Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 12 of 240
Found at i:4444841 original size:20 final size:22
Alignment explanation
Indices: 4444816--4444860 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
4444806 AAAAAATTTT
*
4444816 AAATGTATTGAAAT-TT-TAAA
1 AAATGTATTAAAATATTATAAA
*
4444836 AAATGTTTTAAAATATTATAAA
1 AAATGTATTAAAATATTATAAA
4444858 AAA
1 AAA
4444861 ATAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 12 0.57
21 2 0.10
22 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (22 bp):
AAATGTATTAAAATATTATAAA
Found at i:4445022 original size:29 final size:28
Alignment explanation
Indices: 4444975--4445074 Score: 79
Period size: 28 Copynumber: 3.7 Consensus size: 28
4444965 TTTTCTTATG
4444975 ATAATAAGTTTTA-AT-TTTTTGAAATTTT
1 ATAATAA-TTTTATATATTTTTGAAA-TTT
* **
4445003 ATTATAATTATTATA-ATTTTTGTCATTT
1 ATAATAATT-TTATATATTTTTGAAATTT
* *
4445031 ATAATAATTTTATATATTTTT-ATACTT
1 ATAATAATTTTATATATTTTTGAAATTT
4445058 -TAAT-ATTTTATA-ATTTT
1 ATAATAATTTTATATATTTT
4445075 CTATTTTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
24 5 0.08
25 8 0.13
26 4 0.07
27 10 0.16
28 26 0.43
29 8 0.13
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (28 bp):
ATAATAATTTTATATATTTTTGAAATTT
Found at i:4445059 original size:28 final size:27
Alignment explanation
Indices: 4445013--4445074 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
4445003 ATTATAATTA
*
4445013 TTATAATTTTTGT-CATTTATAATAATT
1 TTATAATTTTTATAC-TTTATAATAATT
4445040 TTATATATTTTTATAC-TT-TAAT-ATT
1 TTATA-ATTTTTATACTTTATAATAATT
4445065 TTATAATTTT
1 TTATAATTTT
4445075 CTATTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
24 5 0.16
25 8 0.25
26 4 0.12
27 7 0.22
28 7 0.22
29 1 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (27 bp):
TTATAATTTTTATACTTTATAATAATT
Found at i:4460517 original size:103 final size:104
Alignment explanation
Indices: 4460287--4460552 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 104
4460277 GTTGTACATA
** *
4460287 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
4460352 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
4460391 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGTTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
4460455 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
4460494 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
4460553 AATAACGGTT
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
103 82 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:4468308 original size:37 final size:37
Alignment explanation
Indices: 4468247--4468392 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
4468237 TACGTATGAT
* * *
4468247 CACTTATCAC-TTG-TCCCTGATCAGATAACTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
4468282 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
4468319 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
4468356 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
4468393 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:4468409 original size:46 final size:46
Alignment explanation
Indices: 4468356--4468624 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
4468346 TAAGTGTAGC
* **
4468356 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
4468402 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
4468448 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4468500 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
4468546 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
4468598 CACTTATCACTTTGTCATTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
4468625 AGTACTCAAA
Statistics
Matches: 198, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:4468475 original size:52 final size:52
Alignment explanation
Indices: 4468399--4468610 Score: 292
Period size: 52 Copynumber: 4.2 Consensus size: 52
4468389 TAGCTAAAGC
* *
4468399 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4468452 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
4468504 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
4468550 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
4468602 TATCACTTT
1 TATCACTTT
4468611 GTCATTTGAT
Statistics
Matches: 142, Mismatches: 11, Indels: 13
0.86 0.07 0.08
Matches are distributed among these distances:
46 43 0.30
49 1 0.01
52 86 0.61
53 12 0.08
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:4468521 original size:98 final size:98
Alignment explanation
Indices: 4468356--4468624 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
4468346 TAAGTGTAGC
* * *
4468356 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
4468421 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
4468455 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
4468520 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
4468553 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCATTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
4468618 GATCAGA
66 GATCAGA
4468625 AGTACTCAAA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 150 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:4471005 original size:103 final size:104
Alignment explanation
Indices: 4470773--4471038 Score: 410
Period size: 103 Copynumber: 2.6 Consensus size: 104
4470763 GTTGTACATA
** *
4470773 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
4470838 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
4470877 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATTCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
4470941 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
4470980 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
4471039 AATAACGGTT
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
103 82 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:4472566 original size:29 final size:30
Alignment explanation
Indices: 4472507--4472564 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
4472497 TCCGAGCCTT
*
4472507 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
*
4472537 GGGGC-AAAATCGTAATTTTGAAAAAGTT
1 GGGGCAAAAAT-GTAATTATGAAAAAGTT
4472565 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:4472977 original size:50 final size:50
Alignment explanation
Indices: 4472901--4473193 Score: 408
Period size: 50 Copynumber: 5.8 Consensus size: 50
4472891 ATTTGGGTAA
*
4472901 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
4472951 TGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
4473001 ATAGGTCCCCTGTAAGACTATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
4473051 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
4473101 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGAGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGAGATG
** * * *
4473151 AGTACATCCCATGTAAGACCACGTCTGAGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
4473194 TGTTATGATC
Statistics
Matches: 213, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
49 2 0.01
50 179 0.84
51 30 0.14
52 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:4476833 original size:3 final size:3
Alignment explanation
Indices: 4476825--4476855 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
4476815 AGGCACCAAC
4476825 TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
4476856 CTACTACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4479862 original size:21 final size:21
Alignment explanation
Indices: 4479836--4479876 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4479826 AGACGAGCAA
* *
4479836 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4479857 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4479877 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4489714 original size:127 final size:126
Alignment explanation
Indices: 4489488--4489745 Score: 507
Period size: 127 Copynumber: 2.0 Consensus size: 126
4489478 AACTCTTTCA
4489488 ACTAGGCGGAATAACTGAAATCAACTCGGAATTTCTGGAAACTGATTAAACAAACTAGTATCATC
1 ACTAGGCGGAATAACTGAAATCAACTCGGAATTTCTGGAAACTGATTAAACAAACTAGTATCATC
4489553 TGTTTTGAACTTCTTGAGCTTAGGGGAATAACTGCATGCAGGCCCTGCAGTCTTGATCCTTG
66 TGTTTTGAACTTCTTGAGCTTAGGGGAATAACTGCATGCAGG-CCTGCAGTCTTGATCCTTG
4489615 ACTAGGCGGAATAACTGAAATCAACTCGGAATTTCTGGAAACTGATTAAACAAACTAGTATCATC
1 ACTAGGCGGAATAACTGAAATCAACTCGGAATTTCTGGAAACTGATTAAACAAACTAGTATCATC
4489680 TGTTTTGAACTTCTTGAGCTTAGGGGAATAACTGCATGCAGGCCTGCAGTCTTGATCCTTG
66 TGTTTTGAACTTCTTGAGCTTAGGGGAATAACTGCATGCAGGCCTGCAGTCTTGATCCTTG
4489741 ACTAG
1 ACTAG
4489746 ACATTTTCTT
Statistics
Matches: 131, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
126 24 0.18
127 107 0.82
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (126 bp):
ACTAGGCGGAATAACTGAAATCAACTCGGAATTTCTGGAAACTGATTAAACAAACTAGTATCATC
TGTTTTGAACTTCTTGAGCTTAGGGGAATAACTGCATGCAGGCCTGCAGTCTTGATCCTTG
Found at i:4495971 original size:19 final size:20
Alignment explanation
Indices: 4495930--4495973 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
4495920 ATTTTACAAG
* *
4495930 TATAATTATTAATATTAGGA
1 TATAATTATTAATATAAAGA
*
4495950 TATAA-TATTAATATAAATA
1 TATAATTATTAATATAAAGA
4495969 TATAA
1 TATAA
4495974 ATACATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (20 bp):
TATAATTATTAATATAAAGA
Found at i:4500723 original size:668 final size:668
Alignment explanation
Indices: 4499449--4500785 Score: 2665
Period size: 668 Copynumber: 2.0 Consensus size: 668
4499439 ACTTGGATAC
4499449 ACAAGAATGTAATGCTCACACAAGCTGACAATATTTCAGGGTTGCTCACACAAGTTGACATTTTA
1 ACAAGAATGTAATGCTCACACAAGCTGACAATATTTCAGGGTTGCTCACACAAGTTGACATTTTA
4499514 ACGAAATTACTCACACAAGTTGACATCGTATCGAGGTTACCTATCTAGGCTAAACCAATGATACG
66 ACGAAATTACTCACACAAGTTGACATCGTATCGAGGTTACCTATCTAGGCTAAACCAATGATACG
4499579 TATAATCTGAGAATTTGTAACGAATTCTAGATCTCGTAACATCATGTAAATCCCTAATTGGTCGC
131 TATAATCTGAGAATTTGTAACGAATTCTAGATCTCGTAACATCATGTAAATCCCTAATTGGTCGC
4499644 ATGTATAACCGTAATGGCATGCCAAGCCTATCCTAACATTTTACTAAGTTCACATCATTTCCATA
196 ATGTATAACCGTAATGGCATGCCAAGCCTATCCTAACATTTTACTAAGTTCACATCATTTCCATA
4499709 TAAATGACATTTTCAATTCCTGTACACAATTTCATTTCTTATATGAAACATATTTCAGTCAACAA
261 TAAATGACATTTTCAATTCCTGTACACAATTTCATTTCTTATATGAAACATATTTCAGTCAACAA
4499774 TCTCATTTACATCTTGTTCTATTTTCATATAACCAATATTCTCATAAATTTACAATTCAATCCAT
326 TCTCATTTACATCTTGTTCTATTTTCATATAACCAATATTCTCATAAATTTACAATTCAATCCAT
4499839 TTCGAACCATTAGTGCCAAATTCACCAATTCATTTCAATCTAATGCATAAATAAAATAAAACACA
