Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 96 of 150
Found at i:30176518 original size:44 final size:44
Alignment explanation
Indices: 30176466--30176775 Score: 197
Period size: 44 Copynumber: 7.0 Consensus size: 44
30176456 AGTTGAACAA
* *
30176466 ATTGAAGATTACAGATCTTATCTCTCTAGGCAGTAGTGGAGTAG
1 ATTGAAGATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAG
** ** * * * *
30176510 ATCAAAGATGGCAGATTTTACCTCCCTGAGGTTA-CAGTGGAGTAC
1 ATTGAAGATTACAGATCTTATCTCCCT-AGG-CAGCAGTGGAGTAG
* * * *
30176555 ATTGAAG-CTAGTA-AT-TCTATCTCCCTGGGCAGCAGTGGAATAG
1 ATTGAAGATTA-CAGATCT-TATCTCCCTAGGCAGCAGTGGAGTAG
* * *
30176598 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 ATTGAAGATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAG
* ** * * * *
30176642 A-TCAACGATGGCAGATTTTACCTCCCTGAGGTTA-CAGTGGAGTAC
1 ATTGAA-GATTACAGATCTTATCTCCCT-AGG-CAGCAGTGGAGTAG
* * * *
30176687 ATTGAAGCCAGTA-A-TTC-TATCTCCCTGGGCAGCAGTGGAATAG
1 ATTGAAG--ATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAG
* * *
30176730 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
1 ATTGAAGATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAG
30176774 AT
1 AT
30176776 CAAGGATGGC
Statistics
Matches: 192, Mismatches: 56, Indels: 36
0.68 0.20 0.13
Matches are distributed among these distances:
41 3 0.02
42 3 0.02
43 43 0.22
44 104 0.54
45 32 0.17
46 6 0.03
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
ATTGAAGATTACAGATCTTATCTCCCTAGGCAGCAGTGGAGTAG
Found at i:30176884 original size:132 final size:132
Alignment explanation
Indices: 30176466--30176845 Score: 670
Period size: 132 Copynumber: 2.9 Consensus size: 132
30176456 AGTTGAACAA
* * *
30176466 ATTGAAGATTACAGATCTTATCTCTCTAGGCAGTAGTGGAGTAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
*
30176531 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
30176596 AG
131 AG
*
30176598 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAACGATGGCAGATTTTAC
1 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
30176663 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
30176728 AG
131 AG
* *
30176730 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGGATGGCGGATTTTAC
1 ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* * *
30176795 CTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGAAATTTTATCTCCCTG
66 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTG
30176846 AAGTTGCAGT
Statistics
Matches: 238, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 238 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
ATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGTGGAAT
AG
Found at i:30179014 original size:20 final size:21
Alignment explanation
Indices: 30178977--30179015 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
30178967 ATCAAAATCA
*
30178977 TTTTTTCTTGATTCAAAAGTT
1 TTTTTTCTTGAATCAAAAGTT
*
30178998 TTTTTTTTTGAAT-AAAAG
1 TTTTTTCTTGAATCAAAAG
30179016 CAATATTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.28, C:0.05, G:0.10, T:0.56
Consensus pattern (21 bp):
TTTTTTCTTGAATCAAAAGTT
Found at i:30183547 original size:34 final size:34
Alignment explanation
Indices: 30183509--30183578 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
30183499 TGGGTCTTCA
30183509 TAATTCGCCACTCCTTCGACACAGTAATAAAAAC
1 TAATTCGCCACTCCTTCGACACAGTAATAAAAAC
*
30183543 TAATTCGCCACTCCTTTGACACAGTAATAAAAAC
1 TAATTCGCCACTCCTTCGACACAGTAATAAAAAC
30183577 TA
1 TA
30183579 GGGGAATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.26
Consensus pattern (34 bp):
TAATTCGCCACTCCTTCGACACAGTAATAAAAAC
Found at i:30195048 original size:22 final size:22
Alignment explanation
Indices: 30195017--30195058 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30195007 TACACCAAAA
*
30195017 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
30195039 TAGGCCTTTAGCGGCGCTTT
1 TAGGCCTTTAGCGGCGCTTT
30195059 GAGAAGCGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.29, T:0.40
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:30195149 original size:43 final size:43
Alignment explanation
Indices: 30195122--30195263 Score: 234
Period size: 43 Copynumber: 3.3 Consensus size: 43
30195112 TTTTTAGAAA
*
30195122 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCAC
30195165 AAACGCCGCTAAAGACCAAGACCTTTA--ATGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCA-G-CGCTTTTCCCAC
*
30195208 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCAC
30195251 AAACGCCGCTAAA
1 AAACGCCGCTAAA
30195264 AACATGACTT
Statistics
Matches: 93, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
42 1 0.01
43 91 0.98
44 1 0.01
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.18
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTCCCAC
Found at i:30199373 original size:41 final size:41
Alignment explanation
Indices: 30199259--30199585 Score: 378
Period size: 41 Copynumber: 8.0 Consensus size: 41
30199249 TGGAGTCCCT
* *
30199259 AGCATTAGCGGCTC-TTTCTC-AAAACGCCGCTAAAGACCTC
1 AGCATTAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCCC
* *
30199299 AGCATTAGCGGCTC-TTTCTC-AAAACGCCGCTAAAGACCTC
1 AGCATTAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCCC
* * *
30199339 AGCATTAGCGGCGGTTTTCTAAAAACGCCACTAAAGACCCC
1 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCC
* * * *
30199380 AGAATTAGC-GCTGCTTTTCCAAAAACGCTGCTAATGACCTC
1 AGCATTAGCGGC-GCTTTTCCAAAAACGCCGCTAAAGACCCC
30199421 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGA-CCC
1 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCC
* * *
30199461 AGCATTAGCGGTGATTTTCCAAAAATGCCGCTAAAGACCCC
1 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCC
** *
30199502 AAAATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAAACCCCC
1 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGA-CCCC
* ** * *
30199544 AGCATTAGCAGCGCTTTTTTAAAAACGCCGTTAAAGCCCCC
1 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCC
30199585 A
1 A
30199586 AAGGAAAGAA
Statistics
Matches: 248, Mismatches: 33, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
40 90 0.36
41 123 0.50
42 35 0.14
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCC
Found at i:30199403 original size:81 final size:81
Alignment explanation
Indices: 30199259--30199579 Score: 382
Period size: 81 Copynumber: 3.9 Consensus size: 81
30199249 TGGAGTCCCT
* *
30199259 AGCATTAGCGGCTC-TTTCTC-AAAACGCCGCTAAAGACCTCAGCATTAGCG-GCTCTTTCTC-A
1 AGCATTAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCCCAGCATTAGCGCGCT-TTTC-CAA
30199320 AAACGCCGCTAAAGACCTC
63 AAACGCCGCTAAAGACCTC
* * * *
30199339 AGCATTAGCGGCGGTTTTCTAAAAACGCCACTAAAGACCCCAGAATTAGCGCTGCTTTTCCAAAA
1 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGCGC-GCTTTTCCAAAA
* *
30199404 ACGCTGCTAATGACCTC
65 ACGCCGCTAAAGACCTC
* *
30199421 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGA-CCCAGCATTAGCGGTGATTTTCCAAAA
1 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGC-GCGCTTTTCCAAAA
* *
30199485 ATGCCGCTAAAGACCCC
65 ACGCCGCTAAAGACCTC
** * **
30199502 AAAATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAAACCCCCAGCATTAGCAGCGCTTTTTTAAA
1 AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGA-CCCCAGCATTAGC-GCGCTTTTCCAAA
*
30199567 AACGCCGTTAAAG
64 AACGCCGCTAAAG
30199580 CCCCCAAAGG
Statistics
Matches: 205, Mismatches: 28, Indels: 13
0.83 0.11 0.05
Matches are distributed among these distances:
80 12 0.06
81 101 0.49
82 57 0.28
83 35 0.17
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (81 bp):
AGCATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCCAGCATTAGCGCGCTTTTCCAAAAA
CGCCGCTAAAGACCTC
Found at i:30199496 original size:122 final size:123
Alignment explanation
Indices: 30199262--30199579 Score: 414
Period size: 122 Copynumber: 2.6 Consensus size: 123
30199252 AGTCCCTAGC
* *
30199262 ATTAGCGGCTC-TTTCTC-AAAACGCCGCTAAAGACCTCAGCATTAGCGGCTC-TTTCTC-AAAA
1 ATTAGCGGCGCTTTTC-CAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTTTTC-CAAAAA
* * *
30199323 CGCCGCTAAAGACCTCAGCATTAGCGGCGGTTTTCTAAAAACGCCACTAAAGACCCCAGA
64 CGCCGCTAAAGACCTCAGCATTAGCGGCGATTTTCCAAAAACGCCACTAAAGACCCCAAA
* *
30199383 ATTAGC-GCTGCTTTTCCAAAAACGCTGCTAATGACCTCAGCATTAGCGGCGCTTTTCCAAAAAC
1 ATTAGCGGC-GCTTTTCCAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTTTTCCAAAAAC
* * *
30199447 GCCGCTAAAGACC-CAGCATTAGCGGTGATTTTCCAAAAATGCCGCTAAAGACCCCAAA
65 GCCGCTAAAGACCTCAGCATTAGCGGCGATTTTCCAAAAACGCCACTAAAGACCCCAAA
* * * **
30199505 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAAACCCCCAGCATTAGCAGCGCTTTTTTAAAAAC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGA-CCTCAGCATTAGCGGCGCTTTTCCAAAAAC
*
30199570 GCCGTTAAAG
65 GCCGCTAAAG
30199580 CCCCCAAAGG
Statistics
Matches: 172, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
120 2 0.01
121 8 0.05
122 103 0.60
123 59 0.34
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (123 bp):
ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCTCAGCATTAGCGGCGCTTTTCCAAAAACG
CCGCTAAAGACCTCAGCATTAGCGGCGATTTTCCAAAAACGCCACTAAAGACCCCAAA
Found at i:30207327 original size:23 final size:24
Alignment explanation
Indices: 30207300--30207344 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
30207290 GAAAAATATT
*
30207300 AAATAT-ATATTTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
30207323 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
30207345 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:30207455 original size:9 final size:9
Alignment explanation
Indices: 30207441--30207468 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
30207431 TTTTGTTACA
30207441 ACAATTAAT
1 ACAATTAAT
30207450 ACAATTAAT
1 ACAATTAAT
30207459 ACAATTAAT
1 ACAATTAAT
30207468 A
1 A
30207469 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:30207490 original size:68 final size:66
Alignment explanation
Indices: 30207411--30207552 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
30207401 TCAAGTTTGT
*
30207411 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
30207476 AAA
64 AAA
30207479 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
30207544 T
66 A
30207545 TTTACTAA
1 TTTACTAA
30207553 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:30207562 original size:16 final size:16
