACAT-GGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54509373 CCTATCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
54509422 CTTATCACATATATACACTCTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54509469 CCTGTCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54509516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54509563 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54509612 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54509659 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54509708 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54509755 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54509804 CTTA
1 CTTA
54509808 CTATCATTTC
Statistics
Matches: 398, Mismatches: 28, Indels: 15
0.90 0.06 0.03
Matches are distributed among these distances:
46 7 0.02
47 216 0.54
48 24 0.06
49 151 0.38
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54509605 original size:96 final size:96
Alignment explanation
Indices: 54509327--54509807 Score: 806
Period size: 96 Copynumber: 5.0 Consensus size: 96
54509317 CCCTTCGGGA
* * * *
54509327 CTTATCACATTTATACACTTTCACATCCATCACAT-GGCCACTCGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
54509391 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
54509422 CTTATCACATATATACACTCTCACATTCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
*
54509485 ACTTCCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54509516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54509581 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
54509612 CTTATCACATATATACACTTCCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54509677 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
54509708 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
54509773 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54509804 CTTA
1 CTTA
54509808 CTATCATTTC
Statistics
Matches: 368, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
94 88 0.24
95 31 0.08
96 249 0.68
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54514976 original size:38 final size:38
Alignment explanation
Indices: 54514893--54515080 Score: 277
Period size: 38 Copynumber: 4.9 Consensus size: 38
54514883 GAATCCAGTC
* * * *
54514893 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
54514933 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
54514971 ACCAGCACGAAGCTTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
54515009 ACCAGCACGAAGCCTGTGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
54515047 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATA
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATA
54515081 CATTTCTAGC
Statistics
Matches: 136, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 113 0.83
39 5 0.04
40 18 0.13
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:54523603 original size:25 final size:26
Alignment explanation
Indices: 54523575--54523628 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
54523565 CAATTTGCAT
*
54523575 AAAATATT-AATAACCCAAT-AAATTG
1 AAAA-ATTAAATAACCAAATAAAATTG
*
54523600 AAAAATTAAATAATCAAATAAAATTG
1 AAAAATTAAATAACCAAATAAAATTG
54523626 AAA
1 AAA
54523629 TTTAGGAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.63, C:0.07, G:0.04, T:0.26
Consensus pattern (26 bp):
AAAAATTAAATAACCAAATAAAATTG
Found at i:54530808 original size:43 final size:43
Alignment explanation
Indices: 54530762--54530895 Score: 187
Period size: 43 Copynumber: 3.1 Consensus size: 43
54530752 ATAAAACTCG
* *
54530762 GTGATGTGTATTCGAGCCTTTGTGCCTAGCAGGCTTCATGCCG
1 GTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCA
** * *
54530805 GTGATAAGTATTCGGGCCTTTGTGCCTAACAGGCTTCGTGCCA
1 GTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCA
* * *
54530848 GTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGCCA
1 GTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCA
54530891 GTGAT
1 GTGAT
54530896 TCGAACAAGG
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.16, C:0.22, G:0.30, T:0.32
Consensus pattern (43 bp):
GTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCA
Found at i:54531085 original size:29 final size:29
Alignment explanation
Indices: 54531052--54531153 Score: 73
Period size: 29 Copynumber: 3.5 Consensus size: 29
54531042 ATGATTAGAG
* *
54531052 GCACTGTGTGTGCAAATTTCTTTAACCGA
1 GCACTATGTATGCAAATTTCTTTAACCGA
* ** **
54531081 GCACTATGTATGCGAGA--TCGGTAATTGA
1 GCACTATGTATGC-AAATTTCTTTAACCGA
* * * *
54531109 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTATGCAAATTTCTTTAACCGA
54531139 GCACTATGTATGCAA
1 GCACTATGTATGCAA
54531154 GATCAGTAAT
Statistics
Matches: 50, Mismatches: 19, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
28 8 0.16
29 34 0.68
30 8 0.16
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (29 bp):
GCACTATGTATGCAAATTTCTTTAACCGA
Found at i:54531121 original size:58 final size:57
Alignment explanation
Indices: 54531049--54531217 Score: 248
Period size: 58 Copynumber: 2.9 Consensus size: 57
54531039 CGAATGATTA
54531049 GAGGCACTGTGTGTGCAAATTTCTTTAACCGAGCACTATGTATGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGC-AATTTCTTTAACCGAGCACTATGTATGCGAGATCGGTAATT
* * *
54531107 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTATGCAAGATCAGTAATT
1 GAGGCACTGTGTGTGC-AATTTCTTTAACCGAGCACTATGTATGCGAGATCGGTAATT
* * * * *
54531165 AAGGCACTGTGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCAATTTCTTTAACCGAGCACTATGTATGCGAGATCGGT
54531218 CAGTGGGCAC
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
57 30 0.30
58 69 0.70
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (57 bp):
GAGGCACTGTGTGTGCAATTTCTTTAACCGAGCACTATGTATGCGAGATCGGTAATT
Found at i:54531235 original size:58 final size:56
Alignment explanation
Indices: 54531051--54531237 Score: 239
Period size: 58 Copynumber: 3.2 Consensus size: 56
54531041 AATGATTAGA
*
54531051 GGCACTGTGTGTGCAAATTTCTTTAACCGAGCACTATGTATGCGAGATCGGTAATTG
1 GGCACTGTGTGTGCGAA-TTCTTTAACCGAGCACTATGTATGCGAGATCGGTAATTG
* * *
54531108 AGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTATGCAAGATCAGTAATTAA
1 -GGCACTGTGTGTGCGAATT-CTTTAACCGAGCACTATGTATGCGAGATCGGTAATT-G
* * * * *
54531167 GGCACTGTGTGTGCGAGTTCTTCAACCGAGCACTATGTGTGCGAGATCGGTCAGTG
1 GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTATGCGAGATCGGTAATTG
54531223 GGCACTAAGTGTGTG
1 GGCACT--GTGTGTG
54531238 AAATGAGATT
Statistics
Matches: 113, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
56 6 0.05
57 32 0.28
58 75 0.66
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (56 bp):
GGCACTGTGTGTGCGAATTCTTTAACCGAGCACTATGTATGCGAGATCGGTAATTG
Found at i:54533764 original size:22 final size:22
Alignment explanation
Indices: 54533736--54533779 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
54533726 GTGAGAGTGG
*
54533736 AGTTAGAAGATGACTAAACTAT
1 AGTTAGAAGATGAATAAACTAT
54533758 AGTTAGAAGATGAATAAACTAT
1 AGTTAGAAGATGAATAAACTAT
54533780 GTACTTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (22 bp):
AGTTAGAAGATGAATAAACTAT
Found at i:54535448 original size:38 final size:38
Alignment explanation
Indices: 54535403--54535528 Score: 139
Period size: 38 Copynumber: 3.3 Consensus size: 38
54535393 GGCTTAAAGA
* * *
54535403 CCCGCAGGCTATATGCTAGAATTATATCTGGGTTAAAT
1 CCCGCAGGCTATGTGCTGGTATTATATCTGGGTTAAAT
* *
54535441 CCCGCAGGCT-TCGTGCTGGTATTATATCCGAGTTAAAT
1 CCCGCAGGCTAT-GTGCTGGTATTATATCTGGGTTAAAT
* *
54535479 CCCGCAGGCCTA-GTGCTGGTATTATATCTAAGTTTAAAGT
1 CCCGCAGG-CTATGTGCTGGTATTATATCT-GGGTTAAA-T
54535519 CCCGCAGGCT
1 CCCGCAGGCT
54535529 TCGTGCTAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
37 1 0.01
38 55 0.74
39 9 0.12
40 9 0.12
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTATGTGCTGGTATTATATCTGGGTTAAAT
Found at i:54540343 original size:43 final size:43
Alignment explanation
Indices: 54540256--54540370 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
54540246 TATGTTATCG
* * * * * * *
54540256 TGTAAGACCACATCTGAGATGTTGTCATCG-TACTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
54540298 TGTAAGACC-CTGTCTGGGACAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATTGATATTTGATTACA
*
54540341 TGTAAGACCACGTTTGGGACGTTGGCATTG
1 TGTAAGACCACGTCTGGGACGTTGGCATTG
54540371 TACGAACTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 22 0.37