391 TTCGAACCATTAGTGCCAAATTCACCAATTCATTTCAATCTAATGCATAAATAAAATAAAACACA
4499904 ATCAACATAACATAAAACAAAGTAGTAAGTTTCATATGAACTTACCTGGCCAAGACAACAAACAA
456 ATCAACATAACATAAAACAAAGTAGTAAGTTTCATATGAACTTACCTGGCCAAGACAACAAACAA
4499969 ATTGAACCCTCAAGGACTAATTGATAATTTTCACTTTTCCTCGATTATCTCTAGTTTGATCCAAT
521 ATTGAACCCTCAAGGACTAATTGATAATTTTCACTTTTCCTCGATTATCTCTAGTTTGATCCAAT
4500034 TCTCGATCTAAACAATTATTTTAGACAATTCATTAATAAAAAATCATTTTCATGTTATACCATGA
586 TCTCGATCTAAACAATTATTTTAGACAATTCATTAATAAAAAATCATTTTCATGTTATACCATGA
4500099 TATGAATGAACCTATAAA
651 TATGAATGAACCTATAAA
4500117 ACAAGAATGTAATGCTCACACAAGCTGACAATATTTCAGGGTTGCTCACACAAGTTGACATTTTA
1 ACAAGAATGTAATGCTCACACAAGCTGACAATATTTCAGGGTTGCTCACACAAGTTGACATTTTA
4500182 ACGAAATTACTCACACAAGTTGACATCGTATCGAGGTTACCTATCTAGGCTAAACCAATGATACG
66 ACGAAATTACTCACACAAGTTGACATCGTATCGAGGTTACCTATCTAGGCTAAACCAATGATACG
4500247 TATAATCTGAGAATTTGTAACGAATTCTAGATCTCGTAACATCATGTAAATCCCTAATTGGTCGC
131 TATAATCTGAGAATTTGTAACGAATTCTAGATCTCGTAACATCATGTAAATCCCTAATTGGTCGC
*
4500312 ATGTATAACCGTAATGGCATGCCATGCCTATCCTAACATTTTACTAAGTTCACATCATTTCCATA
196 ATGTATAACCGTAATGGCATGCCAAGCCTATCCTAACATTTTACTAAGTTCACATCATTTCCATA
4500377 TAAATGACATTTTCAATTCCTGTACACAATTTCATTTCTTATATGAAACATATTTCAGTCAACAA
261 TAAATGACATTTTCAATTCCTGTACACAATTTCATTTCTTATATGAAACATATTTCAGTCAACAA
4500442 TCTCATTTACATCTTGTTCTATTTTCATATAACCAATATTCTCATAAATTTACAATTCAATCCAT
326 TCTCATTTACATCTTGTTCTATTTTCATATAACCAATATTCTCATAAATTTACAATTCAATCCAT
4500507 TTCGAACCATTAGTGCCAAATTCACCAATTCATTTCAATCTAATGCATAAATAAAATAAAACACA
391 TTCGAACCATTAGTGCCAAATTCACCAATTCATTTCAATCTAATGCATAAATAAAATAAAACACA
4500572 ATCAACATAACATAAAACAAAGTAGTAAGTTTCATATGAACTTACCTGGCCAAGACAACAAACAA
456 ATCAACATAACATAAAACAAAGTAGTAAGTTTCATATGAACTTACCTGGCCAAGACAACAAACAA
4500637 ATTGAACCCTCAAGGACTAATTGATAATTTTCACTTTTCCTCGATTATCTCTAGTTTGATCCAAT
521 ATTGAACCCTCAAGGACTAATTGATAATTTTCACTTTTCCTCGATTATCTCTAGTTTGATCCAAT
4500702 TCTCGATCTAAACAATTATTTTAGACAATTCATTAATAAAAAATCATTTTCATGTTATACCATGA
586 TCTCGATCTAAACAATTATTTTAGACAATTCATTAATAAAAAATCATTTTCATGTTATACCATGA
4500767 TATGAATGAACCTATAAA
651 TATGAATGAACCTATAAA
4500785 A
1 A
4500786 TTTTGTTTTT
Statistics
Matches: 668, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
668 668 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (668 bp):
ACAAGAATGTAATGCTCACACAAGCTGACAATATTTCAGGGTTGCTCACACAAGTTGACATTTTA
ACGAAATTACTCACACAAGTTGACATCGTATCGAGGTTACCTATCTAGGCTAAACCAATGATACG
TATAATCTGAGAATTTGTAACGAATTCTAGATCTCGTAACATCATGTAAATCCCTAATTGGTCGC
ATGTATAACCGTAATGGCATGCCAAGCCTATCCTAACATTTTACTAAGTTCACATCATTTCCATA
TAAATGACATTTTCAATTCCTGTACACAATTTCATTTCTTATATGAAACATATTTCAGTCAACAA
TCTCATTTACATCTTGTTCTATTTTCATATAACCAATATTCTCATAAATTTACAATTCAATCCAT
TTCGAACCATTAGTGCCAAATTCACCAATTCATTTCAATCTAATGCATAAATAAAATAAAACACA
ATCAACATAACATAAAACAAAGTAGTAAGTTTCATATGAACTTACCTGGCCAAGACAACAAACAA
ATTGAACCCTCAAGGACTAATTGATAATTTTCACTTTTCCTCGATTATCTCTAGTTTGATCCAAT
TCTCGATCTAAACAATTATTTTAGACAATTCATTAATAAAAAATCATTTTCATGTTATACCATGA
TATGAATGAACCTATAAA
Found at i:4505840 original size:23 final size:23
Alignment explanation
Indices: 4505793--4505843 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
4505783 ATGTTTTACG
*
4505793 TAAAA-AAGAATTTTAAAAAAGT
1 TAAAATAAAAATTTTAAAAAAGT
*
4505815 TAAAATAAAAATTATTATAAAA-T
1 TAAAATAAAAATT-TTAAAAAAGT
4505838 TAAAAT
1 TAAAAT
4505844 TTAATTCAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 13 0.52
24 7 0.28
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
TAAAATAAAAATTTTAAAAAAGT
Found at i:4508493 original size:31 final size:31
Alignment explanation
Indices: 4508433--4508494 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
4508423 ATAGTCGAAC
**
4508433 GACTTAAATAAAAACATTTAAATTGTTCAGT
1 GACTTAAATAAAAACATTTAAATAATTCAGT
*
4508464 GACTTAAATAAAAACTTTTAAATAATTCAGT
1 GACTTAAATAAAAACATTTAAATAATTCAGT
4508495 AATCAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (31 bp):
GACTTAAATAAAAACATTTAAATAATTCAGT
Found at i:4512337 original size:2 final size:2
Alignment explanation
Indices: 4512330--4512354 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4512320 GTCTTTCAAG
4512330 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
4512355 TATATATGTG
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4516285 original size:103 final size:104
Alignment explanation
Indices: 4516041--4516306 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
4516031 GTTGTACATA
** *
4516041 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
4516106 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
4516145 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
4516209 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
4516248 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
4516307 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:4523756 original size:103 final size:104
Alignment explanation
Indices: 4523527--4523792 Score: 401
Period size: 103 Copynumber: 2.6 Consensus size: 104
4523517 GTTGTACATA
** * *
4523527 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCAATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* ** *
4523592 TTGAAATGTGAAAGGGGGTTGCTATGTGTTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
4523631 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
4523695 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
4523734 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
4523793 AATAACGGTT
Statistics
Matches: 147, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
103 82 0.56
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:4529268 original size:14 final size:15
Alignment explanation
Indices: 4529237--4529286 Score: 66
Period size: 14 Copynumber: 3.3 Consensus size: 15
4529227 TATGTTAATA
4529237 AAAAAATTTAAAAAT
1 AAAAAATTTAAAAAT
* *
4529252 AAAAAA-TTCAAATT
1 AAAAAATTTAAAAAT
4529266 AAAAATATTTAAAAAT
1 AAAAA-ATTTAAAAAT
4529282 AAAAA
1 AAAAA
4529287 TATTACCTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 11 0.38
15 7 0.24
16 11 0.38
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAAATTTAAAAAT
Found at i:4529287 original size:16 final size:16
Alignment explanation
Indices: 4529233--4529290 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
4529223 ATATTATGTT
*
4529233 AATAAAAAAATTTAAA
1 AATAAAAATATTTAAA
*
4529249 AATAAAAA-A-TTCAA
1 AATAAAAATATTTAAA
*
4529263 ATTAAAAATATTTAAA
1 AATAAAAATATTTAAA
4529279 AATAAAAATATT
1 AATAAAAATATT
4529291 ACCTACCATG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
14 11 0.31
15 2 0.06
16 23 0.64
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAAAAATATTTAAA
Found at i:4531441 original size:24 final size:26
Alignment explanation
Indices: 4531414--4531461 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
4531404 CCAATAAATT
*
4531414 TAAAATCGAA-ATAATTA-CACATAA
1 TAAAATCGAACATAAATATCACATAA
*
4531438 TAAAATTGAACATAAATATCACAT
1 TAAAATCGAACATAAATATCACAT
4531462 CACTTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 6 0.30
26 5 0.25
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.27
Consensus pattern (26 bp):
TAAAATCGAACATAAATATCACATAA
Found at i:4534793 original size:22 final size:23
Alignment explanation
Indices: 4534750--4534799 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
4534740 AGTCCGGGTT
* *
4534750 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
4534773 ATTAAAACTA-ATTGTTATTAAA
1 ATTAAAACTATATTGTTATTAAA
4534795 ATTAA
1 ATTAA
4534800 TTGTTATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTAAAACTATATTGTTATTAAA
Found at i:4534812 original size:16 final size:16
Alignment explanation
Indices: 4534773--4534814 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
4534763 TTTTATTAAA
*
4534773 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
4534789 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
4534805 ATTAAAATTA
1 ATTAAAATTA
4534815 TATCAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:4534891 original size:19 final size:19
Alignment explanation
Indices: 4534867--4534947 Score: 66
Period size: 18 Copynumber: 4.5 Consensus size: 19
4534857 ATCTAACATT
4534867 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
4534886 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
*
4534902 TTGTTAGTAAAATTATCAAA
1 TTGTTAGTAAAATTAT-TAA
* *
4534922 TT-ATA-TTAAATTATTAA
1 TTGTTAGTAAAATTATTAA
4534939 TTGTTAGTA
1 TTGTTAGTA
4534948 CCAGTCAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
15 3 0.07
16 10 0.22
17 5 0.11
18 11 0.24
19 10 0.22
20 7 0.15
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:4534913 original size:35 final size:36
Alignment explanation
Indices: 4534867--4535044 Score: 112
Period size: 35 Copynumber: 4.8 Consensus size: 36
4534857 ATCTAACATT
* * *
4534867 TTGTTAGTAAAATTATTAA-TTGTTAATTGTATTAA
1 TTGTTAGTAAAATTATAAATTTATTAAATGTATTAA
4534902 TTGTTAGTAAAATTATCAAATTATATTAAAT-TATTAA
1 TTGTTAGTAAAATTAT-AAATT-TATTAAATGTATTAA
* * * * * ** *
4534939 TTGTTAGTACCAGTCAAAACATTT-TGTAAAATCTAACATT
1 TTGTTAGTA-AAATTATAA-ATTTAT-T-AAATGTATTA-A
* * *
4534979 TTGTTAGTCAAATTATTAA-TTATTAATTGTATTAA
1 TTGTTAGTAAAATTATAAATTTATTAAATGTATTAA
*
4535014 TTGTTAGTAAAATTATCAAATTATATCAAAT
1 TTGTTAGTAAAATTAT-AAATT-TATTAAAT
4535045 TAGGGTTAGG
Statistics
Matches: 105, Mismatches: 25, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
35 31 0.30
36 11 0.10
37 24 0.23
38 24 0.23
39 7 0.07
40 8 0.08
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (36 bp):
TTGTTAGTAAAATTATAAATTTATTAAATGTATTAA
Found at i:4534962 original size:112 final size:110
Alignment explanation
Indices: 4534809--4535046 Score: 404
Period size: 112 Copynumber: 2.1 Consensus size: 110
4534799 ATTGTTATTA
* *
4534809 AAATTATATCAAATTATATTTTTTGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTAG
1 AAATTATATCAAATTATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTAG
*
4534874 TAAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
66 TAAAATTATTAATTATTAATTGTATTAATTGTTAGTAAAATTATC
* *
4534919 AAATTATATTAAATTATTAATTGTTAGTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTT
1 AAATTATATCAAATTA-T-ATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
*
4534984 AGTCAAATTATTAATTATTAATTGTATTAATTGTTAGTAAAATTATC
64 AGTAAAATTATTAATTATTAATTGTATTAATTGTTAGTAAAATTATC
4535031 AAATTATATCAAATTA
1 AAATTATATCAAATTA
4535047 GGGTTAGGGT
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
110 15 0.13
111 1 0.01
