Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 104 of 144
Found at i:31919972 original size:24 final size:23
Alignment explanation
Indices: 31919944--31920009 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
31919934 TTCTCGAATT
*
31919944 TTTAAGGTTTAGGATTTTTTAGAG
1 TTTAAGGTTTAGG-TTTTTTAAAG
* *
31919968 TTTAAGATTTTATGTTTTTTAAAG
1 TTTAAG-GTTTAGGTTTTTTAAAG
*
31919992 TTTAAAGTTTAGAGTTTT
1 TTTAAGGTTTAG-GTTTT
31920010 GGGTTTTTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 4 0.12
24 25 0.74
25 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (23 bp):
TTTAAGGTTTAGGTTTTTTAAAG
Found at i:31920318 original size:12 final size:12
Alignment explanation
Indices: 31920301--31920345 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 12
31920291 TAGATGAAGT
31920301 ACAAATTATTTA
1 ACAAATTATTTA
31920313 ACAAATCCTATTTTA
1 ACAAAT--TA-TTTA
31920328 ACAAATTATTTA
1 ACAAATTATTTA
31920340 ATCAAA
1 A-CAAA
31920346 CTGAATTCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 11 0.38
13 6 0.21
14 2 0.07
15 10 0.34
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (12 bp):
ACAAATTATTTA
Found at i:31920329 original size:15 final size:15
Alignment explanation
Indices: 31920309--31920372 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
31920299 GTACAAATTA
31920309 TTTAACAAATCCTAT
1 TTTAACAAATCCTAT
31920324 TTTAACAAAT--TAT
1 TTTAACAAATCCTAT
* *
31920337 TTAATCAAACTGAATTCTAT
1 TT--T--AAC-AAATCCTAT
31920357 TTTAACAAATCCTAT
1 TTTAACAAATCCTAT
31920372 T
1 T
31920373 ATTTATACTC
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
13 5 0.13
15 19 0.49
16 3 0.08
17 3 0.08
18 4 0.10
20 5 0.13
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.42
Consensus pattern (15 bp):
TTTAACAAATCCTAT
Found at i:31920447 original size:79 final size:79
Alignment explanation
Indices: 31920357--31920520 Score: 319
Period size: 79 Copynumber: 2.1 Consensus size: 79
31920347 TGAATTCTAT
31920357 TTTAACAAATCCTATTATTTATACTCAATATTTCATTTATATGGACCGATTATTTAACTAGTAGA
1 TTTAACAAATCCTATTATTTATACTCAATATTTCATTTATATGGACCGATTATTTAACTAGTAGA
*
31920422 TGAAGTACAAATTA
66 TGAAGTACAAACTA
31920436 TTTAACAAATCCTATTATTTATACTCAATATTTCATTTATATGGACCGATTATTTAACTAGTAGA
1 TTTAACAAATCCTATTATTTATACTCAATATTTCATTTATATGGACCGATTATTTAACTAGTAGA
31920501 TGAAGTACAAACTA
66 TGAAGTACAAACTA
31920515 TTTAAC
1 TTTAAC
31920521 TACATAAACA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 84 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (79 bp):
TTTAACAAATCCTATTATTTATACTCAATATTTCATTTATATGGACCGATTATTTAACTAGTAGA
TGAAGTACAAACTA
Found at i:31920627 original size:49 final size:46
Alignment explanation
Indices: 31920539--31920641 Score: 136
Period size: 49 Copynumber: 2.2 Consensus size: 46
31920529 CAATATAATG
*
31920539 ATTTTGCCTTTTAACTTAATGGATAAACATTTATCAAAACGAAGTA
1 ATTTTGCCTTTTAACTTAAAGGATAAACATTTATCAAAACGAAGTA
*
31920585 ATTTTGCCTTTTAACTTTAGAAAAGG-TAAACATTTATCAAAACGACGTA
1 ATTTTGCCTTTTAAC-TT---AAAGGATAAACATTTATCAAAACGAAGTA
*
31920634 GTTTTGCC
1 ATTTTGCC
31920642 CTTTCTTATT
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
46 15 0.30
47 2 0.04
49 29 0.58
50 4 0.08
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (46 bp):
ATTTTGCCTTTTAACTTAAAGGATAAACATTTATCAAAACGAAGTA
Found at i:31922512 original size:28 final size:28
Alignment explanation
Indices: 31922480--31922624 Score: 109
Period size: 28 Copynumber: 5.1 Consensus size: 28
31922470 CTCTGTGATG
*
31922480 AACCTGTTAAAGGAAAACCTTTATGGAA
1 AACCTGTTAAAGGAAAACCTTTGTGGAA
* *
31922508 AACCT-TTGGAAAGGTAAGCCTTTGTGGCAA
1 AACCTGTT--AAAGGAAAACCTTTGTGG-AA
*
31922538 AA-CTGTTAAAGGACAACCTTTGTGGGAA
1 AACCTGTTAAAGGAAAACCTTTGT-GGAA
* * **
31922566 AACTCTAG--AAAGGTAAGCCTTTGTGGCG
1 AAC-CT-GTTAAAGGAAAACCTTTGTGGAA
* *
31922594 AACTTGTTAAAGGACAACCTTTGTGGCAA
1 AACCTGTTAAAGGAAAACCTTTGTGG-AA
31922623 AA
1 AA
31922625 TTTTGGAAAG
Statistics
Matches: 89, Mismatches: 17, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 42 0.47
29 34 0.38
30 8 0.09
31 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (28 bp):
AACCTGTTAAAGGAAAACCTTTGTGGAA
Found at i:31922528 original size:57 final size:56
Alignment explanation
Indices: 31922458--31922649 Score: 240
Period size: 57 Copynumber: 3.4 Consensus size: 56
31922448 TGAATCACCA
* * * * *
31922458 GGAAAGATAAGCCTCTGTGATGAACCTGTTAAAGGAAAACCTTTATGGAAAACCTTT
1 GGAAAGGTAAGCCTTTGTGACGAACCTGTTAAAGGACAACCTTTGTGGAAAA-CTTT
* * * *
31922515 GGAAAGGTAAGCCTTTGTGGCAAAACTGTTAAAGGACAACCTTTGTGGGAAAACTCT
1 GGAAAGGTAAGCCTTTGTGACGAACCTGTTAAAGGACAACCTTTGT-GGAAAACTTT
* * * *
31922572 AGAAAGGTAAGCCTTTGTGGCGAACTTGTTAAAGGACAACCTTTGTGGCAAAATTTT
1 GGAAAGGTAAGCCTTTGTGACGAACCTGTTAAAGGACAACCTTTGTGG-AAAACTTT
31922629 GGAAAGGTAAGCCTTTGTGAC
1 GGAAAGGTAAGCCTTTGTGAC
31922650 AATCTCTGTA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
56 2 0.02
57 108 0.93
58 6 0.05
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (56 bp):
GGAAAGGTAAGCCTTTGTGACGAACCTGTTAAAGGACAACCTTTGTGGAAAACTTT
Found at i:31922587 original size:29 final size:28
Alignment explanation
Indices: 31922516--31922670 Score: 115
Period size: 28 Copynumber: 5.5 Consensus size: 28
31922506 AAAACCTTTG
*
31922516 GAAAGGTAAGCCTTTGTGGCAAAACTGT
1 GAAAGGTAAGCCTTTGTGGCAAAACTCT
* * *
31922544 TAAAGG-ACAACCTTTGTGGGAAAACTCT
1 GAAAGGTA-AGCCTTTGTGGCAAAACTCT
*
31922572 AGAAAGGTAAGCCTTTGTGGC-GAACT-T
1 -GAAAGGTAAGCCTTTGTGGCAAAACTCT
* * *
31922599 GTTAAAGG-ACAACCTTTGTGGCAAAATTTT
1 G--AAAGGTA-AGCCTTTGTGGCAAAACTCT
* *
31922629 GGAAAGGTAAGCCTTTGTGAC-AATCTCT
1 -GAAAGGTAAGCCTTTGTGGCAAAACTCT
31922657 GTAAAGG-AAGCCTT
1 G-AAAGGTAAGCCTT
31922671 CATGGTTATA
Statistics
Matches: 100, Mismatches: 16, Indels: 23
0.72 0.12 0.17
Matches are distributed among these distances:
26 1 0.01
27 11 0.11
28 51 0.51
29 33 0.33
30 3 0.03
31 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (28 bp):
GAAAGGTAAGCCTTTGTGGCAAAACTCT
Found at i:31925138 original size:26 final size:27
Alignment explanation
Indices: 31925084--31925139 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
31925074 AACACGAATG
** **
31925084 AAAAGAATTGAAAAAAATCTAAACCCT
1 AAAAGAAAGGAAAAAAATCTAAAAACT
31925111 AAAAGAAAGGAAAAAAA-CTAAAAACT
1 AAAAGAAAGGAAAAAAATCTAAAAACT
31925137 AAA
1 AAA
31925140 TTATAGGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.68, C:0.11, G:0.09, T:0.12
Consensus pattern (27 bp):
AAAAGAAAGGAAAAAAATCTAAAAACT
Found at i:31932686 original size:9 final size:9
Alignment explanation
Indices: 31932672--31932901 Score: 152
Period size: 9 Copynumber: 25.6 Consensus size: 9
31932662 TATAGTTAAT
31932672 TTATGTAAG
1 TTATGTAAG
*
31932681 TTATGTTATG
1 TTATG-TAAG
* * *
31932691 ATATCT-AT
1 TTATGTAAG
31932699 TTATGT-A-
1 TTATGTAAG
31932706 TTATGTAAG
1 TTATGTAAG
31932715 TTATGTAAG
1 TTATGTAAG
*
31932724 TTATGTGAG
1 TTATGTAAG
*
31932733 TAATGTAAG
1 TTATGTAAG
*
31932742 TTATGATATG
1 TTATG-TAAG
* * *
31932752 ATATAT-AT
1 TTATGTAAG
31932760 TTATGT-A-
1 TTATGTAAG
31932767 TTATGTAAG
1 TTATGTAAG
31932776 TTATGTAAG
1 TTATGTAAG
*
31932785 TTATGTGAG
1 TTATGTAAG
31932794 TTATGTAAG
1 TTATGTAAG
*
31932803 TTATGATATG
1 TTATG-TAAG
*
31932813 ATATATATAAG
1 -T-TATGTAAG
31932824 TTAT-TAAG
1 TTATGTAAG
*
31932832 TTATGTGAG
1 TTATGTAAG
31932841 TTATGTAAG
1 TTATGTAAG
* *
31932850 TTATCTTATG
1 TTAT-GTAAG
*
31932860 ATATATATAAG
1 -T-TATGTAAG
31932871 TTAT-TAAG
1 TTATGTAAG
* *
31932879 TTATGCATG
1 TTATGTAAG
*
31932888 TTATGTGAG
1 TTATGTAAG
31932897 TTATG
1 TTATG
31932902 ATATGATATT
Statistics
Matches: 173, Mismatches: 34, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
7 12 0.07
8 28 0.16
9 99 0.57
10 20 0.12
11 8 0.05
12 6 0.03
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:31932710 original size:34 final size:33
Alignment explanation
Indices: 31932672--31932781 Score: 117
Period size: 34 Copynumber: 3.5 Consensus size: 33
31932662 TATAGTTAAT
31932672 TTATGTAAGTTATGTTATGATATCTATTTATGTA
1 TTATGTAAGTTATGTTATGATAT-TATTTATGTA
* *
31932706 TTATGTAAGTTATG-TA--A-GTTATGTGA-GTA
1 TTATGTAAGTTATGTTATGATATTAT-TTATGTA
*
31932735 --ATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGTTATGTTATGATAT-TATTTATGTA
31932767 TTATGTAAGTTATGT
1 TTATGTAAGTTATGT
31932782 AAGTTATGTG
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
27 12 0.19
28 2 0.03
29 6 0.10
30 4 0.06
31 4 0.06
32 6 0.10
33 2 0.03
34 26 0.42
ACGTcount: A:0.32, C:0.01, G:0.18, T:0.49
Consensus pattern (33 bp):
TTATGTAAGTTATGTTATGATATTATTTATGTA
Found at i:31932739 original size:61 final size:61
Alignment explanation
Indices: 31932674--31932853 Score: 272
Period size: 61 Copynumber: 2.9 Consensus size: 61
31932664 TAGTTAATTT
* *
31932674 ATGTAAGTTATGTTATGATATCTATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTA
1 ATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTA
*
31932735 ATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTT
1 ATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTA
*
31932796 ATGTAAGTTATGATATGATATATATAAGTTAT-TAAGTTATGTGAGTTATGTAAGTTAT
1 ATGTAAGTTATGATATGATATATAT---TTATGT-A-TTATGTAAGTTATGTAAGTTAT
31932854 CTTATGATAT
Statistics
Matches: 110, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
61 83 0.75
63 1 0.01
64 5 0.05
65 21 0.19
ACGTcount: A:0.33, C:0.01, G:0.19, T:0.47
Consensus pattern (61 bp):
ATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAGTTATGTGAGTA
Found at i:31932835 original size:47 final size:47
Alignment explanation
Indices: 31932772--31932928 Score: 244
Period size: 47 Copynumber: 3.3 Consensus size: 47
31932762 ATGTATTATG
31932772 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
1 TAAGTTAT-TAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
**
31932820 TAAGTTATTAAGTTATGTGAGTTATGTAAGTTATCTTATGATATATA
1 TAAGTTATTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
* * *
31932867 TAAGTTATTAAGTTATG-CATGTTATGTGAGTTATGATATGATATTTA
1 TAAGTTATTAAGTTATGTGA-GTTATGTAAGTTATGATATGATATATA
31932914 TAAGTTATTAAGTTA
1 TAAGTTATTAAGTTA
