Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 190 of 770
Found at i:56749752 original size:135 final size:135
Alignment explanation
Indices: 56749596--56749864 Score: 538
Period size: 135 Copynumber: 2.0 Consensus size: 135
56749586 GAAGCCATGC
56749596 TTGGCCGGCCACTCAACATAATTTGGGCATTTTGACATGCAAACCCAAATTTTCATATTTCAATA
1 TTGGCCGGCCACTCAACATAATTTGGGCATTTTGACATGCAAACCCAAATTTTCATATTTCAATA
56749661 CTATTTGGTCCTTACTTATTTACCTATCAAAATTTTCTAAGTCTCTCAACTAAATCCTTTCAAGC
66 CTATTTGGTCCTTACTTATTTACCTATCAAAATTTTCTAAGTCTCTCAACTAAATCCTTTCAAGC
56749726 AAGAA
131 AAGAA
56749731 TTGGCCGGCCACTCAACATAATTTGGGCATTTTGACATGCAAACCCAAATTTTCATATTTCAATA
1 TTGGCCGGCCACTCAACATAATTTGGGCATTTTGACATGCAAACCCAAATTTTCATATTTCAATA
56749796 CTATTTGGTCCTTACTTATTTACCTATCAAAATTTTCTAAGTCTCTCAACTAAATCCTTTCAAGC
66 CTATTTGGTCCTTACTTATTTACCTATCAAAATTTTCTAAGTCTCTCAACTAAATCCTTTCAAGC
56749861 AAGA
131 AAGA
56749865 TTCACGTTCC
Statistics
Matches: 134, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 134 1.00
ACGTcount: A:0.31, C:0.23, G:0.10, T:0.36
Consensus pattern (135 bp):
TTGGCCGGCCACTCAACATAATTTGGGCATTTTGACATGCAAACCCAAATTTTCATATTTCAATA
CTATTTGGTCCTTACTTATTTACCTATCAAAATTTTCTAAGTCTCTCAACTAAATCCTTTCAAGC
AAGAA
Found at i:56757067 original size:42 final size:43
Alignment explanation
Indices: 56756976--56757071 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 43
56756966 GTCCAAGACG
* * *
56756976 TGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACA
1 TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAAACA
* *
56757019 GGGTCTTACACGAAATCAAATA-CGGTGCCGA-TGTCCCAAACA
1 TGGTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCAAACA
56757061 TGGTCTTACAC
1 TGGTCTTACAC
56757072 TTAAATCATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 26 0.57
43 20 0.43
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAAACA
Found at i:56765509 original size:25 final size:25
Alignment explanation
Indices: 56765481--56765586 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
56765471 GTATGCTCAT
*
56765481 ACGAGCTATGAATCAGTATGCTCTC
1 ACGAGCTATGAATCAGTAAGCTCTC
*** * **
56765506 ACGAGCTGCAAATCGGTAAGCTCAA
1 ACGAGCTATGAATCAGTAAGCTCTC
56765531 ACGAGCT-TAGAATCAGTAAGCTCTC
1 ACGAGCTAT-GAATCAGTAAGCTCTC
* * *
56765556 ACAAGCTA-CAATCGGTAAGCTCAT-
1 ACGAGCTATGAATCAGTAAGCTC-TC
56765580 ACGAGCT
1 ACGAGCT
56765587 GAGAATCTAT
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
24 18 0.29
25 44 0.71
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (25 bp):
ACGAGCTATGAATCAGTAAGCTCTC
Found at i:56765592 original size:49 final size:49
Alignment explanation
Indices: 56765470--56765593 Score: 169
Period size: 50 Copynumber: 2.5 Consensus size: 49
56765460 TTCTTGTACA
* * * *
56765470 GGTATGCTCATACGAGCTATGAATCAGTATGCTCTCACGAGCTGCAAATC
1 GGTAAGCTCATACGAGCTA-GAATCAGTAAGCTCTCACAAGCTACAAATC
*
56765520 GGTAAGCTCAAACGAGCTTAGAATCAGTAAGCTCTCACAAGCTAC-AATC
1 GGTAAGCTCATACGAGC-TAGAATCAGTAAGCTCTCACAAGCTACAAATC
56765569 GGTAAGCTCATACGAGCTGAGAATC
1 GGTAAGCTCATACGAGCT-AGAATC
56765594 TATAATCCCT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.02
49 26 0.39
50 37 0.56
51 2 0.03
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (49 bp):
GGTAAGCTCATACGAGCTAGAATCAGTAAGCTCTCACAAGCTACAAATC
Found at i:56767894 original size:66 final size:68
Alignment explanation
Indices: 56767818--56768004 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
56767808 TAGTACCACT
*
56767818 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
56767880 CACG
65 CACG
56767884 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
56767949 ATCACG
63 ATCACG
56767955 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
56768005 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:56767929 original size:71 final size:71
Alignment explanation
Indices: 56767841--56768004 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
56767831 CGATTTGTCT
56767841 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56767906 CTTTCA
66 CTTTCA
56767912 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
56767977 CTTTCA
66 CTTTCA
56767983 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
56768005 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:56768042 original size:71 final size:70
Alignment explanation
Indices: 56767841--56768038 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
56767831 CGATTTGTCT
* * *
56767841 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
56767906 CTTTCA
65 CTTTCA
* * *
56767912 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
56767977 CTTTCA
65 CTTTCA
* *
56767983 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
56768039 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:56774580 original size:28 final size:28
Alignment explanation
Indices: 56774519--56774616 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
56774509 TCACAAATTG
** * *
56774519 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
56774548 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
56774576 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
56774604 GCACTAAGTGTGC
1 GCACTAAGTGTGC
56774617 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:56788356 original size:28 final size:29
Alignment explanation
Indices: 56788289--56788360 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
56788279 ATAGTGAATC
*
56788289 CGCACACTTAGTGCTATATATATTCAGCT
1 CGCACACTTAGTGCTATATATATTCAACT
56788318 CGCACACTTAGTGCTATATA-A-TCAAACT
1 CGCACACTTAGTGCTATATATATTC-AACT
56788346 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56788361 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATATTCAACT
Found at i:56788382 original size:30 final size:28
Alignment explanation
Indices: 56788288--56788389 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
56788278 TATAGTGAAT
* *
56788288 CCGCACACTTAGTGCTATATATATTC-AGC
1 CCGCACACTTAGTGCTATACA-A-TCAAAC
* *
56788317 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
56788345 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATACAA--TCAAAC
*
56788375 CCGCACACTCAGTGC
1 CCGCACACTTAGTGC
56788390 CAATCTTGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.37
29 20 0.32
30 18 0.29
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:56792001 original size:27 final size:27
Alignment explanation
Indices: 56791963--56792015 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
56791953 ACCATCAATT
56791963 GCATTATGCATAATTTGAAATAAGTAA
1 GCATTATGCATAATTTGAAATAAGTAA
56791990 GCATTATGCATAATTTGAAATAAGTA
1 GCATTATGCATAATTTGAAATAAGTA
56792016 CCAATTTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (27 bp):
GCATTATGCATAATTTGAAATAAGTAA
Found at i:56796489 original size:20 final size:20
Alignment explanation
Indices: 56796466--56796506 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56796456 ATAACACATA
56796466 TAATAATTTTATTTTATGTT
1 TAATAATTTTATTTTATGTT
56796486 TAATAATTTTATTTTATGTT
1 TAATAATTTTATTTTATGTT
56796506 T
1 T
56796507 TATGATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TAATAATTTTATTTTATGTT
Found at i:56802877 original size:40 final size:40
Alignment explanation
Indices: 56802800--56802974 Score: 264
Period size: 40 Copynumber: 4.4 Consensus size: 40
56802790 AAACCAAGTA
* *
56802800 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
56802839 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56802879 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56802919 CCTTCGGGACTTAGCCCAGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56802959 CCTTTGGGACTTAGCC
1 CCTTCGGGACTTAGCC
56802975 TGGTTATCAT
Statistics
Matches: 125, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56811061 original size:40 final size:40
Alignment explanation
Indices: 56810992--56811208 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
56810982 AAACCAAGTA
* *
56810992 CCTTC-GGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
56811030 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56811070 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56811110 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56811150 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56811190 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56811209 TTATCATCCG
Statistics
Matches: 167, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
38 5 0.03
39 9 0.05
40 153 0.92
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56816506 original size:14 final size:14
Alignment explanation
Indices: 56816487--56816515 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56816477 GGAGACAACC
56816487 TAAAAGTTTATAAT
1 TAAAAGTTTATAAT
56816501 TAAAAGTTTATAAT
1 TAAAAGTTTATAAT
56816515 T
1 T
56816516 CTTCAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (14 bp):
TAAAAGTTTATAAT
Found at i:56817239 original size:27 final size:27
Alignment explanation
Indices: 56817199--56817250 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56817189 AAAAGTGCTT
*
56817199 AAATAAGATAAATAAAGATAAAAGTGA
1 AAATAAGATAAATAAAGAAAAAAGTGA
*
56817226 AAATAAGAGT-AATAAATAAAAAAGT
1 AAATAAGA-TAAATAAAGAAAAAAGT
56817251 TTTTAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.19
Consensus pattern (27 bp):
AAATAAGATAAATAAAGAAAAAAGTGA
Found at i:56830431 original size:40 final size:40
Alignment explanation
Indices: 56830376--56830531 Score: 224
Period size: 40 Copynumber: 3.9 Consensus size: 40
56830366 GGATATAGCT
* * * *
56830376 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATACCTTCGGGACTTAGCCCGGTTATAGTA
* * *
56830416 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATACCTTCGGGACTTAGCCCGGTTATAGTA
*
56830456 ACTGGCACAAATACCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATACCTTCGGGACTTAGCCCGG-TTATAGTA
56830496 ACTCGCACAAATACCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATACCTTCGGGACTTAGCCCGGTTAT
56830532 CATCCAAATA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
39 2 0.02
40 101 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATACCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:56838469 original size:40 final size:40
Alignment explanation
Indices: 56838414--56838528 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 40
56838404 GGATATAGCT
* *
56838414 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTA
* *
56838454 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTAGAGTA
* *
56838494 ACTGGCACAAATACCTTCGGGACTTAGCCCGGTTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA
56838529 TCATCCAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.03
40 62 0.94
41 2 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTA
Found at i:56846510 original size:78 final size:79
Alignment explanation
Indices: 56846404--56846595 Score: 273
Period size: 79 Copynumber: 2.4 Consensus size: 79
56846394 GGATATAGCT
* *
56846404 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCAC-AATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGGACTT
*
56846468 AGCCCGG-ATTAGTA
66 -GCCCGGAACTAGTA
*
56846482 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTAGAGTAACTCGCACAAATGCCTTCGGGACT
*
56846546 TGCCCGGAACTAGTC
65 TGCCCGGAACTAGTA
* * *
56846561 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA
56846596 TCATCCAAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
78 50 0.49
79 52 0.51
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.23
Consensus pattern (79 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAGAGTAACTCGCACAAATGCCTTCGGGACTT
GCCCGGAACTAGTA
Found at i:56846531 original size:40 final size:40
Alignment explanation
Indices: 56846404--56846592 Score: 260
Period size: 39 Copynumber: 4.8 Consensus size: 40
56846394 GGATATAGCT
* * *
56846404 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
56846444 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGA-TTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
56846482 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
56846522 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
56846561 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
56846593 TTATCATCCA
Statistics
Matches: 136, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.09
39 80 0.59
40 44 0.32
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:56854487 original size:40 final size:40
Alignment explanation
Indices: 56854393--56854536 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
56854383 GGTTATAGCT
* * * *
56854393 ACTCGCTCAAATGCCTTCGAGACATAGCCC-G-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
56854432 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
56854472 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
56854512 ACTCACACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTT
56854537 TTAGTAAATC
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
39 26 0.27
40 68 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:56854543 original size:31 final size:31
Alignment explanation
Indices: 56854505--56854567 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
56854495 TTAGCCCGGA
*
56854505 TTTAGTAACTCACACAAATGCCTTCGGGACT
1 TTTAGTAAATCACACAAATGCCTTCGGGACT
* *
56854536 TTTAGTAAATCGCACAAATGCCTTCGGTACT
1 TTTAGTAAATCACACAAATGCCTTCGGGACT
56854567 T
1 T
56854568 GCCCGGAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (31 bp):
TTTAGTAAATCACACAAATGCCTTCGGGACT
Found at i:56859426 original size:19 final size:19
Alignment explanation
Indices: 56859390--56859428 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
56859380 TTTTCATCGT
* *
56859390 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
56859409 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
56859428 A
1 A
56859429 ATAATTAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:56859944 original size:27 final size:27
Alignment explanation
Indices: 56859892--56859971 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
56859882 GTGATAGAGT
*
56859892 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGGGC
*
56859921 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGGGC
56859948 CACCAGAACAGATAATTTGTGGCA
1 CACCAGAACAGAT-ATTTGTGGCA
56859972 TAGCCAACAG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.51
28 16 0.34
29 7 0.15
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGGGC
Found at i:56860118 original size:28 final size:28
Alignment explanation
Indices: 56860075--56860166 Score: 175
Period size: 28 Copynumber: 3.3 Consensus size: 28
56860065 AAATTAACCC
*
56860075 TAGGGGTATAAAGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
56860103 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
56860131 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
56860159 TAGGGGTA
1 TAGGGGTA
56860167 CTCTAGTACA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:56862025 original size:47 final size:47
Alignment explanation
Indices: 56861909--56862113 Score: 239
Period size: 47 Copynumber: 4.5 Consensus size: 47
56861899 AAAAAATGTT
* * * *
56861909 GTGCTAAGTGGATATACCACGATTACACATATTGATACATGTAACATG
1 GTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-TAACGTG
*
56861957 GTGCTAAGTTGATATACCACGGTTACATATATTGATTCATTAACGTG
1 GTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGTG
* *
56862004 GTCCTAAGTGGATATACCACGGTTA-A-ACA-TG------TAACGTG
1 GTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGTG
* ** *
56862042 GTGGTAAGTGGATATGTCACGGTTACATATATTGATTCATTAATGTG
1 GTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGTG
56862089 GTGCTAAGTGGATATACCACGGTTA
1 GTGCTAAGTGGATATACCACGGTTA
56862114 AACATGCAAT
Statistics
Matches: 131, Mismatches: 17, Indels: 19
0.78 0.10 0.11
Matches are distributed among these distances:
38 28 0.21
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 57 0.44
48 36 0.27
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (47 bp):
GTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACGTG
Found at i:56862050 original size:38 final size:38
Alignment explanation
Indices: 56861997--56862158 Score: 126
Period size: 38 Copynumber: 4.0 Consensus size: 38
56861987 ATTGATTCAT
*
56861997 TAACGTGGTCCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* ** *
56862035 TAACGTGGTGGTAAGTGGATATGTCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
56862076 ATTCATTAATGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * * * * *
56862120 CAATGTAGTACTAAGTGGATATGCCACAGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
56862158 T
1 T
56862159 TAATTTGAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
38 60 0.61
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 28 0.29
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:56862090 original size:85 final size:85
Alignment explanation
Indices: 56861945--56862151 Score: 306
Period size: 85 Copynumber: 2.4 Consensus size: 85
56861935 ACATATTGAT
* * *
56861945 ACATGTAACATGGTGCTAAGTTGATATACCACGGTTACATATATTGATTCATTAACGTGGTCCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTCCTA
56862010 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* * * *
56862030 ACATGTAACGTGGTGGTAAGTGGATATGTCACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTCCTA
56862095 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
* * * * *
56862115 ACATGCAATGTAGTACTAAGTGGATATGCCACAGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
56862152 TACATGTTAA
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
85 108 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTCCTA
AGTGGATATACCACGGTTAA
Found at i:56870416 original size:40 final size:40
Alignment explanation
Indices: 56870350--56870516 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
56870340 AAATTGAATG
* * *
56870350 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56870389 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56870429 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
56870469 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
56870509 ATATCCGG
1 ATATCCGG
56870517 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56878415 original size:40 final size:40
Alignment explanation
Indices: 56878349--56878515 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
56878339 AAATTGAATG
* * *
56878349 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56878388 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
56878428 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
56878468 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
56878508 ATATCCGG
1 ATATCCGG
56878516 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56882972 original size:40 final size:40
Alignment explanation
Indices: 56882914--56883081 Score: 166
Period size: 40 Copynumber: 4.2 Consensus size: 40
56882904 AAATTGAATG
* *
56882914 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
*
56882955 -TATCCGGGCTAATACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
56882994 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
* ** *
56883034 ATATCCGGGCTAAGACCGGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
56883074 ATATCCGG
1 ATATCCGG
56883082 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 97 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:56883056 original size:80 final size:79
Alignment explanation
Indices: 56882914--56883081 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 79
56882904 AAATTGAATG
* * *
56882914 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
56882979 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* * *
56882994 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCGGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
56883058 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
56883074 ATATCCGG
1 ATATCCGG
56883082 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.03
80 74 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:56892928 original size:38 final size:40
Alignment explanation
Indices: 56892877--56893209 Score: 192
Period size: 38 Copynumber: 7.7 Consensus size: 40
56892867 TGAAAAAACA
56892877 TGGTGCTAAGTGGATATACCACGGTTATA-CG-TGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATATCGATGTAACG
* *
56892915 TGGTGCTAAGTGGATATACCACGATTACACATATTGATAGATGTAACG
1 TGGTGCTAAGTGGATATACCACG-GT-----TA-T-ATCGATGTAACG
* *
56892963 TGGTGCTAAGTGGATATACCACGATTACACATATTGATAAATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTT----ATATCG----ATGTAACG
* * *
56893011 TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGG-T---TATATCGA-T--GTAACG
* * *
56893058 TGGGGCTAAGTGGATATACCATGGTTA-AAC-ATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATATCGATGTAACG
* * * *
56893096 TGGTGCTAAATGGATATGCCACGGTTACATATATTGATTCATTAACG
1 TGGTGCTAAGTGGATATACCACGG-T---TATATCGA-T--GTAACG
* *
56893143 TGGTGCTAAGTGGATATACCACGATTA-AAC-ATGTAACG