112 103 0.87
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (110 bp):
AAATTATATCAAATTATATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTAG
TAAAATTATTAATTATTAATTGTATTAATTGTTAGTAAAATTATC
Found at i:4535024 original size:56 final size:56
Alignment explanation
Indices: 4534852--4535026 Score: 171
Period size: 56 Copynumber: 3.1 Consensus size: 56
4534842 AAAACATTTT
4534852 GTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTA
1 GTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTA
* ** * * ** **
4534908 GTAAAAT-TATCAAATT-ATA-TTAAATTATTAATTGTTAGTACCAGTCAAAACATT-TT-
1 GTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTA--A-TTGT-ATTA-ATTGTTA
* *
4534964 GTAAAATCTAACATTTTGTTAGTCAAATTATTAATTATTAATTGTATTAATTGTTA
1 GTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTA
4535020 GTAAAAT
1 GTAAAAT
4535027 TATCAAATTA
Statistics
Matches: 90, Mismatches: 19, Indels: 20
0.70 0.15 0.16
Matches are distributed among these distances:
53 17 0.19
54 5 0.06
55 11 0.12
56 25 0.28
57 11 0.12
58 5 0.06
59 16 0.18
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (56 bp):
GTAAAATCTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTA
Found at i:4535055 original size:6 final size:6
Alignment explanation
Indices: 4535044--4535078 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
4535034 TTATATCAAA
4535044 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGG
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGG
4535079 ATTTTTGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.34
Consensus pattern (6 bp):
TTAGGG
Found at i:4535195 original size:53 final size:54
Alignment explanation
Indices: 4535058--4535196 Score: 181
Period size: 53 Copynumber: 2.5 Consensus size: 54
4535048 GGTTAGGGTT
*
4535058 AGGGTTAGGGTTAGGGTTAGGATTTTTGTTAGCATTAAGGTTTTGGTGTTTTTAAGTTA
1 AGGGTTAGGGTTAGGGTTAGGGTTTTTGTTAG-----AGGTTTTGGTGTTTTTAAGTTA
* * *
4535117 AAGGTTAGGGTTAGGGCTAGAGTTTTTGTTAG-GGTTTTGGTGTTTTTAAGTTA
1 AGGGTTAGGGTTAGGGTTAGGGTTTTTGTTAGAGGTTTTGGTGTTTTTAAGTTA
*
4535170 AGGGTTAGGGTTATGGTTAGGGTTTTT
1 AGGGTTAGGGTTAGGGTTAGGGTTTTT
4535197 AAGTTAAGGG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
53 44 0.61
59 28 0.39
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.45
Consensus pattern (54 bp):
AGGGTTAGGGTTAGGGTTAGGGTTTTTGTTAGAGGTTTTGGTGTTTTTAAGTTA
Found at i:4535200 original size:33 final size:33
Alignment explanation
Indices: 4535158--4535229 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
4535148 GGGTTTTGGT
* *
4535158 GTTTTTAAGTTAAGGGTTAGGGTTATGGTTAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGG
4535191 GTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGG
1 GTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGG
4535224 GTTTTT
1 GTTTTT
4535230 GTTAGGGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.43
Consensus pattern (33 bp):
GTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGG
Found at i:4535209 original size:86 final size:87
Alignment explanation
Indices: 4535105--4535484 Score: 413
Period size: 86 Copynumber: 4.1 Consensus size: 87
4535095 AGGTTTTGGT
4535105 GTTTTTAAGTTAAAGGTTAGGGTTAGGGCTAGAGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
1 GTTTTTAAGTTAAAGGTTAGGGTTAGGGCTAGAGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
4535170 A-GGGTTAGGGTTATGGTTAGG
66 AGGGGTTAGGGTTATGGTTAGG
* *
4535191 GTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
1 GTTTTTAAGTTAAAGGTTAGGGTTAGGGCTAGAGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
4535256 AGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGG
66 AGGGGTTA-GG-------GTT-A----T--GGTTAGG
* *
4535293 GTTTTTAAGTTAATGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
1 GTTTTTAAGTTAAAGGTTAGGGTTAGGGCTAGAGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
* *
4535358 AGGGTTTTAAGTTAAGAGTTAGAGTTATGATTAAG
66 AGGG------GTT---AG---G-GTTATGGTTAGG
* * *
4535393 GTTTTTAAGTTAAGGGTTAAGGTTAGGGCTAGGGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
1 GTTTTTAAGTTAAAGGTTAGGGTTAGGGCTAGAGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
4535458 A-GGGTTAGGGTTATGGTTAGG
66 AGGGGTTAGGGTTATGGTTAGG
4535479 GTTTTT
1 GTTTTT
4535485 GTTAGGGTTT
Statistics
Matches: 257, Mismatches: 9, Indels: 56
0.80 0.03 0.17
Matches are distributed among these distances:
86 80 0.31
87 7 0.03
88 2 0.01
90 2 0.01
93 3 0.01
95 3 0.01
96 1 0.00
99 2 0.01
100 70 0.27
102 76 0.30
106 1 0.00
107 4 0.02
108 3 0.01
110 1 0.00
111 1 0.00
113 1 0.00
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (87 bp):
GTTTTTAAGTTAAAGGTTAGGGTTAGGGCTAGAGTTTTTGTTAGGGTTTTGGTGTTTTTAAGTTA
AGGGGTTAGGGTTATGGTTAGG
Found at i:4535214 original size:27 final size:27
Alignment explanation
Indices: 4535176--4535320 Score: 128
Period size: 27 Copynumber: 5.6 Consensus size: 27
4535166 GTTAAGGGTT
*
4535176 AGGGTTATGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTAGGGTTTTTAAGTTA
* *
4535203 AGGGTTAGGGTTAGGG---CTAGGGTT-
1 AGGGTTAGGGTTAGGGTTTTTA-AGTTA
*** *
4535227 TTTGTTAGGGTTTTGGTGTTTTTAAGTTA
1 AGGGTTAGGG-TTAGG-GTTTTTAAGTTA
4535256 A--G---GGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTAGGGTTTTTAAGTTA
4535278 AGGGTTAGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTAGGGTTTTTAAGTTA
*
4535305 ATGGTTAGGGTTAGGG
1 AGGGTTAGGGTTAGGG
4535321 CTAGGGTTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 24
0.72 0.09 0.18
Matches are distributed among these distances:
22 13 0.14
23 4 0.04
24 13 0.14
25 7 0.07
26 1 0.01
27 51 0.54
28 3 0.03
29 2 0.02
ACGTcount: A:0.19, C:0.01, G:0.38, T:0.42
Consensus pattern (27 bp):
AGGGTTAGGGTTAGGGTTTTTAAGTTA
Found at i:4535282 original size:21 final size:21
Alignment explanation
Indices: 4535215--4535289 Score: 84
Period size: 22 Copynumber: 3.6 Consensus size: 21
4535205 GGTTAGGGTT
*
4535215 AGGGCTAGGGTTTTT--GTT-
1 AGGGTTAGGGTTTTTAAGTTA
*
4535233 AGGGTTTTGGTGTTTTTAAGTTA
1 AGGG-TTAGG-GTTTTTAAGTTA
4535256 AGGGGTTAGGGTTTTTAAGTTA
1 A-GGGTTAGGGTTTTTAAGTTA
4535278 AGGGTTAGGGTT
1 AGGGTTAGGGTT
4535290 AGGGTTTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 4 0.08
19 3 0.06
20 6 0.12
21 11 0.23
22 16 0.33
23 5 0.10
24 3 0.06
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.44
Consensus pattern (21 bp):
AGGGTTAGGGTTTTTAAGTTA
Found at i:4535311 original size:102 final size:102
Alignment explanation
Indices: 4535167--4535494 Score: 465
Period size: 102 Copynumber: 3.3 Consensus size: 102
4535157 TGTTTTTAAG
*
4535167 TTAAGGGTTAGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGT
1 TTAAGAGTTAGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGT
4535232 TAGGGTTTTGGTGTTTTTAAGTTAAGGGGTTAGGGTT
66 TAGGGTTTTGGTGTTTTTAAGTTAAGGGGTTAGGGTT
* * *
4535269 TTTA-AGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAATGGTTAGGGTTAGGGCTAGGGTTTTTG
1 TTAAGAGTT-AGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTG
* *
4535333 TTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTTTA-AG--
65 TTAGGGTTTTGGTGTTTTTAAGTTAAGGG-GTTAGGGTT
* * * *
4535369 TTAAGAGTTAGAGTTATGATTAAGGTTTTTAAGTTAAGGGTTAAGGTTAGGGCTAGGGTTTTTGT
1 TTAAGAGTTAGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGT
4535434 TAGGGTTTTGGTGTTTTTAAGTTAA-GGGTTAGGG--
66 TAGGGTTTTGGTGTTTTTAAGTTAAGGGGTTAGGGTT
* * *
4535468 TTATG-GTTAGGGTTTTTGTTAGGGTTT
1 TTAAGAGTTAGGGTTATGGTTAGGGTTT
4535495 GTCAATTAAA
Statistics
Matches: 201, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
98 20 0.10
99 7 0.03
100 78 0.39
101 7 0.03
102 86 0.43
103 3 0.01
ACGTcount: A:0.20, C:0.01, G:0.35, T:0.45
Consensus pattern (102 bp):
TTAAGAGTTAGGGTTATGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTTGT
TAGGGTTTTGGTGTTTTTAAGTTAAGGGGTTAGGGTT
Found at i:4535365 original size:14 final size:14
Alignment explanation
Indices: 4535348--4535410 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 14
4535338 GTTTTGGTGT
4535348 TTTTAAGTTAAGGG
1 TTTTAAGTTAAGGG
*
4535362 TTTTAAGTTAAGAG
1 TTTTAAGTTAAGGG
* *
4535376 TTAGAGTTATGATTAAGGT
1 TT----TTAAG-TTAAGGG
4535395 TTTTAAGTTAAGGG
1 TTTTAAGTTAAGGG
4535409 TT
1 TT
4535411 AAGGTTAGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
14 23 0.61
15 4 0.11
18 4 0.11
19 7 0.18
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TTTTAAGTTAAGGG
Found at i:4535494 original size:12 final size:12
Alignment explanation
Indices: 4535460--4535494 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4535450 TTAAGTTAAG
*
4535460 GGTTAGGGTTAT
1 GGTTAGGGTTTT
4535472 GGTTAGGGTTTT
1 GGTTAGGGTTTT
*
4535484 TGTTAGGGTTT
1 GGTTAGGGTTT
4535495 GTCAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.00, G:0.40, T:0.49
Consensus pattern (12 bp):
GGTTAGGGTTTT
Found at i:4535513 original size:7 final size:7
Alignment explanation
Indices: 4535501--4535540 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
4535491 GTTTGTCAAT
4535501 TAAATTA
1 TAAATTA
4535508 TAAATT-
1 TAAATTA
4535514 T-AATTA
1 TAAATTA
4535520 TAAATTA
1 TAAATTA
4535527 TAAATTTA
1 TAAA-TTA
4535535 TAAATT
1 TAAATT
4535541 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:4535513 original size:12 final size:12
Alignment explanation
Indices: 4535498--4535540 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
4535488 AGGGTTTGTC
4535498 AATTAAATTATA
1 AATTAAATTATA
*
4535510 AATTTAATTATA
1 AATTAAATTATA
4535522 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
4535537 AATT
1 AATT
4535541 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:4537810 original size:12 final size:12
Alignment explanation
Indices: 4537793--4537819 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4537783 ATTCCGAAGT
4537793 ATATATATATAC
1 ATATATATATAC
4537805 ATATATATATAC
1 ATATATATATAC
4537817 ATA
1 ATA
4537820 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:4538339 original size:27 final size:27
Alignment explanation
Indices: 4538304--4538481 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
4538294 TAAATTGTAC
*
4538304 AGCATTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
4538331 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4538357 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
4538385 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
4538413 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4538440 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