31932929 AGATCCAAAG
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.01
47 92 0.91
48 8 0.08
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.46
Consensus pattern (47 bp):
TAAGTTATTAAGTTATGTGAGTTATGTAAGTTATGATATGATATATA
Found at i:31932985 original size:9 final size:9
Alignment explanation
Indices: 31932956--31933027 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
31932946 TAATTCTTTA
31932956 AAGTTATGT
1 AAGTTATGT
*
31932965 AAATTATGT
1 AAGTTATGT
31932974 AAGTTATGT
1 AAGTTATGT
*
31932983 AAGTT-TTT
1 AAGTTATGT
* *
31932991 ATA-TGATAT
1 A-AGTTATGT
*
31933000 ATATTTATGT
1 A-AGTTATGT
31933010 AAGTTATGT
1 AAGTTATGT
*
31933019 ATGTTATGT
1 AAGTTATGT
31933028 GGAAATTAGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
8 4 0.08
9 42 0.82
10 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (9 bp):
AAGTTATGT
Found at i:31933251 original size:119 final size:121
Alignment explanation
Indices: 31933087--31933495 Score: 689
Period size: 119 Copynumber: 3.4 Consensus size: 121
31933077 TTGAGTAATA
*
31933087 TAATATTTAAAAATATAATAATTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTT
1 TAATATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTT
* *
31933152 GAAATATAGGTTATATATCCATACTAATATAGTTTATATATTAAAAATATGGGTTT
66 GAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
* *
31933208 TAATATTT-AAAATATAATATTTATAA-TATTTTTAAAATTTAAAAATTTATTAGAAATGAATTT
1 TAATATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTT
* * *
31933271 GAAATATAGGTTAAATATCTATACTAATATAGGTTATATATTAAAAATATAGGTTC
66 GAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
*
31933327 TAAGTTATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAGCTTATTAGTAATGAAT
1 TAA--TATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAAT
*
31933392 TTGAAATGTAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
64 TTGAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
31933450 TAATATTT-AAAATATAATATTTATAATTATTTTTAAAATTTAAAAA
1 TAATATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAA
31933496 TTTAAAAATT
Statistics
Matches: 268, Mismatches: 16, Indels: 9
0.91 0.05 0.03
Matches are distributed among these distances:
119 89 0.33
120 54 0.20
121 18 0.07
122 18 0.07
123 89 0.33
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (121 bp):
TAATATTTAAAAATATAATATTTATAATTATTTTTAAAATTTAAAAACTTATTAGTAATGAATTT
GAAATATAGGTTATATATCCATACTAATATAGGTTATATATTAAAAATATAGGTTT
Found at i:31933444 original size:20 final size:21
Alignment explanation
Indices: 31933419--31933465 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
31933409 TATCCATACT
31933419 AATATAGGTTAT-ATATTAAA
1 AATATAGGTTATAATATTAAA
* *
31933439 AATATAGGTTTTAATATTTAA
1 AATATAGGTTATAATATTAAA
31933460 AATATA
1 AATATA
31933466 ATATTTATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
AATATAGGTTATAATATTAAA
Found at i:31934760 original size:16 final size:16
Alignment explanation
Indices: 31934739--31934774 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
31934729 GTCCGTGAAT
31934739 AGAGGAAGCGGGCGAC
1 AGAGGAAGCGGGCGAC
*
31934755 AGAGGAAGCGGGTGAC
1 AGAGGAAGCGGGCGAC
31934771 AGAG
1 AGAG
31934775 CGGCCGCTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.50, T:0.03
Consensus pattern (16 bp):
AGAGGAAGCGGGCGAC
Found at i:31944824 original size:17 final size:17
Alignment explanation
Indices: 31944802--31944840 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
31944792 TCCAAGTCAA
31944802 CTTAACTTAAAACTCGG
1 CTTAACTTAAAACTCGG
**
31944819 CTTAACTTGCAACTCGG
1 CTTAACTTAAAACTCGG
31944836 -TTAAC
1 CTTAAC
31944841 AAACTACCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.31
Consensus pattern (17 bp):
CTTAACTTAAAACTCGG
Found at i:31949430 original size:101 final size:102
Alignment explanation
Indices: 31949310--31949494 Score: 248
Period size: 101 Copynumber: 1.8 Consensus size: 102
31949300 AAAGTGATAG
***
31949310 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGA-A-TGATAGGTCGTATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGAT-GGTAACATGTGTAGT
31949373 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTTGA
65 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTTGA
* * ** * *
31949411 TCACGTGTGTAGTAGTATGTGTAGGCTACTATGTGTATCGGATAGTGATGGTAACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGATGGTAACATGTGTAGTA
* *
31949476 CTGTGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
31949495 TGAACCAGTA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
101 36 0.51
102 31 0.44
103 4 0.06
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCAGATAGTGATGGTAACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCAAATAGCTTTGA
Found at i:31953618 original size:13 final size:13
Alignment explanation
Indices: 31953597--31953632 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
31953587 AAAATATAAT
*
31953597 TTAACCAATTTAA
1 TTAATCAATTTAA
*
31953610 TTAATCAATTTAC
1 TTAATCAATTTAA
31953623 TTAATCAATT
1 TTAATCAATT
31953633 AAAACCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAATCAATTTAA
Found at i:31953861 original size:86 final size:86
Alignment explanation
Indices: 31953695--31953867 Score: 292
Period size: 86 Copynumber: 2.0 Consensus size: 86
31953685 ATATTTTATT
*
31953695 ATTTAATTTAATCATGCATGACCCACAGTATAGCTTAAAAATATAATATTCTCAAATTAATATAA
1 ATTTAATTTAATCATGCATGACCCACAGTATAGCTTAAAAATATAATATACTCAAATTAATATAA
31953760 AATAAGCCATTTTATGCGTGA
66 AATAAGCCATTTTATGCGTGA
* * **
31953781 ATTTAATTTAATCATGCATGGCCTACTTTATAGCTTAAAAATATAATATACTCAAATTAATATAA
1 ATTTAATTTAATCATGCATGACCCACAGTATAGCTTAAAAATATAATATACTCAAATTAATATAA
*
31953846 AATAAGCCATTTTATGCTTGA
66 AATAAGCCATTTTATGCGTGA
31953867 A
1 A
31953868 AACTATATAA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (86 bp):
ATTTAATTTAATCATGCATGACCCACAGTATAGCTTAAAAATATAATATACTCAAATTAATATAA
AATAAGCCATTTTATGCGTGA
Found at i:31954645 original size:3 final size:3
Alignment explanation
Indices: 31954637--31954661 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
31954627 TCTTTGTCTC
31954637 TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT T
31954662 TATAAGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:31958821 original size:107 final size:107
Alignment explanation
Indices: 31958634--31958840 Score: 326
Period size: 107 Copynumber: 1.9 Consensus size: 107
31958624 GAATATCATT
* *
31958634 TATGGTCCAACCAATTGCTTTCTTAAATTTCTTTACAACAACAATTAGTTGCGCCTCTTGATCTT
1 TATGGTCCAACCAATTGCTTTCTTAAATTTCTTTAAAACAACAATTAGTTGCGCCTCCTGATCTT
31958699 TCGTCAGTTCCGCTGAAATAATCACAAGCAAAGTATGTCAAC
66 TCGTCAGTTCCGCTGAAATAATCACAAGCAAAGTATGTCAAC
* *
31958741 TATGGTCCAACCAATTGCTTTCTTAAATTTTTTTAAAACAGCAATTAGTTG-GTCCTCCTGATCT
1 TATGGTCCAACCAATTGCTTTCTTAAATTTCTTTAAAACAACAATTAGTTGCG-CCTCCTGATCT
* * * *
31958805 TTCGTTAGTTCTGCTGAAATAATCACAGGTAAAGTA
65 TTCGTCAGTTCCGCTGAAATAATCACAAGCAAAGTA
31958841 GAACTGTCAC
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
106 1 0.01
107 90 0.99
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (107 bp):
TATGGTCCAACCAATTGCTTTCTTAAATTTCTTTAAAACAACAATTAGTTGCGCCTCCTGATCTT
TCGTCAGTTCCGCTGAAATAATCACAAGCAAAGTATGTCAAC
Found at i:31968571 original size:57 final size:57
Alignment explanation
Indices: 31968482--31968596 Score: 167
Period size: 57 Copynumber: 2.0 Consensus size: 57
31968472 GTATTTCCAG
* *
31968482 TGTTTTGAGGTGGTCTCCCTTTCACAGCTGTATTACTCGGTCAAGTAGTCTAAGCCT
1 TGTTTCGAGGTGGTCTCCCTTTCACAGCTGTATTACTCGATCAAGTAGTCTAAGCCT
* * * * *
31968539 TGTTTCGAGGTGGTTTCCCTTTCATAGTTGTATTACTCGATCGAGTAGTCTGAGCCT
1 TGTTTCGAGGTGGTCTCCCTTTCACAGCTGTATTACTCGATCAAGTAGTCTAAGCCT
31968596 T
1 T
31968597 TTCGAGCAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (57 bp):
TGTTTCGAGGTGGTCTCCCTTTCACAGCTGTATTACTCGATCAAGTAGTCTAAGCCT
Found at i:31969590 original size:14 final size:14
Alignment explanation
Indices: 31969571--31969601 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31969561 GAAGAAGGCT
*
31969571 TCCTTGGCCCCTCC
1 TCCTTGACCCCTCC
31969585 TCCTTGACCCCTCC
1 TCCTTGACCCCTCC
31969599 TCC
1 TCC
31969602 CCGGCCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.58, G:0.10, T:0.29
Consensus pattern (14 bp):
TCCTTGACCCCTCC
Found at i:31979497 original size:63 final size:63
Alignment explanation
Indices: 31979380--31979505 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
31979370 ATTCGTTCCT
* * *
31979380 CACACATGGATCCATGGTTAGGATCGCCGGGTGTTATATTTTTCCACTGCGTCGTAGTGGTGC
1 CACACATGGATCCATGGTTAGAATCACCGGGTGTTATATTTTTCCACTGCGTCGTAGGGGTGC
* * * *** *
31979443 CACACATGGATCTATGGTTAGAATCATCGGGTGTTTTATTTTTTTGCTGTGTCGTAGGGGTGC
1 CACACATGGATCCATGGTTAGAATCACCGGGTGTTATATTTTTCCACTGCGTCGTAGGGGTGC
31979506 TAGTGTTCCA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
63 53 1.00
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (63 bp):
CACACATGGATCCATGGTTAGAATCACCGGGTGTTATATTTTTCCACTGCGTCGTAGGGGTGC
Found at i:31981400 original size:130 final size:130
Alignment explanation
Indices: 31981167--31981428 Score: 515
Period size: 130 Copynumber: 2.0 Consensus size: 130
31981157 TAAAGGATTT
*
31981167 ATTTGAAGTGCATAATCAAAGTAGAGGTCCTTAAATAGTAATTAGACCATAAAATTTCCATGGAC
1 ATTTGAAGAGCATAATCAAAGTAGAGGTCCTTAAATAGTAATTAGACCATAAAATTTCCATGGAC
31981232 AAAAATAGGCATGCCTAAATAAAAATAACTAAAGTTTTAATGAAGGGTATTTTAGTAAATGAATA
66 AAAAATAGGCATGCCTAAATAAAAATAACTAAAGTTTTAATGAAGGGTATTTTAGTAAATGAATA
31981297 ATTTGAAGAGCATAATCAAAGTAGAGGTCCTTAAATAGTAATTAGACCATAAAATTTCCATGGAC
1 ATTTGAAGAGCATAATCAAAGTAGAGGTCCTTAAATAGTAATTAGACCATAAAATTTCCATGGAC
31981362 AAAAATAGGCATGCCTAAATAAAAATAACTAAAGTTTTAATGAAGGGTATTTTAGTAAATGAATA
66 AAAAATAGGCATGCCTAAATAAAAATAACTAAAGTTTTAATGAAGGGTATTTTAGTAAATGAATA
31981427 AT
1 AT
31981429 AAAAAGAATA
Statistics
Matches: 131, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (130 bp):
ATTTGAAGAGCATAATCAAAGTAGAGGTCCTTAAATAGTAATTAGACCATAAAATTTCCATGGAC
AAAAATAGGCATGCCTAAATAAAAATAACTAAAGTTTTAATGAAGGGTATTTTAGTAAATGAATA
Found at i:31982382 original size:56 final size:51