1 TGGTGCTAAGTGGATATACCACGGTTATATCGATGTAACG
* *
56893181 TGGTACTAAGTGGATATGCCACGGTTATA
1 TGGTGCTAAGTGGATATACCACGGTTATA
56893210 CATTTTAATT
Statistics
Matches: 231, Mismatches: 29, Indels: 69
0.70 0.09 0.21
Matches are distributed among these distances:
38 77 0.33
39 3 0.01
40 2 0.01
41 2 0.01
42 5 0.02
43 5 0.02
44 7 0.03
45 4 0.02
46 4 0.02
47 54 0.23
48 66 0.29
49 1 0.00
52 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (40 bp):
TGGTGCTAAGTGGATATACCACGGTTATATCGATGTAACG
Found at i:56892979 original size:48 final size:48
Alignment explanation
Indices: 56892903--56893174 Score: 316
Period size: 48 Copynumber: 5.9 Consensus size: 48
56892893 TACCACGGTT
*
56892903 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
*
56892951 ATAGATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * * *
56892999 ATAAATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * * *
56893047 ATTCAT-TAACGTGGGGCTAAGTGGATATACCATG-GT-----TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* * * *
56893085 A-ACATGTAACGTGGTGCTAAATGGATATGCCACGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
* *
56893132 ATTCAT-TAACGTGGTGCTAAGTGGATATACCACGATTAAACAT
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
56893175 GTAACGTGGT
Statistics
Matches: 189, Mismatches: 24, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
37 3 0.02
38 25 0.13
39 1 0.01
41 2 0.01
44 2 0.01
46 1 0.01
47 58 0.31
48 97 0.51
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (48 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTG
Found at i:56893151 original size:85 final size:85
Alignment explanation
Indices: 56893003--56893207 Score: 365
Period size: 85 Copynumber: 2.4 Consensus size: 85
56892993 ATATTGATAA
56893003 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGGGCTAAG
1 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGGGCTAAG
* *
56893068 TGGATATACCATGGTTAAAC
66 TGGATATACCACGATTAAAC
* *
56893088 ATGTAACGTGGTGCTAAATGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAG
1 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGGGCTAAG
56893153 TGGATATACCACGATTAAAC
66 TGGATATACCACGATTAAAC
*
56893173 ATGTAACGTGGTACTAAGTGGATATGCCACGGTTA
1 ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
56893208 TACATTTTAA
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 114 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (85 bp):
ATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGGGCTAAG
TGGATATACCACGATTAAAC
Found at i:56895176 original size:43 final size:43
Alignment explanation
Indices: 56895126--56895234 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
56895116 CCGGCATTTT
* *
56895126 GCCTGCTAGGCTTGAAGCCCGATATCATTTCA-TCGACATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCATCTCACT-GACATTATA
* * * *
56895169 GTCTGCTAGGCTCGAAGCCCTATATTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATCATCTCACTGACATTATA
*
56895212 GCCTGCTAGGCCCGAAGCCCGAT
1 GCCTGCTAGGCTCGAAGCCCGAT
56895235 GATATTATTC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 55 0.98
44 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCGATATCATCTCACTGACATTATA
Found at i:56902415 original size:22 final size:22
Alignment explanation
Indices: 56902372--56902418 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
56902362 AAATTATGTG
**
56902372 TTTTAATTTATAATGTAATTAA
1 TTTTAATTTATAATCCAATTAA
56902394 TTTTAATTTAT-ATCCAACTTAA
1 TTTTAATTTATAATCCAA-TTAA
56902416 TTT
1 TTT
56902419 GGGTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTAATTTATAATCCAATTAA
Found at i:56905971 original size:41 final size:40
Alignment explanation
Indices: 56905918--56906087 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
56905908 AGTCCGACTC
*
56905918 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
56905957 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
56905997 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
56906042 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
56906081 TTTAGAC
1 -TTAGAC
56906088 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:56914314 original size:41 final size:40
Alignment explanation
Indices: 56914261--56914430 Score: 161
Period size: 41 Copynumber: 4.2 Consensus size: 40
56914251 AGTCCGACTC
*
56914261 TTAG-CACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
* * *
56914300 TTAGACTACTGGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-
1 TTAGAC-ACTGGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGA
* * *
56914340 TTATGACACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTA-GACACTGGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--A
56914385 TTAG-CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
56914424 TTTAGAC
1 -TTAGAC
56914431 CCCGATTAGC
Statistics
Matches: 107, Mismatches: 10, Indels: 26
0.75 0.07 0.18
Matches are distributed among these distances:
39 5 0.05
40 18 0.17
41 51 0.48
42 19 0.18
43 10 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGACACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGA
Found at i:56921817 original size:44 final size:44
Alignment explanation
Indices: 56921758--56921844 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 44
56921748 AACATATAAG
* *
56921758 TATGCCATAAATTCAAATTAGCT-AAATGCATATATAGATAATAT
1 TATGCCACAAATTCAAATT-GCTCAAATGCACATATAGATAATAT
* * *
56921802 TATGCCACAATTTCAAATTGGTCGAATGCACATATAGATAATA
1 TATGCCACAAATTCAAATTGCTCAAATGCACATATAGATAATA
56921845 ACATAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (44 bp):
TATGCCACAAATTCAAATTGCTCAAATGCACATATAGATAATAT
Found at i:56922203 original size:56 final size:55
Alignment explanation
Indices: 56922111--56922242 Score: 183
Period size: 56 Copynumber: 2.4 Consensus size: 55
56922101 CATAAATTAG
* * * *
56922111 AATCCCATATTGATGTCAACTAATAAACGTAGTCTTACTCGCACACATATATCGA
1 AATCACATATCGATGCCAACTAATAAACATAGTCTTACTCGCACACATATATCGA
* * *
56922166 AATCACATATCGATGCCAACATATTAAACATGGTCTTACTTGCACACATATATCGA
1 AATCACATATCGATGCCAAC-TAATAAACATAGTCTTACTCGCACACATATATCGA
*
56922222 AACCACATATCGATGCCAACT
1 AATCACATATCGATGCCAACT
56922243 GTAACACCCA
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 18 0.26
56 50 0.74
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (55 bp):
AATCACATATCGATGCCAACTAATAAACATAGTCTTACTCGCACACATATATCGA
Found at i:56924284 original size:35 final size:35
Alignment explanation
Indices: 56924245--56924314 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
56924235 GTAGCCTGCA
56924245 CTTAGTACTACACACCTGACTTAACAATTTGATAC
1 CTTAGTACTACACACCTGACTTAACAATTTGATAC
*
56924280 CTTAGTACTACACACCTGACTTAACCATTTGATAC
1 CTTAGTACTACACACCTGACTTAACAATTTGATAC
56924315 ACGTAGTAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (35 bp):
CTTAGTACTACACACCTGACTTAACAATTTGATAC
Found at i:56924466 original size:50 final size:50
Alignment explanation
Indices: 56924280--56924599 Score: 224
Period size: 50 Copynumber: 6.4 Consensus size: 50
56924270 AATTTGATAC
* * *
56924280 CTTAGTACTACACACCTGACTTAACCATTTGATACACGTAGTAGCCTGCA
1 CTTAGTACTACACACGTGACTTAACAATCTGATACACGTAGTAGCCTGCA
** * * * * * *
56924330 CTTTCTACTTCACACGTGA-TCGAAGTTAA-CTGGTACGCATAGTAGCCTGCA
1 CTTAGTACTACACACGTGACT-TAA--CAATCTGATACACGTAGTAGCCTGCA
* * * * *
56924381 CTT-GTACTACACATGCGACCTATCAATCT-AGTACACGTAGTAGCTTGCA
1 CTTAGTACTACACACGTGACTTAACAATCTGA-TACACGTAGTAGCCTGCA
* *
56924430 CTTAGTACTACACACGTGACTTAACCATCTGATACAC--AGCAGCCTGCA
1 CTTAGTACTACACACGTGACTTAACAATCTGATACACGTAGTAGCCTGCA
* * * * * *
56924478 CTTAGTACTACAAACGTGA-TTGAAGTTAA-CAGGTACACATAGTAGCCTGGA
1 CTTAGTACTACACACGTGACTT-AA--CAATCTGATACACGTAGTAGCCTGCA
* *** * * * * *
56924529 CTTAGTACTACATATAAGACCTATCAATTTGGTACATGTAGTAGCCTGCA
1 CTTAGTACTACACACGTGACTTAACAATCTGATACACGTAGTAGCCTGCA
56924579 CTTAGTACTACACACGTGACT
1 CTTAGTACTACACACGTGACT
56924600 CACAACGGAT
Statistics
Matches: 201, Mismatches: 54, Indels: 30
0.71 0.19 0.11
Matches are distributed among these distances:
47 2 0.01
48 31 0.15
49 30 0.15
50 89 0.44
51 47 0.23
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
CTTAGTACTACACACGTGACTTAACAATCTGATACACGTAGTAGCCTGCA
Found at i:56924586 original size:149 final size:149
Alignment explanation
Indices: 56924280--56924599 Score: 453
Period size: 149 Copynumber: 2.1 Consensus size: 149
56924270 AATTTGATAC
* * * * * *
56924280 CTTAGTACTACACACCTGACTTAACCATTTGATACACGTAGTAGCCTGCACTTTCTACTTCACAC
1 CTTAGTACTACACACGTGACTTAACCATCTGATACACG-AGCAGCCTGCACTTACTACTACAAAC
* * **
56924345 GTGATCGAAGTTAACTGGTACGCATAGTAGCCTGCACTTGTACTACACATGCGACCTATCAATCT
65 GTGATCGAAGTTAACAGGTACACATAGTAGCCTGCACTTGTACTACACATAAGACCTATCAATCT
*
56924410 AGTACACGTAGTAGCTTGCA
130 AGTACACGTAGTAGCCTGCA
*
56924430 CTTAGTACTACACACGTGACTTAACCATCTGATACAC-AGCAGCCTGCACTTAGTACTACAAACG
1 CTTAGTACTACACACGTGACTTAACCATCTGATACACGAGCAGCCTGCACTTACTACTACAAACG
* * * *
56924494 TGATTGAAGTTAACAGGTACACATAGTAGCCTGGACTTAGTACTACATATAAGACCTATCAATTT
66 TGATCGAAGTTAACAGGTACACATAGTAGCCTGCACTT-GTACTACACATAAGACCTATCAATCT
* *
56924559 GGTACATGTAGTAGCCTGCA
130 AGTACACGTAGTAGCCTGCA
56924579 CTTAGTACTACACACGTGACT
1 CTTAGTACTACACACGTGACT
56924600 CACAACGGAT
Statistics
Matches: 151, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
148 56 0.37
149 60 0.40
150 35 0.23
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (149 bp):
CTTAGTACTACACACGTGACTTAACCATCTGATACACGAGCAGCCTGCACTTACTACTACAAACG
TGATCGAAGTTAACAGGTACACATAGTAGCCTGCACTTGTACTACACATAAGACCTATCAATCTA
GTACACGTAGTAGCCTGCA
Found at i:56924975 original size:19 final size:20
Alignment explanation
Indices: 56924947--56924993 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
56924937 AAGAACATGT
56924947 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
56924968 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
56924987 TATATAT
1 TATATAT
56924994 ACTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:56931226 original size:50 final size:50
Alignment explanation
Indices: 56931103--56931335 Score: 213
Period size: 50 Copynumber: 4.7 Consensus size: 50
56931093 CTGGTACGCA
* * * * *
56931103 TAGTAGCCTGCACTTAGCACTACACATGTGACCTATCAATCTGGTACAC-
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* * *
56931152 TAATAGCCTGTACTTAGTACTACACACGTGACTTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
* * ** * * *
56931202 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCGAAGTTAA-AGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT-TAA--CAATCTGATACACG