4538467 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4538482 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:4538418 original size:82 final size:81
Alignment explanation
Indices: 4538309--4538460 Score: 225
Period size: 82 Copynumber: 1.9 Consensus size: 81
4538299 TGTACAGCAT
* *
4538309 TAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCG
1 TAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGTGCG
4538373 AATTGACCATGCGGCAC
65 AATTGACCATGCGGCAC
** *
4538390 TAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCG
1 TAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCG
*
4538455 AGTTGA
65 AATTGA
4538461 TTATATAGCA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 11 0.17
82 51 0.81
83 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (81 bp):
TAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTGCGA
ATTGACCATGCGGCAC
Found at i:4538472 original size:82 final size:81
Alignment explanation
Indices: 4538301--4538481 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
4538291 GATTAAATTG
* * *
4538301 TACAGCATTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
4538366 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
4538382 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
4538446 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
4538464 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
4538482 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:4545915 original size:12 final size:12
Alignment explanation
Indices: 4545898--4545924 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4545888 ATTCCGAAGT
4545898 ATATATATATAC
1 ATATATATATAC
4545910 ATATATATATAC
1 ATATATATATAC
4545922 ATA
1 ATA
4545925 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:4546436 original size:27 final size:27
Alignment explanation
Indices: 4546405--4546582 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
4546395 TAAATTGTAC
4546405 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
4546432 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4546458 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
4546486 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
4546514 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
4546541 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
4546568 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
4546583 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:4546519 original size:82 final size:81
Alignment explanation
Indices: 4546406--4546561 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
4546396 AAATTGTACA
* *
4546406 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
4546470 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
4546487 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
4546552 TGCGAGTTGA
65 TGCGAATTGA
4546562 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:4546573 original size:82 final size:81
Alignment explanation
Indices: 4546402--4546582 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
4546392 GATTAAATTG
* *
4546402 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
4546467 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
4546483 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
4546547 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
4546565 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
4546583 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:4549670 original size:16 final size:16
Alignment explanation
Indices: 4549649--4549688 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4549639 TGAACTACTG
4549649 ATTACAGCTCTATTTC-
1 ATTACAGCTCTA-TTCA
*
4549665 ATTACAACTCTATTCA
1 ATTACAGCTCTATTCA
4549681 ATTACAGC
1 ATTACAGC
4549689 CTTATTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:4576148 original size:79 final size:76
Alignment explanation
Indices: 4576001--4576151 Score: 212
Period size: 79 Copynumber: 1.9 Consensus size: 76
4575991 GACTTCAATG
* * * * *
4576001 CTCATAGACTTGATCTCACTATTCATAGGACTGATATTCTGAGCAGGCATCGAGCATGTTAAACA
1 CTCATAGACTTGACCCCACTATTCATAGAACTGATATTCTAAACAGGCATCGAGCATGTTAAACA
4576066 TGTGTATTATT
66 TGTGTATTATT
* *
4576077 CTCATGGACTTGACCCCACTATTCATAGAACTGATGACATTCTAAACAGGCCTCGAGCATGTTAA
1 CTCATAGACTTGACCCCACTATTCATAGAACTGAT---ATTCTAAACAGGCATCGAGCATGTTAA
4576142 ACATGTGTAT
63 ACATGTGTAT
4576152 CAGTCTAGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
76 31 0.48
79 34 0.52
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (76 bp):
CTCATAGACTTGACCCCACTATTCATAGAACTGATATTCTAAACAGGCATCGAGCATGTTAAACA
TGTGTATTATT
Found at i:4578334 original size:21 final size:22
Alignment explanation
Indices: 4578288--4578336 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
4578278 TAATTTATCC
* * *
4578288 TTTCTTTCTTTCTCTTTCTCTT
1 TTTCTTTCATTCTCTGTCTCTG
4578310 TTTCTTTCATT-TCTGTCTCTG
1 TTTCTTTCATTCTCTGTCTCTG
4578331 TTTCTT
1 TTTCTT
4578337 GTTCTATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.02, C:0.24, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTCTTTCATTCTCTGTCTCTG
Found at i:4578336 original size:27 final size:26
Alignment explanation
Indices: 4578287--4578341 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
4578277 CTAATTTATC
* *
4578287 CTTTCTTTCTTTCTCTTTCTCTTTTT
1 CTTTCTTTCTGTCTCTTTCTCTTGTT
4578313 CTTTCATTTCTGTCTCTGTT-TCTTGTT
1 CTTTC-TTTCTGTCTCT-TTCTCTTGTT
4578340 CT
1 CT
4578342 ATTTCTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 18 0.72
28 2 0.08
ACGTcount: A:0.02, C:0.25, G:0.05, T:0.67
Consensus pattern (26 bp):
CTTTCTTTCTGTCTCTTTCTCTTGTT
Found at i:4579531 original size:17 final size:18
Alignment explanation
Indices: 4579495--4579535 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
4579485 ACATAATTTT
*
4579495 CAAAATAATTAAACAGCC
1 CAAAAAAATTAAACAGCC
*
4579513 CAAAAAAATTACA-AGCC
1 CAAAAAAATTAAACAGCC
4579530 CAAAAA
1 CAAAAA
4579536 TAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.61, C:0.22, G:0.05, T:0.12
Consensus pattern (18 bp):
CAAAAAAATTAAACAGCC
Found at i:4582687 original size:88 final size:88
Alignment explanation
Indices: 4582307--4582917 Score: 734
Period size: 88 Copynumber: 7.1 Consensus size: 88
4582297 AGATCAGTGA
* * * *
4582307 AGATCGAAAA-TAAAACTTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATTTTG
1 AGATCGAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* *
4582370 CCTTCTTGCATTAACAGCGAAGC
66 CCTTCCTGCGTTAACAGCGAAGC
*
4582393 AGATCGAAAA-CAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTG
1 AGATCGAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* *
4582456 CCTT-CTGC--AAATCAGCAAAGC
66 CCTTCCTGCGTTAA-CAGCGAAGC
*
4582477 AGATC-AAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGAT-GCAGATCTTG
1 AGATCGAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* * *
4582540 ACTTCCT--G-TAGATTATCGAAGC
66 CCTTCCTGCGTTA-A-CAGCGAAGC
* *
4582562 AGATCG-AAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATTTTG
1 AGATCGAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
4582626 CCTTCCTGCGTTAACAGCGAAGC
66 CCTTCCTGCGTTAACAGCGAAGC
* * * *
4582649 AGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
1 AGATCGAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* ** ** *
4582714 CCCTCCTATGTCGACAGTGAAGC
66 CCTTCCTGCGTTAACAGCGAAGC
* * * * *
4582737 AGATCGAAGACCCAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAA-AAAGCAGATCTTG
1 AGATCGAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* *
4582801 CCTTCCTGCAG--ATCAGCAAAGC
66 CCTTCCTGC-GTTAACAGCGAAGC
*
4582823 AGATCG-AAAGCAAAGCCTTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
1 AGATCGAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* **
4582887 CATTCCTGCGTTAACAGTTAAGC
66 CCTTCCTGCGTTAACAGCGAAGC
*
4582910 AAATCGAA
1 AGATCGAA
4582918 GATTACAATC
Statistics
Matches: 452, Mismatches: 56, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
83 6 0.01
84 67 0.15
85 104 0.23
86 109 0.24
87 43 0.10
88 121 0.27
89 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (88 bp):
AGATCGAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
CCTTCCTGCGTTAACAGCGAAGC
Found at i:4582715 original size:44 final size:44
Alignment explanation
Indices: 4582578--4582715 Score: 104
Period size: 44 Copynumber: 3.1 Consensus size: 44
4582568 AAAGCAAAGC
*
4582578 CTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGAT
1 CTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGAT
* ** * * * * ** *
4582622 TTTGCCTTCC-TGCGTTAACAGCGAAGCAGGTCGAAA-A-CCCA-AGC
1 CTTGCC-TCCAT-CGTTTGCAGTGGAGCTGGT-TAAAGATAACAGA-T
*
4582666 CTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGAT
1 CTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGAT
4582710 CTTGCC
1 CTTGCC
4582716 CTCCTATGTC
Statistics
Matches: 65, Mismatches: 21, Indels: 16
0.64 0.21 0.16
Matches are distributed among these distances:
42 3 0.05
43 19 0.29
44 22 0.34
45 18 0.28
46 3 0.05
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (44 bp):
CTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGAT
Found at i:4582798 original size:261 final size:256
Alignment explanation
Indices: 4582324--4582917 Score: 843
Period size: 261 Copynumber: 2.3 Consensus size: 256
4582314 AAATAAAACT
* *
4582324 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATTTTGCCTTCTTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATTTTGCCTTCCTGCGTTAACAGC
4582388 GAAGCAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATC
66 GAAGCAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATC
* *
4582453 TTGCCTTCTGCAAATCAGCAAAGCAGATCAAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
131 TTGCCTTATGCAAATCAGCAAAGCAGATCAAAACCAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
* * * * * * *
4582518 TTGGTTAAAGATGCAGATCTTGACTTCCTGTAGATTATCGAAGCAGATCGAAAGCAAAGCC
196 CTGGTTAAAAAAGCAGATCTTGACTTCCTGCAGATCAGCAAAGCAGATCGAAAGCAAAGCC
*
4582579 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATTTTGCCTTCCTGCGTTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATTTTGCCTTCCTGCGTTAACAGC
* * * *
4582644 GAAGCAGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGA
66 GAAGCAGATCGAAAA-CAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGA
* ** * * *
4582709 TCTTGCCCTCCTATGTC-GA-CAGTGAAGCAGATCGAAGACCCAAGCCTTGTCTCCATCGGTTGC
129 TCTTG-CCT--TATG-CAAATCAGCAAAGCAGATC-AAAACCAAAGCCTTGCCTCCATCGGTTGC
*