Alignment explanation
Indices: 31982286--31982573 Score: 243
Period size: 50 Copynumber: 5.6 Consensus size: 51
31982276 ATTTGGGTAA
* **
31982286 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCAACCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAGGTTGGC-ACC--GAGA--ATG
* * *
31982342 AGAGGTCCCATGTAAGACCATGTCTAGGACATGAGGTTGGCACC-AAAACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAGGTTGGCACCGAGAATG
31982392 AGAGGTCCCATGTAAGACCATGTCTGGGACATG-GCGTTGGCACCGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAG-GTTGGCACCGAGAATG
** * * *
31982442 AGAGGTCCCCCGTAAGACCATGTCTGGGACATG-GCATGGGCACCGA-TATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAG-GTTGGCACCGAGAATG
** * * * * *
31982492 AGAACTCCCATGTAAGGCCATATCTGGGATATG-GCATTGGCA--GTA-CATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGAG-GTTGGCACCG-AGAATG
* **
31982541 AAACATCCCATGTAAGACCATGTCTGGGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATG
31982574 GCTTTGGCAT
Statistics
Matches: 200, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.00
49 32 0.16
50 124 0.62
51 1 0.00
52 2 0.01
55 3 0.01
56 37 0.19
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGAGGTTGGCACCGAGAATG
Found at i:31982484 original size:100 final size:100
Alignment explanation
Indices: 31982286--31982575 Score: 309
Period size: 100 Copynumber: 2.9 Consensus size: 100
31982276 ATTTGGGTAA
*
31982286 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCAACCTTGAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGC-ACC--GAG---ATGAGAGGTCCC
* * *
31982351 ATGTAAGACCATGTCTAGGACATGAG-GTTGGCACCAAAACG
60 ATGTAAGACCATGTCTGGGACATG-GCATGGGCACCAAAACG
* * **
31982392 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
* * *
31982457 GACCATGTCTGGGACATGGCATGGGCACCGATATG
66 GACCATGTCTGGGACATGGCATGGGCACCAAAACG
* * * * * **
31982492 AGA-ACTCCCATGTAAGGCCATATCTGGGATATGGCATTGGCA--GTACATGAAACATCCCATGT
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCCCATGT
31982554 AAGACCATGTCTGGGACATGGC
64 AAGACCATGTCTGGGACATGGC
31982576 TTTGGCATGT
Statistics
Matches: 159, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
98 1 0.01
99 35 0.22
100 79 0.50
103 3 0.02
105 3 0.02
106 38 0.24
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (100 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
GACCATGTCTGGGACATGGCATGGGCACCAAAACG
Found at i:31985003 original size:72 final size:72
Alignment explanation
Indices: 31984886--31985032 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
31984876 TATATTGGCC
31984886 TCAGAACATTCTACCTTGAGACTTAGACCTGCTATAACTTTTGTACTTATATAAGAATAAGTAGA
1 TCAGAACATTCTACCTTGAGACTTAGACCTGCTATAACTTTTGTACTTATATAAGAATAAGTAGA
31984951 TACAGGG
66 TACAGGG
**
31984958 TCAGAACATTCTTTCTTGAGACTTAGACCTGCTATAACTTTTGTACTTATATAAGAATAAGTAGA
1 TCAGAACATTCTACCTTGAGACTTAGACCTGCTATAACTTTTGTACTTATATAAGAATAAGTAGA
31985023 TACAGGG
66 TACAGGG
31985030 TCA
1 TCA
31985033 ATTAATGCAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Consensus pattern (72 bp):
TCAGAACATTCTACCTTGAGACTTAGACCTGCTATAACTTTTGTACTTATATAAGAATAAGTAGA
TACAGGG
Found at i:31986709 original size:57 final size:57
Alignment explanation
Indices: 31986621--31986734 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
31986611 TGTTTGAACA
31986621 TGTTTTATGTAGGTTTGGAAGTGTACTAATTCACTAATGGTGCAAATGATTGGAAAG
1 TGTTTTATGTAGGTTTGGAAGTGTACTAATTCACTAATGGTGCAAATGATTGGAAAG
*
31986678 TGTTTTATGTAGGTTTGGAAGTGTACTAATTCACTAATGGTGCAAATGATTTGAAAG
1 TGTTTTATGTAGGTTTGGAAGTGTACTAATTCACTAATGGTGCAAATGATTGGAAAG
31986735 AGTGATTATG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (57 bp):
TGTTTTATGTAGGTTTGGAAGTGTACTAATTCACTAATGGTGCAAATGATTGGAAAG
Found at i:31988109 original size:25 final size:26
Alignment explanation
Indices: 31988040--31988111 Score: 65
Period size: 31 Copynumber: 2.6 Consensus size: 26
31988030 TAATTGAATT
31988040 AAAGGCCACATATCACTAGAAAAAAAA
1 AAAGGCCACATATCACTAG-AAAAAAA
* * *
31988067 AGAAGAAAGCCTCGTATCACTAG-AAAGAA
1 A-AAG---GCCACATATCACTAGAAAAAAA
31988096 AAAGGCCACATATCAC
1 AAAGGCCACATATCAC
31988112 AATCGCTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
25 10 0.28
27 1 0.03
28 6 0.17
29 6 0.17
31 13 0.36
ACGTcount: A:0.51, C:0.21, G:0.15, T:0.12
Consensus pattern (26 bp):
AAAGGCCACATATCACTAGAAAAAAA
Found at i:31994169 original size:12 final size:12
Alignment explanation
Indices: 31994144--31994182 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
31994134 ACTCGCTTCT
* *
31994144 TTACTTACTCAC
1 TTACTTGCTTAC
*
31994156 TTACTTGTTTAC
1 TTACTTGCTTAC
31994168 TTACTTGCTTAC
1 TTACTTGCTTAC
31994180 TTA
1 TTA
31994183 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:31994507 original size:50 final size:50
Alignment explanation
Indices: 31994452--31994626 Score: 217
Period size: 50 Copynumber: 3.5 Consensus size: 50
31994442 TATCTCAGAT
** * *
31994452 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTTCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTCCCAAAC
** * * *
31994502 ATGGTCTTACGGGGGACCTCTCATCTCGGTG-TCATCCCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCCAT-GCCATGTCCCAAAC
* * * *
31994552 ATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAAGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTCCCAAAC
31994602 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACATGGGACCTCTCATA
31994627 ATCTCAATGA
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
49 3 0.03
50 102 0.96
51 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCCATGCCATGTCCCAAAC
Found at i:31994642 original size:56 final size:50
Alignment explanation
Indices: 31994452--31994670 Score: 186
Period size: 50 Copynumber: 4.3 Consensus size: 50
31994442 TATCTCAGAT
** * * * * * * *
31994452 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTTCCAGAC
1 ATGGTCTTACATGGGACCTCTCATCTTGATGCCAAAGCCATGTCCCAAAC
** * * * ***
31994502 ATGGTCTTACGGGGGACCTCTCATCTCGGTGTCATCCCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATCTTGATGCCAAAGCCATGTCCCAAAC
*
31994552 ATGGTCTTACATGGGACCTCTCATCTTGGTGCCAAAGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATCTTGATGCCAAAGCCATGTCCCAAAC
** * *
31994602 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATTCCATGTCTCAGAC
1 ATGGTCTTACATGGGACCTCTC---ATCT---TGATGCCAAAGCCATGTCCCAAAC
31994658 ATGGTCTTACATG
1 ATGGTCTTACATG
31994671 AGATCTCATT
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 103 0.74
53 4 0.03
56 32 0.23
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATCTTGATGCCAAAGCCATGTCCCAAAC
Found at i:32003357 original size:22 final size:22
Alignment explanation
Indices: 32003327--32003376 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
32003317 GTGTGAAATC
32003327 ATCACAAATAT-AATCGCATACAT
1 ATCA-AAATATCAATCGCA-ACAT
*
32003350 ATCAAAATATCAATCTCAACAT
1 ATCAAAATATCAATCGCAACAT
32003372 ATCAA
1 ATCAA
32003377 TCATCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (22 bp):
ATCAAAATATCAATCGCAACAT
Found at i:32003368 original size:14 final size:15
Alignment explanation
Indices: 32003350--32003387 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
32003340 TCGCATACAT
32003350 ATCAAAATATCAATC
1 ATCAAAATATCAATC
*
32003365 -TCAACATATCAATC
1 ATCAAAATATCAATC
32003379 ATCAAAATA
1 ATCAAAATA
32003388 ATCACAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (15 bp):
ATCAAAATATCAATC
Found at i:32006049 original size:32 final size:32
Alignment explanation
Indices: 32005960--32006119 Score: 176
Period size: 32 Copynumber: 5.0 Consensus size: 32
32005950 AGTGATAAGT
32005960 ACAGTAATATGATTGGCACAAAGCCATCAGTA
1 ACAGTAATATGATTGGCACAAAGCCATCAGTA
* * * ** *
32005992 GCAGTGATATTATCAGCACACAGCCATCAGTA
1 ACAGTAATATGATTGGCACAAAGCCATCAGTA
* * *
32006024 AAAGTATTATGATTGGTACAAAGCCATCAGTA
1 ACAGTAATATGATTGGCACAAAGCCATCAGTA
* * * * *
32006056 ACGGTATTGTGATCGGCATAAAGCCATCAGTA
1 ACAGTAATATGATTGGCACAAAGCCATCAGTA
**
32006088 ATGGTAATATGATTGGCACAAAGCCATCAGTA
1 ACAGTAATATGATTGGCACAAAGCCATCAGTA
32006120 GCATCGCAAC
Statistics
Matches: 102, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 102 1.00
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (32 bp):
ACAGTAATATGATTGGCACAAAGCCATCAGTA
Found at i:32006081 original size:64 final size:64
Alignment explanation
Indices: 32005962--32006119 Score: 203
Period size: 64 Copynumber: 2.5 Consensus size: 64
32005952 TGATAAGTAC
* *
32005962 AGTAATATGATTGGCACAAAGCCATCAGTAGCAGTGATATTATCAGCACACAGCCATCAGTAAA
1 AGTAATATGATTGGCACAAAGCCATCAGTAACAGTGATATTATCAGCACAAAGCCATCAGTAAA
* * * * *
32006026 AGTATTATGATTGGTACAAAGCCATCAGTAACGGT-AT-TGTGATCGGCATAAAGCCATCAGTAA
1 AGTAATATGATTGGCACAAAGCCATCAGTAACAGTGATAT-T-ATCAGCACAAAGCCATCAGTAA
*
32006089 T
64 A
*
32006090 GGTAATATGATTGGCACAAAGCCATCAGTA
1 AGTAATATGATTGGCACAAAGCCATCAGTA
32006120 GCATCGCAAC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
62 1 0.01
63 3 0.04
64 77 0.95
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.25
Consensus pattern (64 bp):
AGTAATATGATTGGCACAAAGCCATCAGTAACAGTGATATTATCAGCACAAAGCCATCAGTAAA
Found at i:32006322 original size:24 final size:24
Alignment explanation
Indices: 32006290--32006396 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
32006280 GCCTTGCTCA
*
32006290 AAATTAGTCATACAAATCACAGAC
1 AAATCAGTCATACAAATCACAGAC
* *
32006314 AAATCAGTCATACCAATCACAAAC
1 AAATCAGTCATACAAATCACAGAC
* **
32006338 AAATTAGTCATTTAAATCACAGAC
1 AAATCAGTCATACAAATCACAGAC
* ** * *
32006362 AAATCAATCATTTACATCACGGAC
1 AAATCAGTCATACAAATCACAGAC
*
32006386 AAATCAATCAT
1 AAATCAGTCAT
32006397 TTACACTCGA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.48, C:0.22, G:0.07, T:0.23
Consensus pattern (24 bp):
AAATCAGTCATACAAATCACAGAC
Found at i:32006397 original size:24 final size:24
Alignment explanation
Indices: 32006305--32006401 Score: 108
Period size: 24 Copynumber: 4.0 Consensus size: 24
32006295 AGTCATACAA
*
32006305 ATCACAGACAAATCAGTCA--TACC
1 ATCACAGACAAATCAATCATTTA-C
* * * *
32006328 AATCACAAACAAATTAGTCATTTAA