43 36 0.60
44 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
Found at i:54541798 original size:42 final size:42
Alignment explanation
Indices: 54541751--54541869 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 42
54541741 TTTGTTTTGT
54541751 GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGACTT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGA-TTAC
* * *
54541793 GTGTAAGACCCTGTCTGGGGA-AGTGGCATCGATGTTTGATTAC
1 GTGTAAGACCATGTCT-GGGACATTGGCATCG-TATTTGATTAC
* * * * *
54541836 ATGTAAGACCACGTCTAGGACGTTGGCATTGTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGTAT
54541870 ATGTTCTCTG
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
42 31 0.50
43 31 0.50
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGTATTTGATTAC
Found at i:54548914 original size:20 final size:19
Alignment explanation
Indices: 54548891--54548955 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
54548881 AAGCTCAAAC
54548891 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
54548911 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
54548931 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
54548951 GAGCT
1 GAGCT
54548956 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:54552153 original size:34 final size:33
Alignment explanation
Indices: 54552111--54552205 Score: 100
Period size: 34 Copynumber: 2.8 Consensus size: 33
54552101 TTGTTTGCAT
*
54552111 ACTGTACTGAAATGGGCTAAGGCTCAGACTGCC
1 ACTGTACTGAAATGGGCTAAGGCCCAGACTGCC
** * *
54552144 ACTGTTACTGAAGCGGGCTTAGGCCCAGACTGCT
1 ACTG-TACTGAAATGGGCTAAGGCCCAGACTGCC
*
54552178 ACTGCTACTAAAAGTGGGGCTAAGGCCC
1 ACTG-TACTGAAA-T-GGGCTAAGGCCC
54552206 CTAACTGAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 4 0.08
34 34 0.69
36 11 0.22
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.21
Consensus pattern (33 bp):
ACTGTACTGAAATGGGCTAAGGCCCAGACTGCC
Found at i:54555419 original size:31 final size:31
Alignment explanation
Indices: 54555381--54555459 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
54555371 CTCAGCATAT
54555381 ACTGGGCCGAAGCCTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
* *
54555412 ACTGGGCCGAAGCCTTTTCATTATTCATATC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
*
54555443 ACTGGGCAGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
54555460 CCTGTAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATTCATACC
Found at i:54555749 original size:25 final size:25
Alignment explanation
Indices: 54555683--54555749 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
54555673 TTTTAAAAAC
* *
54555683 TGGGGCAAAACCCTTTCCGGTAAAT
1 TGGGGCAAAGCCCTTTTCGGTAAAT
54555708 TGGGGCAAAGCCCTTTTCGGTAAAT
1 TGGGGCAAAGCCCTTTTCGGTAAAT
*
54555733 TGGGGCATAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
54555750 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGGTAAAT
Found at i:54555808 original size:10 final size:10
Alignment explanation
Indices: 54555795--54555829 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
54555785 ATATATGTAT
54555795 ATATCATGGC
1 ATATCATGGC
54555805 ATATCATGTGC
1 ATATCATG-GC
54555816 ATATCATGGC
1 ATATCATGGC
54555826 ATAT
1 ATAT
54555830 TATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:54555819 original size:21 final size:21
Alignment explanation
Indices: 54555783--54555843 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
54555773 CCCAACCCAT
*
54555783 GCATAT-ATGTATATATCATG
1 GCATATCATGTACATATCATG
*
54555803 GCATATCATGTGCATATCATG
1 GCATATCATGTACATATCATG
* *
54555824 GCATATTATGTACAAATCAT
1 GCATATCATGTACATATCAT
54555844 TATCACATGC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (21 bp):
GCATATCATGTACATATCATG
Found at i:54563364 original size:31 final size:31
Alignment explanation
Indices: 54563327--54563403 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
54563317 GCATATACTG
54563327 GGCCGAAGCCTTTACATTATTCATACCACTA
1 GGCCGAAGCCTTTACATTATTCATACCACTA
* * *
54563358 GGCCGAAGCCTTTTCATTATTCATATCACTG
1 GGCCGAAGCCTTTACATTATTCATACCACTA
*
54563389 GGCTGAAGCCTTTAC
1 GGCCGAAGCCTTTAC
54563404 TATAAATGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (31 bp):