* * * * *
56931253 TGGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT-AGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGA-TACACG
*
56931303 TAGTAGCCTGCATTTAGTACTACACACGTGACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACT
56931336 CACAACGGTT
Statistics
Matches: 142, Mismatches: 35, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
49 44 0.31
50 63 0.44
51 34 0.24
52 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAATCTGATACACG
Found at i:56938675 original size:16 final size:15
Alignment explanation
Indices: 56938627--56938676 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
56938617 ATAAAAAAAG
56938627 ATTATAA-T-TATTA
1 ATTATAATTATATTA
**
56938640 ATATATAATTATATCC
1 AT-TATAATTATATTA
56938656 ATTATAATATATATTA
1 ATTATAAT-TATATTA
56938672 ATTAT
1 ATTAT
56938677 TATCAACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 7 0.24
16 15 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTATATTA
Found at i:56939436 original size:25 final size:26
Alignment explanation
Indices: 56939377--56939437 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
56939367 AAATTTTCTC
* *
56939377 TTAAAATTTTAATCTTATTTAATCAT
1 TTAATATTTTAATCTTATTGAATCAT
*
56939403 TTAAT-TTTTCAAT-TTATTGAATTA-
1 TTAATATTTT-AATCTTATTGAATCAT
56939427 TTAATATTTTA
1 TTAATATTTTA
56939438 TACTAATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 6 0.20
25 17 0.57
26 7 0.23
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (26 bp):
TTAATATTTTAATCTTATTGAATCAT
Found at i:56946125 original size:46 final size:45
Alignment explanation
Indices: 56946075--56946250 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
56946065 TGTTTGGGCA
56946075 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
56946121 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
56946168 TCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * **
56946214 CCCGAGCTCGTTGAGTTGAGTCTAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56946251 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56946242 original size:93 final size:93
Alignment explanation
Indices: 56946071--56946242 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
56946061 AGGATGTTTG
* *
56946071 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
56946136 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
*
56946164 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGA
*
56946228 GTTGAGTCTAAGTTC
65 GTTGAGTCCAAGTTC
56946243 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:56955518 original size:22 final size:22
Alignment explanation
Indices: 56955493--56955568 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
56955483 AGATATGTAT
56955493 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
56955515 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
56955539 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
56955562 ATGTGAT
1 ATGTGAT
56955569 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:56955543 original size:47 final size:47
Alignment explanation
Indices: 56955490--56955792 Score: 437
Period size: 47 Copynumber: 6.3 Consensus size: 47
56955480 ACAAGATATG
56955490 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
56955537 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * *
56955584 TACATGTGATAAGGTCGAGTGACCAACGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
56955631 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
**
56955678 TATATGGATAAGACCTAATGGCC-AATGTGATGAATGTGATGAATGTGAAAGTGTA
1 TATAT-G-T--GA--TAA-GGCCGAATG-G-CCAATGTGATGAATGTGAAAGTGTA
*
56955733 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
56955780 TAAATGTGATAAG
1 TATATGTGATAAG
56955793 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 16, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
47 170 0.74
48 6 0.03
49 8 0.03
51 4 0.02
53 8 0.03
54 6 0.03
55 28 0.12
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:56955715 original size:9 final size:9
Alignment explanation
Indices: 56955701--56955725 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
56955691 CCTAATGGCC
56955701 AATGTGATG
1 AATGTGATG
56955710 AATGTGATG
1 AATGTGATG
56955719 AATGTGA
1 AATGTGA
56955726 AAGTGTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (9 bp):
AATGTGATG
Found at i:56955771 original size:56 final size:55
Alignment explanation
Indices: 56955655--56955772 Score: 200
Period size: 56 Copynumber: 2.1 Consensus size: 55
56955645 CCGAATGGCC
*
56955655 AATGTGATGAATGTGAAAGTGTATATATGGATAAGACCTAATGGCCAATGTGATG
1 AATGTGATGAATGTGAAAGTGTATATATGGATAAGACCGAATGGCCAATGTGATG
*
56955710 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGATGAATGTGAAAGTGTATATATG-GATAAGACCGAATGGCCAATGTGATG
*
56955766 GATGTGA
1 AATGTGA
56955773 AAGTGTATAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
55 29 0.49
56 30 0.51
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.29
Consensus pattern (55 bp):
AATGTGATGAATGTGAAAGTGTATATATGGATAAGACCGAATGGCCAATGTGATG
Found at i:56958411 original size:40 final size:40
Alignment explanation
Indices: 56958356--56958517 Score: 180
Period size: 40 Copynumber: 4.0 Consensus size: 40
56958346 AGGTCTCGAC
*
56958356 GATGTATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
56958396 GATGTGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* ** ** * *
56958436 GATATATCCATGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
56958476 GTTATATCCGTGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
56958516 GA
1 GA
56958518 CGTGTATTCG
Statistics
Matches: 104, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:56961612 original size:25 final size:24
Alignment explanation
Indices: 56961582--56961661 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
56961572 GCCGAATGGC
56961582 AATGTGATGAATGTGAAAGTGTAT
1 AATGTGATGAATGTGAAAGTGTAT
* * ***
56961606 ATATGTGAT-AAGGCCG-AA-TGGCC
1 A-ATGTGATGAATG-TGAAAGTGTAT
56961629 AATGTGATGAATGTGAAAGTGTAT
1 AATGTGATGAATGTGAAAGTGTAT
56961653 ACATGTGAT
1 A-ATGTGAT
56961662 AGGGTCGAGT
Statistics
Matches: 40, Mismatches: 10, Indels: 11
0.66 0.16 0.18
Matches are distributed among these distances:
22 8 0.20
23 8 0.20
24 9 0.22
25 15 0.38
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (24 bp):
AATGTGATGAATGTGAAAGTGTAT
Found at i:56961650 original size:47 final size:47
Alignment explanation
Indices: 56961559--56961837 Score: 335
Period size: 47 Copynumber: 6.0 Consensus size: 47
56961549 ATGTAAAATG
56961559 TATATGTGATAAGGCCGAATGG-CAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
56961605 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
56961652 TACATGTGATAGGGTCGAGTGACCAACGTGATGAAT-TGAAAGTG--
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
56961696 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* **
56961741 T-TATGAGATAA-G-ATAATGG-CAATGTGATGATTGATGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAA--TG-TGA-TGA--ATGTGAAAGTGTA
* *
56961790 TATATGTGATAAGGCCGAATGGCCGATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
56961837 T
1 T
56961838 GTGATAAGTC
Statistics
Matches: 197, Mismatches: 20, Indels: 31
0.79 0.08 0.12
Matches are distributed among these distances:
41 3 0.02
42 5 0.03
43 4 0.02
44 42 0.21
45 9 0.05
46 30 0.15
47 76 0.39
49 6 0.03
50 12 0.06
51 3 0.02
52 5 0.03
53 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:56961790 original size:138 final size:137
Alignment explanation
Indices: 56961548--56961856 Score: 357
Period size: 138 Copynumber: 2.3 Consensus size: 137
56961538 GATGAATTGA
* *
56961548 AATGT-AAAATGTATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAAAGTGTATATATGT
1 AATGTGAAAGTGTATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAAAG-GTATATATGA
* * * *
56961612 GATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATACATGTGATAGGGTCGAGTGACCA
65 GATAAGGCAGAATGGCCAATGTGATGAATGTGAAAGTGTATACATGTGATAAGGCCGAATGACCA
56961677 ACGTGATG
130 ACGTGATG
56961685 AAT-TGAAAGTGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA-GTAT-TATGA
1 AATGTGAAAGTGTATATGTGATAAGGCCGAATGG-CAATGTGATGAATGTGAAAGGTATATATGA
* *
56961747 GATAA-G-ATAATGG-CAATGTGATGATTGATGATGTGAAAGTGTATATATGTGATAAGGCCGAA
65 GATAAGGCAGAATGGCCAA--TG-TGA-TGA--ATGTGAAAGTGTATACATGTGATAAGGCCGAA
* * *
56961809 TGGCCGATGTGATG
124 TGACCAACGTGATG
* * *
56961823 GATGTGAAAGTG--TATGTGATAAGTCCGAAGGGCA
1 AATGTGAAAGTGTATATGTGATAAGGCCGAATGGCA
56961857 TTTGTGTCAG
Statistics
Matches: 149, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
132 3 0.02
133 5 0.03
134 3 0.02
135 12 0.08
136 10 0.07
137 48 0.32
138 60 0.40
139 8 0.05
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (137 bp):
AATGTGAAAGTGTATATGTGATAAGGCCGAATGGCAATGTGATGAATGTGAAAGGTATATATGAG
ATAAGGCAGAATGGCCAATGTGATGAATGTGAAAGTGTATACATGTGATAAGGCCGAATGACCAA
CGTGATG
Found at i:56966261 original size:40 final size:40
Alignment explanation
Indices: 56966206--56966347 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
56966196 TATTCGGATG
* *
56966206 ATATCCGGGCTAAGTCCTGAAGGCATTTGTTCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
56966246 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
56966286 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
56966326 ATATCC-GGCTAATTCTCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
56966348 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.14
40 80 0.84
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:56969175 original size:42 final size:42
Alignment explanation
Indices: 56969129--56969216 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
56969119 TCATATTTGT
56969129 AATC-AATACCGATG-CCACTGTCCCAGACAGGGTCTTACACGA
1 AATCAAATA-CGATGTCCA-TGTCCCAGACAGGGTCTTACACGA
* * *
56969171 AATCAAATACGATGTCGATGTCCCAGACATGGTCTTACACGT
1 AATCAAATACGATGTCCATGTCCCAGACAGGGTCTTACACGA
56969213 AATC
1 AATC
56969217 TCTAATCAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
42 35 0.85
43 6 0.15
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
AATCAAATACGATGTCCATGTCCCAGACAGGGTCTTACACGA
Found at i:56971375 original size:75 final size:75
Alignment explanation
Indices: 56971252--56971392 Score: 273
Period size: 75 Copynumber: 1.9 Consensus size: 75
56971242 TGCTTGCAAC
56971252 TTACTATCATTTTTCTGAGCTTCAGAAATCTGTTGTAAAAACAATGGTGTAGCTTTTAACTCAGC
1 TTACTATCATTTTTCTGAGCTTCAGAAATCTGTTGTAAAAACAATGGTGTAGCTTTTAACTCAGC