1 -ATCACAGACAAATCAATCATTTAC
32006353 ATCACAGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
*
32006377 ATCACGGACAAATCAATCATTTAC
1 ATCACAGACAAATCAATCATTTAC
32006401 A
1 A
32006402 CTCGAGGGGA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
24 61 0.97
26 2 0.03
ACGTcount: A:0.46, C:0.24, G:0.06, T:0.24
Consensus pattern (24 bp):
ATCACAGACAAATCAATCATTTAC
Found at i:32006448 original size:26 final size:26
Alignment explanation
Indices: 32006391--32006467 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
32006381 CGGACAAATC
* * * **
32006391 AATCATTTACACTCGAGGGGAAAAAT
1 AATCATTTACCCTCCAGGGGTATTAT
*
32006417 AGTCATTTACCCTCCAGGGGTATTAT
1 AATCATTTACCCTCCAGGGGTATTAT
* *
32006443 AATCATTTTACCTTACAGGGGTATT
1 AATCA-TTTACCCTCCAGGGGTATT
32006468 TCGATCATTT
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 24 0.59
27 17 0.41
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (26 bp):
AATCATTTACCCTCCAGGGGTATTAT
Found at i:32006517 original size:81 final size:81
Alignment explanation
Indices: 32006445--32006840 Score: 544
Period size: 81 Copynumber: 4.9 Consensus size: 81
32006435 GGTATTATAA
32006445 TCATTTTACCTTACAGGGGTATTTCGATCATTTAACCCTATGGGGGTATTACGGTCATTTTACCC
1 TCATTTTACCTTACAGGGGTATTTCGATCATTTAACCCTATGGGGGTATTACGGTCATTTTACCC
*
32006510 TATAGGGGCATTACAG
66 TATAGGGGCATTACGG
* ** *
32006526 TCATTTTACCTTACAGGGGTATTTCGGTCATTTAACCCTATGAAGGTATTACGGTCATATTACCC
1 TCATTTTACCTTACAGGGGTATTTCGATCATTTAACCCTATGGGGGTATTACGGTCATTTTACCC
32006591 TATAGGGGCATTACGG
66 TATAGGGGCATTACGG
* * * *
32006607 TTATTTTACCTTACAGGGGTATTTCGATCATATAACCCTATGGGGGTATTACGATAATTTTACCC
1 TCATTTTACCTTACAGGGGTATTTCGATCATTTAACCCTATGGGGGTATTACGGTCATTTTACCC
32006672 TATAGGGGCATTACGG
66 TATAGGGGCATTACGG
* * * * * * *
32006688 TCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTCAGTCA-TTTACCC
1 TCATTTTACCTTACAGGGGTATTTCGATCATTTAACCCTATGGGGGTATTACGGTCATTTTACCC
* * **
32006752 TATAAGGGTATTTTGG
66 TATAGGGGCATTACGG
* * * *
32006768 TCATTTTACCCTA-TGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGGTCATTTTACC
1 TCATTTTACCTTACAG-GGGTATTTCGATCATTTAACCCTATGGGGGTATTACGGTCATTTTACC
*
32006832 CTATGGGGG
65 CTATAGGGG
32006841 TCTCGCTGTA
Statistics
Matches: 279, Mismatches: 34, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
79 1 0.00
80 70 0.25
81 208 0.75
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (81 bp):
TCATTTTACCTTACAGGGGTATTTCGATCATTTAACCCTATGGGGGTATTACGGTCATTTTACCC
TATAGGGGCATTACGG
Found at i:32006835 original size:27 final size:27
Alignment explanation
Indices: 32006445--32006841 Score: 422
Period size: 27 Copynumber: 14.7 Consensus size: 27
32006435 GGTATTATAA
* * *
32006445 TCATTTTACCTTACAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
32006472 TCATTTAACCCTATGGGGGTATTACGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
32006499 TCATTTTACCCTATAGGGGCATTACAG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
32006526 TCATTTTACCTTACAGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
32006553 TCATTTAACCCTAT-GAAGGTATTACGG
1 TCATTTTACCCTATAG-GGGTATTTCGG
* * *
32006580 TCATATTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* * * *
32006607 TTATTTTACCTTACAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * * * *
32006634 TCATATAACCCTATGGGGGTATTACGA
1 TCATTTTACCCTATAGGGGTATTTCGG
* * *
32006661 TAATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTATAGGGGTATTTCGG
*
32006688 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
32006715 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATAGGGGTATTTCGG
* *
32006742 TCA-TTTACCCTATAAGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGG
*
32006768 TCATTTTACCCTAT-GAGGGTATTTCGA
1 TCATTTTACCCTATAG-GGGTATTTCGG
*
32006795 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGG
*
32006822 TCATTTTACCCTATGGGGGT
1 TCATTTTACCCTATAGGGGT
32006842 CTCGCTGTAG
Statistics
Matches: 306, Mismatches: 59, Indels: 10
0.82 0.16 0.03
Matches are distributed among these distances:
26 23 0.08
27 281 0.92
28 2 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGG
Found at i:32009601 original size:21 final size:23
Alignment explanation
Indices: 32009568--32009613 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
32009558 TATATGGATG
32009568 AGTTATGGTCATATATATATTTA
1 AGTTATGGTCATATATATATTTA
* *
32009591 AGTTA-GG-CATATGTGTATTTA
1 AGTTATGGTCATATATATATTTA
32009612 AG
1 AG
32009614 ATGCATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 2 0.10
23 5 0.24
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (23 bp):
AGTTATGGTCATATATATATTTA
Found at i:32012230 original size:8 final size:8
Alignment explanation
Indices: 32012214--32012250 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
32012204 AGGTAAGGAG
*
32012214 CACTGAAC
1 CACTTAAC
32012222 CACTTAAC
1 CACTTAAC
32012230 CACTTAAC
1 CACTTAAC
*
32012238 CACTTGAC
1 CACTTAAC
32012246 CACTT
1 CACTT
32012251 CGCTTCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.32, C:0.38, G:0.05, T:0.24
Consensus pattern (8 bp):
CACTTAAC
Found at i:32013817 original size:12 final size:12
Alignment explanation
Indices: 32013800--32013828 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
32013790 ATATATGAAA
32013800 AAAATTCCTTTC
1 AAAATTCCTTTC
32013812 AAAATTCCTTTC
1 AAAATTCCTTTC
32013824 AAAAT
1 AAAAT
32013829 GTGTGATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (12 bp):
AAAATTCCTTTC
Found at i:32014902 original size:25 final size:25
Alignment explanation
Indices: 32014868--32014928 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
32014858 TTCTCACTCC
* * *
32014868 AATTTTACCCTAGTAAAGTTTTGAA
1 AATTTTACCCCAATAAAATTTTGAA
*
32014893 AATTTTACCCCAATAAAATTTTGAC
1 AATTTTACCCCAATAAAATTTTGAA
*
32014918 GATTTTACCCC
1 AATTTTACCCC
32014929 TACTGAACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (25 bp):
AATTTTACCCCAATAAAATTTTGAA
Found at i:32023830 original size:54 final size:54
Alignment explanation
Indices: 32023767--32023876 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
32023757 AACAGACTCA
*
32023767 ATGTGATTTGAATTCTGATTTAGAGTTTTAAGTTGATGCTAATGATTATTTAAG
1 ATGTGATTTGAATTCTGATTCAGAGTTTTAAGTTGATGCTAATGATTATTTAAG
* * *
32023821 ATGTGATTTGAATTTTGATTCAGAGTTTTGAGTTGATGCTAATGATTGTTTAAG
1 ATGTGATTTGAATTCTGATTCAGAGTTTTAAGTTGATGCTAATGATTATTTAAG
32023875 AT
1 AT
32023877 TCAGAGGCCG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (54 bp):
ATGTGATTTGAATTCTGATTCAGAGTTTTAAGTTGATGCTAATGATTATTTAAG
Found at i:32025804 original size:21 final size:20
Alignment explanation
Indices: 32025773--32025814 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
32025763 CCATGCTTTA
*
32025773 ATTTTTGAATTTCA-TGATG
1 ATTTTTGAATTCCATTGATG
32025792 ATTTTGTGAAATTCCATTGATG
1 ATTTT-TG-AATTCCATTGATG
32025814 A
1 A
32025815 ATATTCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 6 0.32
22 6 0.32
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (20 bp):
ATTTTTGAATTCCATTGATG
Found at i:32031089 original size:15 final size:15
Alignment explanation
Indices: 32031069--32031098 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32031059 TTAATCAAGA
32031069 TGACATAACTGTGTT
1 TGACATAACTGTGTT
32031084 TGACATAACTGTGTT
1 TGACATAACTGTGTT
32031099 AGATTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (15 bp):
TGACATAACTGTGTT
Found at i:32039769 original size:47 final size:47
Alignment explanation
Indices: 32039715--32039809 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
32039705 AATCACAAAG
* *
32039715 TCAGCAGGAAAGATAAATTTTTCTACTCGTACCAATACGTCCTCAAT
1 TCAGCAGGAAAGATAAATTTGTCTACACGTACCAATACGTCCTCAAT
* * *
32039762 TCAGCAGGAAAGGTAAATTTGTCTACACGTACCAATATGTCCTTAAT
1 TCAGCAGGAAAGATAAATTTGTCTACACGTACCAATACGTCCTCAAT
32039809 T
1 T
32039810 TTTTCCTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (47 bp):
TCAGCAGGAAAGATAAATTTGTCTACACGTACCAATACGTCCTCAAT
Found at i:32047415 original size:25 final size:25
Alignment explanation
Indices: 32047377--32047446 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
32047367 ATGCCCATTT
*
32047377 TCACAGCTCATGTGAGCATACTTAG
1 TCACAGCTCGTGTGAGCATACTTAG
* *
32047402 TCATAGCTCGTGTGAGCATACTTAT
1 TCACAGCTCGTGTGAGCATACTTAG
* *
32047427 TCACATCTCGTGTCAGCATA
1 TCACAGCTCGTGTGAGCATA
32047447 TATGTAAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
TCACAGCTCGTGTGAGCATACTTAG
Found at i:32057689 original size:23 final size:22
Alignment explanation
Indices: 32057648--32057690 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
32057638 AACAATACAT
32057648 AATTAATATTTTATATGAATCA
1 AATTAATATTTTATATGAATCA
* *
32057670 AATTCATATATTTATTTGAAT
1 AATTAATAT-TTTATATGAAT
32057691 TATGTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (22 bp):
AATTAATATTTTATATGAATCA
Found at i:32058365 original size:75 final size:75
Alignment explanation
Indices: 32058242--32058539 Score: 596
Period size: 75 Copynumber: 4.0 Consensus size: 75
32058232 CACTACATAG
32058242 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
1 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
32058307 AAAATATAAA
66 AAAATATAAA
32058317 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
1 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
32058382 AAAATATAAA
66 AAAATATAAA
32058392 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
1 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
32058457 AAAATATAAA
66 AAAATATAAA
32058467 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
1 ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
32058532 AAAATATA
66 AAAATATA
32058540 CGACTCACTA
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 223 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (75 bp):
ATTGTGGCATACCCAACATCAGTCTTTATAGTACAACCTATTACAGTATATGTTTTGACTGTATC
AAAATATAAA
Found at i:32061154 original size:40 final size:40
Alignment explanation
Indices: 32061117--32061301 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
32061107 GCTACTCGTT
*