Alignment explanation
Indices: 30207541--30207582 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
30207531 AATAATTTGA
*
30207541 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
30207557 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
30207573 TAGTTTTAAT
1 TAATTTTAAT
30207583 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:30207566 original size:22 final size:23
Alignment explanation
Indices: 30207556--30207611 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
30207546 TTACTAACAA
* * *
30207556 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
30207578 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
30207601 TTAATTTTAAT
1 TTAATTTTAAT
30207612 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:30207571 original size:59 final size:66
Alignment explanation
Indices: 30207411--30207574 Score: 216
Period size: 68 Copynumber: 2.5 Consensus size: 66
30207401 TCAAGTTTGT
*
30207411 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTT-ATACAACAATTAATACAATTAATACAATTAATAATTTGAT
30207476 AAA
64 AAA
30207479 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTA-TACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
30207542 AAT
64 AAA
*
30207545 TTTACTAA-C-AA-TTA-ATTTTA-ATAACAATTA
1 TTTACTAATCAAAGTTAGATTTTATACAACAATTA
30207575 GTTTTAATTT
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 9 0.10
61 6 0.07
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 43 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAAGTTAGATTTTATACAACAATTAATACAATTAATACAATTAATAATTTGATAA
A
Found at i:30207894 original size:13 final size:13
Alignment explanation
Indices: 30207878--30207974 Score: 77
Period size: 13 Copynumber: 7.4 Consensus size: 13
30207868 AAATGGTAAA
*
30207878 ATGAAATATTTAG
1 ATGAAATATTTAT
**
30207891 ATGAAATGGTTAT
1 ATGAAATATTTAT
*
30207904 ATGAAATGTTTAT
1 ATGAAATATTTAT
**
30207917 ATCGAAATAGATAT
1 AT-GAAATATTTAT
** *
30207931 ATGAAACGTTGAT
1 ATGAAATATTTAT
* * *
30207944 ACGAAGTGTTTAT
1 ATGAAATATTTAT
30207957 ATGAAATATTTAT
1 ATGAAATATTTAT
30207970 ATGAA
1 ATGAA
30207975 TATAGATATG
Statistics
Matches: 64, Mismatches: 19, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
13 54 0.84
14 10 0.16
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (13 bp):
ATGAAATATTTAT
Found at i:30207894 original size:26 final size:26
Alignment explanation
Indices: 30207865--30207924 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
30207855 AAATGTGTAA
30207865 ATGAAATGGTAAAATGAAATATTTAG
1 ATGAAATGGTAAAATGAAATATTTAG
* * * *
30207891 ATGAAATGGTTATATGAAATGTTTAT
1 ATGAAATGGTAAAATGAAATATTTAG
30207917 ATCGAAAT
1 AT-GAAAT
30207925 AGATATATGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (26 bp):
ATGAAATGGTAAAATGAAATATTTAG
Found at i:30207936 original size:53 final size:53
Alignment explanation
Indices: 30207878--30207989 Score: 127
Period size: 53 Copynumber: 2.1 Consensus size: 53
30207868 AAATGGTAAA
* * * *
30207878 ATGAAATATTTAGATGAAATGGTTATATGAAATGTTTATATCGAA-ATAGATAT
1 ATGAAACATTGAGACGAAATGGTTATATGAAATATTTATAT-GAATATAGATAT
* * * *
30207931 ATGAAACGTTGATACGAAGTGTTTATATGAAATATTTATATGAATATAGATAT
1 ATGAAACATTGAGACGAAATGGTTATATGAAATATTTATATGAATATAGATAT
*
30207984 GTGAAA
1 ATGAAA
30207990 AGGGACATTT
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
52 3 0.06
53 46 0.94
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.37
Consensus pattern (53 bp):
ATGAAACATTGAGACGAAATGGTTATATGAAATATTTATATGAATATAGATAT
Found at i:30214404 original size:42 final size:42
Alignment explanation
Indices: 30214357--30214437 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
30214347 AAATGAGTAA
30214357 AATTATAAA-AATA-AAAAAGATATATATATGTACGTATGTTAG
1 AATTATAAAGAATATAAAAA-A-ATATATATGTACGTATGTTAG
* * *
30214399 AATTATAAAGTATATAAAAAAATATGTATGTATGTATGT
1 AATTATAAAGAATATAAAAAAATATATATGTACGTATGT
30214438 ATGTATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 25 0.74
43 4 0.12
44 5 0.15
ACGTcount: A:0.51, C:0.01, G:0.12, T:0.36
Consensus pattern (42 bp):
AATTATAAAGAATATAAAAAAATATATATGTACGTATGTTAG
Found at i:30214518 original size:22 final size:22
Alignment explanation
Indices: 30214493--30214548 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
30214483 ATATATATAT
**
30214493 ATATATATAATAAGATAGATGG
1 ATATATATAATAAGATAGAAAG
*
30214515 ATATATATAATAAGATATAAAG
1 ATATATATAATAAGATAGAAAG
30214537 ATATATA-AATAA
1 ATATATATAATAA
30214549 ATATAATAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (22 bp):
ATATATATAATAAGATAGAAAG
Found at i:30214520 original size:2 final size:2
Alignment explanation
Indices: 30214471--30214501 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
30214461 TTATAAAGAG
*
30214471 AT AT GT 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 AT AT AT A
30214502 ATAAGATAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30214540 original size:20 final size:20
Alignment explanation
Indices: 30214514--30214554 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
30214504 AAGATAGATG
30214514 GATATATATAATAAGATATAAA
1 GATATATA-AATAA-ATATAAA
30214536 GATATATAAATAAATATAA
1 GATATATAAATAAATATAA
30214555 TAGTAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (20 bp):
GATATATAAATAAATATAAA
Found at i:30214658 original size:2 final size:2
Alignment explanation
Indices: 30214651--30214675 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30214641 AATAATAGTA
30214651 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
30214676 AGAATAAATA
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:30219872 original size:104 final size:103
Alignment explanation
Indices: 30219702--30220061 Score: 605
Period size: 104 Copynumber: 3.5 Consensus size: 103
30219692 GGTGGATCCT
* *
30219702 GCACTTAGCACCACCATTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCGCAT
1 GCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACAT
*
30219767 AGCAACCCCCTTTTCATTTCAAAGATATGGTGGATATC
66 AGCAACCCCCTTTACATTTCAAAGATATGGTGGATATC
30219805 GCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACA
1 GCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACA
30219870 TAGCAACCCCCTTTACATTTCAAAGATATGGTGGATATC
65 TAGCAACCCCCTTTACATTTCAAAGATATGGTGGATATC
*
30219909 GCACTTAGCACCACCAATGAAATCAGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACA
1 GCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACA
30219974 TAGCAACCCCCTTTCACATTTCAAAGATATGGTGGATCA-C
65 TAGCAACCCCCTTT-ACATTTCAAAGATATGGTGGAT-ATC
* * **
30220014 GCACATAGCACCACCCATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
30220062 TTTATATACA
Statistics
Matches: 245, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
103 18 0.07
104 186 0.76
105 40 0.16
106 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
GCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACAT
AGCAACCCCCTTTACATTTCAAAGATATGGTGGATATC
Found at i:30231335 original size:40 final size:40
Alignment explanation
Indices: 30231280--30231480 Score: 285
Period size: 40 Copynumber: 5.0 Consensus size: 40
30231270 CATTCCAGAT
* * *
30231280 AGAAGCTCATAAGAGCTAATCCAACTAAAACACGTCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAAC
* *
30231320 AGAAGCTCATAAGAGCTGATCCAACCGAAACACACCAAAC
1 AGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAAC
* *
30231360 AGAAGCTCATAAGAGCTGATCCAACCGAAACACGCCAAAT
1 AGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAAC
* * *
30231400 AGAAGCTCATAAGAGCTTATCTAACCAAAACACGCCAAAT
1 AGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAAC
* * *
30231440 AGAAGCTCATAAGAGCTTATCTAACCAAAACACGCCGAAC
1 AGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAAC
30231480 A
1 A
30231481 AATAGTATAA
Statistics
Matches: 149, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 149 1.00
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (40 bp):
AGAAGCTCATAAGAGCTGATCCAACCAAAACACGCCAAAC
Found at i:30233186 original size:17 final size:16
Alignment explanation
Indices: 30233166--30233211 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
30233156 AAAAATGGAA
30233166 AAAAATATAAAAATTT
1 AAAAATATAAAAATTT
30233182 GAAAAA-ATAAAATATTT
1 -AAAAATATAAAA-ATTT
*
30233199 AAAACTA-AAAAAT
1 AAAAATATAAAAAT
30233212 AAAAATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 2 0.08
16 14 0.54
17 10 0.38
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAAATATAAAAATTT
Found at i:30233191 original size:16 final size:17
Alignment explanation
Indices: 30233166--30233212 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
30233156 AAAAATGGAA
30233166 AAAAATATAAAA-ATTT
1 AAAAATATAAAATATTT
30233182 GAAAAA-ATAAAATATTT
1 -AAAAATATAAAATATTT
* *
30233199 AAAACTAAAAAATA
1 AAAAATATAAAATA
30233213 AAAATAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 10 0.38
17 16 0.62
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (17 bp):
AAAAATATAAAATATTT
Found at i:30233211 original size:22 final size:23
Alignment explanation
Indices: 30233183--30233225 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
30233173 TAAAAATTTG
*
30233183 AAAAAAT-AAAATATTTAAAACT
1 AAAAAATAAAAATAATTAAAACT
30233205 AAAAAATAAAAATAATTAAAA
1 AAAAAATAAAAATAATTAAAA
30233226 AATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAAAATAAAAATAATTAAAACT
Found at i:30236732 original size:17 final size:18
Alignment explanation
Indices: 30236701--30236734 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
30236691 TAATTTAGCC
*
30236701 AAGAATAAGAGTTAAATT
1 AAGAATAAGAATTAAATT
30236719 AAGAA-AAGAATTAAAT
1 AAGAATAAGAATTAAAT
30236735 GCTAAGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.00, G:0.15, T:0.24
Consensus pattern (18 bp):
AAGAATAAGAATTAAATT
Found at i:30240930 original size:27 final size:27
Alignment explanation
Indices: 30240857--30240931 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
30240847 TGCAACCCTA
* * *
30240857 TGTTTAATGTCCTAACGAACTACCTCG
1 TGTTTACTGTCCTAGCGGACTACCTCG
* *
30240884 TGTTTACTATCCTAGAGGACTACCTCG
1 TGTTTACTGTCCTAGCGGACTACCTCG
*
30240911 TGTTTACTGTTCTAGCGGACT
1 TGTTTACTGTCCTAGCGGACT
30240932 CCATATGCTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (27 bp):
TGTTTACTGTCCTAGCGGACTACCTCG