4582772 AGTGGAGCTGGTTAAAAAAGCAGATCTTGCCTTCCTGCAGATCAGCAAAGCAGATCGAAAGCAAA
189 AGTGGAGCTGGTTAAAAAAGCAGATCTTGACTTCCTGCAGATCAGCAAAGCAGATCGAAAGCAAA
4582837 GCC
254 GCC
* * * *
4582840 TTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCATTCCTGCGTTAACAGT
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATTTTGCCTTCCTGCGTTAACAGC
* *
4582905 TAAGCAAATCGAA
66 GAAGCAGATCGAA
4582918 GATTACAATC
Statistics
Matches: 300, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
255 35 0.12
256 40 0.13
257 39 0.13
258 11 0.04
259 3 0.01
260 12 0.04
261 159 0.53
262 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (256 bp):
TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATTTTGCCTTCCTGCGTTAACAGC
GAAGCAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATC
TTGCCTTATGCAAATCAGCAAAGCAGATCAAAACCAAAGCCTTGCCTCCATCGGTTGCAGTGGAG
CTGGTTAAAAAAGCAGATCTTGACTTCCTGCAGATCAGCAAAGCAGATCGAAAGCAAAGCC
Found at i:4582919 original size:173 final size:172
Alignment explanation
Indices: 4582324--4582917 Score: 756
Period size: 173 Copynumber: 3.5 Consensus size: 172
4582314 AAATAAAACT
* * * * *
4582324 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATTTTGCCTTCTTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCATTCCTGCGTTAACAGT
* *
4582388 GAAGCAGATCGAAAACAAAGCCTTACCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATC
66 GAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATC
* *
4582453 TTGCCTT-CTGCAAATCAGCAAAGCAGATCAAAAGCAAAGCC
131 TTGCCTTCCTGCAGATCAGCAAAGCAGATCGAAAGCAAAGCC
* * *
4582494 TTGCCTCCATCGGTTGCAGTGGAGTTGGTTAAAGAT-GCAGATCTTG-ACTTCCTGTAGATTATC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCA-TTCCTG-CG-TTAAC
*
4582557 ---GAAGCAGATCGAAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAA-C
63 AGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAA-A-AAGC
* * * * * *
4582618 AGATTTTGCCTTCCTGC-GTTAACAGCGAAGCAGGTCGAAAACCCAAGCC
126 AGATCTTGCCTTCCTGCAG--ATCAGCAAAGCAGATCG-AAAGCAAAGCC
* ** ** **
4582667 TTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTATGTCGACAGT
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCATTCCTGCGTTAACAGT
* * *
4582732 GAAGCAGATCGAAGACCCAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGAT
66 GAAGCAGATCGAA-AACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGAT
4582797 CTTGCCTTCCTGCAGATCAGCAAAGCAGATCGAAAGCAAAGCC
130 CTTGCCTTCCTGCAGATCAGCAAAGCAGATCGAAAGCAAAGCC
*
4582840 TTGCCTCTATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCATTCCTGCGTTAACAGT
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCATTCCTGCGTTAACAGT
* *
4582905 TAAGCAAATCGAA
66 GAAGCAGATCGAA
4582918 GATTACAATC
Statistics
Matches: 360, Mismatches: 46, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
169 53 0.15
170 60 0.17
171 6 0.02
172 19 0.05
173 121 0.34
174 30 0.08
175 31 0.09
176 40 0.11
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (172 bp):
TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCATTCCTGCGTTAACAGT
GAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAAAAGCAGATC
TTGCCTTCCTGCAGATCAGCAAAGCAGATCGAAAGCAAAGCC
Found at i:4583147 original size:44 final size:44
Alignment explanation
Indices: 4583098--4583212 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
4583088 ATCGCATCGG
*
4583098 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGA-AAACAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGA-ACAAACAA
* * ** * *
4583142 GTCTTATCCCCCTAAAGTCACAGTGGGGCAGACCGAACAAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAACAAACAA
* *
4583186 ATCTTATCTCCCTGAGGTTGCAGTGGA
1 GTCTTATCTCCCTGAAGTTGCAGTGGA
4583213 ACAACTTGAA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAACAAACAA
Found at i:4586549 original size:29 final size:30
Alignment explanation
Indices: 4586496--4586572 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
4586486 GTGATAAAAA
* **
4586496 AATTAATTAAATTTTTAATTCAAAATT-GC
1 AATTAATTAAACTTTTAATAAAAAATTAGC
*
4586525 AATTAATTAAA-TTTTAATAAAAAAATTAGT
1 AATTAATTAAACTTTTAAT-AAAAAATTAGC
*
4586555 AATAAATTAAACTTTTAA
1 AATTAATTAAACTTTTAA
4586573 AATATAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.17
29 17 0.41
30 11 0.27
31 6 0.15
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (30 bp):
AATTAATTAAACTTTTAATAAAAAATTAGC
Found at i:4586929 original size:19 final size:18
Alignment explanation
Indices: 4586905--4586954 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
4586895 GAAATTATTG
4586905 AAAATTATAAAAAAATATA
1 AAAATTATAAAAAAATA-A
**
4586924 AAAATTATTAAAACCATAA
1 AAAATTA-TAAAAAAATAA
*
4586943 AAAATCATAAAA
1 AAAATTATAAAA
4586955 TTTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 14 0.52
20 8 0.30
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATTATAAAAAAATAA
Found at i:4586936 original size:28 final size:28
Alignment explanation
Indices: 4586896--4586963 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
4586886 AAACTCTTAG
**
4586896 AAATTATTGAAAATTATAAAAAAAT-ATAA
1 AAATTATT-AAAACCAT-AAAAAATCATAA
4586925 AAATTATTAAAACCATAAAAAATCATAA
1 AAATTATTAAAACCATAAAAAATCATAA
*
4586953 AATTTATTAAA
1 AAATTATTAAA
4586964 GTTTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.20
28 20 0.57
29 8 0.23
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (28 bp):
AAATTATTAAAACCATAAAAAATCATAA
Found at i:4587453 original size:8 final size:8
Alignment explanation
Indices: 4587410--4587437 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
4587400 TAAAATAAAA
4587410 TTTTTTAT
1 TTTTTTAT
4587418 TTTTTTAT
1 TTTTTTAT
4587426 TTTTTTAT
1 TTTTTTAT
4587434 TTTT
1 TTTT
4587438 AAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:4587908 original size:16 final size:20
Alignment explanation
Indices: 4587875--4587914 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
4587865 TTTTTACCAT
4587875 TTTTATTATTTGTATAAT-A
1 TTTTATTATTTGTATAATAA
4587894 TTTTATT-TTT-T-TAATAA
1 TTTTATTATTTGTATAATAA
4587911 TTTT
1 TTTT
4587915 GTATAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.20
17 6 0.30
18 3 0.15
19 7 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTATTATTTGTATAATAA
Found at i:4595880 original size:39 final size:40
Alignment explanation
Indices: 4595837--4595927 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 40
4595827 TGAGTATACG
* *
4595837 TATATATATTAAA-CAAGTTATATG-TAA-AATATGTACATA
1 TATATATATTAAAGC-ACTTATATGATAACAATAAG-ACATA
4595876 TATATATA-TACAAGCACTTATATGATAACAATAAGACATA
1 TATATATATTA-AAGCACTTATATGATAACAATAAGACATA
4595916 TATATAT-TTAAA
1 TATATATATTAAA
4595928 AATACGTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
38 2 0.04
39 20 0.44
40 18 0.40
41 5 0.11
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (40 bp):
TATATATATTAAAGCACTTATATGATAACAATAAGACATA
Found at i:4597801 original size:132 final size:132
Alignment explanation
Indices: 4597564--4598578 Score: 1755
Period size: 132 Copynumber: 7.7 Consensus size: 132
4597554 CGCCATCGTC
* * * * * *
4597564 GATCTGCTTTCTTCGATCTACTT-ACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * * * *
4597628 TTCCAATCATTATAGGAAGATAGGACTTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4597693 AA
131 AA
* * *
4597695 GATCTACTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAT
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
4597760 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4597825 AA
131 AA
*
4597827 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
4597892 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4597957 AA
131 AA
4597959 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
4598024 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4598089 AA
131 AA
4598091 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
4598156 TTCCTACCAATATAGGAAGATAGGATCTGCTA-CTTCGATCTACTTCACACCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4598220 AA
131 AA
4598222 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
4598287 TTCCTACCAATATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4598352 AA
131 AA
4598354 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
4598419 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4598484 AA
131 AA
* *
4598486 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATATTCGATCTAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
4598551 TTCCTACCAATATAGGAAGATAGGACCT
66 TTCCTACCAATATAGGAAGATAGGACCT
4598579 ATTTACGCCT
Statistics
Matches: 847, Mismatches: 35, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
131 149 0.18
132 698 0.82
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:4598301 original size:395 final size:396
Alignment explanation
Indices: 4597564--4598578 Score: 1775
Period size: 395 Copynumber: 2.6 Consensus size: 396
4597554 CGCCATCGTC
* * * * * *
4597564 GATCTGCTTTCTTCGATCTACTT-ACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * * *
4597628 TTCCAATCATTATAGGAAGATAGGA-CTTGTTATCTTTGATCTACTTCACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAGGATC-TGCTACCTTCGATCTACTTCACGCCAATACATGAAGA
* *
4597692 CAAGATCTACTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
130 CAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
* * *
4597757 CATTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAA
195 CACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACACCAATACATGAA
4597822 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGA
260 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGA
*
4597887 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
325 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
4597952 AAGACAA
390 AAGACAA
4597959 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
4598024 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4598089 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
131 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
*
4598154 ACTTCCTACCAATATAGGAAGATAGGATCTGCTA-CTTCGATCTACTTCACACCAATACATGAAG
196 ACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACACCAATACATGAAG
*
4598218 ACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGAT
261 ACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGAT
* * *
4598283 CCACTTCCTACCAATATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGA
326 CCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGA
4598348 AGACAA
391 AGACAA
4598354 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
4598419 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