32061117 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
32061157 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
32061197 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
32061236 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
32061277 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32061302 CATCATTCAA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 74 0.60
41 15 0.12
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:32061228 original size:79 final size:82
Alignment explanation
Indices: 32061117--32061301 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
32061107 GCTACTCGTT
* * *
32061117 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
32061180 GGATTTAGTAAC-TCGGA
65 GGATATAGTAACTTAGCA
* **
32061197 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
32061260 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
32061277 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
32061302 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 35 0.39
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:32082300 original size:18 final size:18
Alignment explanation
Indices: 32082264--32082301 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32082254 ACCAAAATAG
*
32082264 AGTTTATTAAATGAGAAT
1 AGTTTATTAAATGAAAAT
*
32082282 AGTTTATTAAATTAAAAT
1 AGTTTATTAAATGAAAAT
32082300 AG
1 AG
32082302 AGTTATTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (18 bp):
AGTTTATTAAATGAAAAT
Found at i:32082634 original size:28 final size:28
Alignment explanation
Indices: 32082603--32082668 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
32082593 TTTTTTTTGT
**
32082603 ATATTTTGGTAAATAAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
*
32082631 ATATTTTAGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
32082659 ATATTTTGGT
1 ATATTTTGGT
32082669 TAGTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:32086672 original size:33 final size:33
Alignment explanation
Indices: 32086602--32086920 Score: 258
Period size: 33 Copynumber: 9.8 Consensus size: 33
32086592 TTACCCCGTT
*
32086602 TTTACTGTCCCAACA-A--A-CTCTA-TATATG
1 TTTACTGTCCCAACAGACTATCTCTATTATGTG
* * * * *
32086630 TTTATTGTCCCAACAGACTATTTTTGTTATGTA
1 TTTACTGTCCCAACAGACTATCTCTATTATGTG
32086663 TTTACTGTCCCAACAGACTATCTCTATTATGTG
1 TTTACTGTCCCAACAGACTATCTCTATTATGTG
* * * * * *
32086696 TTTACTATCCTAGCGGACTATCTCTGTCATGTG
1 TTTACTGTCCCAACAGACTATCTCTATTATGTG
* * * * * *
32086729 TTTATTATCCTAGCGGACTATC-CT-TGTGTTGTG
1 TTTACTGTCCCAACAGACTATCTCTAT-T-ATGTG
* * * *
32086762 TTTATTGTCCCAACGGGCTATCTCTATTCTGTG
1 TTTACTGTCCCAACAGACTATCTCTATTATGTG
* * *
32086795 TTTACTATCACAA-TGAACTATCTCTATTATGTG
1 TTTACTGTCCCAACAG-ACTATCTCTATTATGTG
*
32086828 TTTACTGTCCCAGCAGACTATCTCTATTATGTG
1 TTTACTGTCCCAACAGACTATCTCTATTATGTG
* * * * *
32086861 TTTACTGTCCCAATAAACTATCTTTGTTCTGTG
1 TTTACTGTCCCAACAGACTATCTCTATTATGTG
* *
32086894 TTTACTATCGCAACAGACTATCTCTAT
1 TTTACTGTCCCAACAGACTATCTCTAT
32086921 GGATTCCATG
Statistics
Matches: 233, Mismatches: 47, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
28 14 0.06
29 1 0.00
31 2 0.01
32 5 0.02
33 206 0.88
34 4 0.02
35 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (33 bp):
TTTACTGTCCCAACAGACTATCTCTATTATGTG
Found at i:32089876 original size:15 final size:16
Alignment explanation
Indices: 32089856--32089889 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32089846 TCCATTCATA
32089856 CATTTAGA-TAAATTG
1 CATTTAGATTAAATTG
*
32089871 CATTTAGATTTAATTG
1 CATTTAGATTAAATTG
32089887 CAT
1 CAT
32089890 AGGGATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (16 bp):
CATTTAGATTAAATTG
Found at i:32100615 original size:29 final size:28
Alignment explanation
Indices: 32100579--32100656 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
32100569 TCATGAGATT
32100579 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
32100609 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
32100636 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
32100657 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:32100875 original size:175 final size:174
Alignment explanation
Indices: 32100609--32100937 Score: 622
Period size: 175 Copynumber: 1.9 Consensus size: 174
32100599 AAATTGTACA
32100609 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
32100674 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
32100739 TTTTGGACAGCGGAAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGG-AAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
32100784 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
32100849 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
32100914 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
32100938 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
174 11 0.07
175 140 0.93
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:32107031 original size:81 final size:81
Alignment explanation
Indices: 32106925--32107085 Score: 286
Period size: 81 Copynumber: 2.0 Consensus size: 81
32106915 TCCATCGCAT
*
32106925 ATAATTAGCCCATCAGAGGTAGAAATTCAAGTCGACATGAGCTATGAAGAAGAACCGATGCGTAT
1 ATAATTAGCCCATCAGAGGTAGAAATTCAAGCCGACATGAGCTATGAAGAAGAACCGATGCGTAT
32106990 CCTAGCTCGTGAAGTC
66 CCTAGCTCGTGAAGTC
* * *
32107006 ATAATTAGCCCATCAGAGGTTGAAATTCAAGCCGATATGAGTTATGAAGAAGAACCGATGCGTAT
1 ATAATTAGCCCATCAGAGGTAGAAATTCAAGCCGACATGAGCTATGAAGAAGAACCGATGCGTAT
32107071 CCTAGCTCGTGAAGT
66 CCTAGCTCGTGAAGT
32107086 GAAGGAGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (81 bp):
ATAATTAGCCCATCAGAGGTAGAAATTCAAGCCGACATGAGCTATGAAGAAGAACCGATGCGTAT
CCTAGCTCGTGAAGTC
Found at i:32108088 original size:78 final size:78
Alignment explanation
Indices: 32107955--32108110 Score: 285
Period size: 78 Copynumber: 2.0 Consensus size: 78
32107945 TGATGTTTGA
**
32107955 TGTTGTGGTGATGAGGCATGAAGATGAGTTAAGATTCGGCCTAGGTGGATTTTGTGTTAATGCCA
1 TGTTGTGGTGATGAGGCATGAAGATGAGTTAAGATTCGGCCTAGGTGGAGGTTGTGTTAATGCCA
32108020 TTGCATGCTAAAT
66 TTGCATGCTAAAT
*
32108033 TGTTGTGGTGATGAGGCATGAGGATGAGTTAAGATTCGGCCTAGGTGGAGGTTGTGTTAATGCCA
1 TGTTGTGGTGATGAGGCATGAAGATGAGTTAAGATTCGGCCTAGGTGGAGGTTGTGTTAATGCCA
32108098 TTGCATGCTAAAT
66 TTGCATGCTAAAT
32108111 ATGAAGCTTG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.24, C:0.10, G:0.33, T:0.33
Consensus pattern (78 bp):
TGTTGTGGTGATGAGGCATGAAGATGAGTTAAGATTCGGCCTAGGTGGAGGTTGTGTTAATGCCA
TTGCATGCTAAAT
Found at i:32108980 original size:39 final size:40
Alignment explanation
Indices: 32108880--32109064 Score: 186
Period size: 40 Copynumber: 4.7 Consensus size: 40
32108870 TTGAATGATG
* *
32108880 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
32108919 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
32108960 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
32108999 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
32109038 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
32109065 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
39 35 0.28
40 75 0.61
41 12 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:32109016 original size:79 final size:81
Alignment explanation
Indices: 32108881--32109064 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
32108871 TGAATGATGT
*
32108881 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
32108945 GTGCGAGA-TACTA-ATT
66 GTGCGA-ATTACTATA-A
* * * * **
32108961 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
32109023 TGTGCGAATTACTATAA
65 TGTGCGAATTACTATAA
*
32109040 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
32109065 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 2 0.02
79 56 0.63
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAATTACTATAA
Found at i:32109086 original size:79 final size:79
Alignment explanation
Indices: 32108881--32109097 Score: 185
Period size: 79 Copynumber: 2.7 Consensus size: 79
32108871 TGAATGATGT
** * * * **
32108881 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
32108944 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* ** * *
32108961 TCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
32109026 GCGA-ATTACT-ATAA
66 GCGAGA-TACTAAT-A
* * *
32109040 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
32109098 TACGTGATTT
Statistics
Matches: 114, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
78 4 0.04
79 69 0.61
80 41 0.36
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:32114026 original size:43 final size:43
Alignment explanation
Indices: 32113960--32114117 Score: 203
Period size: 43 Copynumber: 3.7 Consensus size: 43
32113950 AGCTCGTACA
* * *
32113960 ATGCCAATGTCTCATACATGGTCTTACATGTAATCAAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATTG
* * *
32114003 ATGCCATTGTCCCAGACAAGGTCTTACACGAAATCAAATA-TG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATTG
* *
32114045 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAA-ATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AATCA-AATATTG
*
32114089 ATGCCAATGTCCCAGACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
32114118 AATAACACAT
Statistics
Matches: 100, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
42 28 0.28
43 40 0.40
44 32 0.32
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCAAATATTG
Found at i:32116596 original size:19 final size:19
Alignment explanation
Indices: 32116572--32116611 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
32116562 TCCTAAAAAG
32116572 TATAGTTTATAGGCACTAA
1 TATAGTTTATAGGCACTAA
32116591 TATAGTTTATAGGCACTAA
1 TATAGTTTATAGGCACTAA
32116610 TA
1 TA
32116612 AAATAGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
TATAGTTTATAGGCACTAA
Found at i:32116999 original size:33 final size:33
Alignment explanation
Indices: 32116936--32117006 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
32116926 CCTTGAATCC
*
32116936 CAAGGTTCGAGGTTTGGATTTGGATCTAAGGTT
1 CAAGGTTCGAGGTTTGAATTTGGATCTAAGGTT
* * *
32116969 CAAGGTTTGA-GTTTGAATTTTGAGTTTAAGGTT
1 CAAGGTTCGAGGTTTGAATTTGGA-TCTAAGGTT