56971317 TCTGTAACCG
66 TCTGTAACCG
*
56971327 TTACTCTCATTTTTCTGAGCTTCAGAAATCTGTTGTAAAAACAATGGTGTAGCTTTTAACTCAGC
1 TTACTATCATTTTTCTGAGCTTCAGAAATCTGTTGTAAAAACAATGGTGTAGCTTTTAACTCAGC
56971392 T
66 T
56971393 ATGATTGAAC
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
75 65 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (75 bp):
TTACTATCATTTTTCTGAGCTTCAGAAATCTGTTGTAAAAACAATGGTGTAGCTTTTAACTCAGC
TCTGTAACCG
Found at i:56974781 original size:40 final size:39
Alignment explanation
Indices: 56974621--56974783 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
56974611 TGTGTATGAA
*
56974621 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
56974660 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56974699 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56974738 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
56974778 TGTGCG
1 TGTGCG
56974784 GGTTACCATA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56974799 original size:40 final size:39
Alignment explanation
Indices: 56974621--56974814 Score: 253
Period size: 39 Copynumber: 4.9 Consensus size: 39
56974611 TGTGTATGAA
* *
56974621 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
56974660 TGTGCGAGTTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
56974699 GGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
56974738 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
56974778 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGC
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGC
56974815 GTTTGAACGA
Statistics
Matches: 138, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 97 0.70
40 41 0.30
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:56983594 original size:40 final size:40
Alignment explanation
Indices: 56983549--56983716 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
56983539 CGGAATATAA
56983549 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56983589 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
56983629 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
56983669 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
56983709 CCGGATAT
1 CCGGATAT
56983717 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56991842 original size:40 final size:40
Alignment explanation
Indices: 56991764--56991987 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
56991754 ACCCAAGTAT
* *
56991764 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
56991803 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
56991843 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
56991883 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
56991926 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
56991966 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
56991988 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:56991960 original size:83 final size:80
Alignment explanation
Indices: 56991764--56991987 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
56991754 ACCCAAGTAT
* * * *
56991764 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
56991828 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
56991843 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
56991907 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
56991926 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
56991988 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:56994703 original size:16 final size:18
Alignment explanation
Indices: 56994667--56994703 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
56994657 AAAAGTGTTA
56994667 GAAAAGCTTTGATTAATT
1 GAAAAGCTTTGATTAATT
*
56994685 GAAAA-CTTTG-TTGATT
1 GAAAAGCTTTGATTAATT
56994701 GAA
1 GAA
56994704 GCTCCAGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 8 0.44
17 5 0.28
18 5 0.28
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (18 bp):
GAAAAGCTTTGATTAATT
Found at i:56996808 original size:21 final size:20
Alignment explanation
Indices: 56996770--56996809 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
56996760 TAATCGCGTA
*
56996770 AATTGTAAAAGTGGTCTTTT
1 AATTGTAAAAGTGCTCTTTT
*
56996790 AATTGTTAAAGTGCCTCTTT
1 AATTGTAAAAGTG-CTCTTT
56996810 GTAAATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (20 bp):
AATTGTAAAAGTGCTCTTTT
Found at i:56997890 original size:44 final size:42
Alignment explanation
Indices: 56997840--56997974 Score: 128
Period size: 43 Copynumber: 3.1 Consensus size: 42
56997830 TATGGGATGT
56997840 TGGCATCG-ACTTATGAGTTACATGTAAGACCATGTCTGGCACAA
1 TGGCATCGTA-TT-TGA-TTACATGTAAGACCATGTCTGGCACAA
* * * * *
56997884 TGGCATCGTATTTGATTTCGTGTAAGACCTTGTCTGGGACAG
1 TGGCATCGTATTTGATTACATGTAAGACCATGTCTGGCACAA
* * * * * *
56997926 TGGCATCAATATTTGATTACACGTTAGACCATGTTTGGGACAT
1 TGGCATC-GTATTTGATTACATGTAAGACCATGTCTGGCACAA
56997969 TGGCAT
1 TGGCAT
56997975 TGTACAAGCT
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.38
43 36 0.47
44 10 0.13
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TGGCATCGTATTTGATTACATGTAAGACCATGTCTGGCACAA
Found at i:56997918 original size:42 final size:43
Alignment explanation
Indices: 56997862--56997943 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
56997852 ATGAGTTACA
*
56997862 TGTAAGACCATGTCTGGCACAATGGCATC-GTATTTGATTTCG
1 TGTAAGACCATGTCTGGCACAATGGCATCAATATTTGATTTCG
* * *
56997904 TGTAAGACCTTGTCTGGGACAGTGGCATCAATATTTGATT
1 TGTAAGACCATGTCTGGCACAATGGCATCAATATTTGATT
56997944 ACACGTTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGCACAATGGCATCAATATTTGATTTCG
Found at i:56997955 original size:43 final size:42
Alignment explanation
Indices: 56997857--56997974 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 42
56997847 GACTTATGAG
* *
56997857 TTACATGTAAGACCATGTCTGGCACAATGGCATCGTATTTGA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATCATATTTGA
* * * *
56997899 TTTCGTGTAAGACCTTGTCTGGGACAGTGGCATCAATATTTGA
1 TTACATGTAAGACCATGTCTGGGACAATGGCATC-ATATTTGA
* * * *
56997942 TTACACGTTAGACCATGTTTGGGACATTGGCAT
1 TTACATGTAAGACCATGTCTGGGACAATGGCAT
56997975 TGTACAAGCT
Statistics
Matches: 62, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACAATGGCATCATATTTGA
Found at i:57001025 original size:30 final size:30
Alignment explanation
Indices: 57000970--57001129 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
57000960 ATAGTGAATC
57000970 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
57000999 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
57001029 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
* *
57001058 CGCACACTTAGTGCTGTATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
57001086 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
57001116 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57001130 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 47 0.39
30 47 0.39
31 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:57001062 original size:59 final size:57
Alignment explanation
Indices: 57000970--57001129 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 57
57000960 ATAGTGAATC
*
57000970 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
*
57001029 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTGTATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
57001086 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
57001130 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 49 0.53
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:57004943 original size:47 final size:47
Alignment explanation
Indices: 57004890--57005114 Score: 308
Period size: 47 Copynumber: 4.7 Consensus size: 47
57004880 TTAGGATTTT
* * *
57004890 ATGTGATGAATGTGAAAGTCTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
57004937 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* *
57004984 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCA
*
57005033 ATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGACCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CCGAATGGCCA
* * * *
57005080 ACGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
57005115 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
46 3 0.02
47 114 0.70
48 2 0.01
49 43 0.27
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:57005021 original size:96 final size:95
Alignment explanation
Indices: 57004890--57005114 Score: 305
Period size: 96 Copynumber: 2.4 Consensus size: 95
57004880 TTAGGATTTT
* * * **
57004890 ATGTGATGAATGTGAA-AGTCTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAGTGTATATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAA
* *
57004954 GTGTATATATGTGATAAGG-CCTAATGGCCG
66 GTGTATATATGTGAT-AGGACCGAATGGCCA
57004984 ATGTGATGAATGTGAAGGTGTATATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAA-GTGTATATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAA
*
57005049 AGTGTATATATGTGATAGGACCGAGTGGCCA
65 AGTGTATATATGTGATAGGACCGAATGGCCA
* *
57005080 ACGTGATGGATGTGGAAGTGTATA-A-ATGTGATAAG
1 ATGTGATGAATGT-GAAGTGTATATATATGTGATAAG
57005115 TCCCGAAGGG
Statistics
Matches: 117, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
94 26 0.22
95 4 0.03
96 84 0.72
97 3 0.03
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (95 bp):
ATGTGATGAATGTGAAGTGTATATATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAA
GTGTATATATGTGATAGGACCGAATGGCCA
Found at i:57011335 original size:37 final size:37
Alignment explanation
Indices: 57011271--57011346 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
57011261 TTACAAGCCA
57011271 AAATCATTATAAGCCACATCTCATGGCTACAT-ACAAC
1 AAATCATTATAAGCCACATCTCATGGCTA-ATCACAAC
*
57011308 AAATCATTATAAGCCA-ATACAT-TTGGCTAATCACAAC
1 AAATCATTATAAGCCACAT-C-TCATGGCTAATCACAAC
57011345 AA
1 AA
57011347 CTTTGATCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
36 4 0.11
37 30 0.86
38 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (37 bp):
AAATCATTATAAGCCACATCTCATGGCTAATCACAAC
Found at i:57014132 original size:27 final size:27
Alignment explanation
Indices: 57014098--57014324 Score: 292
Period size: 27 Copynumber: 8.4 Consensus size: 27
57014088 GTGATAAGTT
*
57014098 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
57014125 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
57014152 GTAGAATTATTGAAATACCCATGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
57014179 GTAGAATTAATGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
