Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 52 of 352
Found at i:16874653 original size:50 final size:51
Alignment explanation
Indices: 16874576--16874704 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
16874566 GACCATGGCA
*
16874576 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
16874627 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
* *
16874677 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
16874705 CTGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 48 0.66
51 25 0.34
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
Found at i:16874718 original size:31 final size:31
Alignment explanation
Indices: 16874680--16874828 Score: 235
Period size: 31 Copynumber: 4.8 Consensus size: 31
16874670 ACAAATGACA
16874680 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
16874711 AGTGAAAAGTTGTAGCTTCTGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
16874742 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
16874773 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
16874804 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
16874829 AAGTGGCAAG
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 107 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:16875002 original size:49 final size:49
Alignment explanation
Indices: 16874850--16875068 Score: 187
Period size: 47 Copynumber: 4.7 Consensus size: 49
16874840 GATTTCCGTA
* * * * * * *
16874850 TAAGACCATATCTGGGATATGGCGTCG--GTGTGATATATG-CTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-GTG
* * * *
16874897 TAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGATT-CGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
*
16874943 TAAGTCCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
* *
16874992 TAAGACCATAGCTGGGCTATGGCATCGATA--T-ATA----AATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
*
16875034 TAAGACCATAGCTGGGCTATGACATC-ATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
16875069 AGATGTGTAA
Statistics
Matches: 149, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 33 0.22
44 1 0.01
45 1 0.01
46 28 0.19
47 38 0.26
48 14 0.09
49 33 0.22
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (49 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
Found at i:16875036 original size:42 final size:42
Alignment explanation
Indices: 16874989--16875086 Score: 144
Period size: 42 Copynumber: 2.3 Consensus size: 42
16874979 ATGTGATTAC
* *
16874989 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATAAATAT
1 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATATAAAGAT
* *
16875031 GTGTAAGACCATAGCTGGGCTATGACATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGACATCATTATATAAAGAT
16875073 GTGTAAGACCATAG
1 GTGTAAGACCATAG
16875087 TTAAACTATG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGACATCATTATATAAAGAT
Found at i:16876750 original size:16 final size:16
Alignment explanation
Indices: 16876722--16876761 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
16876712 CAGAGAGCAG
*
16876722 GGGAAAGAAAGAAGGAA
1 GGGAAA-AAAGAAAGAA
16876739 GGGAAAAAAGAAAGAA
1 GGGAAAAAAGAAAGAA
16876755 -GGAAAAA
1 GGGAAAAA
16876762 GGGAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
GGGAAAAAAGAAAGAA
Found at i:16878909 original size:46 final size:46
Alignment explanation
Indices: 16878842--16879025 Score: 296
Period size: 46 Copynumber: 4.0 Consensus size: 46
16878832 AGTGTGCTCT
* *
16878842 CTGATATGAAAAGAATAAGACCATTGTTGAAAGATACCACGGCAAC
1 CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* **
16878888 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
16878934 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
16878980 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
16879026 ATGACAGAAA
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 128 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (46 bp):
CTGATATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:16879072 original size:50 final size:49
Alignment explanation
Indices: 16878856--16879078 Score: 232
Period size: 46 Copynumber: 4.7 Consensus size: 49
16878846 TATGAAAAGA
* * * * *
16878856 ATAAGACCATTGTTGAAAGATACCACGGCAACCTGATATGAAATG--TG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATG
* * *
16878903 -TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG-A--
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATG
*
16878948 ATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG-A--
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATG
16878994 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATG
1 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-GAATG
* * * * *
16879043 AGTAAGACTATAGTTGAAAGACACTATGGCATCATG
1 A-TAAGACCATGGTTGAAAGATACCATGGCAACATG
16879079 TCAAAGATAA
Statistics
Matches: 158, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
45 5 0.03
46 122 0.77
47 1 0.01
49 1 0.01
50 29 0.18
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.21
Consensus pattern (49 bp):
ATAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATG
Found at i:16879645 original size:56 final size:56
Alignment explanation
Indices: 16879559--16879671 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
16879549 ATGAAATGTG
16879559 TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
1 TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
16879615 TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
1 TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
16879671 T
1 T
16879672 TGAACGGTAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (56 bp):
TGCAAGTATACTAACAATGATGTTGTTTGACGCTTAGACAAGTGACAACCTATTGA
Found at i:16881456 original size:18 final size:18
Alignment explanation
Indices: 16881429--16881468 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
16881419 GTGTTATCTA
16881429 TTTT-TTTCTCCGTTTTC
1 TTTTCTTTCTCCGTTTTC
16881446 TTTTCTTTCTCCGTTTTC
1 TTTTCTTTCTCCGTTTTC
16881464 TTTTC
1 TTTTC
16881469 ATTATCGACA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.00, C:0.25, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTTCTTTCTCCGTTTTC
Found at i:16886453 original size:25 final size:25
Alignment explanation
Indices: 16886424--16886475 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
16886414 AAGAATAATT
**
16886424 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCCGATATTGCCTAATAAA
* *
16886449 TGAATATCCGATATTGCTTAGTAAA
1 TGAATATCCGATATTGCCTAATAAA
16886474 TG
1 TG
16886476 TCAAGTCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (25 bp):
TGAATATCCGATATTGCCTAATAAA
Found at i:16896144 original size:21 final size:21
Alignment explanation
Indices: 16896097--16896149 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
16896087 ATTATTAATT
*
16896097 ATTATTATTATTAAAGATATC
1 ATTATTATTATTAAACATATC
* *
16896118 AGTATTATTATTAAACATATT
1 ATTATTATTATTAAACATATC
*
16896139 TTTATTATTAT
1 ATTATTATTAT
16896150 AGGATTATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTATTATTATTAAACATATC
Found at i:16902954 original size:2 final size:2
Alignment explanation
Indices: 16902947--16902973 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16902937 CAAAAGAAAC
16902947 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
16902974 ACTATGCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16903149 original size:118 final size:118
Alignment explanation
Indices: 16902989--16903235 Score: 352
Period size: 118 Copynumber: 2.1 Consensus size: 118
16902979 GCCTATTTAT
* ** * *
16902989 TGTATTAATTATAACAAAATTAATTTTTCTCATTTTTTAAGATATTGACTCTAATTGTTTTG-AC
1 TGTATTAATTACAACAAAATTAAAATTTCCCATTTTTAAAGATATTGACTCTAATT-TTTTGAAC
* * * * *
16903053 TAAATTGATTACACTAATTAATTTAAAATGTTGAAAATGAAGATATTTGGAAAA
65 TAAATTGATTACACTAATTAATTTAAAATGTTAAAAATAAAAATATCTAGAAAA
* * *
16903107 TGTACTAATTACAACAAAATTAAAATTTCCCCTTTTTAAAGATGTTGACTCTAATTTTTTGAACT
1 TGTATTAATTACAACAAAATTAAAATTTCCCATTTTTAAAGATATTGACTCTAATTTTTTGAACT
*
16903172 AAATTGATTACACTAATTAATTTAAGATGTTAAAAATAAAAATATCTAGAAAA
66 AAATTGATTACACTAATTAATTTAAAATGTTAAAAATAAAAATATCTAGAAAA
16903225 TGTATTAATTA
1 TGTATTAATTA
16903236 ATTTTTTGGA
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
117 5 0.04
118 108 0.96
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.41
Consensus pattern (118 bp):
TGTATTAATTACAACAAAATTAAAATTTCCCATTTTTAAAGATATTGACTCTAATTTTTTGAACT
AAATTGATTACACTAATTAATTTAAAATGTTAAAAATAAAAATATCTAGAAAA
Found at i:16907539 original size:26 final size:26
Alignment explanation