32117002 CAAGG
1 CAAGG
32117007 AATTGGGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 11 0.33
33 22 0.67
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (33 bp):
CAAGGTTCGAGGTTTGAATTTGGATCTAAGGTT
Found at i:32119793 original size:15 final size:15
Alignment explanation
Indices: 32119768--32119800 Score: 50
Period size: 14 Copynumber: 2.2 Consensus size: 15
32119758 GTCATTTCAT
32119768 TCTTCTTCTTTTTTTA
1 TCTTCTTC-TTTTTTA
32119784 TCTT-TTCTTTTTTA
1 TCTTCTTCTTTTTTA
32119798 TCT
1 TCT
32119801 ACAACTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.59
15 3 0.18
16 4 0.24
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (15 bp):
TCTTCTTCTTTTTTA
Found at i:32120809 original size:30 final size:31
Alignment explanation
Indices: 32120736--32120802 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
32120726 ACTTAATTTC
* * *
32120736 AGCTCAA-CGAGCTCAATCTGGGTTTTATCT
1 AGCTCAATGGAGCTCAATCTCGGTTTGATCT
32120766 AGCTCAATGGAGCTCAAT-TCGGTTTGATGCT
1 AGCTCAATGGAGCTCAATCTCGGTTTGAT-CT
32120797 AGCTCA
1 AGCTCA
32120803 TTGAGCTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.47
31 17 0.53
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (31 bp):
AGCTCAATGGAGCTCAATCTCGGTTTGATCT
Found at i:32124666 original size:47 final size:47
Alignment explanation
Indices: 32124546--32124666 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
32124536 CCCTTCGGGA
* * * * *
32124546 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32124593 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32124640 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
32124667 TATTCAAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:32134488 original size:40 final size:40
Alignment explanation
Indices: 32134045--32134470 Score: 701
Period size: 40 Copynumber: 10.7 Consensus size: 40
32134035 GAGAATTGAG
* *
32134045 AGTGATATATCCAGGCTAAGTCCCGAGGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
32134085 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
32134125 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
32134165 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
32134205 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
32134245 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
32134285 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
32134325 AGTGATATATCCGGGTTAAGTCCCAACGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
32134365 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
32134405 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
* * *
32134445 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
32134471 AGAGTAATCA
Statistics
Matches: 363, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 360 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:32150450 original size:18 final size:18
Alignment explanation
Indices: 32150427--32150468 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
32150417 CATGTTCATA
32150427 TATTTTAC-ATAATTTAAT
1 TATTTTACAAT-ATTTAAT
*
32150445 TATTTTATAATATTTAAT
1 TATTTTACAATATTTAAT
32150463 TATTTT
1 TATTTT
32150469 TCGACAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTTACAATATTTAAT
Found at i:32151336 original size:100 final size:100
Alignment explanation
Indices: 32151223--32151403 Score: 301
Period size: 100 Copynumber: 1.8 Consensus size: 100
32151213 GCTTCTTAAT
32151223 TTAATAATAAGTTTGATTTA-AGGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATA
1 TTAATAATAAGTTTGATTTAGA-GTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATA
32151287 ATGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
65 ATGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
* * * * *
32151323 TTAATGATTAGTTTGATTTAGAGTTAATTTAGTCACTTTGAATATTTATTTAATAGAATAAATAA
1 TTAATAATAAGTTTGATTTAGAGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATAA
32151388 TGATTCTAAAATGAAG
66 TGATTCTAAAATGAAG
32151404 CTAAATTTAG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
100 74 0.99
101 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.43
Consensus pattern (100 bp):
TTAATAATAAGTTTGATTTAGAGTTAATTTAATCACATTGAATATTTATTTAATAAAATAAATAA
TGATTCTAAAATGAAGTATTAGGTGCTTTCTTAGC
Found at i:32151877 original size:13 final size:13
Alignment explanation
Indices: 32151859--32151883 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32151849 AAGTTGCTTG
32151859 TAATAATTTTTTT
1 TAATAATTTTTTT
32151872 TAATAATTTTTT
1 TAATAATTTTTT
32151884 GAGTGAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TAATAATTTTTTT
Found at i:32154527 original size:8 final size:8
Alignment explanation
Indices: 32154514--32154542 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
32154504 AATTGATGTA
32154514 AAAAAAAG
1 AAAAAAAG
32154522 AAAAAAAG
1 AAAAAAAG
32154530 AAAAAAAG
1 AAAAAAAG
32154538 AAAAA
1 AAAAA
32154543 GAGGTTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:32160670 original size:25 final size:27
Alignment explanation
Indices: 32160635--32160689 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
32160625 GAAAGTTAAA
* * *
32160635 TATACACGAATTAATTTATTCATT-TT
1 TATACACGAATAAATTAATTAATTCTT
32160661 TATA-ACGAATAAATTAATTAATTCTT
1 TATACACGAATAAATTAATTAATTCTT
32160687 TAT
1 TAT
32160690 CTTATAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (27 bp):
TATACACGAATAAATTAATTAATTCTT
Found at i:32178057 original size:16 final size:16
Alignment explanation
Indices: 32178032--32178076 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
32178022 ACATTTGAAG
*
32178032 AAATTATTATTTTTGA
1 AAATTGTTATTTTTGA
* *
32178048 ATATTTTTATTTTTGA
1 AAATTGTTATTTTTGA
32178064 AAATTGTTATTTT
1 AAATTGTTATTTT
32178077 CATAATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (16 bp):
AAATTGTTATTTTTGA
Found at i:32179917 original size:16 final size:16
Alignment explanation
Indices: 32179896--32179926 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32179886 ATTTTTAAAA
*
32179896 TGGGAGGGATGATGGC
1 TGGGAGAGATGATGGC
32179912 TGGGAGAGATGATGG
1 TGGGAGAGATGATGG
32179927 AGTAAAGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.55, T:0.19
Consensus pattern (16 bp):
TGGGAGAGATGATGGC
Found at i:32182504 original size:40 final size:40
Alignment explanation
Indices: 32182453--32182548 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
32182443 TGCAATTCTA
* * * *
32182453 GTGGTTTGTCCACATTACTGGTAGCTCATCTACAATAGTG
1 GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
* * * * *
32182493 GTGGCTTGTCCACATTTCTGGCAATTTATCTGCATTACTG
1 GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
32182533 GTGGCTTGTCCACATT
1 GTGGCTTGTCCACATT
32182549 TCTAGCAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (40 bp):
GTGGCTTGTCCACATTACTGGCAACTCATCTACAATACTG
Found at i:32182548 original size:20 final size:20
Alignment explanation
Indices: 32182453--32182548 Score: 57
Period size: 20 Copynumber: 4.8 Consensus size: 20
32182443 TGCAATTCTA
*
32182453 GTGGTTTGTCCACATTACTG
1 GTGGCTTGTCCACATTACTG
* ** * * *
32182473 GTAGCTCATCTACAATAGTG
1 GTGGCTTGTCCACATTACTG
*
32182493 GTGGCTTGTCCACATTTCTG
1 GTGGCTTGTCCACATTACTG
**** * **
32182513 GCAATTTATCTGCATTACTG
1 GTGGCTTGTCCACATTACTG
32182533 GTGGCTTGTCCACATT
1 GTGGCTTGTCCACATT
32182549 TCTAGCAATT
Statistics
Matches: 47, Mismatches: 29, Indels: 0
0.62 0.38 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
GTGGCTTGTCCACATTACTG
Found at i:32182549 original size:40 final size:40
Alignment explanation
Indices: 32182491--32182586 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
32182481 TCTACAATAG
*
32182491 TGGTGGCTTGTCCACATTTCTGGCAATTTATCTGCATTAC
1 TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
* *
32182531 TGGTGGCTTGTCCACATTTCTAGCAATTTATTTGCATTAT
1 TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
*
32182571 TGGTAGCTTGTCCACA
1 TGGTGGCTTGTCCACA
32182587 AATTGGTGTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.41
Consensus pattern (40 bp):
TGGTGGCTTGTCCACATTTCTAGCAATTTATCTGCATTAC
Found at i:32187788 original size:18 final size:18
Alignment explanation
Indices: 32187767--32187810 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
32187757 TCAGAGAACA
*
32187767 GAGAGAATAGAGAGAATG
1 GAGAGAATAGAGAAAATG
**
32187785 GAGAGTTTAGAGAAAATG
1 GAGAGAATAGAGAAAATG
*
32187803 GAAAGAAT
1 GAGAGAAT
32187811 TGGATTTGAG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.34, T:0.16
Consensus pattern (18 bp):
GAGAGAATAGAGAAAATG
Found at i:32189678 original size:39 final size:38
Alignment explanation
Indices: 32189625--32189721 Score: 122
Period size: 39 Copynumber: 2.5 Consensus size: 38
32189615 ATATAATAAT
* * * *
32189625 TATAATTACCATAATTATAATGATATTTGACTGAAAAAA
1 TATAATTACAATAATTATAATAATATTCGAC-CAAAAAA
* * *
32189664 TATAATTTCAATAATTATAATAATATTCGACCATAAAT
1 TATAATTACAATAATTATAATAATATTCGACCAAAAAA
32189702 TATAATTACAATAATTATAA
1 TATAATTACAATAATTATAA
32189722 CAAGGATTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 23 0.46
39 27 0.54
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.38
Consensus pattern (38 bp):
TATAATTACAATAATTATAATAATATTCGACCAAAAAA
Found at i:32194927 original size:52 final size:52
Alignment explanation
Indices: 32194845--32194950 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
32194835 CCAAAAATGA
32194845 TAGTTTCGGAACCCCATTTTTCGATAGTGGAGTACTAAATATGGGTTATTAG
1 TAGTTTCGGAACCCCATTTTTCGATAGTGGAGTACTAAATATGGGTTATTAG
* * * *
32194897 TAGTTTCGGAACCCTATTTTTTGATGGTGGAGTACTAAATATGGTTTATTAG
1 TAGTTTCGGAACCCCATTTTTCGATAGTGGAGTACTAAATATGGGTTATTAG
32194949 TA
1 TA
32194951 TTTATGAGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (52 bp):
TAGTTTCGGAACCCCATTTTTCGATAGTGGAGTACTAAATATGGGTTATTAG
Found at i:32195226 original size:17 final size:17
Alignment explanation
Indices: 32195204--32195253 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
32195194 CATTAATGGT
32195204 TAAAATGTAAAAAGAAA
1 TAAAATGTAAAAAGAAA
*
32195221 TAAAATTTAAAAAGGAAA
1 TAAAATGTAAAAA-GAAA
32195239 -AAAA-GTAAAAAGAAA