57014206 ATAGAATTACTGAAATACCTCTGTAGA
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
57014233 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
57014260 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
57014287 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
57014314 GTAAAATTACC
1 GTAGAATTACC
57014325 ATTTTGCCCC
Statistics
Matches: 177, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 177 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:57015072 original size:27 final size:27
Alignment explanation
Indices: 57015042--57015094 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
57015032 CCTCGCTGCA
*
57015042 ATCTGGTGGCCTAGCCACAATATCTGT
1 ATCTGGTGACCTAGCCACAATATCTGT
* * *
57015069 ATCTGGTGACTTTGTCACAATATCTG
1 ATCTGGTGACCTAGCCACAATATCTG
57015095 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
ATCTGGTGACCTAGCCACAATATCTGT
Found at i:57015074 original size:67 final size:67
Alignment explanation
Indices: 57014957--57015110 Score: 265
Period size: 67 Copynumber: 2.3 Consensus size: 67
57014947 GAGGAAGCGT
*
57014957 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAA
57015022 TA
66 TA
* *
57015024 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTTGTCACA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTAGCCACATATATCTGT-TCTGGTGACTTCGTCACA
57015088 ATA
65 ATA
57015091 TCTGGCAGCCTCGCTGCAAT
1 TCTGGCAGCCTCGCTGCAAT
57015111 TTCTGTGGTG
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
66 8 0.10
67 75 0.90
ACGTcount: A:0.19, C:0.29, G:0.22, T:0.29
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTAGCCTAGCCACATATATCTGTTCTGGTGACTTCGTCACAA
TA
Found at i:57017150 original size:20 final size:18
Alignment explanation
Indices: 57017119--57017159 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 18
57017109 TATATATATA
57017119 TATTATATTATTAATTGAT
1 TATTATATTATTAATTG-T
57017138 TATTATAATTATTAATTGT
1 TATTAT-ATTATTAATTGT
57017157 TAT
1 TAT
57017160 GGTTTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TATTATATTATTAATTGT
Found at i:57017723 original size:23 final size:24
Alignment explanation
Indices: 57017689--57017735 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
57017679 TTGAAAATAG
*
57017689 GGGAGAAGAAAGAGAAA-GAAAAA
1 GGGAGAAGAAAGAAAAAGGAAAAA
57017712 GGGA-AAGAAAAGAAAAAGGAAAAA
1 GGGAGAAG-AAAGAAAAAGGAAAAA
57017736 CTAGAGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 12 0.57
24 6 0.29
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
GGGAGAAGAAAGAAAAAGGAAAAA
Found at i:57017725 original size:17 final size:18
Alignment explanation
Indices: 57017696--57017730 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
57017686 TAGGGGAGAA
57017696 GAAAGAGAAAGAAAAAGG
1 GAAAGAGAAAGAAAAAGG
57017714 GAAAGA-AAAGAAAAAGG
1 GAAAGAGAAAGAAAAAGG
57017731 AAAAACTAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAAAGAGAAAGAAAAAGG
Found at i:57018790 original size:45 final size:45
Alignment explanation
Indices: 57018719--57018829 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 45
57018709 CGACTGCTGT
*
57018719 TACTGTTACCGTTACTGTTACTGATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
57018764 TACTATTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
**
57018809 TACTGTTATTGTTACTGTTAC
1 TACTGTTACCGTTACTGTTAC
57018830 TGTTACTGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:57020629 original size:56 final size:56
Alignment explanation
Indices: 57020556--57020676 Score: 154
Period size: 56 Copynumber: 2.2 Consensus size: 56
57020546 CCATTAATCG
* *
57020556 TGGTCTTACTCGTACACACATATC-AGAATCACATATCAATGCCAATGTATTAAACA
1 TGGTCTTACTCGCACACACATATCGA-AATCACATATCAATGCCAACGTATTAAACA
* * * * *
57020612 TGGTCTTACTTGCACACATATATCGAAATTACATATCGATGCCAACGTATTAAACG
1 TGGTCTTACTCGCACACACATATCGAAATCACATATCAATGCCAACGTATTAAACA
*
57020668 TAGTCTTAC
1 TGGTCTTAC
57020677 ATGTAATCAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
56 55 0.98
57 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (56 bp):
TGGTCTTACTCGCACACACATATCGAAATCACATATCAATGCCAACGTATTAAACA
Found at i:57020691 original size:56 final size:57
Alignment explanation
Indices: 57020569--57020693 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 57
57020559 TCTTACTCGT
* * *
57020569 ACACACATATC-AGAATCACATATCAATGCCAATGTATTAAACATGGTCTTACTTGC
1 ACACACATATCGAGAATCACATATCAATGCCAACGTATTAAACATAGTCTTACATGC
* * * * *
57020625 ACACATATATCGA-AATTACATATCGATGCCAACGTATTAAACGTAGTCTTACATGT
1 ACACACATATCGAGAATCACATATCAATGCCAACGTATTAAACATAGTCTTACATGC
57020681 A-ATCACATATCGA
1 ACA-CACATATCGA
57020694 TGCCAATGTC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
55 1 0.02
56 56 0.97
57 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (57 bp):
ACACACATATCGAGAATCACATATCAATGCCAACGTATTAAACATAGTCTTACATGC
Found at i:57020717 original size:43 final size:43
Alignment explanation
Indices: 57020670--57020880 Score: 264
Period size: 43 Copynumber: 4.9 Consensus size: 43
57020660 ATTAAACGTA
*
57020670 GTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACATG
1 GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACATG
* * * * *
57020713 GTCTTACACG-AGAACACATATCGTTGCCACTATCCCAGACAGG
1 GTCTTACACGTA-ATCACATATCGATGCCAATGTCCCAGACATG
*
57020756 GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACGTG
1 GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACATG
* * * * * *
57020799 GTCTTACATGTAATCACATATCAATGTCACTGTCCAAGACAAG
1 GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACATG
*
57020842 GTCTTACACGTAATCACATATTGATGCCAACT-TCCCAGA
1 GTCTTACACGTAATCACATATCGATGCCAA-TGTCCCAGA
57020881 TGTAGTGTAA
Statistics
Matches: 140, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 137 0.98
44 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACATG
Found at i:57020787 original size:86 final size:86
Alignment explanation
Indices: 57020670--57020880 Score: 291
Period size: 86 Copynumber: 2.5 Consensus size: 86
57020660 ATTAAACGTA
*
57020670 GTCTTACATGTAATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AGAACACATAT
1 GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGTA-AACACATAT
** * *
57020734 CGTTGCCACTATCCCAGACAGG
65 CAATGCCACTATCCAAGACAAG
* * *
57020756 GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATC
1 GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATATC
* *
57020821 AATGTCACTGTCCAAGACAAG
66 AATGCCACTATCCAAGACAAG
*
57020842 GTCTTACACGTAATCACATATTGATGCCAACT-TCCCAGA
1 GTCTTACACGTAATCACATATCGATGCCAA-TGTCCCAGA
57020881 TGTAGTGTAA
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
86 110 0.98
87 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (86 bp):
GTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACATGGTCTTACACGTAAACACATATC
AATGCCACTATCCAAGACAAG
Found at i:57020878 original size:129 final size:129
Alignment explanation
Indices: 57020642--57020880 Score: 320
Period size: 129 Copynumber: 1.9 Consensus size: 129
57020632 TATCGAAATT
** * *
57020642 ACATATCGATGCCAACGTATTAAACGTAGTCTTACATGTAATCACATATCGATGCCAATGTCCCA
1 ACATATCGATGCCAACGTACCAAACGTAGTCTTACATGTAATCACATATCAATGCCAATGTCCAA
* *
57020707 GACATGGTCTTACACGAGAACACATATCGTTGCCACTATCCCAGACAGGGTCTTACACGTAATC
66 GACAAGGTCTTACACGAGAACACATATCGATGCCACTATCCCAGACAGGGTCTTACACGTAATC
* * * * * *
57020771 ACATATCGATGCCAATGTCCCAGACGTGGTCTTACATGTAATCACATATCAATGTCACTGTCCAA
1 ACATATCGATGCCAACGTACCAAACGTAGTCTTACATGTAATCACATATCAATGCCAATGTCCAA
* *
57020836 GACAAGGTCTTACACGTA-ATCACATATTGATGCCAACT-TCCCAGA
66 GACAAGGTCTTACACG-AGAACACATATCGATGCC-ACTATCCCAGA
57020881 TGTAGTGTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
129 90 0.96
130 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (129 bp):
ACATATCGATGCCAACGTACCAAACGTAGTCTTACATGTAATCACATATCAATGCCAATGTCCAA
GACAAGGTCTTACACGAGAACACATATCGATGCCACTATCCCAGACAGGGTCTTACACGTAATC
Found at i:57026047 original size:21 final size:21
Alignment explanation
Indices: 57026010--57026082 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
57026000 TCTACTGCCA
*
57026010 TCGCTGCT-CCTCTGCCTCCC
1 TCGCTGCTACCGCTGCCTCCC
57026030 TCGCTGCTACCGCTGCCTCCC
1 TCGCTGCTACCGCTGCCTCCC
* *
57026051 TCGCTGCTTCCGTTGCCTCCC
1 TCGCTGCTACCGCTGCCTCCC
*
57026072 TCTCTGCTACC
1 TCGCTGCTACC
57026083 TCGCTCTAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 8 0.17
21 39 0.83
ACGTcount: A:0.03, C:0.51, G:0.16, T:0.30
Consensus pattern (21 bp):
TCGCTGCTACCGCTGCCTCCC
Found at i:57026519 original size:13 final size:14
Alignment explanation
Indices: 57026493--57026521 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
57026483 ACTAATGACG
57026493 AATTAAACCATTAT
1 AATTAAACCATTAT
57026507 AATTAAA-CATTAT
1 AATTAAACCATTAT
57026520 AA
1 AA
57026522 ATATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:57034286 original size:9 final size:9
Alignment explanation
Indices: 57034272--57034415 Score: 68
Period size: 9 Copynumber: 16.0 Consensus size: 9
57034262 TAACTATAAT
57034272 TAAGTTATG
1 TAAGTTATG
*
57034281 TAAGTTTTG
1 TAAGTTATG
* * *
57034290 ATATGATATA
1 -TAAGTTATG
*
57034300 T-ATTTATG
1 TAAGTTATG
57034308 T-A-TTATG
1 TAAGTTATG
57034315 TAAGTTATG
1 TAAGTTATG
*
57034324 TAAATTATG
1 TAAGTTATG
57034333 TAAGTTATCCG
1 TAAGTTAT--G
57034344 -AA-TTATG
1 TAAGTTATG
*
57034351 TAAATTATG
1 TAAGTTATG
*
57034360 TAAGATATGATA
1 TAAG-T-T-ATG
*
57034372 TATATTTATG
1 TA-AGTTATG
*
57034382 T-A-TAATG
1 TAAGTTATG
57034389 TAAGTTATG
1 TAAGTTATG
*
57034398 TAAATTATG
1 TAAGTTATG
*
57034407 TAAGATATG
1 TAAGTTATG
57034416 ATATCTATCT
Statistics
Matches: 102, Mismatches: 20, Indels: 26
0.69 0.14 0.18
Matches are distributed among these distances:
7 12 0.12
8 10 0.10
9 60 0.59
10 11 0.11
11 3 0.03
12 5 0.05
13 1 0.01
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:57034332 original size:18 final size:18
Alignment explanation
Indices: 57034309--57034415 Score: 92
Period size: 18 Copynumber: 5.8 Consensus size: 18
57034299 ATATTTATGT
57034309 ATTATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
***
57034327 ATTATGTAAGTTATCCGA
1 ATTATGTAAGTTATGTAA
*
57034345 ATTATGTAAATTATGTAA
1 ATTATGTAAGTTATGTAA
* *
57034363 GATATGATATATATTTATGT--
1 -AT-T-ATGTA-AGTTATGTAA
*
57034383 ATAATGTAAGTTATGTAA
1 ATTATGTAAGTTATGTAA
*
57034401 ATTATGTAAGATATG
1 ATTATGTAAGTTATG
57034416 ATATCTATCT
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
16 7 0.10
17 4 0.06
18 42 0.61
19 4 0.06
20 1 0.01
21 4 0.06
22 7 0.10