Found at i:30241220 original size:161 final size:160
Alignment explanation
Indices: 30240950--30241288 Score: 426
Period size: 161 Copynumber: 2.1 Consensus size: 160
30240940 TGCAATAGTT
* *
30240950 GAGCTATAATCTTACACATGTAACCCCATGTTTAATGTCCTGGTAGATTACCTCGTATTCACTAT
1 GAGCTAT-ATCTTACACATGTAACCCCATGTTTAATATCCTGGTAGATTACCTCGGATTCACTAT
* * * * *
30241015 CCTGATGGACTCTTTATGCTACCACAACCAAGCTATGGTCTTACACATGTAACCCTATGTTTGAT
65 CCTGATGGACTCCTTATACTACCACAACCAAGCTATGATCTTACACATGTAACCCCATGTTTAAT
* * *
30241080 GTCTCGACAAACTTTATTGGTTGTCATAGGC
130 GTCCCAACAAACTCTATTGGTTGTCATAGGC
* * * * * *
30241111 GAGCTATGATCTTACATATGTAACCCCATGTTTAATATCTTGGTGGATTACCTCGGGTTTACTGT
1 GAGCTAT-ATCTTACACATGTAACCCCATGTTTAATATCCTGGTAGATTACCTCGGATTCACTAT
* * * *
30241176 CTTGATGGACTCCTTATACTGCCATAACCGAGCTATGATCTTACACATGTAACCCCATGTTTAAT
65 CCTGATGGACTCCTTATACTACCACAACCAAGCTATGATCTTACACATGTAACCCCATGTTTAAT
* *** *
30241241 TTCCCAATGGACTCTATTGGTTGTCATAGTC
130 GTCCCAACAAACTCTATTGGTTGTCATAGGC
30241272 GAGCTATAGTCTTACAC
1 GAGCTATA-TCTTACAC
30241289 TTTTAAAGCT
Statistics
Matches: 150, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
160 1 0.01
161 149 0.99
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (160 bp):
GAGCTATATCTTACACATGTAACCCCATGTTTAATATCCTGGTAGATTACCTCGGATTCACTATC
CTGATGGACTCCTTATACTACCACAACCAAGCTATGATCTTACACATGTAACCCCATGTTTAATG
TCCCAACAAACTCTATTGGTTGTCATAGGC
Found at i:30243643 original size:15 final size:16
Alignment explanation
Indices: 30243613--30243649 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
30243603 TAGAATTGAG
*
30243613 TTAAAAAATTATTTAA
1 TTAAAAAATTAATTAA
30243629 TTAAAAAA-TAATTAA
1 TTAAAAAATTAATTAA
30243644 TTAAAA
1 TTAAAA
30243650 TTAATTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTAAAAAATTAATTAA
Found at i:30245588 original size:19 final size:19
Alignment explanation
Indices: 30245564--30245603 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30245554 CTCAAAAGCG
30245564 AAAAGCAACAAGCAAA-CAA
1 AAAAGCAACAAG-AAAGCAA
*
30245583 AAAAGCCACAAGAAAGCAA
1 AAAAGCAACAAGAAAGCAA
30245602 AA
1 AA
30245604 TGCACACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.68, C:0.20, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAGCAACAAGAAAGCAA
Found at i:30257490 original size:38 final size:38
Alignment explanation
Indices: 30257435--30257514 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
30257425 AATTGATTTG
*
30257435 TATATGAAGATAAGTTGCTGAATTGATTCGTATATAAT
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
*
30257473 TATATGAAGATAGGTTGCCGAATTGATTCGTATATAAT
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
30257511 TATA
1 TATA
30257515 CATTGCTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.39
Consensus pattern (38 bp):
TATATGAAGATAAGTTGCCGAATTGATTCGTATATAAT
Found at i:30257545 original size:31 final size:31
Alignment explanation
Indices: 30257493--30257995 Score: 325
Period size: 31 Copynumber: 16.3 Consensus size: 31
30257483 TAGGTTGCCG
* *
30257493 AATTGATTCGTATATAATTATACATTGCTGA
1 AATTGATTTGTATATGATTATACATTGCTGA
* * *
30257524 AATTTATTTGTATATGGTTATACATT-ATCGA
1 AATTGATTTGTATATGATTATACATTGCT-GA
** * *
30257555 AATTGATTTGTATATGAAGA-AAAGTTGCCG-
1 AATTGATTTGTATATGATTATACA-TTGCTGA
* *
30257585 AATTGATTCGTATATGATTATACATTACTGA
1 AATTGATTTGTATATGATTATACATTGCTGA
* * * *
30257616 AATTTATTTGTATATGGTTATATATT-ATCGA
1 AATTGATTTGTATATGATTATACATTGCT-GA
* ** *
30257647 AATTTATTTGTATATGAAGATA-AGTTGC-CA
1 AATTGATTTGTATATGATTATACA-TTGCTGA
* *
30257677 AATTGATTCGTATATAATTATACATTGCTGA
1 AATTGATTTGTATATGATTATACATTGCTGA
* * *
30257708 AATTTATTTGTATATGGTTATACATT-ATCGA
1 AATTGATTTGTATATGATTATACATTGCT-GA
* ** *
30257739 AATTGATTTGTATAAGAAGATA-AGTTGCCG-
1 AATTGATTTGTATATGATTATACA-TTGCTGA
* * *
30257769 AATTGATTCGTATATGGTTATACATTACTGA
1 AATTGATTTGTATATGATTATACATTGCTGA
* * * * *
30257800 AATTTATTTGTATATGGTTATATATT-ATCAA
1 AATTGATTTGTATATGATTATACATTGCT-GA
* ** *
30257831 AATTTATTTGTATATGAAGATA-AGTTGC-CA
1 AATTGATTTGTATATGATTATACA-TTGCTGA
* *
30257861 AATTGATTCGTATATAATTATACATTGCTGA
1 AATTGATTTGTATATGATTATACATTGCTGA
* * *
30257892 AATTTATTTGTATATGGTTATACATT-ATCGA
1 AATTGATTTGTATATGATTATACATTGCT-GA
** *
30257923 AATTGATTTGTATATGAAGATA-ACTTGCCGA
1 AATTGATTTGTATATGATTATACA-TTGCTGA
* * * *
30257954 ATTTGATTCGTATATGAATATATATATTGTTG-
1 AATTGATTTGTATATG-AT-TATACATTGCTGA
30257986 AATTGATTTG
1 AATTGATTTG
30257996 AGCATTGGAT
Statistics
Matches: 358, Mismatches: 88, Indels: 51
0.72 0.18 0.10
Matches are distributed among these distances:
30 97 0.27
31 244 0.68
32 9 0.03
33 7 0.02
34 1 0.00
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (31 bp):
AATTGATTTGTATATGATTATACATTGCTGA
Found at i:30257586 original size:92 final size:92
Alignment explanation
Indices: 30257473--30257995 Score: 841
Period size: 92 Copynumber: 5.7 Consensus size: 92
30257463 CGTATATAAT
*
30257473 TATATGAAGATAGGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
30257538 TGGTTATACATTATCGAAATTGATTTG
66 TGGTTATACATTATCGAAATTGATTTG
* * *
30257565 TATATGAAGAAAAGTTGCCGAATTGATTCGTATATGATTATACATTACTGAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
* *
30257630 TGGTTATATATTATCGAAATTTATTTG
66 TGGTTATACATTATCGAAATTGATTTG
*
30257657 TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
30257722 TGGTTATACATTATCGAAATTGATTTG
66 TGGTTATACATTATCGAAATTGATTTG
* ** *
30257749 TATAAGAAGATAAGTTGCCGAATTGATTCGTATATGGTTATACATTACTGAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
* * *
30257814 TGGTTATATATTATCAAAATTTATTTG
66 TGGTTATACATTATCGAAATTGATTTG
*
30257841 TATATGAAGATAAGTTGCCAAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
1 TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
30257906 TGGTTATACATTATCGAAATTGATTTG
66 TGGTTATACATTATCGAAATTGATTTG
* * * *
30257933 TATATGAAGATAACTTGCCGAATTTGATTCGTATATGAATATATATATTGTTG-AATTGATTTG
1 TATATGAAGATAAGTTGCCGAA-TTGATTCGTATAT-AAT-TATACATTGCTGAAATTTATTTG
30257996 AGCATTGGAT
Statistics
Matches: 395, Mismatches: 33, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
92 360 0.91
93 13 0.03
94 12 0.03
95 10 0.03
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (92 bp):
TATATGAAGATAAGTTGCCGAATTGATTCGTATATAATTATACATTGCTGAAATTTATTTGTATA
TGGTTATACATTATCGAAATTGATTTG
Found at i:30257628 original size:61 final size:62
Alignment explanation
Indices: 30257493--30257969 Score: 352
Period size: 61 Copynumber: 7.8 Consensus size: 62
30257483 TAGGTTGCCG
* * * *
30257493 AATTGATTCGTATAT-AATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTA-TCGA
1 AATTGATTTGTATATGAA-GATAAATTGCCGAAATTTATTTGTATATGGTTATACATTACT-GA
* * *
30257555 AATTGATTTGTATATGAAGA-AAAGTTGCCG-AATTGATTCGTATATGATTATACATTACTGA
1 AATTGATTTGTATATGAAGATAAA-TTGCCGAAATTTATTTGTATATGGTTATACATTACTGA
* *** * ** *** * *
30257616 AATTTATTTGTATATGGTTATATATTATCGAAATTTATTTGTATATGAAGATA-AGTTGC-CA
1 AATTGATTTGTATATGAAGATAAATTGCCGAAATTTATTTGTATATGGTTATACA-TTACTGA
* * * *
30257677 AATTGATTCGTATAT-AATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTA-TCGA
1 AATTGATTTGTATATGAA-GATAAATTGCCGAAATTTATTTGTATATGGTTATACATTACT-GA
* * * *
30257739 AATTGATTTGTATAAGAAGATAAGTTGCCG-AATTGATTCGTATATGGTTATACATTACTGA
1 AATTGATTTGTATATGAAGATAAATTGCCGAAATTTATTTGTATATGGTTATACATTACTGA
* *** * ** * *** * *
30257800 AATTTATTTGTATATGGTTATATATTATCAAAATTTATTTGTATATGAAGATA-AGTTGC-CA
1 AATTGATTTGTATATGAAGATAAATTGCCGAAATTTATTTGTATATGGTTATACA-TTACTGA
* * * *
30257861 AATTGATTCGTATAT-AATTATACATTGCTGAAATTTATTTGTATATGGTTATACATTA-TCGA
1 AATTGATTTGTATATGAA-GATAAATTGCCGAAATTTATTTGTATATGGTTATACATTACT-GA
* *
30257923 AATTGATTTGTATATGAAGATAACTTGCCG-AATTTGATTCGTATATG
1 AATTGATTTGTATATGAAGATAAATTGCCGAAATTT-ATTTGTATATG
30257970 AATATATATA
Statistics
Matches: 317, Mismatches: 78, Indels: 40
0.73 0.18 0.09
Matches are distributed among these distances:
61 189 0.60
62 122 0.38
63 6 0.02
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.43
Consensus pattern (62 bp):
AATTGATTTGTATATGAAGATAAATTGCCGAAATTTATTTGTATATGGTTATACATTACTGA
Found at i:30258233 original size:41 final size:42
Alignment explanation
Indices: 30258165--30258278 Score: 117
Period size: 41 Copynumber: 2.7 Consensus size: 42
30258155 AGAAAATGTG
*
30258165 TAAGACCATGTCTGAGACATTGACATTGTATATG-ATT-CATA
1 TAAGACCATGTCTGGGACA-TGACATTGTATATGCATTACATA
* * * *
30258206 TAAGACCCTGTTTGGGACAGTGTCATTG-ATATGCATTAACATG
1 TAAGACCATGTCTGGGACA-TGACATTGTATATGCATT-ACATA
* *
30258249 TAAGACCATATCTGGGACATGGCATTGTAT
1 TAAGACCATGTCTGGGACATGACATTGTAT
30258279 GAGCTTTATA
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 5 0.08
41 26 0.44
42 7 0.12
43 21 0.36
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATGACATTGTATATGCATTACATA
Found at i:30263716 original size:29 final size:29
Alignment explanation
Indices: 30263682--30263739 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
30263672 ATTAAATACC
*
30263682 TAAAACTTACATTGATTTTTCCCCTTCAA
1 TAAAACTTACATTGACTTTTCCCCTTCAA
30263711 TAAAACTTACATTGACTTTTCCCCTTCAA
1 TAAAACTTACATTGACTTTTCCCCTTCAA
30263740 AAGAGAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (29 bp):
TAAAACTTACATTGACTTTTCCCCTTCAA
Found at i:30267191 original size:27 final size:27
Alignment explanation
Indices: 30267161--30267233 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
30267151 TGTCTTGAAT
30267161 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
30267188 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
30267220 TTGTTGGATATTGA
1 TTGTTAGATATTGA
30267234 AATGATTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.35
32 26 0.65
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:30267213 original size:32 final size:32
Alignment explanation
Indices: 30267174--30267234 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
30267164 TTAGATATTG
30267174 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
30267206 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
30267235 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:30269462 original size:41 final size:40
Alignment explanation
Indices: 30269417--30269548 Score: 135
Period size: 41 Copynumber: 3.2 Consensus size: 40
30269407 AGCGGGCTGG
30269417 ATGCCGGTGATATAATTCAGGCTATGTGCCTAGCAGGCTTA
1 ATGCCGGTGATATAATTCAGGCTATG-GCCTAGCAGGCTTA