GGCCGAAGCCTTTACATTATTCATACCACTA
Found at i:54563691 original size:25 final size:25
Alignment explanation
Indices: 54563625--54563691 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
54563615 TTATAGTAAC
*
54563625 TGGGGCAAAGCCCTTTCCGGTAAAT
1 TGGGGCAAAGCCCTTTTCGGTAAAT
54563650 TGGGGCAAAGCCCTTTTCGGTAAAT
1 TGGGGCAAAGCCCTTTTCGGTAAAT
*
54563675 TGGGGCATAGCCCTTTT
1 TGGGGCAAAGCCCTTTT
54563692 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (25 bp):
TGGGGCAAAGCCCTTTTCGGTAAAT
Found at i:54563750 original size:10 final size:10
Alignment explanation
Indices: 54563737--54563771 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
54563727 ATATATGTAT
54563737 ATATCATGGC
1 ATATCATGGC
54563747 ATATCATGTGC
1 ATATCATG-GC
54563758 ATATCATGGC
1 ATATCATGGC
54563768 ATAT
1 ATAT
54563772 TATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:54563784 original size:21 final size:21
Alignment explanation
Indices: 54563725--54563784 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
54563715 CCCAACCCAT
*
54563725 GCATA-TATGTATATATCATG
1 GCATATTATGTACATATCATG
* *
54563745 GCATATCATGTGCATATCATG
1 GCATATTATGTACATATCATG
*
54563766 GCATATTATGTACAAATCA
1 GCATATTATGTACATATCA
54563785 GTATCACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
GCATATTATGTACATATCATG
Found at i:54571388 original size:22 final size:22
Alignment explanation
Indices: 54571360--54571411 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
54571350 ACAATGTTTA
*
54571360 CGCAACACCTTTTGAAAGCTTC
1 CGCAACAACTTTTGAAAGCTTC
54571382 CGCAACAACTTTTGAAAGCTTC
1 CGCAACAACTTTTGAAAGCTTC
*
54571404 CACAACAA
1 CGCAACAA
54571412 ATACTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.23
Consensus pattern (22 bp):
CGCAACAACTTTTGAAAGCTTC
Found at i:54573589 original size:15 final size:15
Alignment explanation
Indices: 54573548--54573590 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
54573538 TTATTTTTGG
*
54573548 ATTG-ATTTGAATGA
1 ATTGAATTTGAATAA
*
54573562 ATGTGAGTTTGAATAA
1 AT-TGAATTTGAATAA
54573578 ATTGAATTTGAAT
1 ATTGAATTTGAAT
54573591 TGTTATAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (15 bp):
ATTGAATTTGAATAA
Found at i:54574296 original size:6 final size:6
Alignment explanation
Indices: 54574285--54574351 Score: 80
Period size: 6 Copynumber: 11.0 Consensus size: 6
54574275 TAACAAGAAG
* * *
54574285 AATAAA AATAAA AATAAA AATAGA AATAAA AGGTAAA AATAAA GATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA A-ATAAA AATAAA AATAAA
* *
54574334 CATAAA CATAAA AATAAA
1 AATAAA AATAAA AATAAA
54574352 TCAGACTCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
6 48 0.91
7 5 0.09
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:54574323 original size:31 final size:31
Alignment explanation
Indices: 54574287--54574346 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
54574277 ACAAGAAGAA
54574287 TAAAAATAAAAATAAAAATAGAA-ATAAAAGG
1 TAAAAATAAAAATAAAAATA-AACATAAAAGG
* *
54574318 TAAAAATAAAGATAAACATAAACATAAAA
1 TAAAAATAAAAATAAAAATAAACATAAAA
54574347 ATAAATCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.73, C:0.03, G:0.07, T:0.17
Consensus pattern (31 bp):
TAAAAATAAAAATAAAAATAAACATAAAAGG
Found at i:54575955 original size:6 final size:6
Alignment explanation
Indices: 54575944--54576053 Score: 64
Period size: 6 Copynumber: 17.8 Consensus size: 6
54575934 AATAAAAATG
* * *
54575944 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * * *
54575993 AGAATT AG-GTGAC AGAATT AGAATC AGAATC AGTATC AGGTAA-C ATAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
54576043 AAAATC AGAAT
1 AGAATC AGAAT
54576054 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:54575984 original size:31 final size:31
Alignment explanation
Indices: 54575946--54576053 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
54575936 TAAAAATGAG
54575946 AATCAGAATCAGAATCAGGTGACAGAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATCAA
* * *
54575977 AATCAGAATCAAAATCAGAATTAGGTGACAGAATTAG
1 AATCAG------AATCAGAATCAGGTGACAGAATCAA
* * *
54576014 AATCAGAATCAGTATCAGGTAACATAATCAA
1 AATCAGAATCAGAATCAGGTGACAGAATCAA
54576045 AATCAGAAT
1 AATCAGAAT