Indices: 16907510--16907569 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
16907500 TCCCTTTGAA
* * *
16907510 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
16907536 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
16907564 CCATTC
1 TCATTC
16907570 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:16907555 original size:28 final size:28
Alignment explanation
Indices: 16907524--16907595 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
16907514 TCGATATTTT
*
16907524 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
16907552 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
16907580 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
16907596 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:16910437 original size:131 final size:129
Alignment explanation
Indices: 16910251--16910642 Score: 529
Period size: 131 Copynumber: 3.0 Consensus size: 129
16910241 GAATTTGGAG
* * *
16910251 AACATGAATGAAATTCTAAAGGAATACTCGATTA-TTTGAAACAAACAGGAGATCGCAACCCAGC
1 AACATGAATGAAATTCTAAAGGAATATTCGATTATTTTG-AACAAATAGGAAATCGCAACCCAGC
16910315 ACGATAGAGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
65 ACGATAG-GCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
16910380 A
129 A
* * * *
16910381 AGACATGAATGAAATTCCAAAGGAATGTTTGATTATTTTGAATAAATAGGAAATCGCAACCCAGC
1 A-ACATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAATAGGAAATCGCAACCCAGC
* *
16910446 ACGATAGGGCACGATTCCCCGAATTACCAAACATCGAACATTACCTTCATTTTGAAGAATTTTTA
65 ACGATA-GGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
16910511 A
129 A
* * *
16910512 AAGCATGAGTGAAATTCTAAGGGAATATTCGATTGTTTTGAACAAAT-GAGAAATCGCAACCCAG
1 AA-CATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAATAG-GAAATCGCAACCCAG
* ** * * * *
16910576 CACGATAGGACACGATT-CCCGAATTGCCAAACACCGAGTATTGCTTTCGTTTTAAAGAATTCTT
64 CACGATAGG-CACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTT
16910640 AA
128 AA
16910642 A
1 A
16910643 TGAATAATCA
Statistics
Matches: 231, Mismatches: 25, Indels: 12
0.86 0.09 0.04
Matches are distributed among these distances:
130 46 0.20
131 180 0.78
132 5 0.02
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (129 bp):
AACATGAATGAAATTCTAAAGGAATATTCGATTATTTTGAACAAATAGGAAATCGCAACCCAGCA
CGATAGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTAA
Found at i:16915324 original size:16 final size:14
Alignment explanation
Indices: 16915287--16915325 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
16915277 GTTTTTCTTT
16915287 TTATAAAAATAATA
1 TTATAAAAATAATA
16915301 TT-TAAAAATAATTAA
1 TTATAAAAATAA-T-A
16915316 TTATAAAAAT
1 TTATAAAAAT
16915326 TGTGTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.41
14 3 0.14
15 3 0.14
16 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TTATAAAAATAATA
Found at i:16916669 original size:2 final size:2
Alignment explanation
Indices: 16916662--16916689 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16916652 GTCAAATGTA
16916662 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16916690 GAATATTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16916813 original size:29 final size:29
Alignment explanation
Indices: 16916774--16916830 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
16916764 AATTTAAAAT
* * * *
16916774 ATTTTTTAGAGGTTGAAATTTAATTATAA
1 ATTTTTAAGAGGTTAAAATATAAATATAA
16916803 ATTTTTAAGAGGTTAAAATATAAATATA
1 ATTTTTAAGAGGTTAAAATATAAATATA
16916831 TTATTTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (29 bp):
ATTTTTAAGAGGTTAAAATATAAATATAA
Found at i:16917281 original size:21 final size:23
Alignment explanation
Indices: 16917246--16917287 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
16917236 TATCTTTGAT
16917246 TTTTTATATAAATTTTAAATATA
1 TTTTTATATAAATTTTAAATATA
16917269 TTTTTA-A-AAATTTTAAATA
1 TTTTTATATAAATTTTAAATA
16917288 ATAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
22 1 0.05
23 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTTATATAAATTTTAAATATA
Found at i:16918534 original size:17 final size:17
Alignment explanation
Indices: 16918509--16918572 Score: 83
Period size: 18 Copynumber: 3.6 Consensus size: 17
16918499 CAATGATATG
*
16918509 CAATATTAGATATGATA
1 CAATCTTAGATATGATA
*