* * *
30269458 ATGCCGGTGA-ATTAATTCAGACTTTACGCCTAGCAGGCTTA
1 ATGCCGGTGATA-TAATTCAGGCTAT-GGCCTAGCAGGCTTA
* * *
30269499 ATGCCGGTGATACATTTC-GGACTATAGGTCTAGCAGGCTGTA
1 ATGCCGGTGATATAATTCAGG-CTAT-GGCCTAGCAGGCT-TA
30269541 A-GCCGGTG
1 ATGCCGGTG
30269549 TATCGAATCA
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
40 2 0.03
41 71 0.92
42 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATGCCGGTGATATAATTCAGGCTATGGCCTAGCAGGCTTA
Found at i:30279984 original size:22 final size:20
Alignment explanation
Indices: 30279941--30279979 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30279931 TAATTTAAAA
30279941 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
30279961 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
30279980 ATGTAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:30280119 original size:14 final size:15
Alignment explanation
Indices: 30280100--30280137 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
30280090 CTAGAAAAGT
30280100 AAATCATTTTCCA-A
1 AAATCATTTTCCAGA
30280114 AAATCATTTTCCAGA
1 AAATCATTTTCCAGA
30280129 AAA-CATTTT
1 AAATCATTTT
30280138 ACTAGTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (15 bp):
AAATCATTTTCCAGA
Found at i:30289013 original size:50 final size:52
Alignment explanation
Indices: 30288904--30289018 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 52
30288894 TTAATGTAAT
* * *
30288904 ACTTAATTTAATGATACAGACTTAAACTAACATGGGAGTTACATAATGCATG
1 ACTTTATTTAATGATACAGACTTAAACTAACATGGAAGTTACATAATGCATA
* * * * * *
30288956 TCATTATTT-ATGATGCATACTT-AACTAGCATTGAAGTTACATAATGCATA
1 ACTTTATTTAATGATACAGACTTAAACTAACATGGAAGTTACATAATGCATA
*
30289006 ACTTTATTAAATG
1 ACTTTATTTAATG
30289019 TAAAACCCAC
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
50 30 0.60
51 14 0.28
52 6 0.12
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (52 bp):
ACTTTATTTAATGATACAGACTTAAACTAACATGGAAGTTACATAATGCATA
Found at i:30294635 original size:39 final size:39
Alignment explanation
Indices: 30294568--30294646 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
30294558 TATTGAAAAG
* * * *
30294568 GAAAGGTTGCGATTATATGGAAAGGCACACTATGTGTGA
1 GAAAAGTTGCGATTATATAGAAAAGCACACTATATGTGA
*
30294607 GAAAAGTTGCGGTTATATAGAAAAGCACACTATATGTGA
1 GAAAAGTTGCGATTATATAGAAAAGCACACTATATGTGA
30294646 G
1 G
30294647 CATTCCTGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.28, T:0.25
Consensus pattern (39 bp):
GAAAAGTTGCGATTATATAGAAAAGCACACTATATGTGA
Found at i:30296254 original size:45 final size:45
Alignment explanation
Indices: 30296190--30296281 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
30296180 TACTATATGA
* *
30296190 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
30296235 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
30296280 AC
1 AC
30296282 TGAGTATCTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:30316846 original size:20 final size:20
Alignment explanation
Indices: 30316817--30316856 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
30316807 GTGACCCTTG
*
30316817 TTTTCAAAATTTTCAATTTT
1 TTTTCAAAATCTTCAATTTT
* *
30316837 TTTTCCAAATCTTCTATTTT
1 TTTTCAAAATCTTCAATTTT
30316857 GATTCAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTCAAAATCTTCAATTTT
Found at i:30324328 original size:18 final size:18
Alignment explanation
Indices: 30324305--30324346 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
30324295 TTTCTGTAGT
30324305 TAATTCAATTCAACATAA
1 TAATTCAATTCAACATAA
30324323 TAATTCAATTCAACATAA
1 TAATTCAATTCAACATAA
*
30324341 TCATTC
1 TAATTC
30324347 CTTATTTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATTCAATTCAACATAA
Found at i:30327534 original size:16 final size:16
Alignment explanation
Indices: 30327513--30327547 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30327503 ATTAGTAATT
*
30327513 TTTTTTATATTTCTTA
1 TTTTTTATATTTCATA
*
30327529 TTTTTTATTTTTCATA
1 TTTTTTATATTTCATA
30327545 TTT
1 TTT
30327548 AATTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATATTTCATA
Found at i:30327553 original size:24 final size:23
Alignment explanation
Indices: 30327513--30327559 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
30327503 ATTAGTAATT
* *
30327513 TTTTTTATATTTCTTATTTTTTA
1 TTTTTCATATTTATTATTTTTTA
30327536 TTTTTCATATTTAATTATTTTTTA
1 TTTTTCATATTT-ATTATTTTTTA
30327560 AATCTATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTTTCATATTTATTATTTTTTA
Found at i:30334357 original size:44 final size:44
Alignment explanation
Indices: 30334043--30334692 Score: 158
Period size: 44 Copynumber: 14.8 Consensus size: 44
30334033 AAATAGCAGA
* * *
30334043 TCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGACACCAA
1 TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* * * **** * * ** * *
30334087 CCTTGCCTCCCGGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAG
1 TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* * * *
30334130 ATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCAAAGACACTAG
1 -TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* * **** * * ** * *
30334175 CCTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAACAG
1 TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* * * * * *
30334218 ATATTGTCTTCTTGCACCGACAGCGAAGCAGATCAAAGACACTAG
1 -TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* * ** * * * * *
30334263 CCTTGCCTCCCTG-AGTTG-CAGTGAAGTA-AGT-AAAAATAGCAG
1 TCTTGCCTTCCTGCA-CCGACAGCGAAGCAGA-TCGAAGATACCAG
*
30334305 ATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGATACCAG
1 -TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* * *** * * ** * ** * *
30334350 CCTTGCCTCCCTAG-GTTG-CAGTGGAGTTGGTTAAAAATAGCAG
1 TCTTGCCTTCCT-GCACCGACAGCGAAGCAGATCGAAGATACCAG
30334393 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
1 -TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* **** * ** * *
30334438 TCTTGCCTCCCTGGGTTG-CAGC-AGAGCAGGTTAAAAATAGCAG
1 TCTTGCCTTCCTGCACCGACAGCGA-AGCAGATCGAAGATACCAG
* *
30334481 ATCTTGTCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAG
1 -TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* **** * * * ** **
30334526 CCTTGCC-TCTCTGGGTTG-TAGCGGAGCAGGTTAAACCT-CGCAG
1 TCTTGCCTTC-CTGCACCGACAGCGAAGCAGATCGAAGATAC-CAG
* * *
30334569 ATCTTGCCTTCCTGCATCGCCAGCGAAGCAGATCGAAGACACCAG
1 -TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
* * **** * * ** * * *
30334614 CCTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAACATA
1 TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCA-G
*
30334658 TCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGA
1 TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
30334693 TGACCCCAGC
Statistics
Matches: 395, Mismatches: 184, Indels: 53
0.62 0.29 0.08
Matches are distributed among these distances:
42 10 0.03
43 124 0.31
44 151 0.38
45 108 0.27
46 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (44 bp):
TCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAG
Found at i:30334499 original size:263 final size:263
Alignment explanation
Indices: 30334028--30334703 Score: 1019
Period size: 263 Copynumber: 2.6 Consensus size: 263
30334018 AGAGCAGATC
*
30334028 AGTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGACACCAACCTTGC
1 AGTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGACACCAGCCTTGC
* *
30334093 CTCCCGGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAG
66 CTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAG
* * *
30334158 CAGATCAAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATATT
131 CAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAACAGATATT
* * *
30334223 GTCTTCTTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGAGTTGCAGTGAA
196 GTCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGAA
*
30334288 GTA
261 GCA
*
30334291 AGTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGATACCAGCCTTGC
1 AGTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGACACCAGCCTTGC
* * **
30334356 CTCCCTAGGTTGCAGTGGAGTTGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAG
66 CTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAG
* * * *
30334421 CAGATCGAAGATACCAGTCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAGCAGATCTT
131 CAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAACAGATATT
* * * * *
30334486 GTCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCTCTGGGTTGTAGCGGA
196 GTCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGAA
30334551 GCA
261 GCA
* ** * * * *
30334554 GGTTAAACCTCGCAGATCTTGCCTTCCTGCATCGCCAGCGAAGCAGATCGAAGACACCAGCCTTG
1 AG-TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGACACCAGCCTTG
* * *
30334619 CCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACATATCTTGCCTTCCTGTACCGACAGCGAA
65 CCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAA
* *
30334684 GCAGATCGATGACCCCAGCC
130 GCAGATCGAAGACACCAGCC
30334704 CTATCTCCCT
Statistics
Matches: 369, Mismatches: 43, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
263 240 0.65
264 129 0.35
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (263 bp):
AGTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGACACCAGCCTTGC
CTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAG
CAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCAGAGCAGGTTAAAAATAACAGATATT
GTCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTGAGTTGCAGCGAA
GCA
Found at i:30334715 original size:88 final size:88
Alignment explanation
Indices: 30334030--30334703 Score: 990
Period size: 88 Copynumber: 7.7 Consensus size: 88
30334020 AGCAGATCAG
* *
30334030 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGACACCAACCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
30334095 CCCGGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * *
30334118 TAAAAATAGCAGATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCAAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
30334183 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * * *
30334206 TAAAAATAACAGATATTGTCTTCTTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * *
30334271 CCCTGAGTTGCAGTGAAGTAAG-
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