54576054 GTGAATGCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
31 34 0.55
37 28 0.45
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AATCAGAATCAGAATCAGGTGACAGAATCAA
Found at i:54576053 original size:37 final size:37
Alignment explanation
Indices: 54575932--54576053 Score: 139
Period size: 37 Copynumber: 3.5 Consensus size: 37
54575922 TATCAAAACT
* *
54575932 AGAATAAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
54575969 AGAATCAAAATCAGAATCAAAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
54576006 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
54576037 ATAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
54576054 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 25 0.36
32 1 0.01
36 1 0.01
37 43 0.61
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:54576276 original size:71 final size:67
Alignment explanation
Indices: 54576199--54576338 Score: 172
Period size: 67 Copynumber: 2.0 Consensus size: 67
54576189 TTACTAGATA
* * * * *
54576199 CAGATATTGTGGCTAGGCCACCAAAACAGATATATATATGTGGCGAAGCCACCATATTGCAGTGA
1 CAGATATTGTGACGAAGCCACCAAAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
54576264 GGCTGC
62 GGCTGC
* * *
54576270 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
54576335 GC
66 GC
54576337 CA
1 CA
54576339 AAACGCTTCC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 37 0.61
71 24 0.39
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAAAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:54576318 original size:27 final size:26
Alignment explanation
Indices: 54576270--54576321 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54576260 GTGAGGCTGC
*
54576270 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
54576296 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
54576322 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54576587 original size:27 final size:27
Alignment explanation
Indices: 54576557--54576750 Score: 264
Period size: 27 Copynumber: 7.2 Consensus size: 27
54576547 AACACCCTAG
*
54576557 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
54576584 GGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
54576611 AGGTAAAATGGTAATATTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
54576638 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** *
54576665 GGGTAAAACGGTAATTTTGTAAATCGT
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
54576692 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
54576719 GGGTAAAATAGTAATTTT-AAAATTCGA
1 GGGTAAAATAGTAATTTTGTAAA-TCGA
54576746 GGGTA
1 GGGTA
54576751 CTTTGATAAT
Statistics
Matches: 147, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 3 0.02
27 144 0.98
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:54576640 original size:54 final size:54
Alignment explanation
Indices: 54576557--54576750 Score: 291
Period size: 54 Copynumber: 3.6 Consensus size: 54
54576547 AACACCCTAG
54576557 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
* * * *
54576611 AGGTAAAATGGTAATATTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
* * *
54576665 GGGTAAAACGGTAATTTTGTAAATCGTGGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
* *
54576719 GGGTAAAATAGTAATTTT-AAAATTCGAGGGTA
1 GGGTAAAATGGTAATTTTGTAAA-TCGAGGGTA
54576751 CTTTGATAAT
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 3 0.02
54 121 0.98
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (54 bp):
GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTTTATAAATCGA
Found at i:54576760 original size:27 final size:26
Alignment explanation
Indices: 54576730--54576845 Score: 92
Period size: 27 Copynumber: 4.3 Consensus size: 26
54576720 GGTAAAATAG
54576730 TAATTTTAAAATTCGAGGGTACTTTGA
1 TAATTTTAAAATTCGAGGGTA-TTTGA
* * *
54576757 TAATTTTACAAGTCGAGGGTATTTCA
1 TAATTTTAAAATTCGAGGGTATTTGA
* * *
54576783 GTAATTTTGTAAACT-GCGGGTATTTCGA
1 -TAATTTT-AAAATTCGAGGGTATTT-GA
* *
54576811 TAATTTTACAAATT-GAGGATATTTGGG
1 TAATTTTA-AAATTCGAGGGTATTT-GA
54576838 TAATTTTA
1 TAATTTTA
54576846 TAAACCAAGG
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.06
27 63 0.89
28 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (26 bp):