* *
4598484 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATATTCGATCT
131 AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
4598549 ACTTCCTACCAATATAGGAAGATAGGACCT
196 ACTTCCTACCAATATAGGAAGATAGGACCT
4598579 ATTTACGCCT
Statistics
Matches: 592, Mismatches: 26, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
395 404 0.68
396 187 0.32
397 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (396 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
AAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCC
ACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACACCAATACATGAAG
ACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGAT
CCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGA
AGACAA
Found at i:4621503 original size:39 final size:40
Alignment explanation
Indices: 4621460--4621550 Score: 102
Period size: 39 Copynumber: 2.3 Consensus size: 40
4621450 TGAGTATACG
* *
4621460 TATATATATTAAA-CAAGTTATATG-TAA-AATATGTACATA
1 TATATATATTAAAGC-ACTTATATGATAACAATAAG-ACATA
4621499 TATATATA-TACAAGCACTTATATGATAACAATAAGACATA
1 TATATATATTA-AAGCACTTATATGATAACAATAAGACATA
4621539 TATATAT-TTAAA
1 TATATATATTAAA
4621551 AATACGTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
38 2 0.04
39 20 0.44
40 18 0.40
41 5 0.11
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (40 bp):
TATATATATTAAAGCACTTATATGATAACAATAAGACATA
Found at i:4623332 original size:44 final size:43
Alignment explanation
Indices: 4623182--4623698 Score: 434
Period size: 44 Copynumber: 11.7 Consensus size: 43
4623172 CGCCATCGTC
* * * *
4623182 GATCTGCTTTCTTCGATCTACTTTACCACCAGTATGGGAAGACAG
1 GATCTGCTATCTTCGATCTAC-TT-CCACCAATATAGGAAGACAA
* * * * * * *
4623227 GATCTGC-GTCGTCGATCCACTTCCAATCATTATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * * *
4623270 GA-CTTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATC-TGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* * * *
4623314 GATCTACTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTAC-TT-CCACCAATATAGGAAGACAA
* * *
4623359 GATCTGC-ATCTTCGATCCATTTCCTACCAATATAGGAAGACAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * *
4623402 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* *
4623446 GATCTGCTTTCTGCGATCTACTTCGCCACCAATAT-GAGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCACCAATATAG-GAAGACAA
* * *
4623491 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* * * *
4623534 GATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAA
* * *
4623578 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAA
* * *
4623623 GATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAA
* *
4623666 GATCTGCTACCTTCGATCTACTTCACGCCAATA
1 GATCTGCTATCTTCGATCTACTTC-CACCAATA
4623699 CATGAGAGTA
Statistics
Matches: 374, Mismatches: 76, Indels: 45
0.76 0.15 0.09
Matches are distributed among these distances:
42 9 0.02
43 87 0.23
44 196 0.52
45 79 0.21
46 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (43 bp):
GATCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAA
Found at i:4623420 original size:132 final size:132
Alignment explanation
Indices: 4623182--4623703 Score: 846
Period size: 132 Copynumber: 4.0 Consensus size: 132
4623172 CGCCATCGTC
* ** * * * *
4623182 GATCTGCTTTCTTCGATCTACTTTACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * * * *
4623247 TTCCAATCATTATAGGAAGATAGGACTTGTTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4623312 AA
131 AA
* * *
4623314 GATCTACTTTCTGCGATCTACTTTGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAT
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
4623379 TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4623444 AA
131 AA
*
4623446 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGAGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
4623511 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
4623576 AA
131 AA
4623578 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
4623643 TTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATGA
66 TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGA
4623704 GAGTATTTTA
Statistics
Matches: 367, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 367 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:4623806 original size:43 final size:42
Alignment explanation
Indices: 4623750--4623833 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 42
4623740 AAAGTGTTTG
4623750 GATTTTTTTTTATTGGATTTTCTAGTATTTTATTCAGTGTGT
1 GATTTTTTTTTATTGGATTTTCTAGTATTTTATTCAGTGTGT
*
4623792 GATTTTTTTATTATTGGGTTTTCTAGTATTTTATTCAGTGTG
1 GATTTTTTT-TTATTGGATTTTCTAGTATTTTATTCAGTGTG
4623834 ATTTATTTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
42 9 0.22
43 31 0.77
ACGTcount: A:0.17, C:0.05, G:0.18, T:0.61
Consensus pattern (42 bp):
GATTTTTTTTTATTGGATTTTCTAGTATTTTATTCAGTGTGT
Found at i:4629607 original size:13 final size:14
Alignment explanation
Indices: 4629591--4629619 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4629581 TTTGACTTAA
4629591 TTTTAATTA-TATT
1 TTTTAATTATTATT
4629604 TTTTAATTATTATT
1 TTTTAATTATTATT
4629618 TT
1 TT
4629620 ATTTAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTATTATT
Found at i:4630239 original size:18 final size:18
Alignment explanation
Indices: 4630216--4630256 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4630206 TTTTACATAG
*
4630216 AAGAAACCGTGTAAGCGA
1 AAGAAACCGTGTAAGCAA
*
4630234 AAGAAACGGTGTAAGCAA
1 AAGAAACCGTGTAAGCAA
4630252 AAGAA
1 AAGAA
4630257 TTTCATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.12, G:0.27, T:0.10
Consensus pattern (18 bp):
AAGAAACCGTGTAAGCAA
Found at i:4631750 original size:42 final size:42
Alignment explanation
Indices: 4631702--4631806 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
4631692 ATGAGTTTTG
* ** *
4631702 GTTTAACCCTTATGGGTTTCTGTTCAGCTCTTTTGAGCTTCA
1 GTTTAACCCTTATGGGTTTCTGTTCAACTCTTACGAACTTCA
* *
4631744 GTTTAACCCTTATGGGTTTCCGTTCAACTCTTACGAACTTCC
1 GTTTAACCCTTATGGGTTTCTGTTCAACTCTTACGAACTTCA
*
4631786 GTTCAACCCTTATGGGTTTCT
1 GTTTAACCCTTATGGGTTTCT
4631807 ATTTAGCACT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.42
Consensus pattern (42 bp):
GTTTAACCCTTATGGGTTTCTGTTCAACTCTTACGAACTTCA
Found at i:4634248 original size:9 final size:9
Alignment explanation
Indices: 4634234--4634264 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4634224 GTTAAACGAA
4634234 TCGAGTTAT
1 TCGAGTTAT
*
4634243 TCGAGTTAA
1 TCGAGTTAT
4634252 TCGAGTTAT
1 TCGAGTTAT
4634261 TCGA
1 TCGA
4634265 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:4634421 original size:21 final size:21
Alignment explanation
Indices: 4634382--4634422 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4634372 CCCAAACTCC
*
4634382 CAAAACTTTTTACTTTTCCCT
1 CAAAACTTTTTACTCTTCCCT
4634403 CAAAAC-TTTTACTCCTTCCC
1 CAAAACTTTTTACT-CTTCCC
4634423 ACTTTCCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.41
Consensus pattern (21 bp):
CAAAACTTTTTACTCTTCCCT
Found at i:4637004 original size:11 final size:12
Alignment explanation
Indices: 4636988--4637022 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
4636978 AAGAAAAAAA
4636988 AAGAGAG-AGGG
1 AAGAGAGAAGGG
4636999 AAGAGAGAAGGG
1 AAGAGAGAAGGG
4637011 -AGAGAGAAGGG
1 AAGAGAGAAGGG
4637022 A
1 A
4637023 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:4643851 original size:18 final size:18
Alignment explanation
Indices: 4643828--4643920 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
4643818 TACGACCGTT
4643828 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
4643846 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
4643864 TACAGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
4643882 TATGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* * *
4643900 TACAGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
4643918 TAC
1 TAC
4643921 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:4643881 original size:36 final size:36
Alignment explanation
Indices: 4643834--4643920 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
4643824 CGTTTACGGC
4643834 ACTATTCACGTATACGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
4643870 ACTATTCACGTATATGGCACTATTCACGTATACAGT
1 ACTATTCACGTATACGGCACTATTCACGTATACAGT
*
4643906 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
4643921 AGTAGTTGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (36 bp):
ACTATTCACGTATACGGCACTATTCACGTATACAGT
Found at i:4650420 original size:152 final size:152
Alignment explanation
Indices: 4650144--4650447 Score: 608
Period size: 152 Copynumber: 2.0 Consensus size: 152
4650134 CACTGAGCCT
4650144 TACATTAGACAGAAATGGTGTTTGGGAAACAACACCAGCGAATTTGAAGTTCTTTTAATTGCACC
1 TACATTAGACAGAAATGGTGTTTGGGAAACAACACCAGCGAATTTGAAGTTCTTTTAATTGCACC
4650209 ACACTCCAATTTTGTCATTGACTCATGCCCCCCCACTCTATTTTTTTTCACTTTCATTGTAATTG
66 ACACTCCAATTTTGTCATTGACTCATGCCCCCCCACTCTATTTTTTTTCACTTTCATTGTAATTG
4650274 ACTAGGATTTTTAAATTGAAAA
131 ACTAGGATTTTTAAATTGAAAA
4650296 TACATTAGACAGAAATGGTGTTTGGGAAACAACACCAGCGAATTTGAAGTTCTTTTAATTGCACC
1 TACATTAGACAGAAATGGTGTTTGGGAAACAACACCAGCGAATTTGAAGTTCTTTTAATTGCACC
4650361 ACACTCCAATTTTGTCATTGACTCATGCCCCCCCACTCTATTTTTTTTCACTTTCATTGTAATTG
66 ACACTCCAATTTTGTCATTGACTCATGCCCCCCCACTCTATTTTTTTTCACTTTCATTGTAATTG
4650426 ACTAGGATTTTTAAATTGAAAA
131 ACTAGGATTTTTAAATTGAAAA
4650448 GGTAAAAAAA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
152 152 1.00
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (152 bp):
TACATTAGACAGAAATGGTGTTTGGGAAACAACACCAGCGAATTTGAAGTTCTTTTAATTGCACC
ACACTCCAATTTTGTCATTGACTCATGCCCCCCCACTCTATTTTTTTTCACTTTCATTGTAATTG
ACTAGGATTTTTAAATTGAAAA
Found at i:4665690 original size:18 final size:18
Alignment explanation
Indices: 4665667--4665759 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
4665657 CCCAACTACT
*
4665667 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
4665685 GTATACGTGAATAGTTCC
1 GTATACGTGAATAGTACC
*
4665703 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
4665721 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
4665739 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
4665757 GTA
1 GTA
4665760 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:4671653 original size:16 final size:16
Alignment explanation
Indices: 4671619--4671654 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4671609 GTATCACGAG