30334293 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCTAAGCAGATCGAAGATACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* * **
30334358 CCCTAGGTTGCAGTGGAGTTGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* *
30334381 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGATACCAGTCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
*
30334446 CCCTGGGTTGCAGCAGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
*
30334469 TAAAAATAGCAGATCTTGTCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
* *
30334534 CTCTGGGTTGTAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
** * * *
30334557 TAAACCTCGCAGATCTTGCCTTCCTGCATCGCCAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
30334622 CCCTGGGTTGCAGCGGAGCAGGT
66 CCCTGGGTTGCAGCGGAGCAGGT
* * * * *
30334645 TAAAAATAACATATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
30334704 CTATCTCCCT
Statistics
Matches: 525, Mismatches: 60, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
87 74 0.14
88 451 0.86
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.21
Consensus pattern (88 bp):
TAAAAATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGGTTGCAGCGGAGCAGGT
Found at i:30334779 original size:44 final size:44
Alignment explanation
Indices: 30334705--30334910 Score: 145
Period size: 44 Copynumber: 4.7 Consensus size: 44
30334695 ACCCCAGCCC
* *
30334705 TATCTCCCTGGTCAGCAGTGGAA-TAAGTTGAAGATTGTGAATCT
1 TATCTCCCTGGTCAGCAGT-GAAGTAGGTTGAAGATTGTCAATCT
* * *
30334749 TATCTCCCCGGTCAGCAGTGAAGTAGGTTGAAAATT-ACATATCT
1 TATCTCCCTGGTCAGCAGTGAAGTAGGTTGAAGATTGTCA-ATCT
* * * * * * *** **
30334793 TATCTCCCTAAG-CAGTAGTGGAGCAGATCGAAG-TCCCCAGCCT
1 TATCTCCCT-GGTCAGCAGTGAAGTAGGTTGAAGATTGTCAATCT
* *
30334836 TATCTCCCTGGTCAGTAGTGGAA-TAGGTTGAAGATTGTGAATCT
1 TATCTCCCTGGTCAGCAGT-GAAGTAGGTTGAAGATTGTCAATCT
* *
30334880 TACCTCCCTGAG-CAGCAGTGGAGTAGGTTGA
1 TATCTCCCTG-GTCAGCAGTGAAGTAGGTTGA
30334911 CAACAGCAGA
Statistics
Matches: 122, Mismatches: 31, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 32 0.26
44 87 0.71
45 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGAAGTAGGTTGAAGATTGTCAATCT
Found at i:30334970 original size:131 final size:131
Alignment explanation
Indices: 30334641--30334958 Score: 372
Period size: 131 Copynumber: 2.4 Consensus size: 131
30334631 GCAGCGGAGC
* * * * * * *
30334641 AGGTTAAAAATAACATATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGATGACCCCAGCCCT
1 AGGTTGAAAATCACAGATCTTGCCTTCCTGTACAG-CAGTGAAGCAGATCGAAGACCCCAGCCTT
*
30334706 ATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGTGAATCTTATCTCCCCGGTCAGCAGTGAA
65 ATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGTGAATCTTACCTCCCCGGTCAGCAGTGAA
30334771 GT
130 GT
* * ** * * * * *
30334773 AGGTTGAAAATTACATATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGTCCCCAGCCTT
1 AGGTTGAAAATCACAGATCTTGCCTTCCTGTA-CAGCAGTGAAGCAGATCGAAGACCCCAGCCTT
* * * *
30334837 ATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGTGAATCTTACCTCCCTGAG-CAGCAGTGG
65 ATCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGTGAATCTTACCTCCCCG-GTCAGCAGTGA
30334901 AGT
129 AGT
* *
30334904 AGGTTGACAA-CAGCAGATCTTGCCTTCCTGTACTGCAGTGAAGCAGATCGAAGAC
1 AGGTTGAAAATCA-CAGATCTTGCCTTCCTGTACAGCAGTGAAGCAGATCGAAGAC
30334959 ATCAGTTTTA
Statistics
Matches: 153, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
130 1 0.01
131 124 0.81
132 28 0.18
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (131 bp):
AGGTTGAAAATCACAGATCTTGCCTTCCTGTACAGCAGTGAAGCAGATCGAAGACCCCAGCCTTA
TCTCCCTGGTCAGCAGTGGAATAAGTTGAAGATTGTGAATCTTACCTCCCCGGTCAGCAGTGAAG
T
Found at i:30335232 original size:100 final size:99
Alignment explanation
Indices: 30335109--30335297 Score: 236
Period size: 100 Copynumber: 1.9 Consensus size: 99
30335099 ACAGTAGAGC
* ** * * * *
30335109 AGATTGAAGCCGCAACGACGAATCTTAC-TCTTTTGGCGGTGTGGTGGAACAGGTTGAAGGTACA
1 AGATTGAAGCCACAACGACGAATCTTACTTC-CCTAGCGGTGTAGTGGAACAGATTGAAGCTACA
**
30335173 ACGGTGAATCTCGTTTCCCCAACATTGCAATTAAAA
65 ACGACGAATCTCGTTT-CCCAACATTGCAATTAAAA
* * *
30335209 AGATTGATGCCACAACGGCGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAA
*
30335274 CGACGAATCTTGTTTCCCAACATT
66 CGACGAATCTCGTTTCCCAACATT
30335298 CCAGATGGCG
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
99 9 0.12
100 64 0.85
101 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (99 bp):
AGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAA
CGACGAATCTCGTTTCCCAACATTGCAATTAAAA
Found at i:30335405 original size:44 final size:44
Alignment explanation
Indices: 30335308--30335406 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
30335298 CCAGATGGCG
** * *
30335308 AATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAGGTTACAGCAGAGCAGATTAAAGACAAC
* * *
30335352 AATCATATCTCCCTGAGGTTACAGCAGAGCGGATTAAA-ATAAC
1 AATCTTATCTCCCTGAGGTTACAGCAGAGCAGATTAAAGACAAC
30335395 AGATCTTATCTC
1 A-ATCTTATCTC
30335407 TCTAAAGTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 3 0.07
44 43 0.93
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGGTTACAGCAGAGCAGATTAAAGACAAC
Found at i:30337263 original size:16 final size:16
Alignment explanation
Indices: 30337242--30337276 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30337232 AATTAGTAAT
*
30337242 TTTTTTATATTTCTTA
1 TTTTTTATATTTCATA
*
30337258 TTTTTTATTTTTCATA
1 TTTTTTATATTTCATA
30337274 TTT
1 TTT
30337277 AATTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATATTTCATA
Found at i:30337267 original size:24 final size:24
Alignment explanation
Indices: 30337242--30337288 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
30337232 AATTAGTAAT
* *
30337242 TTTTTTATATTT-CTTATTTTTTA
1 TTTTTCATATTTAATTATTTTTTA
30337265 TTTTTCATATTTAATTATTTTTTA
1 TTTTTCATATTTAATTATTTTTTA
30337289 AATCTATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTTCATATTTAATTATTTTTTA
Found at i:30337385 original size:20 final size:19
Alignment explanation
Indices: 30337355--30337401 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
30337345 ACATATTTAT
*
30337355 TTTTTTAATATAATGTAATTA
1 TTTTTT-ATAT-ATGGAATTA
30337376 -TTTTT-TATATGGAATTA
1 TTTTTTATATATGGAATTA
30337393 TTTTTTATA
1 TTTTTTATA
30337402 ATCTATACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 8 0.35
18 8 0.35
19 2 0.09
20 5 0.22
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (19 bp):
TTTTTTATATATGGAATTA
Found at i:30346870 original size:17 final size:17
Alignment explanation
Indices: 30346850--30346892 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
30346840 CTCGCAAATA
30346850 TGGTGAGCTCACAGTCT
1 TGGTGAGCTCACAGTCT
30346867 TGGTGAGCTCACAGTCT
1 TGGTGAGCTCACAGTCT
30346884 TGGTGAGCT
1 TGGTGAGCT
30346893 AGGTTCGCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.21, G:0.33, T:0.30
Consensus pattern (17 bp):
TGGTGAGCTCACAGTCT
Found at i:30347291 original size:20 final size:20
Alignment explanation
Indices: 30347263--30347303 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
30347253 ATTTTTTTAA
30347263 CTAAACCATTTGAATTAAAT
1 CTAAACCATTTGAATTAAAT
* *
30347283 CTAAGCCATTTTAATTAAAT
1 CTAAACCATTTGAATTAAAT
30347303 C
1 C
30347304 AAGAACAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (20 bp):
CTAAACCATTTGAATTAAAT
Found at i:30351185 original size:22 final size:22
Alignment explanation
Indices: 30351151--30351194 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
30351141 TAGATTTGTG
* *
30351151 AAAATTTATTATAAAAATAATT
1 AAAATTCAATATAAAAATAATT
**
30351173 AAAATTCAATATATTAATAATT
1 AAAATTCAATATAAAAATAATT
30351195 TAAGTGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTCAATATAAAAATAATT
Found at i:30351850 original size:34 final size:34
Alignment explanation
Indices: 30351807--30351878 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
30351797 TCATTTTGCA
30351807 TTTTGAGTACACATGCTCTTT-TTATGTCTATTTC
1 TTTTGAGTACACATGCTCTTTCTT-TGTCTATTTC
* * *
30351841 TTTTGAGTACATATGCTCTTTCTTTTTCTTTTTC
1 TTTTGAGTACACATGCTCTTTCTTTGTCTATTTC
30351875 TTTT
1 TTTT
30351879 TCTTTTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 32 0.94
35 2 0.06
ACGTcount: A:0.14, C:0.17, G:0.10, T:0.60
Consensus pattern (34 bp):
TTTTGAGTACACATGCTCTTTCTTTGTCTATTTC
Found at i:30351870 original size:6 final size:6
Alignment explanation
Indices: 30351859--30351897 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
30351849 ACATATGCTC
30351859 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
30351898 TTGAGCATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTCTT
Found at i:30354824 original size:15 final size:16
Alignment explanation
Indices: 30354797--30354826 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30354787 AATAACAATT
30354797 AATATATATTATATAA
1 AATATATATTATATAA
30354813 AATATA-ATTATATA
1 AATATATATTATATA
30354827 TTAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:30357992 original size:15 final size:15
Alignment explanation
Indices: 30357972--30358002 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
30357962 AGTCACATAA
30357972 TTCACATCTATCTAG
1 TTCACATCTATCTAG
30357987 TTCACATCTATCTAG
1 TTCACATCTATCTAG
30358002 T
1 T
30358003 GCACCAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (15 bp):
TTCACATCTATCTAG
Found at i:30359617 original size:21 final size:21
Alignment explanation
Indices: 30359591--30359633 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
30359581 TCCTAAGCGT
30359591 ACAAAGCATTGATTAGTTCAA
1 ACAAAGCATTGATTAGTTCAA
30359612 ACAAAGCATTGATTAGTTCAA
1 ACAAAGCATTGATTAGTTCAA
30359633 A
1 A
30359634 GAGTGAGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
ACAAAGCATTGATTAGTTCAA
Found at i:30361205 original size:2 final size:2
Alignment explanation
Indices: 30361198--30361227 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30361188 ATAAGATAGG
30361198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30361228 ACATTCTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30361282 original size:7 final size:7
Alignment explanation
Indices: 30361270--30361295 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30361260 AAGAAAAAAT
30361270 AATTTTA
1 AATTTTA
30361277 AATTTTA
1 AATTTTA
30361284 AATTTTA
1 AATTTTA
30361291 AATTT
1 AATTT
30361296 ACTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:30364133 original size:144 final size:144