16918526 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
16918544 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
16918561 TGCAATCTTAGA
1 --CAATCTTAGA
16918573 AGATATGATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
17 15 0.37
18 16 0.39
19 10 0.24
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:16918547 original size:35 final size:37
Alignment explanation
Indices: 16918501--16918579 Score: 112
Period size: 35 Copynumber: 2.2 Consensus size: 37
16918491 ATAATCTTCA
16918501 ATGATATGCAATATTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATATTAGATATGATAGCAATCTTAGAT
*
16918537 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATATTAGATATGATA-GCAATCTTAGAT
16918573 A-GATATG
1 ATGATATG
16918580 ATTTTGTAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 21 0.54
36 8 0.21
37 10 0.26
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATATTAGATATGATAGCAATCTTAGAT
Found at i:16918579 original size:17 final size:19
Alignment explanation
Indices: 16918501--16918572 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
16918491 ATAATCTTCA
*
16918501 ATGATATGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
16918520 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
16918537 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
16918555 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
16918573 AGATATGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
17 15 0.31
18 16 0.33
19 18 0.37
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:16918598 original size:22 final size:22
Alignment explanation
Indices: 16918533--16918595 Score: 71
Period size: 23 Copynumber: 3.0 Consensus size: 22
16918523 ATACAATCTT
16918533 AGATATGAT-TGCAATCTT---
1 AGATATGATATGCAATCTTAGA
16918551 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCTTAGA
* *
16918573 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGCAATCTTAGA
16918596 GATTTAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
18 9 0.24
19 9 0.24
22 8 0.21
23 12 0.32
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATCTTAGA
Found at i:16918874 original size:18 final size:19
Alignment explanation
Indices: 16918851--16918887 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
16918841 TGTTTCCCTG
*
16918851 ATTTTTTTATAT-ATTTTA
1 ATTTTTTTAAATAATTTTA
16918869 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAATAATTTTA
16918888 GTATCATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTTTAAATAATTTTA
Found at i:16928743 original size:78 final size:78
Alignment explanation
Indices: 16928627--16929084 Score: 579
Period size: 78 Copynumber: 5.7 Consensus size: 78
16928617 CGAAGAAATA
* *
16928627 GATTTGGCATCTCTATATT-GACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
16928691 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
16928704 GATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTTATTGA
*
16928768 AGCAGATCTAAGAT
65 AGCAGATCCAAGAT
*
16928782 GATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAAGACATAGCAGATCTGACCTTCATGTGG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGA-C--C---T--
* *
16928847 TTACATCGAAGCAGATCCAAGGTGACA
58 TT--ATTGAAGCAGATCCAA---GA-T
* * *
16928874 GATTTGACATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTG-A
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
16928938 GCA-ATCCAA-AT
66 GCAGATCCAAGAT
* *
16928949 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGAT-TAGA-CTTTCATTG
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTT-ATTG
16929012 AAGCAGATCCAAGAT
64 AAGCAGATCCAAGAT
*
16929027 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAGCAGATCTGACCTT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTT
16929085 CATGTGTTTA
Statistics
Matches: 330, Mismatches: 27, Indels: 46
0.82 0.07 0.11
Matches are distributed among these distances:
74 4 0.01
75 52 0.16
76 5 0.02
77 25 0.08
78 151 0.46
79 6 0.02
80 6 0.02
81 5 0.02
82 3 0.01
84 2 0.01
86 2 0.01
88 14 0.04
89 1 0.00
91 3 0.01
92 51 0.15
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGAA
GCAGATCCAAGAT
Found at i:16929085 original size:245 final size:248
Alignment explanation
Indices: 16928626--16929158 Score: 858
Period size: 245 Copynumber: 2.2 Consensus size: 248
16928616 TCGAAGAAAT