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (18 bp):
ATTATGTAAGTTATGTAA
Found at i:57034658 original size:15 final size:16
Alignment explanation
Indices: 57034629--57034665 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
57034619 GAGATTATGG
57034629 AAAATCACATGGAAAA
1 AAAATCACATGGAAAA
57034645 AAAATCACAT-GAAAA
1 AAAATCACATGGAAAA
*
57034660 ATAATC
1 AAAATC
57034666 TAAGGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.62, C:0.14, G:0.08, T:0.16
Consensus pattern (16 bp):
AAAATCACATGGAAAA
Found at i:57036638 original size:37 final size:36
Alignment explanation
Indices: 57036588--57036674 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
57036578 TACGAAGTCT
57036588 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
57036624 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
57036661 TCACCCGGAACATA
1 T-ACCCGG-ACATA
57036675 TTTCTAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:57036810 original size:49 final size:49
Alignment explanation
Indices: 57036743--57037140 Score: 724
Period size: 49 Copynumber: 8.1 Consensus size: 49
57036733 TTTACCACAT
*
57036743 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
57036792 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
57036841 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
57036890 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
57036939 ATATGTAAACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
57036988 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
57037037 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
57037086 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
57037135 ATATAT
1 ATATAT
57037141 TATTATGTAC
Statistics
Matches: 339, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 339 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:57041024 original size:20 final size:20
Alignment explanation
Indices: 57040999--57041040 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
57040989 CCCTTCGGGC
* *
57040999 ATACCATCGCTTTACCGAAT
1 ATACCATCCCTTTACCAAAT
57041019 ATACCATCCCTTTACCAAAT
1 ATACCATCCCTTTACCAAAT
57041039 AT
1 AT
57041041 GCACATCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (20 bp):
ATACCATCCCTTTACCAAAT
Found at i:57041693 original size:25 final size:25
Alignment explanation
Indices: 57041664--57041741 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
57041654 TTTCTACCTT
57041664 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
57041689 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
57041711 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
57041736 ATCACA
1 ATCACA
57041742 TTGGCCAGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:57041693 original size:47 final size:47
Alignment explanation
Indices: 57041642--57041785 Score: 216
Period size: 47 Copynumber: 3.1 Consensus size: 47
57041632 TTCCACGTTT
* * **
57041642 ATCACATTAGCCTTTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
57041689 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * **
57041736 ATCACATTGGCCAGTCGGCCTTATCACATATATGCACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
57041783 ATC
1 ATC
57041786 TCATAAAATC
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 89 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:57044498 original size:57 final size:57
Alignment explanation
Indices: 57044407--57044536 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
57044397 GAAACACACT
* * * *
57044407 TCGCATACTCAGTGCC-C-ACTAACTGATTTCGCACACGTAGTGCTC-GATTAAAGAAC
1 TCGCACACACAGTGCCTCAACT-ACTGATCTCGCACACATAGTGCTCAG-TTAAAGAAC
* * * *
57044463 TCGCACACATAGTGCCTCAACTACTGATCTGGCACACATAGTGCTCAGTTGAAGAGC
1 TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCAGTTAAAGAAC
*
57044520 TTGCACACACAGTGCCT
1 TCGCACACACAGTGCCT
57044537 TATAATTCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
56 13 0.21
57 44 0.72
58 4 0.07
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (57 bp):
TCGCACACACAGTGCCTCAACTACTGATCTCGCACACATAGTGCTCAGTTAAAGAAC
Found at i:57044780 original size:40 final size:40
Alignment explanation
Indices: 57044544--57044779 Score: 386
Period size: 40 Copynumber: 5.9 Consensus size: 40
57044534 CCTTATAATT
* * *
57044544 CCAGCACGAATGC-CCTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
*
57044583 CCAGCACTAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
57044623 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
57044663 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
* *
57044703 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
57044743 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
57044780 TAACTCTCAA
Statistics
Matches: 186, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 14 0.08
40 172 0.92
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:57046271 original size:2 final size:2
Alignment explanation
Indices: 57046264--57046288 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57046254 TTTGGCCACA
57046264 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
57046289 CACATCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57046403 original size:25 final size:25
Alignment explanation
Indices: 57046374--57046451 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
57046364 TTTCTACCTT
57046374 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
57046399 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
57046421 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
57046446 ATCACA
1 ATCACA
57046452 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:57046403 original size:47 final size:47
Alignment explanation
Indices: 57046352--57046636 Score: 401
Period size: 47 Copynumber: 6.1 Consensus size: 47
57046342 TTCCACGTTT
* * **
57046352 ATCACATTAGCCTTTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
57046399 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
** * * * *
57046446 ATCACATTGGCCATTCGGCCTTATCACATGTATACACT-TCCACGTTT
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCA-TGTTCACATTC
* **
57046493 ATGACATTGGCCATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
57046540 ATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* **
57046587 ATCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
57046634 ATC
1 ATC
57046637 TCATAAAATC
Statistics
Matches: 209, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
46 1 0.00
47 207 0.99
48 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:57046426 original size:22 final size:22
Alignment explanation
Indices: 57046399--57046474 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
57046389 GTTCACATTC
57046399 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
57046421 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
57046445 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57046468 ATCACAT
1 ATCACAT
57046475 GTATACACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 13 0.32
23 11 0.27
24 11 0.27
25 6 0.15
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57046543 original size:25 final size:25
Alignment explanation
Indices: 57046515--57046592 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
57046505 ATTCTACCTT
57046515 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
57046540 AT--CACAT-TGACCA--TTCGGCCTT-
1 ATCACACATATG--CATGTTC-ACATTC
57046562 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
57046587 ATCACA
1 ATCACA
57046593 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 7 0.17
23 10 0.25
24 10 0.25
25 13 0.32
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:57046560 original size:141 final size:141
Alignment explanation
Indices: 57046329--57046619 Score: 537
Period size: 141 Copynumber: 2.1 Consensus size: 141
57046319 TCGGCTTCGC
*
57046329 CACATATATACACTTCCACGTTTATCACATTAGCCTTTCTACCTTATCACACATATGCATGTTCA
1 CACATATATACACTTCCACGTTTATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCA
*
57046394 CATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCA
66 CATTCATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCA
57046459 TTCGGCCTTAT
131 TTCGGCCTTAT
* * *
57046470 CACATGTATACACTTCCACGTTTATGACATTGGCCATTCTACCTTATCACACATATGCATGTTCA
1 CACATATATACACTTCCACGTTTATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCA
57046535 CATTCATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCA
66 CATTCATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCA
57046600 TTCGGCCTTAT
131 TTCGGCCTTAT
57046611 CACATATAT
1 CACATATAT
57046620 GCACATTCAC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 144 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (141 bp):
CACATATATACACTTCCACGTTTATCACATTAGCCATTCTACCTTATCACACATATGCATGTTCA
CATTCATCACATTGACCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCA
TTCGGCCTTAT
Found at i:57055151 original size:15 final size:15
Alignment explanation
Indices: 57055110--57055160 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
57055100 TTTTAAAAAA
*
57055110 ATTTAATTATATTGAAT
1 ATTTAA-TAT-TTAAAT
* *
57055127 AATTATTATTTAAAT
1 ATTTAATATTTAAAT
57055142 ATTTAATATTTAAAT
1 ATTTAATATTTAAAT
57055157 -TTTA
1 ATTTA
57055161 GGTAAATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
14 4 0.14
15 18 0.62
16 3 0.10
17 4 0.14
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTAATATTTAAAT
Found at i:57055638 original size:5 final size:5
Alignment explanation
Indices: 57055630--57055654 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
57055620 AAAAATACTA
57055630 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
57055655 TAAAATTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:57056094 original size:38 final size:40
Alignment explanation
Indices: 57056022--57056110 Score: 137
Period size: 38 Copynumber: 2.3 Consensus size: 40
57056012 ACAAACCCGG
*
57056022 CCTATACCATAAACTTAACATATATACTATACCATTGAAC
1 CCTAAACCATAAACTTAACATATATACTATACCATTGAAC
* *
57056062 CCTAAACCATAAACTTAA-A-ATATATTCTACCATTGAAC
1 CCTAAACCATAAACTTAACATATATACTATACCATTGAAC
57056100 CCTAAACCATA
1 CCTAAACCATA
57056111 GGCCTTAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 28 0.61
39 1 0.02
40 17 0.37
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.28
Consensus pattern (40 bp):
CCTAAACCATAAACTTAACATATATACTATACCATTGAAC
Found at i:57056325 original size:21 final size:22
Alignment explanation