Alignment explanation
Indices: 30363873--30364150 Score: 486
Period size: 144 Copynumber: 1.9 Consensus size: 144
30363863 CTTCTCCGAA
*
30363873 AATTACTCGCCACTAAAAGAGATAGTAGTTTCACCGAGGAGAGATGACATCTTGGAGGAGAAGTG
1 AATTACTCGCCACTAAAAAAGATAGTAGTTTCACCGAGGAGAGATGACATCTTGGAGGAGAAGTG
*
30363938 GATGGCAATTCTTCAGAATCTTCGAGAAGAGGACATCGAATGGAGAGCTCCTTGGTTACTTCCGG
66 GATGGCAATTCTTCAGAATCTTCGAGAAGAGGACATCGAATAGAGAGCTCCTTGGTTACTTCCGG
30364003 ATGACATCTCTGAG
131 ATGACATCTCTGAG
* * * *
30364017 AATTACTCGCCGCTAAAAAAGATAGTAGTTTTACCGAGGAGAGATGGCATTTTGGAGGAGAAGTG
1 AATTACTCGCCACTAAAAAAGATAGTAGTTTCACCGAGGAGAGATGACATCTTGGAGGAGAAGTG
30364082 GATGGCAATTCTTCAGAATCTTCTG-GAAGAGGACATCGAATAGAGAGCTCCTTGGTTACTTCCG
66 GATGGCAATTCTTCAGAATCTTC-GAGAAGAGGACATCGAATAGAGAGCTCCTTGGTTACTTCCG
30364146 GATGA
130 GATGA
30364151 GGTCCTATAT
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
144 126 0.99
145 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (144 bp):
AATTACTCGCCACTAAAAAAGATAGTAGTTTCACCGAGGAGAGATGACATCTTGGAGGAGAAGTG
GATGGCAATTCTTCAGAATCTTCGAGAAGAGGACATCGAATAGAGAGCTCCTTGGTTACTTCCGG
ATGACATCTCTGAG
Found at i:30373897 original size:45 final size:45
Alignment explanation
Indices: 30373822--30374197 Score: 218
Period size: 45 Copynumber: 9.0 Consensus size: 45
30373812 CACAGTGGAA
* * * * *
30373822 TGAAGATAGCAAGTTTTATCTCCTTAAAGTTGCAGTGGAACAGAC
1 TGAAGAGAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * *
30373867 TTAAGAGAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGAC
1 TGAAGAGAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* *
30373912 TGAAGATG-GCAAATCTTA-CTCCCTGAAGTTACAGTGGAGC-G--
1 TGAAGA-GAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
** * *
30373953 -G-A-TTA--AAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGAC
1 TGAAGAGAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
*
30373993 TGAAGATG-GCAAATCTTA-CTCCCTGAAGTTGCAGTGGA--A-A-
1 TGAAGA-GAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
** * * *
30374033 -G-TCA-A-TAA-TCCTATCTCCCTAAAGTTGCAGT-G-G-AG--
1 TGAAGAGAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
30374068 TG--GATTA--AAGTCTTATCTCTCTGAAGTTGTAGTAGAGCAGAC
1 TGAAGA-GAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* * * *
30374110 TGAAGAAAGCAAGTCTTGTCCCCCTGAAGTTGCAGTGGGGCAGAC
1 TGAAGAGAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
** * **
30374155 TGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 TGAAGAGAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
30374198 GTTGAAGTTA
Statistics
Matches: 253, Mismatches: 49, Indels: 58
0.70 0.14 0.16
Matches are distributed among these distances:
35 7 0.03
36 28 0.11
37 39 0.15
38 3 0.01
39 3 0.01
40 3 0.01
41 2 0.01
42 4 0.02
43 2 0.01
44 39 0.15
45 122 0.48
46 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (45 bp):
TGAAGAGAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
Found at i:30373976 original size:81 final size:81
Alignment explanation
Indices: 30373877--30374030 Score: 263
Period size: 81 Copynumber: 1.9 Consensus size: 81
30373867 TTAAGAGAGC
* *
30373877 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTACTCCCTGAAGTT
1 AAGTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAAGATGGCAAATCTTACTCCCTGAAGTT
30373942 ACAGTGGAGCGGATTA
66 ACAGTGGAGCGGATTA
* *
30373958 AAGTCTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATGGCAAATCTTACTCCCTGAAGTT
1 AAGTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAAGATGGCAAATCTTACTCCCTGAAGTT
*
30374023 GCAGTGGA
66 ACAGTGGA
30374031 AAGTCAATAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
81 68 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (81 bp):
AAGTCTTATCCCCCTGAAGTTGCAGTAGAGCAGACTGAAGATGGCAAATCTTACTCCCTGAAGTT
ACAGTGGAGCGGATTA
Found at i:30383017 original size:24 final size:24
Alignment explanation
Indices: 30382990--30383041 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
30382980 TTTTTAGAAG
* **
30382990 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
30383014 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
30383038 ATTT
1 ATTT
30383042 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:30389703 original size:14 final size:14
Alignment explanation
Indices: 30389682--30389717 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
30389672 AGGTGAACCA
30389682 ACCTCCTTAACACT
1 ACCTCCTTAACACT
* *
30389696 ATCTCCTTAAGACT
1 ACCTCCTTAACACT
30389710 ACCTCCTT
1 ACCTCCTT
30389718 TGTCAATACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.39, G:0.03, T:0.33
Consensus pattern (14 bp):
ACCTCCTTAACACT
Found at i:30390057 original size:17 final size:17
Alignment explanation
Indices: 30390032--30390087 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 17
30390022 AAATATAATA
*
30390032 AATCATAATAGTGTTTC
1 AATCCTAATAGTGTTTC
30390049 AATCCTAATA--GTTT-
1 AATCCTAATAGTGTTTC
30390063 --T--TAATAGTGTTTC
1 AATCCTAATAGTGTTTC
30390076 AATCCTAATAGT
1 AATCCTAATAGT
30390088 TTTGTCACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 14
0.67 0.02 0.30
Matches are distributed among these distances:
10 5 0.16
12 5 0.16
15 5 0.16
17 16 0.52
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (17 bp):
AATCCTAATAGTGTTTC
Found at i:30390057 original size:27 final size:27
Alignment explanation
Indices: 30390027--30390085 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
30390017 ACTATAAATA
30390027 TAATAAATCATAATAGTGTTTCAATCC
1 TAATAAATCATAATAGTGTTTCAATCC
** **
30390054 TAATAGTTTTTAATAGTGTTTCAATCC
1 TAATAAATCATAATAGTGTTTCAATCC
30390081 TAATA
1 TAATA
30390086 GTTTTGTCAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (27 bp):
TAATAAATCATAATAGTGTTTCAATCC
Found at i:30390086 original size:27 final size:27
Alignment explanation
Indices: 30390037--30390090 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30390027 TAATAAATCA
30390037 TAATAGTGTTTCAATCCTAATAGTTTT
1 TAATAGTGTTTCAATCCTAATAGTTTT
30390064 TAATAGTGTTTCAATCCTAATAGTTTT
1 TAATAGTGTTTCAATCCTAATAGTTTT
30390091 GTCACTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (27 bp):
TAATAGTGTTTCAATCCTAATAGTTTT
Found at i:30392767 original size:16 final size:17
Alignment explanation
Indices: 30392728--30392760 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30392718 AATAACCATT
*
30392728 CAATTTACAATTATATC
1 CAATTCACAATTATATC
30392745 CAATTCACAATT-TATC
1 CAATTCACAATTATATC
30392761 ATATTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (17 bp):
CAATTCACAATTATATC
Found at i:30398454 original size:24 final size:24
Alignment explanation
Indices: 30398408--30398454 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
30398398 GCTTGCATTA
* *
30398408 ACACACATTCTAATCCACTAAATC
1 ACACACATTCTAAACAACTAAATC
30398432 ACACATCATTCTAAACAAC-AAAT
1 ACACA-CATTCTAAACAACTAAAT
30398455 TCTTTCCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (24 bp):
ACACACATTCTAAACAACTAAATC
Found at i:30399645 original size:29 final size:29
Alignment explanation
Indices: 30399597--30399653 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
30399587 CACGCCCGTA
**
30399597 TGGCAACCCCACACTTCCGTTTGCATACC
1 TGGCAACCCCACACGCCCGTTTGCATACC
*
30399626 TGGCAACCCCATACGCCCGTTTGCATAC
1 TGGCAACCCCACACGCCCGTTTGCATAC
30399654 TCGTGTACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.21, C:0.40, G:0.16, T:0.23
Consensus pattern (29 bp):
TGGCAACCCCACACGCCCGTTTGCATACC
Found at i:30401813 original size:16 final size:16
Alignment explanation
Indices: 30401787--30401840 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
30401777 CTGAACATAG
*
30401787 CTATTCTTAAACAATAG
1 CTATTC-TAAACAATAA
* * *
30401804 TTGTTCTAAATAATAA
1 CTATTCTAAACAATAA
*
30401820 CTATTCTAAACAACAA
1 CTATTCTAAACAATAA
30401836 CTATT
1 CTATT
30401841 GCTCTGGAAG
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.37
Consensus pattern (16 bp):
CTATTCTAAACAATAA
Found at i:30402410 original size:29 final size:28
Alignment explanation
Indices: 30402375--30402439 Score: 121
Period size: 29 Copynumber: 2.3 Consensus size: 28
30402365 TTTTACATTT
30402375 GCAATGAGTTTAGCTCCTTTCTTAGTTG
1 GCAATGAGTTTAGCTCCTTTCTTAGTTG
30402403 GCAAATGAGTTTAGCTCCTTTCTTAGTTG
1 GC-AATGAGTTTAGCTCCTTTCTTAGTTG
30402432 GCAATGAG
1 GCAATGAG
30402440 CTTTTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
28 8 0.22
29 28 0.78
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (28 bp):
GCAATGAGTTTAGCTCCTTTCTTAGTTG
Found at i:30406686 original size:11 final size:10
Alignment explanation
Indices: 30406662--30406686 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30406652 AAGTAGCATC
30406662 TTTTTCATAG
1 TTTTTCATAG
30406672 TTTTTCATAG
1 TTTTTCATAG
30406682 TTTTT
1 TTTTT
30406687 AGGTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (10 bp):
TTTTTCATAG
Found at i:30407528 original size:11 final size:11
Alignment explanation
Indices: 30407508--30407544 Score: 65
Period size: 11 Copynumber: 3.3 Consensus size: 11
30407498 TTTAAAATTA
30407508 AAAAAGTATTTT
1 AAAAA-TATTTT
30407520 AAAAATATTTT
1 AAAAATATTTT
30407531 AAAAATATTTT
1 AAAAATATTTT
30407542 AAA
1 AAA
30407545 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 20 0.80
12 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:30407574 original size:9 final size:9
Alignment explanation
Indices: 30407521--30407627 Score: 61
Period size: 8 Copynumber: 12.3 Consensus size: 9
30407511 AAGTATTTTA
30407521 AAAATATTTT
1 AAAATA-TTT
30407531 AAAAATATTT
1 -AAAATATTT
*
30407541 -TAA-ATTT
1 AAAATATTT
30407548 AAAA-A-TT
1 AAAATATTT
30407555 AAAAGTATTT
1 AAAA-TATTT
30407565 AAAATATTT
1 AAAATATTT
*
30407574 -AAAT-TTA
1 AAAATATTT
* *
30407581 AAAATAATA
1 AAAATATTT
30407590 AAAAGTAATTT
1 AAAA-T-ATTT
30407601 AAAATATTT
1 AAAATATTT
*
30407610 -TAA-ATTT
1 AAAATATTT
30407617 AAAA-ATTT
1 AAAATATTT
30407625 AAA
1 AAA
30407628 TAAATATATT
Statistics
Matches: 79, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
7 16 0.20
8 24 0.30
9 16 0.20
10 11 0.14
11 12 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
AAAATATTT
Found at i:30410342 original size:14 final size:15
Alignment explanation
Indices: 30410315--30410347 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30410305 TTGATACAAA