* * *
16928626 AGATTTGGCATCTCTATATT-GACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTTATTGA
1 AGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGA
*
16928690 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCGAAGACATAACAGATT
66 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGACATAACAGATT
* * *
16928755 GGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCATATCGAA
131 AGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
*
16928820 GACATAGCAGATCTGACCTTCATGTGGTTACATCGAAGCAGATCCAAGGTGAC
196 GACATAGCAGATCTGACCTTCATGTGGTTACATCGAAGCAGATCCAAGATGAC
* *
16928873 AGATTTGACATCTCTGTATTAGACGGGGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTG-
1 AGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGA
*
16928937 AGCA-ATCCAA-ATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAACAGATT
66 AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGACATAACAGATT
* *
16929000 AGACTTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAA
131 AGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
* *
16929065 GACATAGCAGATCTGACCTTCATGTGTTTACATCGAAGCAGATCTAAGATGAC
196 GACATAGCAGATCTGACCTTCATGTGGTTACATCGAAGCAGATCCAAGATGAC
* * ** *
16929118 AAATTTGGCATCTTTGTATTAGACTAAGAGCAGATTGAAGA
1 AGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGA
16929159 AGCAGATTTG
Statistics
Matches: 263, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
245 195 0.74
246 6 0.02
247 22 0.08
248 40 0.15
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (248 bp):
AGATTTGGCATCTCTGTATTAGACGGAGAGCAGATCGAAGACACAGCAGATCTGACCTTCATTGA
AGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGAGGAGCAGATCAAAGACATAACAGATT
AGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAA
GACATAGCAGATCTGACCTTCATGTGGTTACATCGAAGCAGATCCAAGATGAC
Found at i:16929170 original size:44 final size:44
Alignment explanation
Indices: 16929101--16929254 Score: 186
Period size: 44 Copynumber: 3.5 Consensus size: 44
16929091 TTTACATCGA
* * * * *
16929101 AGCAGATCTAAGAT-GACAAATTTGGCATCTTTGTATTAGACTAAG
1 AGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTATTAGAC-AGG
* *
16929146 AGCAGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGG
1 AGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTAGACAGG
*
16929189 AGCAGATCGAAGATAACAGATTTGGCGTCTCTGTATTAGACGAGG
1 AGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTAGAC-AGG
*
16929234 AGCAGATCAAAGATAGCAGAT
1 AGCAGATCGAAGATAGCAGAT
16929255 ATCGCATTCC
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 13 0.14
44 48 0.51
45 33 0.35
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (44 bp):
AGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTAGACAGG
Found at i:16929950 original size:18 final size:18
Alignment explanation
Indices: 16929927--16929962 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
16929917 TGTTTCCCTG
16929927 TTTTTT-ATATATTTTAAT
1 TTTTTTAATA-ATTTTAAT
16929945 TTTTTTAATAATTTTAAT
1 TTTTTTAATAATTTTAAT
16929963 ATCATATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTAATAATTTTAAT
Found at i:16934268 original size:25 final size:25
Alignment explanation
Indices: 16934223--16934271 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
16934213 TGAAATTAAA
*
16934223 TTTTAATTTTTAATAGCTTAAATCT
1 TTTTAATTTTTAATAGATTAAATCT
16934248 TTTTAATTTTTAA-AGGATTAAATC
1 TTTTAATTTTTAATA-GATTAAATC
16934272 AAATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.53
Consensus pattern (25 bp):
TTTTAATTTTTAATAGATTAAATCT
Found at i:16934652 original size:41 final size:42
Alignment explanation
Indices: 16934547--16934801 Score: 246
Period size: 42 Copynumber: 5.9 Consensus size: 42
16934537 GTTTACAAAC
* *
16934547 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
16934589 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
16934630 AAAAATGCCACTAAA-AACCATGTTCTTTAGCGGCGCTTAGGA
1 AAAAACGCCGCTAAAGAA-CATGTTCTTTAGCGGCGCTTAGAA
16934672 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAAGGGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT-A--GAA
* * * ****
16934717 AACGCTCTAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATTTTTT
1 AA------AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
16934764 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