1 TAAAATGTAAAAAGAAA
32195254 CAAGTAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 16 0.53
18 4 0.13
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (17 bp):
TAAAATGTAAAAAGAAA
Found at i:32211737 original size:16 final size:15
Alignment explanation
Indices: 32211708--32211757 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
32211698 TGTGAAATTT
*
32211708 TAGACTTTGAAAACTA
1 TAGACTATG-AAACTA
32211724 TAGAACTATGAAACTA
1 TAG-ACTATGAAACTA
* *
32211740 TAGATTGTGAAACTA
1 TAGACTATGAAACTA
32211755 TAG
1 TAG
32211758 GAAGCTATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (15 bp):
TAGACTATGAAACTA
Found at i:32216306 original size:28 final size:28
Alignment explanation
Indices: 32216264--32216380 Score: 130
Period size: 28 Copynumber: 4.2 Consensus size: 28
32216254 CTATTCAGTA
*
32216264 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
32216291 ACAGTAACAATGTGGGCCTTAGCCCAGA-
1 ACAGTAACAATGTGGGCCTTAGCCCA-AT
* * * *
32216319 ATAGTAACAAAGTGTGACTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
** * *
32216347 ACAGTGGCAATGTGGGCATTAGCCCATT
1 ACAGTAACAATGTGGGCCTTAGCCCAAT
32216375 ACAGTA
1 ACAGTA
32216381 TCAGTTCAGT
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
27 6 0.08
28 66 0.90
29 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCCAAT
Found at i:32220796 original size:25 final size:25
Alignment explanation
Indices: 32220767--32220816 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
32220757 CTTACTAAGC
*
32220767 ATTCATTACTTATATGTTTTTCTTT
1 ATTCATTACTTATATGGTTTTCTTT
* *
32220792 ATTCATTGCTTTTATGGTTTTCTTT
1 ATTCATTACTTATATGGTTTTCTTT
32220817 CCTTTACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (25 bp):
ATTCATTACTTATATGGTTTTCTTT
Found at i:32224043 original size:20 final size:20
Alignment explanation
Indices: 32224015--32224098 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
32224005 ACTAAGGTAT
* *
32224015 CCCTATTTGCACATCCGTGC
1 CCCTGTTTGCACATCAGTGC
* *
32224035 CCCTGTTTGTACATCTGTGC
1 CCCTGTTTGCACATCAGTGC
* ** *
32224055 CCTTGTTTGCATTTCGGTGC
1 CCCTGTTTGCACATCAGTGC
* *
32224075 CCCTGATTGCACATTAGTGC
1 CCCTGTTTGCACATCAGTGC
32224095 CCCT
1 CCCT
32224099 AAAAATGGAG
Statistics
Matches: 50, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.12, C:0.33, G:0.19, T:0.36
Consensus pattern (20 bp):
CCCTGTTTGCACATCAGTGC
Found at i:32225152 original size:21 final size:20
Alignment explanation
Indices: 32225119--32225163 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
32225109 TCAAAACTAC
32225119 TTTTCAAAATTTCAATTTT-
1 TTTTCAAAATTTCAATTTTG
*
32225138 TTTTCTAAAATTTTCTATTTTG
1 TTTTC-AAAA-TTTCAATTTTG
32225160 TTTT
1 TTTT
32225164 GATTTAGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 4 0.18
21 9 0.41
22 4 0.18
ACGTcount: A:0.24, C:0.09, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTTCAAAATTTCAATTTTG
Found at i:32229854 original size:32 final size:33
Alignment explanation
Indices: 32229795--32229865 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 33
32229785 ACATGTAGTA
* * * *
32229795 ACAGTCTGGGCCCGAGCCTTATTCAGTATCAAT
1 ACAGTGTGGGCCCGAGCCTGATACAGTAACAAT
* *
32229828 ACAGTGTGGG-CCTAGCCTGATACAGTAACAGT
1 ACAGTGTGGGCCCGAGCCTGATACAGTAACAAT
32229860 ACAGTG
1 ACAGTG
32229866 CCATATTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 23 0.72
33 9 0.28
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (33 bp):
ACAGTGTGGGCCCGAGCCTGATACAGTAACAAT
Found at i:32239543 original size:22 final size:22
Alignment explanation
Indices: 32239517--32239559 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
32239507 CGCTTCCTAG
32239517 GATTCAACTTCTTCTGAGTGAA
1 GATTCAACTTCTTCTGAGTGAA
32239539 GATTCAACTTCTTCTGAGTGA
1 GATTCAACTTCTTCTGAGTGA
32239560 GGAGGTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (22 bp):
GATTCAACTTCTTCTGAGTGAA
Found at i:32249061 original size:20 final size:20
Alignment explanation
Indices: 32249018--32249061 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
32249008 ACTTCGATAT
* *
32249018 CCCTGTTTGCACATCTGTGG
1 CCCTGTTTGCACATCGGTGC
*
32249038 CCCTGTTTGCACTTCGGTGC
1 CCCTGTTTGCACATCGGTGC
32249058 CCCT
1 CCCT
32249062 AACTTCACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.07, C:0.36, G:0.23, T:0.34
Consensus pattern (20 bp):
CCCTGTTTGCACATCGGTGC
Found at i:32251430 original size:25 final size:26
Alignment explanation
Indices: 32251388--32251438 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
32251378 AGTTGTAAAT
32251388 AAGAAAAATATCTCTAGA-AATTTTC
1 AAGAAAAATATCTCTAGATAATTTTC
* * *
32251413 AAGAATAATCTCTTTAGATAATTTTC
1 AAGAAAAATATCTCTAGATAATTTTC
32251439 TCTCTACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (26 bp):
AAGAAAAATATCTCTAGATAATTTTC
Found at i:32251567 original size:16 final size:16
Alignment explanation
Indices: 32251546--32251600 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
32251536 TAATCACTAC
32251546 AATATTATATTAATCT
1 AATATTATATTAATCT
* * *
32251562 AATATTTATCTTGA-CA
1 AATA-TTATATTAATCT
*
32251578 AATATTATATTAATTT
1 AATATTATATTAATCT
32251594 AATATTA
1 AATATTA
32251601 AATCTTATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 7 0.23
16 16 0.53
17 7 0.23
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (16 bp):
AATATTATATTAATCT
Found at i:32251608 original size:23 final size:23
Alignment explanation
Indices: 32251577--32251647 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 23
32251567 TTATCTTGAC
*
32251577 AAATATTATATTAATTTAATATT
1 AAATCTTATATTAATTTAATATT
**
32251600 AAATC-T-TATTAAAATAATATAAT
1 AAATCTTATATTAATTTAATAT--T
*
32251623 AAA-CTTAAATTAAATTTAATATT
1 AAATCTTATATT-AATTTAATATT
32251646 AA
1 AA
32251648 GATAATGACT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
21 12 0.32
22 2 0.05
23 12 0.32
24 3 0.08
25 8 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATCTTATATTAATTTAATATT
Found at i:32253935 original size:19 final size:19
Alignment explanation
Indices: 32253911--32253948 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
32253901 AGTGTTATGA
32253911 ATATGTTATTAAGTGGATG
1 ATATGTTATTAAGTGGATG
32253930 ATATGTTATTAAGTGGATG
1 ATATGTTATTAAGTGGATG
32253949 TCCATCATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
ATATGTTATTAAGTGGATG
Found at i:32264883 original size:19 final size:19
Alignment explanation
Indices: 32264846--32264884 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
32264836 ATAAATCATT
*
32264846 TTAATTTAAATTGATTTGA
1 TTAATTTAAATTGACTTGA
* *
32264865 TTAATTTAATTTTACTTGA
1 TTAATTTAAATTGACTTGA
32264884 T
1 T
32264885 CAAAATTATT
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:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
TTAATTTAAATTGACTTGA
Found at i:32266604 original size:27 final size:27
Alignment explanation
Indices: 32266539--32266862 Score: 251
Period size: 27 Copynumber: 12.0 Consensus size: 27
32266529 ATCTACACCA
* *
32266539 AAATACCCTCATAGGGTAAAATGA-TC
1 AAATACCCCCATAGGGTAAAATGACTG
* ***
32266565 AAAAATTTTCCATAGGGTAAAATGACTG
1 AAATA-CCCCCATAGGGTAAAATGACTG
* **
32266593 AAATACCCCCATATGGTAAAATGACAA
1 AAATACCCCCATAGGGTAAAATGACTG
* * **
32266620 AAATACCCTCATAAGGTAAAATGACCA
1 AAATACCCCCATAGGGTAAAATGACTG
* *
32266647 AAATACCCCCATAGGGCAAAATGATTG
1 AAATACCCCCATAGGGTAAAATGACTG
* * *
32266674 AAATACCCCCAAAAGATAAAATGA-TCG
1 AAATACCCCCATAGGGTAAAATGACT-G
* * *
32266701 AAATACCTCCATAAGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACTG
32266728 AAATACCCCCATAGGGTAAAATGA-TCG
1 AAATACCCCCATAGGGTAAAATGACT-G
* * * *
32266755 AAATACCCTCATACGGTAAAATCACTA
1 AAATACCCCCATAGGGTAAAATGACTG
* ** * * * *
32266782 AAATACACTTATTGGGTAAAACGTCCG
1 AAATACCCCCATAGGGTAAAATGACTG
*
32266809 AAATACCCCTATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACTG
** * *
32266836 TTATACCCCTA-AGAGATAAAATGACTG
1 AAATACCCCCATAG-GGTAAAATGACTG
32266863 TTATGGCCTT
Statistics
Matches: 236, Mismatches: 55, Indels: 13
0.78 0.18 0.04
Matches are distributed among these distances:
26 7 0.03
27 223 0.94
28 6 0.03
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACTG
Found at i:32266676 original size:81 final size:80
Alignment explanation
Indices: 32266537--32266832 Score: 317
Period size: 81 Copynumber: 3.7 Consensus size: 80
32266527 ATATCTACAC
* * *** *
32266537 CAAAATACCCTCATAGGGTAAAATGATCAAAA-ATTTTCCATAGGGTAAAATGACTGAAATACCC
1 CAAAATACCCTCATAAGGTAAAATGACCAAAATA-CCCCCATAGGGTAAAATGATTGAAATACCC
*
32266601 CCATATGGTAAAATGA
65 CCATAAGGTAAAATGA
*
32266617 CAAAAATACCCTCATAAGGTAAAATGACCAAAATACCCCCATAGGGCAAAATGATTGAAATACCC
1 C-AAAATACCCTCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATTGAAATACCC
* *
32266682 CCAAAAGATAAAATGA
65 CCATAAGGTAAAATGA
* * *
32266698 TCGAAATA-CCTCCATAAGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGATCGAAATACC
1 -CAAAATACCCT-CATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATTGAAATACC
* * *
32266762 CTCATACGGTAAAATCA
64 CCCATAAGGTAAAATGA
* * ** * * * *
32266779 CTAAAATACACTTATTGGGTAAAACGTCCGAAATACCCCTATAGGGTAAAATGA
1 C-AAAATACCCTCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGA
32266833 CTGTTATACC
Statistics
Matches: 183, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
80 5 0.03
81 174 0.95
82 4 0.02
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.21
Consensus pattern (80 bp):
CAAAATACCCTCATAAGGTAAAATGACCAAAATACCCCCATAGGGTAAAATGATTGAAATACCCC
CATAAGGTAAAATGA
Found at i:32266842 original size:81 final size:80
Alignment explanation
Indices: 32266574--32266861 Score: 314
Period size: 81 Copynumber: 3.6 Consensus size: 80
32266564 CAAAAATTTT
* *
32266574 CCATAGGGTAAAATGACTGAAATACCCCCATATGGTAAAATGACAAAAATACCCTCATAAGGTAA
1 CCATAGGGTAAAATGACTGAAATACCCCCATAAGGTAAAATGACTAAAATA-CCTCATAAGGTAA
*
32266639 AATGACCAAAATACCC
65 AATGACCGAAATACCC
* * * * *
32266655 CCATAGGGCAAAATGATTGAAATACCCCCAAAAGATAAAATGA-TCGAAATACCTCCATAAGGTA
1 CCATAGGGTAAAATGACTGAAATACCCCCATAAGGTAAAATGACT-AAAATACCT-CATAAGGTA
32266719 AAATGACCGAAATACCC