*
30410315 ATTTTTATTTTTTAT
1 ATTTTTATTATTTAT
30410330 ATTTTTA-TATTTAT
1 ATTTTTATTATTTAT
30410344 ATTT
1 ATTT
30410348 AAAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTATTATTTAT
Found at i:30417160 original size:29 final size:26
Alignment explanation
Indices: 30417115--30417181 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
30417105 AATCTTTAAT
*
30417115 AAAAATATA-AAAATATTTATATAATTA
1 AAAAATATATAAATTATTTA-A-AATTA
*
30417142 AAATATATAGTAAATTATTTAAAATTA
1 AAAAATATA-TAAATTATTTAAAATTA
30417169 AAAAATATATAAA
1 AAAAATATATAAA
30417182 CACAGTTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 4 0.11
27 21 0.60
28 1 0.03
29 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (26 bp):
AAAAATATATAAATTATTTAAAATTA
Found at i:30418477 original size:41 final size:41
Alignment explanation
Indices: 30418361--30418496 Score: 156
Period size: 41 Copynumber: 3.4 Consensus size: 41
30418351 ACCAGTTTGG
* * *
30418361 CACCTAGTGCCTCATCGAA-TAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
* * * * *
30418401 CACCCAGTGTCTTATCG-GTTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
30418438 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
*
30418479 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
30418497 CTCGAAGTCG
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
37 23 0.30
38 7 0.09
39 2 0.03
40 19 0.25
41 26 0.34
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
Found at i:30418660 original size:19 final size:16
Alignment explanation
Indices: 30418618--30418677 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
30418608 TATTCATTTC
30418618 AATTCAA-ATAATCAATA
1 AATTCAATATAAT--ATA
*
30418635 TATTCAATATATATATA
1 AATTCAATATA-ATATA
30418652 CCAATTCAAT-TAATATA
1 --AATTCAATATAATATA
30418669 AATTCAATA
1 AATTCAATA
30418678 AATTCATCAC
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
15 8 0.22
17 14 0.39
18 5 0.14
19 9 0.25
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.37
Consensus pattern (16 bp):
AATTCAATATAATATA
Found at i:30423045 original size:28 final size:28
Alignment explanation
Indices: 30423001--30423054 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
30422991 TTATCAAAAC
*
30423001 GGCCTATTCCGTAATTTGTCAAAAAATT
1 GGCCTATTCCGTAATTTGTAAAAAAATT
* *
30423029 GGCCTATTTCTGT-ATTTTTAAAAAAA
1 GGCCTA-TTCCGTAATTTGTAAAAAAA
30423055 AGGCTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (28 bp):
GGCCTATTCCGTAATTTGTAAAAAAATT
Found at i:30423310 original size:64 final size:64
Alignment explanation
Indices: 30423209--30423342 Score: 232
Period size: 64 Copynumber: 2.1 Consensus size: 64
30423199 AATGAAACTA
* *
30423209 GAGAAACAAGTGTCCAAATTTAAATGAATAATCTAGGTTCATTCTGGATTTATTTTTAATTTTT
1 GAGAAACAAGTGTCCAAATTTAAATCAACAATCTAGGTTCATTCTGGATTTATTTTTAATTTTT
*
30423273 GAGAAACAAGTGTTCAAATTTAAATCAACAATCTAGGTTCATTCTGGATTTATTTTTAATTTTT
1 GAGAAACAAGTGTCCAAATTTAAATCAACAATCTAGGTTCATTCTGGATTTATTTTTAATTTTT
*
30423337 AAGAAA
1 GAGAAA
30423343 TTTGAAAATT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (64 bp):
GAGAAACAAGTGTCCAAATTTAAATCAACAATCTAGGTTCATTCTGGATTTATTTTTAATTTTT
Found at i:30423996 original size:16 final size:16
Alignment explanation
Indices: 30423967--30424020 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
30423957 TTTGGTTCGC
* *
30423967 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
30423983 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
30423999 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
30424015 TGTAAT
1 TGTAAT
30424021 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.33, C:0.02, G:0.35, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:30424104 original size:39 final size:43
Alignment explanation
Indices: 30423999--30424108 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
30423989 GGAATAGAGG
30423999 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
30424044 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
30424084 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
30424109 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:30424271 original size:16 final size:16
Alignment explanation
Indices: 30424234--30424275 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30424224 TTAATCATAT
*
30424234 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
30424250 TT-AAATATATTATAA
1 TTAAAATATATTATAA
30424265 TTAAAATATAT
1 TTAAAATATAT
30424276 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:30424282 original size:14 final size:15
Alignment explanation
Indices: 30424243--30424284 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
30424233 TTTAAACATA
*
30424243 ATTATTATTAAATAT
1 ATTATAATTAAATAT
30424258 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
30424272 A-TATAATTTAATA
1 ATTATAATTAAATA
30424285 AAATTCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:30424308 original size:22 final size:21
Alignment explanation
Indices: 30424271--30424413 Score: 70
Period size: 22 Copynumber: 6.9 Consensus size: 21
30424261 ATAATTAAAA
30424271 TATATAATTTAATAAAATTCT
1 TATATAATTTAATAAAATTCT
* *
30424292 TATATGAATTTACTAAAATTAT
1 TATAT-AATTTAATAAAATTCT
* *
30424314 AATATATAATAGT-ATAAAA-TAT
1 --TATATAAT-TTAATAAAATTCT
* * *
30424336 AATTTAA---AATAATAATTAT
1 TATATAATTTAATAA-AATTCT
30424355 TAAATATAATTTAATAAAATTCT
1 T--ATATAATTTAATAAAATTCT
*
30424378 TA-AT-A-TTAA-AATATTCT
1 TATATAATTTAATAAAATTCT
*
30424395 TATATGAATTTACTAAAAT
1 TATAT-AATTTAATAAAAT
30424414 CATAATATAT
Statistics
Matches: 93, Mismatches: 12, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
17 13 0.14
18 8 0.09
19 4 0.04
20 8 0.09
21 14 0.15
22 21 0.23
23 14 0.15
24 11 0.12
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (21 bp):
TATATAATTTAATAAAATTCT
Found at i:30424352 original size:13 final size:12
Alignment explanation
Indices: 30424328--30424368 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
30424318 TATAATAGTA
30424328 TAAAATATAATT
1 TAAAATATAATT
30424340 TAAAATAATAATT
1 TAAAAT-ATAATT
*
30424353 ATTAAATATAATT
1 -TAAAATATAATT
30424366 TAA
1 TAA
30424369 TAAAATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:30424404 original size:103 final size:103
Alignment explanation
Indices: 30424232--30424500 Score: 400
Period size: 103 Copynumber: 2.6 Consensus size: 103
30424222 ATTTAATCAT
30424232 ATTTAAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTATA
1 ATTTAAA-ATAATTATTATTAAATATAATT-TAA-TAAAATATATAATTTAATAAAATTCTTATA
* *
30424296 TGAATTTACTAAAATTATAATATATAATAGTATAAAATATA
63 TGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* * *
30424337 ATTTAAAATAATAATTATTAAATATAATTTAATAAAAT-TCTTAATATTAA-AATATTCTTATAT
1 ATTTAAAATAATTATTATTAAATATAATTTAATAAAATAT-ATAAT-TTAATAAAATTCTTATAT
30424400 GAATTTACTAAAATCATAATATATAATACTATAAAATATA
64 GAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
30424440 ATCTAAAATAATTATTATTAAATATAATTTAATATAAATAGATAATTTAATAAAATTCTTA
1 ATTTAAAATAATTATTATTAAATATAATTTAATA-AAATATATAATTTAATAAAATTCTTA
30424501 ATATTAAATA
Statistics
Matches: 148, Mismatches: 10, Indels: 13
0.87 0.06 0.08
Matches are distributed among these distances:
102 1 0.01
103 96 0.65
104 41 0.28
105 10 0.07
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.42
Consensus pattern (103 bp):
ATTTAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTATATGA
ATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:30424477 original size:16 final size:17
Alignment explanation
Indices: 30424458--30424495 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
30424448 TAATTATTAT
30424458 TAAAT-ATAATTTAATA
1 TAAATAATAATTTAATA
30424474 TAAATAGATAATTTAATA
1 TAAATA-ATAATTTAATA
30424492 -AAAT
1 TAAAT
30424496 TCTTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.25
17 4 0.20
18 11 0.55
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
TAAATAATAATTTAATA
Found at i:30426075 original size:13 final size:13
Alignment explanation
Indices: 30426059--30426088 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30426049 TAGACCAAGC
30426059 TTTTCAAAAGCAT
1 TTTTCAAAAGCAT
*
30426072 TTTTCATAAGCAT
1 TTTTCAAAAGCAT
30426085 TTTT
1 TTTT
30426089 TTGCAGCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (13 bp):
TTTTCAAAAGCAT
Found at i:30452179 original size:2 final size:2
Alignment explanation
Indices: 30452172--30452206 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30452162 ATAGAATTGA
30452172 AT AT AT AT AT 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 AT AT AT AT AT A
30452207 AATACATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30452447 original size:41 final size:41
Alignment explanation
Indices: 30452402--30452562 Score: 259
Period size: 41 Copynumber: 3.9 Consensus size: 41
30452392 ACTGGCACTT
* *
30452402 AGCCTGCTAGACATAAAGTCTAAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTAAAATGTTTCACCGGCATCA
30452443 AGCCTGCTAGACTTAAAGTCTAAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTAAAATGTTTCACCGGCATCA
* *
30452484 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACTTAAAGTCTAAAATGTTTCACCGGCATCA
* * *
30452525 AGCCTGTTAGACTTAAAGTCTGAAATGTTTCACTGGCA
1 AGCCTGCTAGACTTAAAGTCTAAAATGTTTCACCGGCA
30452563 ATAAACCTGA
Statistics
Matches: 113, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 113 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTAAAATGTTTCACCGGCATCA
Found at i:30460055 original size:19 final size:19
Alignment explanation
Indices: 30460031--30460084 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
30460021 AATCTTCAAG
30460031 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
30460050 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30460069 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
30460085 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:30460060 original size:36 final size:36
Alignment explanation
Indices: 30460020--30460091 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
30460010 TATGGAAACA
30460020 TAATCTT-CA-AGGATATGCAATCTTAGATATGATATG
1 TAATCTTACATAGGATATGCAATCTTAGA-A-GATATG
* *
30460056 TAATCTTAGATATGATATGCAATCTTAGAAGATATG
1 TAATCTTACATAGGATATGCAATCTTAGAAGATATG