Indices: 57056307--57056347 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
57056297 ATGTTTTAGA
*
57056307 ATTTAAGGTTT-AGGGTTTAAT
1 ATTTAAGATTTAAGGGTTTAAT
*
57056328 GTTTAAGATTTAAGGGTTTA
1 ATTTAAGATTTAAGGGTTTA
57056348 CAGAAAGCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (22 bp):
ATTTAAGATTTAAGGGTTTAAT
Found at i:57058027 original size:8 final size:8
Alignment explanation
Indices: 57058014--57058043 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
57058004 ACAAATGCCA
57058014 GCTTTTCC
1 GCTTTTCC
57058022 GCTTTTCC
1 GCTTTTCC
*
57058030 GCTTTTCG
1 GCTTTTCC
57058038 GCTTTT
1 GCTTTT
57058044 GCCGATCTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.17, T:0.53
Consensus pattern (8 bp):
GCTTTTCC
Found at i:57060658 original size:41 final size:40
Alignment explanation
Indices: 57060580--57061006 Score: 450
Period size: 41 Copynumber: 10.5 Consensus size: 40
57060570 ACTTTTTGAA
* * *
57060580 GGCGTTTGGACAAAAAACGCGGCTATTGATCAG-TTTTAGT
1 GGCGTTTGGGCCAAAAACGC-CCTATTGATCAGTTTTTAGT
* * * * *
57060620 GGCGTTTAGACCAAAAACGCCATAGTTGCTCAATTTTTAGT
1 GGCGTTTGGGCCAAAAACGCCCTA-TTGATCAGTTTTTAGT
** * *
57060661 GGCGTTTTAAG-TAAAAACGCCACTATTGATAAG-TTTTAGT
1 GGCG-TTTGGGCCAAAAACGCC-CTATTGATCAGTTTTTAGT
* * *
57060701 GGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAAT
1 GGCGTTTGGGCCAAAAACGCC-CTATTGATCAGTTTTTAGT
* *
57060742 GGCGTTTGGGCCAAAAATGCCGCTATTGATCAGGTTTTAGT
1 GGCGTTTGGGCCAAAAACGCC-CTATTGATCAGTTTTTAGT
* * * *
57060783 GGTGTTT-GGCCAAAAACGCCGCTACTCATAAGTTTTTAGT
1 GGCGTTTGGGCCAAAAACGCC-CTATTGATCAGTTTTTAGT
* * *
57060823 GGCGCTTGGGCCAAAAACGCTTCTATTGATTAGTTTTTAGT
1 GGCGTTTGGGCCAAAAACGC-CCTATTGATCAGTTTTTAGT
* * *
57060864 GGCATTT-GGCCAAAAATGCCGCTATTGATCAATTTTTAGT
1 GGCGTTTGGGCCAAAAACGCC-CTATTGATCAGTTTTTAGT
* *
57060904 GGCGTTTGGGCTAAAAACGCTTCTATTGATCAGTTTTTAGT
1 GGCGTTTGGGCCAAAAACGC-CCTATTGATCAGTTTTTAGT
57060945 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGT
1 GGCGTTTGGGCCAAAAACGCC-CTATTGATCAGTTTTTAGT
*
57060986 GGCGTTTTGGCCAAAAACGCC
1 GGCGTTTGGGCCAAAAACGCC
57061007 ACTTTAACAC
Statistics
Matches: 323, Mismatches: 52, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
39 5 0.02
40 120 0.37
41 192 0.59
42 6 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (40 bp):
GGCGTTTGGGCCAAAAACGCCCTATTGATCAGTTTTTAGT
Found at i:57060677 original size:81 final size:80
Alignment explanation
Indices: 57060580--57061006 Score: 484
Period size: 81 Copynumber: 5.3 Consensus size: 80
57060570 ACTTTTTGAA
* * * * *
57060580 GGCGTTTGGACAAAAAACGCGGCTATTGATCAGTTTTAGTGGCGTTTAGACCAAAAACGCC-ATA
1 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTAGTGGCGTTT-GGCCAAAAACGCCGCTA
57060644 GTTGCTCAATTTTTAGT
65 -TTGCTCAATTTTTAGT
** * * *
57060661 GGCGTTTTAAG-TAAAAACGCCACTATTGATAAGTTTTAGTGGCGTTTGGACCAAAAACGCCGCT
1 GGCG-TTTGGGCCAAAAACGCCGCTATTGATCAGTTTTAGTGGCGTTTGG-CCAAAAACGCCGCT
* *
57060725 ATTGCTCAGTTTTTAAT
64 ATTGCTCAATTTTTAGT
* *
57060742 GGCGTTTGGGCCAAAAATGCCGCTATTGATCAGGTTTTAGTGGTGTTTGGCCAAAAACGCCGCTA
1 GGCGTTTGGGCCAAAAACGCCGCTATTGATCA-GTTTTAGTGGCGTTTGGCCAAAAACGCCGCTA
*
57060807 CT-CAT-AAGTTTTTAGT
65 TTGC-TCAA-TTTTTAGT
* ** * * *
57060823 GGCGCTTGGGCCAAAAACGCTTCTATTGATTAGTTTTTAGTGGCATTTGGCCAAAAATGCCGCTA
1 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAG-TTTTAGTGGCGTTTGGCCAAAAACGCCGCTA
*
57060888 TTGATCAATTTTTAGT
65 TTGCTCAATTTTTAGT
* **
57060904 GGCGTTTGGGCTAAAAACGCTTCTATTGATCAGTTTTTAGTGGCGTTTGGGCCAAAAACGCCGCT
1 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAG-TTTTAGTGGCGTTT-GGCCAAAAACGCCGCT
* *
57060969 ATTGATCAGTTTTTAGT
64 ATTGCTCAATTTTTAGT
*
57060986 GGCGTTTTGGCCAAAAACGCC
1 GGCGTTTGGGCCAAAAACGCC
57061007 ACTTTAACAC
Statistics
Matches: 295, Mismatches: 40, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
80 8 0.03
81 215 0.73
82 72 0.24
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (80 bp):
GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTAGTGGCGTTTGGCCAAAAACGCCGCTAT
TGCTCAATTTTTAGT
Found at i:57060837 original size:122 final size:122
Alignment explanation
Indices: 57060580--57061002 Score: 505
Period size: 122 Copynumber: 3.5 Consensus size: 122
57060570 ACTTTTTGAA
* * * * * *
57060580 GGCGTTTGGACAAAAAACGCGGCTATTGATCAG-TTTTAGTGGCGTTTAGACCAAAAACGCC-AT
1 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTT-GGCCAAAAATGCCGCT
* * ** *
57060643 AGTTGCTCAATTTTTAGTGGCGTTTTAAG-TAAAAACGCCACTATTGATAAG-TTTTAGT
65 A-TTGATCAAGTTTTAGTGGCG-TTTGGGCCAAAAACGCCACTATTGATAAGTTTTTAGT
* * *
57060701 GGCGTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTTAATGGCGTTTGGGCCAAAAATGCCGCT
1 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTT-GGCCAAAAATGCCGCT
* * * * *
57060766 ATTGATCAGGTTTTAGTGGTGTTT-GGCCAAAAACGCCGCTACTCATAAGTTTTTAGT
65 ATTGATCAAGTTTTAGTGGCGTTTGGGCCAAAAACGCCACTATTGATAAGTTTTTAGT
* ** * *
57060823 GGCGCTTGGGCCAAAAACGCTTCTATTGATTAGTTTTTAGTGGCATTTGGCCAAAAATGCCGCTA
1 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAATGCCGCTA
* * ** *
57060888 TTGATCAATTTTTAGTGGCGTTTGGGCTAAAAACGCTTCTATTGATCAGTTTTTAGT
66 TTGATCAAGTTTTAGTGGCGTTTGGGCCAAAAACGCCACTATTGATAAGTTTTTAGT
57060945 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTTGGCCAAAAA
1 GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCG-TTTGGCCAAAAA
57061003 CGCCACTTTA
Statistics
Matches: 257, Mismatches: 39, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
120 1 0.00
121 88 0.34
122 154 0.60
123 14 0.05
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (122 bp):
GGCGTTTGGGCCAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTGGCCAAAAATGCCGCTA
TTGATCAAGTTTTAGTGGCGTTTGGGCCAAAAACGCCACTATTGATAAGTTTTTAGT
Found at i:57062433 original size:93 final size:93
Alignment explanation
Indices: 57062324--57062492 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
57062314 CCCATAAGCG
* * * * *
57062324 AACTCGGACTCAACTCAATGAGCTCAGG-TGTTCTCATCCATAAGTGAACTCGAACTTAACTCAA
1 AACTCAGACTCAACTCAACGAGCTC-GGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
57062388 CGAGTTCGGATGCCTAGTTACATTTCACA
65 CGAGTTCGGATGCCTAGTTACATTTCACA
*
57062417 AACTCAGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
57062482 GAGTTCGGATG
66 GAGTTCGGATG
57062493 TTCGTATCCA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:57062481 original size:46 final size:46
Alignment explanation
Indices: 57062315--57062538 Score: 222
Period size: 46 Copynumber: 4.8 Consensus size: 46
57062305 TGTAACCCGC
* * * * *
57062315 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCAGG-TGTTCTCAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTC-GGATGTTCGCAT
* * * *
57062361 CCATAAGTGAACTCGAACTTAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * ** *
57062407 ACATTTCA-CAAACTC-AGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGA-ACTCAACTCAACGAGTTCGGATGTTCGCAT
*
57062454 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGTTCGTAT
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGTTCGCAT
* *
57062500 CCATAAGTGAACTCGGACTCAACTCAACGATTTCGGATG
1 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATG
57062539 CCCAAATATC
Statistics
Matches: 144, Mismatches: 26, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
45 4 0.03
46 107 0.74
47 31 0.22
48 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (46 bp):
CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:57064331 original size:41 final size:42
Alignment explanation
Indices: 57064249--57064386 Score: 183
Period size: 43 Copynumber: 3.3 Consensus size: 42
57064239 TCTCAGACGT
* *
57064249 GGTCTTACACGTAATCACATATCAATGCCACTGTCCTAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCA-TGTCCCAGACAG
* *
57064292 GGTCTTACACG-AATCAAATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAATCACATATCGATGCC-ATGTCCCAGACAG
57064333 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGAC-G
1 GGTCTTACACGTAATCACATATCGATGCC-ATGTCCCAGACAG
57064375 TGGTCTTACACG
1 -GGTCTTACACG
57064387 AGAACACATA
Statistics
Matches: 84, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
41 26 0.31
42 19 0.23
43 39 0.46
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGTAATCACATATCGATGCCATGTCCCAGACAG
Found at i:57066031 original size:40 final size:40
Alignment explanation
Indices: 57065974--57066155 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 40
57065964 GCTCGATTGT
* * * * * *
57065974 CTTCGGGACCTAGCCCGGTTATAGTGATTTGCACGATTGC
1 CTTCGGGTCTTAGCCCGGATATAGTAACTTGCACGAATGC
* * * *
57066014 CTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTAACTTGCACGAATGC
** *
57066054 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTAACTTGCACGAATGC
* * * *
57066094 CTTCGGGTCTTAGCCCGGATATAATTACTAGCA-TAATTGC
1 CTTCGGGTCTTAGCCCGGATATAGTAACTTGCACGAA-TGC
*
57066134 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
57066156 CATTCCAATG
Statistics
Matches: 119, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
39 2 0.02
40 117 0.98
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.29
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTAACTTGCACGAATGC
Found at i:57066068 original size:80 final size:80
Alignment explanation
Indices: 57066004--57066155 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 80
57065994 ATAGTGATTT
* * ** * *
57066004 GCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCC
1 GCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCC
57066069 CGGATATAACAACTC
66 CGGATATAACAACTC
* * * *
57066084 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTGCCTTCGGGACTTAGCC
1 GCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCC
57066149 CGGATAT
66 CGGATAT
57066156 CATTCCAATG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 62 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (80 bp):
GCACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCC
CGGATATAACAACTC
Found at i:57068200 original size:25 final size:29
Alignment explanation
Indices: 57068135--57068201 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
57068125 TATTCATACA
57068135 AGTCCATACATTTCATTTATTTCACATTTT
1 AGTCCATA-ATTTCATTTATTTCACATTTT
* *
57068165 AGTCCCTTAATTT-ATTTTTTTCA-A-TTT
1 AGT-CCATAATTTCATTTATTTCACATTTT
57068192 AGTCC-TAATT
1 AGTCCATAATT
57068202 ATTCAAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.15
26 2 0.06
27 6 0.18
28 1 0.03
29 9 0.26
30 7 0.21
31 4 0.12
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.52
Consensus pattern (29 bp):
AGTCCATAATTTCATTTATTTCACATTTT
Done.