64 AAATGACCGAAATACCC
* * * * **
32266736 CCATAGGGTAAAATGA-TCGAAATACCCTCATACGGTAAAATCACTAAAATACACTTATTGGGTA
1 CCATAGGGTAAAATGACT-GAAATACCCCCATAAGGTAAAATGACTAAAATAC-CTCATAAGGTA
* *
32266800 AAACGTCCGAAATACCC
64 AAATGACCGAAATACCC
* **
32266817 CTATAGGGTAAAATGACTGTTATA-CCCC-TAAGAGATAAAATGACT
1 CCATAGGGTAAAATGACTGAAATACCCCCATAAG-G-TAAAATGACT
32266862 GTTATGGCCT
Statistics
Matches: 173, Mismatches: 26, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
79 3 0.02
80 8 0.05
81 158 0.91
82 4 0.02
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.20
Consensus pattern (80 bp):
CCATAGGGTAAAATGACTGAAATACCCCCATAAGGTAAAATGACTAAAATACCTCATAAGGTAAA
ATGACCGAAATACCC
Found at i:32267106 original size:26 final size:26
Alignment explanation
Indices: 32267073--32267143 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
32267063 AAATATATTG
32267073 TTACTGGCAGCTTTGCTGCAATACTGA
1 TTACTGGCAGCTTTGCTGCAATACT-A
* * * *
32267100 -TACTGGCAGCTCTACTGCAGTGCTA
1 TTACTGGCAGCTTTGCTGCAATACTA
*
32267125 TTATTGGCAGCTTTGCTGC
1 TTACTGGCAGCTTTGCTGC
32267144 GATATTGGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 1 0.03
26 35 0.97
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCAATACTA
Found at i:32267356 original size:28 final size:28
Alignment explanation
Indices: 32267324--32267421 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
32267314 CCACATTCCA
* *
32267324 TAAGGCCAACACTGATTCTGTATTGGGT
1 TAAGGCCCACACTGATTCTGTATTGGGC
* *
32267352 TAAGGCCCACACTGATTATGTATTAGGC
1 TAAGGCCCACACTGATTCTGTATTGGGC
*
32267380 TAAGGCCCAGACTG-TTACTGTATTGGGC
1 TAAGGCCCACACTGATT-CTGTATTGGGC
32267408 TAAGGCCCACACTG
1 TAAGGCCCACACTG
32267422 TACTATCACT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 2 0.03
28 59 0.97
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (28 bp):
TAAGGCCCACACTGATTCTGTATTGGGC
Found at i:32268622 original size:16 final size:16
Alignment explanation
Indices: 32268601--32268631 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32268591 TTATGCATGC
*
32268601 AAAATATAAAAGACAA
1 AAAATACAAAAGACAA
32268617 AAAATACAAAAGACA
1 AAAATACAAAAGACA
32268632 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.10, G:0.06, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAA
Found at i:32268992 original size:28 final size:28
Alignment explanation
Indices: 32268950--32269040 Score: 114
Period size: 28 Copynumber: 3.3 Consensus size: 28
32268940 AGTACTTAAT
* * *
32268950 GAAAAGG-CGCCTTTGTGGATATCTTTG
1 GAAAAGGAAGCCTTTGTGGCTATATTTG
* *
32268977 GATAAGGAAGCCTTTGTGGCTATTTTTG
1 GAAAAGGAAGCCTTTGTGGCTATATTTG
*
32269005 GAAAATGAAGCCTTTGTGGCTATATTT-
1 GAAAAGGAAGCCTTTGTGGCTATATTTG
32269032 GAAAAGGAA
1 GAAAAGGAA
32269041 TGGCTTCGTG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.25
28 41 0.75
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (28 bp):
GAAAAGGAAGCCTTTGTGGCTATATTTG
Found at i:32269051 original size:28 final size:28
Alignment explanation
Indices: 32268950--32269052 Score: 93
Period size: 28 Copynumber: 3.7 Consensus size: 28
32268940 AGTACTTAAT
* * * *
32268950 GAAAAGG-CGCCTTTGTGGATATCTTTG
1 GAAAAGGAAGCCTTCGTGGCTATATTTG
* * *
32268977 GATAAGGAAGCCTTTGTGGCTATTTTTG
1 GAAAAGGAAGCCTTCGTGGCTATATTTG
* *
32269005 GAAAATGAAGCCTTTGTGGCTATATTT-
1 GAAAAGGAAGCCTTCGTGGCTATATTTG
*
32269032 GAAAAGGAATGGCTTCGTGGC
1 GAAAAGGAA-GCCTTCGTGGC
32269053 ACCATCTAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
27 14 0.22
28 50 0.78
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GAAAAGGAAGCCTTCGTGGCTATATTTG
Found at i:32272120 original size:30 final size:29
Alignment explanation
Indices: 32272026--32272166 Score: 144
Period size: 29 Copynumber: 4.9 Consensus size: 29
32272016 GGCTATCGAT
32272026 TATGAAAA-GGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
*
32272054 TATGAAAAGGGATGGTCG-GGACCATCAAC
1 TATGAAAAGGGATGGT-GACGACCATCAAC
* * *
32272083 TATGAAAAGGGATGGTGACAACCATCGAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
** *
32272112 TAATGAAAAGGGATGGTTTCGACTATCGAA-
1 T-ATGAAAAGGGATGGTGACGACCATC-AAC
* * *
32272142 TATAAAAAGGGACGGTTACGACCAT
1 TATGAAAAGGGATGGTGACGACCAT
32272167 TATTTAGTAC
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
28 9 0.10
29 61 0.65
30 23 0.24
31 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:32272166 original size:59 final size:59
Alignment explanation
Indices: 32271997--32272166 Score: 175
Period size: 59 Copynumber: 2.9 Consensus size: 59
32271987 ATCATCGACA
* * * * *
32271997 AATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAA-GGATGGTGACGACCATCAACT
1 AATGAAAAGGGATGGTTTCGACTATCGAATATGAAAAGGGATGGTGACGACCATCAACT
*** * * * *
32272055 -ATGAAAAGGGATGGTCGGGACCATC-AACTATGAAAAGGGATGGTGACAACCATCGATT
1 AATGAAAAGGGATGGTTTCGACTATCGAA-TATGAAAAGGGATGGTGACGACCATCAACT
* * *
32272113 AATGAAAAGGGATGGTTTCGACTATCGAATATAAAAAGGGACGGTTACGACCAT
1 AATGAAAAGGGATGGTTTCGACTATCGAATATGAAAAGGGATGGTGACGACCAT
32272167 TATTTAGTAC
Statistics
Matches: 88, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
56 1 0.01
57 25 0.28
58 18 0.20
59 42 0.48
60 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (59 bp):
AATGAAAAGGGATGGTTTCGACTATCGAATATGAAAAGGGATGGTGACGACCATCAACT
Found at i:32275078 original size:29 final size:29
Alignment explanation
Indices: 32275016--32275082 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
32275006 CCAAGCTTTC
*
32275016 ATTTTTATATTTTCATGATCATTCATTTTG
1 ATTTTTATATTTTCATGA-CATTCATTATG
*
32275046 ATTTTTATCTGTTTCATG-CATTCATATAT-
1 ATTTTTATAT-TTTCATGACATTCAT-TATG
32275075 ATTTTTAT
1 ATTTTTAT
32275083 TCATTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 15 0.45
30 11 0.33
31 7 0.21
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.60
Consensus pattern (29 bp):
ATTTTTATATTTTCATGACATTCATTATG
Found at i:32276341 original size:18 final size:18
Alignment explanation
Indices: 32276306--32276341 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32276296 ACACGGGTGT
*
32276306 AGGAAGAAGAAGATGAAA
1 AGGAAGAAGAAGAAGAAA
*
32276324 AGGAAGAAGATGAAGAAA
1 AGGAAGAAGAAGAAGAAA
32276342 GAAAATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (18 bp):
AGGAAGAAGAAGAAGAAA
Found at i:32282099 original size:24 final size:24
Alignment explanation
Indices: 32282070--32282120 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
32282060 ATATTCATCC
32282070 ATAGCATATGTAAATTTCTTACAT
1 ATAGCATATGTAAATTTCTTACAT
32282094 ATAGCATATGTAAATTTCTTACAT
1 ATAGCATATGTAAATTTCTTACAT
32282118 ATA
1 ATA
32282121 AGTACATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (24 bp):
ATAGCATATGTAAATTTCTTACAT
Found at i:32285217 original size:3 final size:3
Alignment explanation
Indices: 32285209--32285247 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
32285199 TTTTATGCAC
32285209 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
32285248 AGCTTCAACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:32292821 original size:34 final size:34
Alignment explanation
Indices: 32292778--32292845 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
32292768 ACATTTTTAA
* *
32292778 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
32292811 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
32292846 TCAACTATGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:32296620 original size:26 final size:26
Alignment explanation
Indices: 32296566--32296620 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
32296556 ATTTTTTATT
* ** **
32296566 AATTTGATCTTTATTTTTTAAAATTA
1 AATTTGACCTTTAACTTTTAAAAGAA
32296592 AATTTGACCTTTAACTTTTAAAAGAA
1 AATTTGACCTTTAACTTTTAAAAGAA
32296618 AAT
1 AAT
32296621 GTTAAACTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (26 bp):
AATTTGACCTTTAACTTTTAAAAGAA
Found at i:32297536 original size:195 final size:194
Alignment explanation
Indices: 32297205--32297595 Score: 737
Period size: 195 Copynumber: 2.0 Consensus size: 194
32297195 ATGTATTTGT
**
32297205 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCGGGTTTT
1 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCAAGTTTT
*
32297270 AGAGTTGATTTGATGAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCGAA
66 AGAGTTGATTTGATAAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCGAA
32297335 ATTAAATCACATCCATCAGACTATAACTGACAAGTTAAACACAAAATTAAACAAATTCACAATA
131 ATTAAATCACATCCATCAGACTATAACTGACAAGTTAAACACAAAATTAAACAAATTCACAATA
32297399 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTGTAGTGTTTAATTCAAGTTT
1 AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTT-TAGTGTTTAATTCAAGTTT
*
32297464 TAGAGTTGATTTGATAAAAATTAATAGCTAATTATGAAATTTCATCAAATTAACCTTAAAATCGA
65 TAGAGTTGATTTGATAAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCGA
32297529 AATTAAATCACATCCATCAGACTATAACTGACAAGTTAAACACAAAATTAAACAAATTCACAATA
130 AATTAAATCACATCCATCAGACTATAACTGACAAGTTAAACACAAAATTAAACAAATTCACAATA
32297594 AA
1 AA
32297596 TACTAAATTT
Statistics
Matches: 192, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
194 45 0.23
195 147 0.77
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.34
Consensus pattern (194 bp):
AAAAAAGTATATATTTTGGTACTTGAAGATAACAATATTAATTTTTAGTGTTTAATTCAAGTTTT
AGAGTTGATTTGATAAAAATTAATAGCTAATTATGAAATTTCATCAAATCAACCTTAAAATCGAA
ATTAAATCACATCCATCAGACTATAACTGACAAGTTAAACACAAAATTAAACAAATTCACAATA
Found at i:32302446 original size:43 final size:42
Alignment explanation
Indices: 32302393--32302512 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
32302383 CGCTAAAAGT
* *
32302393 CATGACCTTTAACGACTCTTCTACCACAAACGCCGCGAAAGAA
1 CATGATCTTTAGCG-CTCTTCTACCACAAACGCCGCGAAAGAA
** * *
32302436 CATGATCTTTAGCGGCGATTCTACCACAAACGCTGCTAAAGAA
1 CATGATCTTTAGC-GCTCTTCTACCACAAACGCCGCGAAAGAA
* * *
32302479 CATGATCTCTAGCGGTGCTTATACCACAAACGCC
1 CATGATCTTTAGCGCT-CTTCTACCACAAACGCC
32302513 ACTATAAGGA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 1 0.02
43 61 0.97
44 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (42 bp):
CATGATCTTTAGCGCTCTTCTACCACAAACGCCGCGAAAGAA
Done.