*
4671619 TTAATTAGATATTAAT
1 TTAATTAGATAGTAAT
*
4671635 TTAATTAGATAGTAGT
1 TTAATTAGATAGTAAT
4671651 TTAA
1 TTAA
4671655 ATATTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (16 bp):
TTAATTAGATAGTAAT
Found at i:4672256 original size:28 final size:28
Alignment explanation
Indices: 4672202--4672264 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
4672192 GTTAAATAAG
*
4672202 TTTTATAAAATTTTAAAATATTTTTTAA
1 TTTTATAAAATTTTAAAATATTATTTAA
*
4672230 TTTTATAAAATTTT-AATTCATTATTTAA
1 TTTTATAAAATTTTAAAAT-ATTATTTAA
4672258 TTATTAT
1 TT-TTAT
4672265 TAGACCGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 3 0.10
28 24 0.77
29 4 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTTATAAAATTTTAAAATATTATTTAA
Found at i:4675428 original size:103 final size:103
Alignment explanation
Indices: 4675299--4675511 Score: 318
Period size: 103 Copynumber: 2.1 Consensus size: 103
4675289 CACTAACTTT
* * * * *
4675299 TTATCTTATTGATTTGTTAGATTTTTATTTACGATATTTCTTTCAATAGTTTTAGTTTTAATTTA
1 TTATTTTATTGATTTGTTAAAATTTTATATACGATATTTATTTCAATAGTTTTAGTTTTAATTTA
* * *
4675364 ATTTTTTAATTTTCAAATCCCTTTTATTTTTATTTTAC
66 ACTTTTAAATTTTAAAATCCCTTTTATTTTTATTTTAC
* * *
4675402 TTATTTTATTGATTTTTTAAAATTTTATATATGGTATTTATTTCAATAGTTTTAGTTTTAATTTA
1 TTATTTTATTGATTTGTTAAAATTTTATATACGATATTTATTTCAATAGTTTTAGTTTTAATTTA
4675467 ACTTTTAAATTTTAAAATCCCTTTTATTTTTATTTTAC
66 ACTTTTAAATTTTAAAATCCCTTTTATTTTTATTTTAC
*
4675505 TGATTTT
1 TTATTTT
4675512 TTACTAATCA
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.26, C:0.07, G:0.06, T:0.61
Consensus pattern (103 bp):
TTATTTTATTGATTTGTTAAAATTTTATATACGATATTTATTTCAATAGTTTTAGTTTTAATTTA
ACTTTTAAATTTTAAAATCCCTTTTATTTTTATTTTAC
Found at i:4676552 original size:13 final size:13
Alignment explanation
Indices: 4676534--4676571 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4676524 AGTTCTTCAT
4676534 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
4676547 TGCTTTTCAGAAG
1 TGCTTTTGAGAAG
4676560 TGCTTTTGAGAA
1 TGCTTTTGAGAA
4676572 ATTTGAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.24, C:0.11, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:4682157 original size:4 final size:4
Alignment explanation
Indices: 4682110--4682166 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
4682100 ATACAAATTT
* * * *
4682110 TAAA TACAA TAAA GTAAA GAAA T-AA TAAA TGAA TGAA TATA TAAA TAAA
1 TAAA TA-AA TAAA -TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
4682159 TAAA TAAA
1 TAAA TAAA
4682167 ACAATACATA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
3 3 0.07
4 33 0.75
5 8 0.18
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:4683438 original size:18 final size:18
Alignment explanation
Indices: 4683415--4683449 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4683405 GTAATTAGAC
*
4683415 TTTATTATTTGGTCTTGT
1 TTTATTATTGGGTCTTGT
4683433 TTTATTATTGGGTCTTG
1 TTTATTATTGGGTCTTG
4683450 GGCCGGACGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.06, G:0.20, T:0.63
Consensus pattern (18 bp):
TTTATTATTGGGTCTTGT
Found at i:4684205 original size:25 final size:26
Alignment explanation
Indices: 4684152--4684220 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 26
4684142 CTTCTAAAAG
*
4684152 AAACTCAAGAGAAATTCTTGAAAGAA
1 AAACTCAAGAGAATTTCTTGAAAGAA
* *
4684178 AAACTCAATAGAATTTTTTGAAAGAA
1 AAACTCAAGAGAATTTCTTGAAAGAA
4684204 AAACTCAAAGAGAATTT
1 AAACTC-AAGAGAATTT
4684221 AATAACTCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
26 29 0.76
27 9 0.24
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.25
Consensus pattern (26 bp):
AAACTCAAGAGAATTTCTTGAAAGAA
Found at i:4693673 original size:17 final size:17
Alignment explanation
Indices: 4693651--4693683 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4693641 TACTAAAAAT
4693651 ATAATTT-TATTATTTAA
1 ATAATTTATATT-TTTAA
4693668 ATAATTTATATTTTTA
1 ATAATTTATATTTTTA
4693684 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATAATTTATATTTTTAA
Found at i:4700955 original size:14 final size:14
Alignment explanation
Indices: 4700936--4700966 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
4700926 ATCACACAAT
4700936 ACTCAATTTTCATC
1 ACTCAATTTTCATC
4700950 ACTCAATTTTCATC
1 ACTCAATTTTCATC
4700964 ACT
1 ACT
4700967 TGCTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (14 bp):
ACTCAATTTTCATC
Found at i:4701270 original size:25 final size:25
Alignment explanation
Indices: 4701242--4701349 Score: 117
Period size: 25 Copynumber: 4.3 Consensus size: 25
4701232 GTACTAAACG
**
4701242 GAGAGCACCATTGTGCTAATAATCA
1 GAGAGCACCAACGTGCTAATAATCA
4701267 GAGAGCACCAACGTGCTAATAATCA
1 GAGAGCACCAACGTGCTAATAATCA
**** *
4701292 GAGAGCATTGGCGTACTAATAATCA
1 GAGAGCACCAACGTGCTAATAATCA
** *
4701317 GAGAGCACTGACATGCTAATAATCA
1 GAGAGCACCAACGTGCTAATAATCA
*
4701342 GAAAGCAC
1 GAGAGCAC
4701350 GCTAAAGTTT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 71 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.19
Consensus pattern (25 bp):
GAGAGCACCAACGTGCTAATAATCA
Found at i:4702233 original size:26 final size:26
Alignment explanation
Indices: 4702204--4702261 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
4702194 GAAATCCCAA
4702204 GTTTTCTTT-CTTTCCTTCCCC-TTTTC
1 GTTTTCTTTCCTTT-C-TCCCCGTTTTC
4702230 GTTTTCTTTCCTTTCTCCCCTGTTTTC
1 GTTTTCTTTCCTTTCTCCCC-GTTTTC
4702257 GTTTT
1 GTTTT
4702262 GCTTCTCTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
25 5 0.17
26 10 0.34
27 14 0.48
ACGTcount: A:0.00, C:0.31, G:0.07, T:0.62
Consensus pattern (26 bp):
GTTTTCTTTCCTTTCTCCCCGTTTTC
Found at i:4704686 original size:20 final size:20
Alignment explanation
Indices: 4704662--4704712 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
4704652 AATTTTTTTT
4704662 TATAATTTTTTATTTTAAAAA
1 TATAATTTTTTA-TTTAAAAA
*
4704683 -ATAAGATTTTTATTTAAAAA
1 TATAA-TTTTTTATTTAAAAA
4704703 TATAATTTTT
1 TATAATTTTT
4704713 ATGTTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TATAATTTTTTATTTAAAAA
Found at i:4704703 original size:19 final size:20
Alignment explanation
Indices: 4704662--4704714 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
4704652 AATTTTTTTT
4704662 TATAATTTTTTATTTTAAAAAA
1 TATAA-TTTTTA-TTTAAAAAA
4704684 TA-AGATTTTTATTT-AAAAA
1 TATA-ATTTTTATTTAAAAAA
4704703 TATAATTTTTAT
1 TATAATTTTTAT
4704715 GTTTTATGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 15 0.52
20 4 0.14
21 7 0.24
22 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
TATAATTTTTATTTAAAAAA
Found at i:4704934 original size:15 final size:15
Alignment explanation
Indices: 4704914--4705021 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
4704904 TTTATGGAAA
*
4704914 ATCAAAGATATGGGT
1 ATCAAATATATGGGT
* **
4704929 ATCAAATA-ATAGAA
1 ATCAAATATATGGGT
*
4704943 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
4704959 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
*
4704973 AGTCAAAGATATGGGT
1 A-TCAAATATATGGGT
**
4704989 ATCAAATAT-TGGAA
1 ATCAAATATATGGGT
4705003 AGTCAAATATATGGGT
1 A-TCAAATATATGGGT
4705019 ATC
1 ATC
4705022 GAGATATTGG
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 12 0.18
15 44 0.65
16 12 0.18
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.27
Consensus pattern (15 bp):
ATCAAATATATGGGT
Found at i:4704951 original size:30 final size:30
Alignment explanation
Indices: 4704908--4705031 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
4704898 TCCATATTTA
* *
4704908 TGGAAAATCAAAGATATGGGTATCAAATAA
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
*
4704938 TAGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
4704968 TGGAAAGTCAAAGATATGGGTATCAAATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
* *
4704998 TGGAAAGTCAAATATATGGGTATCGAGATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
4705029 TGG
1 TGG
4705032 CATAATAAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 79 0.91
31 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:4709626 original size:15 final size:15
Alignment explanation
Indices: 4709606--4709683 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
4709596 TTTATGGAAA
4709606 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
4709621 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
4709635 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
* **
4709651 ATCAAATAT-TGGAA
1 ATCAAAGATATGGGT
4709665 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
4709681 ATC
1 ATC
4709684 GAGATATTGG
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 8 0.18
15 29 0.64
16 8 0.18
ACGTcount: A:0.45, C:0.08, G:0.22, T:0.26
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:4709643 original size:30 final size:30
Alignment explanation
Indices: 4709602--4709683 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
4709592 CATATTTATG
*
4709602 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAGTCAAAGATATGGGTATCAAATAATA
* *
4709632 GAAAGTCAAAGATATGGGTATCAAATATTG
1 GAAAGTCAAAGATATGGGTATCAAATAATA
4709662 GAAAGTCAAAGATATGGGTATC
1 GAAAGTCAAAGATATGGGTATC
4709684 GAGATATTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.46, C:0.07, G:0.22, T:0.24
Consensus pattern (30 bp):
GAAAGTCAAAGATATGGGTATCAAATAATA
Found at i:4710669 original size:20 final size:20
Alignment explanation
Indices: 4710633--4710670 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4710623 AAATTATAAC
*
4710633 AATATTTATATTAATTTATT
1 AATATTTATAATAATTTATT
4710653 AATATTTTATAAT-ATTTA
1 AATA-TTTATAATAATTTA
4710671 AAATTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATTTATAATAATTTATT
Found at i:4715303 original size:6 final size:6
Alignment explanation
Indices: 4715292--4715316 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4715282 TGGTGAATGA
4715292 GAGAGG GAGAGG GAGAGG GAGAGG G
1 GAGAGG GAGAGG GAGAGG GAGAGG G
4715317 GCTTATCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGAGG
Found at i:4717779 original size:7 final size:7
Alignment explanation
Indices: 4717767--4717794 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4717757 ATCTTGGCAC
4717767 TCCTAAG
1 TCCTAAG
4717774 TCCTAAG
1 TCCTAAG
4717781 TCCTAAG
1 TCCTAAG
4717788 TCCTAAG
1 TCCTAAG
4717795 GAAATAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (7 bp):
TCCTAAG
Found at i:4729189 original size:6 final size:6
Alignment explanation
Indices: 4729116--4729169 Score: 81
Period size: 6 Copynumber: 8.8 Consensus size: 6