TAATTTTAAAATTCGAGGGTATTTGA
Found at i:54576777 original size:81 final size:81
Alignment explanation
Indices: 54576557--54576777 Score: 232
Period size: 81 Copynumber: 2.7 Consensus size: 81
54576547 AACACCCTAG
** * * * *
54576557 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTTTATAAATCGAAGGTAAAATG
1 GGGTAAAACAGTAATTTTGAAAATCGAGGGTAAAACGA-TAATTTTATAAATCGAGGGTAAAATA
*
54576621 GTAATATTGTAAATCGA
65 GTAATATTATAAATCGA
* * * *
54576638 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGTGGGTAAAATAG
1 GGGTAAAACAGTAATTTTGAAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATAG
54576703 TAAT-TCTATAAATCGA
66 TAATAT-TATAAATCGA
* **** * *
54576719 GGGTAAAATAGTAATTTT-AAAATTCGAGGGTACTTTGATAATTTTACAAGTCGAGGGTA
1 GGGTAAAACAGTAATTTTGAAAA-TCGAGGGTAAAACGATAATTTTATAAATCGAGGGTA
54576778 TTTCAGTAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
80 4 0.03
81 113 0.97
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (81 bp):
GGGTAAAACAGTAATTTTGAAAATCGAGGGTAAAACGATAATTTTATAAATCGAGGGTAAAATAG
TAATATTATAAATCGA
Found at i:54576786 original size:54 final size:52
Alignment explanation
Indices: 54576728--54576896 Score: 144
Period size: 54 Copynumber: 3.2 Consensus size: 52
54576718 AGGGTAAAAT
*
54576728 AGTAATTTTAAAATTCGAGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTC
1 AGTAATTTTAAAA-TCGAGGGTACTTTGATAATTTTACAAAT-GAGGGTATTTC
* * * *
54576782 AGTAATTTTGTAAA-CTGCGGGTA-TTTCGATAATTTTACAAATTGAGGATATTTG
1 AGTAATTTT-AAAATC-GAGGGTACTTT-GATAATTTTACAAA-TGAGGGTATTTC
* * * * * * * *
54576836 GGTAATTTTATAAACCAAGGGCACTTTGGTAATTTTACAACTGGGGGTATTTT
1 AGTAATTTTA-AAATCGAGGGTACTTTGATAATTTTACAAATGAGGGTATTTC
54576889 AGTAATTT
1 AGTAATTT
54576897 GGTAAACTAA
Statistics
Matches: 92, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
53 20 0.22
54 64 0.70
55 8 0.09
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (52 bp):
AGTAATTTTAAAATCGAGGGTACTTTGATAATTTTACAAATGAGGGTATTTC
Found at i:54578901 original size:6 final size:6
Alignment explanation
Indices: 54578871--54579001 Score: 63
Period size: 6 Copynumber: 21.3 Consensus size: 6
54578861 AAGAAACATT
* * * *
54578871 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
54578920 ATCAAA ATCAGA ATTAGA ATCAGA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * *
54578969 ATCAGT ATCAGGTA A-CATA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
54579002 GTGAATGCAA
Statistics
Matches: 91, Mismatches: 23, Indels: 22
0.67 0.17 0.16
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 8 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:54578931 original size:31 final size:31
Alignment explanation
Indices: 54578894--54579001 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 31
54578884 TCAAAATGAG
54578894 AATCAGAATCAGAATTAGGTGACAGAATCAA
1 AATCAGAATCAGAATTAGGTGACAGAATCAA
* *
54578925 AATCAGAATTAGAATCAGAATTAGGTGACAGAATTAG
1 AATC------AGAATCAGAATTAGGTGACAGAATCAA
* * * *
54578962 AATCAGAATCAGTATCAGGTAACATAATCAA
1 AATCAGAATCAGAATTAGGTGACAGAATCAA
54578993 AATCAGAAT
1 AATCAGAAT
54579002 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
31 34 0.54
37 29 0.46
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.22
Consensus pattern (31 bp):
AATCAGAATCAGAATTAGGTGACAGAATCAA
Found at i:54579001 original size:37 final size:37
Alignment explanation
Indices: 54578880--54578979 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
54578870 TATCAGAACT
*
54578880 AGAATCAAAATGAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
*
54578917 AGAATCAAAATCAGAATTAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
* * *
54578954 AGAATTAGAATCAGAATCAGTATCAG
1 AGAATCAAAATCAGAATCAGAATCAG
54578980 GTAACATAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATTAGGTGAC
Found at i:54579168 original size:27 final size:26
Alignment explanation
Indices: 54579120--54579171 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54579110 GCGAGGCTGC
*
54579120 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
54579146 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
54579172 TTGCAGCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Done.