30460092 ATTTTGTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 13 0.41
37 2 0.06
38 17 0.53
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
TAATCTTACATAGGATATGCAATCTTAGAAGATATG
Found at i:30460075 original size:38 final size:40
Alignment explanation
Indices: 30460031--30460107 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
30460021 AATCTTCAAG
30460031 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
30460069 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
30460108 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:30460333 original size:23 final size:23
Alignment explanation
Indices: 30460289--30460333 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
30460279 TCTTATTTTG
* *
30460289 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
30460312 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
30460334 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:30460551 original size:3 final size:3
Alignment explanation
Indices: 30460543--30460587 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
30460533 ATCTTGTATC
* * *
30460543 ATT ATT ATT ATT ATTT ATT ATT ATG ATT ATT ATT TTT ATT TTT AT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
30460588 ATTCATACGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:30475246 original size:17 final size:19
Alignment explanation
Indices: 30475217--30475251 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
30475207 ACCGGAGATT
30475217 AAATTTCAAAACA-ATAAA
1 AAATTTCAAAACATATAAA
30475235 AAATTT-AAAACATATAA
1 AAATTTCAAAACATATAA
30475252 TTCACAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATTTCAAAACATATAAA
Found at i:30476861 original size:24 final size:25
Alignment explanation
Indices: 30476834--30476881 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
30476824 TTCGTTAAAT
*
30476834 GCTCTTCG-GAGCTACTCATTATAG
1 GCTCTTCGTGAGCTACCCATTATAG
* *
30476858 GCTCTTTGTGAGCTTCCCATTATA
1 GCTCTTCGTGAGCTACCCATTATA
30476882 TTGCCCAGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.38
Consensus pattern (25 bp):
GCTCTTCGTGAGCTACCCATTATAG
Found at i:30479095 original size:15 final size:16
Alignment explanation
Indices: 30479066--30479095 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30479056 CAAACATGCT
30479066 TTAACACATTATCAAA
1 TTAACACATTATCAAA
30479082 TTAACACA-TATCAA
1 TTAACACATTATCAA
30479096 CAAGGCATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:30486397 original size:59 final size:59
Alignment explanation
Indices: 30486305--30486417 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
30486295 TTCTATAATA
*
30486305 AAAATTAGATCCATGGCACTTGATAGTCATGAGAGTAAAATTAGGAGAAAAAAATTGAT
1 AAAATTAGATCCATGGCACTTGATAGTCATGAGAGTAAAATTAGGACAAAAAAATTGAT
** *
30486364 AAAATTAGATCCATGGCACTTGATAGTTGTGAGAGTACAATTAGGACAAAAAAA
1 AAAATTAGATCCATGGCACTTGATAGTCATGAGAGTAAAATTAGGACAAAAAAA
30486418 AAAAAAATAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.25
Consensus pattern (59 bp):
AAAATTAGATCCATGGCACTTGATAGTCATGAGAGTAAAATTAGGACAAAAAAATTGAT
Found at i:30495443 original size:18 final size:18
Alignment explanation
Indices: 30495422--30495457 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
30495412 GTAAAAATAG
30495422 CGGCACCAAAATCAGTAT
1 CGGCACCAAAATCAGTAT
30495440 CGGCACCAAAATCAGTAT
1 CGGCACCAAAATCAGTAT
30495458 GTTATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (18 bp):
CGGCACCAAAATCAGTAT
Found at i:30499645 original size:15 final size:15
Alignment explanation
Indices: 30499627--30499661 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30499617 TGGTTTAAAT
30499627 TTATATATTATCATC
1 TTATATATTATCATC
*
30499642 TTATATATTATTATC
1 TTATATATTATCATC
30499657 -TATAT
1 TTATAT
30499662 TAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATATATTATCATC
Found at i:30500673 original size:105 final size:105
Alignment explanation
Indices: 30500386--30501117 Score: 940
Period size: 105 Copynumber: 6.9 Consensus size: 105
30500376 AAGAAATGTT
*
30500386 TTTCTAAA-TAAGGCAATATTTCGCGTTTGGAAAATTGAGAAAACGTGCCCTAACGTGTTGGGTT
1 TTTC-AAAGTAAGGCAATATTT-GCGTTTGGAAAATTGAGAGAACGTGCCCTAACGTGTTGGGTT
* * * *
30500450 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
64 TCAATTGCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAAA
* * *
30500493 TTTTAAAATAAGGCAATATTTTGCGTTTGGAAAATCGAG-GAAACGTGCCCTAACGTGTTGGGTT
1 TTTCAAAGTAAGGCAATA-TTTGCGTTTGGAAAATTGAGAG-AACGTGCCCTAACGTGTTGGGTT
*
30500557 TCGACTT-CTCGTTTGACCAAATAGCCAAATATCCTTTTAAAA
64 TC-AATTGCTCGTTTGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
30500599 TTTCAAAGTGAGGCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCCTAACGTGCTGGGTCTC
1 TTTCAAAGTAAGGCAATATTTGCGTTTGGAAAATTGAGAGAACGTGCCCTAACGTGTTGGGTTTC
* * *
30500664 AATTGCTCGTTCGACAAAATAGCCAAATATCCTTTTTAAAC
66 AATTGCTCGTTTGACCAAATAGCCAAATATCC-TTTTAAAA
* * *
30500705 TTTTAAAATAAGGCAATATTTCGCGTTTGGAAAATCGAG-GAAACGTGCCCTAACGTGTTGGGTT
1 TTTCAAAGTAAGGCAATATTT-GCGTTTGGAAAATTGAGAG-AACGTGCCCTAACGTGTTGGGTT
*
30500769 TCGACTT-CTCGTTTGACCAAATAGCCAAATATCCTTTTAAAA
64 TC-AATTGCTCGTTTGACCAAATAGCCAAATATCCTTTTAAAA
* * * * *
30500811 TTTCAAAGTGAGGCAATATTTGCGTTTGGAAATTTGAGAGAATGTGCCCTAACGTGCTGGGTCTC
1 TTTCAAAGTAAGGCAATATTTGCGTTTGGAAAATTGAGAGAACGTGCCCTAACGTGTTGGGTTTC
* * *
30500876 AATTGCTCGTTCGACCAAATAGCCAAATATCATTTTTAAAC
66 AATTGCTCGTTTGACCAAATAGCCAAATATC-CTTTTAAAA
* * *
30500917 TTTTAAA-TAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGTTGGGTTT
1 TTTCAAAGTAAGGCAATATTT-GCGTTTGGAAAATTGAGAGAACGTGCCCTAACGTGTTGGGTTT
* * *
30500981 CGA-CGTCTCGTTTGACTAAATAGCCAAATATCCTTTTAAAA
65 CAATTG-CTCGTTTGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
30501022 TTTCAAAGTGAA-GCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCATAACGTGCTGGGTCT
1 TTTCAAAGT-AAGGCAATATTTGCGTTTGGAAAATTGAGAGAACGTGCCCTAACGTGTTGGGTTT
30501086 CAATTGCTCGTTTGACCAAATAGCCAAATATC
65 CAATTGCTCGTTTGACCAAATAGCCAAATATC
30501118 TTCTTAACTT
Statistics
Matches: 542, Mismatches: 65, Indels: 38
0.84 0.10 0.06
Matches are distributed among these distances:
104 6 0.01
105 218 0.40
106 165 0.30
107 145 0.27
108 8 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (105 bp):
TTTCAAAGTAAGGCAATATTTGCGTTTGGAAAATTGAGAGAACGTGCCCTAACGTGTTGGGTTTC
AATTGCTCGTTTGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:30501077 original size:211 final size:212
Alignment explanation
Indices: 30500396--30501117 Score: 1284
Period size: 212 Copynumber: 3.4 Consensus size: 212
30500386 TTTCTAAATA
* * * * * *
30500396 AGGCAATATTTCGCGTTTGGAAAATTGAGAAAACGTGCCCTAACGTGTTGGGTTTCGATTTCTCG
1 AGGCAATATTT-GCGTTTGGAAATTTGAGAGAACGTGCCCTAACGTGCTGGGTCTCAATTGCTCG
*
30500461 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATATTTTGCGTTTGGAAA
65 TTCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATATTTCGCGTTTGGAAA
30500526 ATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACTTCTCGTTTGACCAAATAGCCAAATATCC
130 ATCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACTTCTCGTTTGACCAAATAGCCAAATATCC
30500591 TTTTAAAATTTCAAAGTG
195 TTTTAAAATTTCAAAGTG
30500609 AGGCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCCTAACGTGCTGGGTCTCAATTGCTCGT
1 AGGCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCCTAACGTGCTGGGTCTCAATTGCTCGT
*
30500674 TCGACAAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATATTTCGCGTTTGGAAAA
66 TCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATATTTCGCGTTTGGAAAA
30500739 TCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACTTCTCGTTTGACCAAATAGCCAAATATCCT
131 TCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACTTCTCGTTTGACCAAATAGCCAAATATCCT
30500804 TTTAAAATTTCAAAGTG
196 TTTAAAATTTCAAAGTG
*
30500821 AGGCAATATTTGCGTTTGGAAATTTGAGAGAATGTGCCCTAACGTGCTGGGTCTCAATTGCTCGT
1 AGGCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCCTAACGTGCTGGGTCTCAATTGCTCGT
*
30500886 TCGACCAAATAGCCAAATATCATTTTTAAACTTTT-AAATAAGGCAATATTTCGCGTTTGGAAAA
66 TCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATATTTCGCGTTTGGAAAA
* * *
30500950 TCGAGAAAACGTGCCCTAACGTGTTGGGTTTCGACGTCTCGTTTGACTAAATAGCCAAATATCCT
131 TCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACTTCTCGTTTGACCAAATAGCCAAATATCCT
30501015 TTTAAAATTTCAAAGTG
196 TTTAAAATTTCAAAGTG
* *
30501032 AAGCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCATAACGTGCTGGGTCTCAATTGCTCGT
1 AGGCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCCTAACGTGCTGGGTCTCAATTGCTCGT
*
30501097 TTGACCAAATAGCCAAATATC
66 TCGACCAAATAGCCAAATATC
30501118 TTCTTAACTT
Statistics
Matches: 491, Mismatches: 18, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
211 190 0.39
212 290 0.59
213 11 0.02
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (212 bp):
AGGCAATATTTGCGTTTGGAAATTTGAGAGAACGTGCCCTAACGTGCTGGGTCTCAATTGCTCGT
TCGACCAAATAGCCAAATATCCTTTTTAAACTTTTAAAATAAGGCAATATTTCGCGTTTGGAAAA
TCGAGGAAACGTGCCCTAACGTGTTGGGTTTCGACTTCTCGTTTGACCAAATAGCCAAATATCCT
TTTAAAATTTCAAAGTG
Found at i:30507480 original size:18 final size:18
Alignment explanation
Indices: 30507459--30507493 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30507449 CAGAATTCAG
*
30507459 CTCTTTTTCATTCTTTTT
1 CTCTCTTTCATTCTTTTT
*
30507477 CTCTCTTTCCTTCTTTT
1 CTCTCTTTCATTCTTTT
30507494 AGGAAGACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.69
Consensus pattern (18 bp):
CTCTCTTTCATTCTTTTT
Found at i:30511194 original size:17 final size:16
Alignment explanation
Indices: 30511168--30511206 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
30511158 ATTTTTTATT
30511168 TTAATTGATATA-ATTA
1 TTAATTGATA-ACATTA
30511184 TTAAGTTGATAACATTA
1 TTAA-TTGATAACATTA
30511201 TTAATT
1 TTAATT
30511207 TTAAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (16 bp):
TTAATTGATAACATTA
Found at i:30517040 original size:19 final size:20
Alignment explanation
Indices: 30516994--30517041 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
30516984 CTCATAATAG
30516994 GTATCGATATCTATTTACAA
1 GTATCGATATCTATTTACAA
* *
30517014 GGATCGATA-CT-TTTTCAGA
1 GTATCGATATCTATTTACA-A
30517033 GTATCGATA
1 GTATCGATA
30517042 AAAAGGCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 8 0.33
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (20 bp):
GTATCGATATCTATTTACAA
Done.