4729106 ATAAGAAAAA
* *
4729116 AAAAGT GAAAGT AAAAGT AAAAGT GAAAGT AAAAAGT AAAAGT AAAAGT
1 AAAAGT AAAAGT AAAAGT AAAAGT AAAAGT -AAAAGT AAAAGT AAAAGT
4729165 AAAAG
1 AAAAG
4729170 AAGAAAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
6 38 0.88
7 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.20, T:0.15
Consensus pattern (6 bp):
AAAAGT
Found at i:4729195 original size:12 final size:12
Alignment explanation
Indices: 4729111--4729195 Score: 55
Period size: 12 Copynumber: 6.8 Consensus size: 12
4729101 AACAAATAAG
*
4729111 AAAAAAAAAGTG
1 AAAAAAAAAGTA
**
4729123 AAAGTAAAAGTA
1 AAAAAAAAAGTA
***
4729135 AAAGTGAAAGTA
1 AAAAAAAAAGTA
*
4729147 AAAAGTAAAAGTA
1 AAAA-AAAAAGTA
4729160 AAAGTAAAAGAAG-A
1 AAA--AAAA-AAGTA
4729174 AAAAACAAAAGTA
1 AAAAA-AAAAGTA
4729187 AAAAAAAAA
1 AAAAAAAAA
4729196 TTGATGCAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
12 32 0.53
13 18 0.30
14 6 0.10
15 4 0.07
ACGTcount: A:0.73, C:0.01, G:0.15, T:0.11
Consensus pattern (12 bp):
AAAAAAAAAGTA
Found at i:4729744 original size:27 final size:27
Alignment explanation
Indices: 4729692--4729742 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4729682 GGAGATGGGT
4729692 AAAAACAAAGAATAAAATAAAGAAATA
1 AAAAACAAAGAATAAAATAAAGAAATA
*
4729719 AAAAATAAAGAA-AAAGA-AAAGAAA
1 AAAAACAAAGAATAAA-ATAAAGAAA
4729743 ATGATATGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (27 bp):
AAAAACAAAGAATAAAATAAAGAAATA
Found at i:4746225 original size:21 final size:21
Alignment explanation
Indices: 4746199--4746239 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4746189 ATCTGCTCAA
* *
4746199 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4746220 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4746240 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4748100 original size:14 final size:14
Alignment explanation
Indices: 4748081--4748117 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4748071 TTTGACTGTT
4748081 TTTCTTCAAAAAAA
1 TTTCTTCAAAAAAA
**
4748095 TTTCTTCAAAAATT
1 TTTCTTCAAAAAAA
4748109 TTTCTTCAA
1 TTTCTTCAA
4748118 GTGCCACCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.16, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTCTTCAAAAAAA
Found at i:4749330 original size:13 final size:13
Alignment explanation
Indices: 4749308--4749341 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4749298 TCTTCATACT
*
4749308 TTTTAAATATGTA
1 TTTTATATATGTA
4749321 TTTTATATATGTA
1 TTTTATATATGTA
4749334 TTTTATAT
1 TTTTATAT
4749342 GTATATGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (13 bp):
TTTTATATATGTA
Found at i:4764100 original size:28 final size:29
Alignment explanation
Indices: 4764040--4764119 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
4764030 CTACACCATA
*
4764040 GGTCACTCAACTATTGATTTTTTTAATTT
1 GGTCACCCAACTATTGATTTTTTTAATTT
*
4764069 GGTCACCCAACTATTGGTCTTTTTT-A-TT
1 GGTCACCCAACTATTGAT-TTTTTTAATTT
**
4764097 GGTCACCCAACTATCAATTTTTT
1 GGTCACCCAACTATTGATTTTTT
4764120 AGTTTGGCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
27 5 0.11
28 17 0.38
29 17 0.38
30 6 0.13
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.46
Consensus pattern (29 bp):
GGTCACCCAACTATTGATTTTTTTAATTT
Found at i:4768039 original size:24 final size:24
Alignment explanation
Indices: 4768012--4768063 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4768002 TTAGTAAGTC
*
4768012 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4768036 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4768060 AAAT
1 AAAT
4768064 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4770009 original size:24 final size:24
Alignment explanation
Indices: 4769982--4770033 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4769972 TTAGTAAGTC
*
4769982 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4770006 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4770030 AAAT
1 AAAT
4770034 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:4770392 original size:3 final size:3
Alignment explanation
Indices: 4770384--4770447 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
4770374 GCAATGCCTC
4770384 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4770432 TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
4770448 CATCATCATC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4781773 original size:13 final size:13
Alignment explanation
Indices: 4781755--4781781 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4781745 GCAATCAAGA
4781755 ACTGGCCCTTAAT
1 ACTGGCCCTTAAT
4781768 ACTGGCCCTTAAT
1 ACTGGCCCTTAAT
4781781 A
1 A
4781782 TTCTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (13 bp):
ACTGGCCCTTAAT
Found at i:4782531 original size:14 final size:14
Alignment explanation
Indices: 4782512--4782541 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4782502 TGGTACATGC
4782512 AATGCAAACAGAGA
1 AATGCAAACAGAGA
4782526 AATGCAAACAGAGA
1 AATGCAAACAGAGA
4782540 AA
1 AA
4782542 GTCATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.20, T:0.07
Consensus pattern (14 bp):
AATGCAAACAGAGA
Found at i:4783263 original size:25 final size:26
Alignment explanation
Indices: 4783220--4783268 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
4783210 AACTCTTTTT
* * *
4783220 AAAAGAATAATTTAGATTA-AAAAGA
1 AAAAGAAAAATTAAAATTATAAAAGA
4783245 AAAAGAAAAATTAAAATTATAAAA
1 AAAAGAAAAATTAAAATTATAAAA
4783269 ATTGTAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (26 bp):
AAAAGAAAAATTAAAATTATAAAAGA
Found at i:4788041 original size:52 final size:52
Alignment explanation
Indices: 4787970--4788219 Score: 359
Period size: 52 Copynumber: 4.9 Consensus size: 52
4787960 ATCAAGTGAC
*
4787970 AAAGTGATAGGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
4788022 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* * *
4788074 AAAGTGATAAGTGATAGCTTCTGCTATACTTATCTGATCAAGAGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
4788120 AAAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* ** * *
4788172 AAAGTGAAAAGTGATAGCTTTAGTTACACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
4788220 AGTGATAAGT
Statistics
Matches: 178, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
46 42 0.24
52 136 0.76
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:4788142 original size:98 final size:98
Alignment explanation
Indices: 4787962--4788231 Score: 389
Period size: 98 Copynumber: 2.7 Consensus size: 98
4787952 TACTTCTGAT
* * *
4787962 CAAGTGACAAAGTGATAGGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGT
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCTGCTACACTTATCTGATCAAGAGAC------AAAGT
4788027 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
59 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
4788067 CAAGTGGAAAGTGATAAGTGATAGCTTCTGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 CAAGTGAAAAGTGATAAGTGATAGCTTCTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
4788132 GATAGTTTCGGCTACACTTATCTGATCAAGTGA
66 GATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
4788165 CAAGTGAAAAGTGAAAAGTGATAGCTT-TAGTTACACTTATCTGATCAAGAGACAAAGTGATAAG
1 CAAGTGAAAAGTGATAAGTGATAGCTTCT-GCTACACTTATCTGATCAAGAGACAAAGTGATAAG
4788229 TGA
65 TGA
4788232 CTACACTTAT
Statistics
Matches: 154, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
97 1 0.01
98 105 0.68
104 42 0.27
105 6 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (98 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
GATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:4788151 original size:46 final size:46
Alignment explanation
Indices: 4788074--4788231 Score: 183
Period size: 46 Copynumber: 3.3 Consensus size: 46
4788064 TGACAAGTGG
* * *
4788074 AAAGTGATAAGTGATAGCTTCTGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGTTTCAGCTACACTTATCTGATCAAGAGAC
* *
4788120 AAAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGTTTCAGCTACACTTATCTGATCAAGAGAC
* *
4788166 AAGTGAAAAGTGAAAAGTGATAGCTTT-AGTTACACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAG-TTTCAGCTACACTTATCTGATCAAGAGAC
4788218 AAAGTGATAAGTGA
1 AAAGTGATAAGTGA
4788232 CTACACTTAT
Statistics
Matches: 96, Mismatches: 9, Indels: 14
0.81 0.08 0.12
Matches are distributed among these distances:
46 55 0.57
52 38 0.40
53 3 0.03
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGTTTCAGCTACACTTATCTGATCAAGAGAC
Found at i:4788241 original size:37 final size:37
Alignment explanation
Indices: 4788196--4788303 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 37
4788186 TAGCTTTAGT
4788196 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGAC
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGAC
* * *
4788233 TACACTTATCTGATCAAGAAAGAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGAC
*
4788270 TACACTTATCTGATC-AGGGAC-AAGTGATAAGTGA
1 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGA
4788304 TCATACGTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
35 12 0.19
36 3 0.05
37 49 0.77
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (37 bp):
TACACTTATCTGATCAAGAGACAAAGTGATAAGTGAC
Found at i:4794127 original size:29 final size:30
Alignment explanation
Indices: 4794081--4794169 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 30
4794071 AAATATATAT
*
4794081 TTTTTATACTTTT-TAAATAATTTTAATG-A
1 TTTTTA-ACTTTTAAAAATAATTTTAATGAA
*
4794110 TTTTTAACTTTTAAAAATAACTTTT-TTGAA
1 TTTTTAACTTTTAAAAATAA-TTTTAATGAA
* * *
4794140 TTTTTAAAATTTGTAAAAATCATTTAAATG
1 TTTTT-AACTTT-TAAAAATAATTTTAATG
4794170 CTGATGTGTC
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
28 6 0.12
29 14 0.29
30 10 0.21
31 8 0.17
32 10 0.21
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (30 bp):
TTTTTAACTTTTAAAAATAATTTTAATGAA
Found at i:4797928 original size:27 final size:29
Alignment explanation
Indices: 4797850--4797928 Score: 74
Period size: 33 Copynumber: 2.6 Consensus size: 29
4797840 CTGCAACGAT
*
4797850 ACCACTACCATCATCATCTGCACCAGTACCA
1 ACCA-TACCATCATCATCAGCACCA-TACCA
4797881 ACACAATCACCATCA-CGATCAGCACC-TA-CA
1 AC-C-AT-ACCATCATC-ATCAGCACCATACCA
4797911 ACCATACCATCATCATCA
1 ACCATACCATCATCATCA
4797929 TCATCTGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
27 11 0.26
28 3 0.07
29 1 0.02
30 4 0.10
31 4 0.10
32 3 0.07
33 16 0.38
ACGTcount: A:0.37, C:0.41, G:0.05, T:0.18
Consensus pattern (29 bp):
ACCATACCATCATCATCAGCACCATACCA
Done.