16934802 TTATACAAAA
Statistics
Matches: 178, Mismatches: 22, Indels: 26
0.79 0.10 0.12
Matches are distributed among these distances:
40 2 0.01
41 64 0.36
42 72 0.40
43 3 0.02
45 4 0.02
47 1 0.01
50 2 0.01
51 30 0.17
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:16935175 original size:21 final size:21
Alignment explanation
Indices: 16935128--16935183 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
16935118 TTGCTCTGCT
*
16935128 CTGCTTCTCTT-GCTGCAGCCT
1 CTGCTTC-CTTCGCTGCAGCCG
* *
16935149 CCGCTTCCTTCGCTGCAGTCG
1 CTGCTTCCTTCGCTGCAGCCG
*
16935170 CTGCTTCCCTCGCT
1 CTGCTTCCTTCGCT
16935184 TCCGCCTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.04, C:0.43, G:0.20, T:0.34
Consensus pattern (21 bp):
CTGCTTCCTTCGCTGCAGCCG
Found at i:16935303 original size:35 final size:35
Alignment explanation
Indices: 16935190--16935303 Score: 97
Period size: 35 Copynumber: 3.2 Consensus size: 35
16935180 CGCTTCCGCC
16935190 TATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATTTTATTTTAATAGTCAATTTTAATATTCCACA
* * ****
16935225 TATTTT-TTTATAATTATTAATAATATTTAATAAAATA-A
1 TATTTTATTT-TAA-TAGT--CAAT-TTTAATATTCCACA
* *
16935263 CATTTTATTTTAATAGTCAATTTTAGTATTCCACA
1 TATTTTATTTTAATAGTCAATTTTAATATTCCACA
16935298 TATTTT
1 TATTTT
16935304 TTTATATTTT
Statistics
Matches: 57, Mismatches: 15, Indels: 14
0.66 0.17 0.16
Matches are distributed among these distances:
34 10 0.18
35 18 0.32
36 3 0.05
37 3 0.05
38 12 0.21
39 11 0.19
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.53
Consensus pattern (35 bp):
TATTTTATTTTAATAGTCAATTTTAATATTCCACA
Found at i:16935307 original size:38 final size:37
Alignment explanation
Indices: 16935192--16935308 Score: 98
Period size: 38 Copynumber: 3.2 Consensus size: 37
16935182 CTTCCGCCTA
16935192 TTTTATTTTAATAGTCAATTTTAATATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTT-ATATTCCACATATTT
* * * * * ***
16935230 TTTTATAATTATTAAT-AATATTTA-A-T-AAAATAACA
1 TTTTAT-TTTAATAGTCAAT-TTTATATTCCACATATTT
16935265 TTTTATTTTAATAGTCAATTTTAGTATTCCACATATTT
1 TTTTATTTTAATAGTCAATTTTA-TATTCCACATATTT
16935303 TTTTAT
1 TTTTAT
16935309 ATTTTATTTT
Statistics
Matches: 56, Mismatches: 16, Indels: 14
0.65 0.19 0.16
Matches are distributed among these distances:
34 10 0.18
35 13 0.23
36 2 0.04
37 2 0.04
38 20 0.36
39 9 0.16
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (37 bp):
TTTTATTTTAATAGTCAATTTTATATTCCACATATTT
Found at i:16935474 original size:13 final size:13
Alignment explanation
Indices: 16935456--16935526 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
16935446 ATTTATAATT
16935456 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
16935469 ATTTAAGTAACAT
1 ATTTAAGTAATAA
16935482 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
16935495 ATTTAAGTAACAT
1 ATTTAAGTAATAA
16935508 ATTTAAGTAATAA
1 ATTTAAGTAATAA
16935521 ATTTAA
1 ATTTAA
16935527 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:16935485 original size:26 final size:26
Alignment explanation
Indices: 16935455--16935526 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
16935445 TATTTATAAT
16935455 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
16935481 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
16935507 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
16935527 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:16935553 original size:17 final size:17
Alignment explanation
Indices: 16935531--16935711 Score: 116
Period size: 17 Copynumber: 9.6 Consensus size: 17
16935521 ATTTAAACAA
*
16935531 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATTT
*
16935548 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATTT
16935565 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATTT
*
16935582 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATTT
16935605 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATTT
16935622 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATTT
16935645 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATTT
16935662 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATTT
*
16935685 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATTT
16935702 ATTTTAGTAA
1 ATTTTAGTAA
16935712 TAAATTTAAC
Statistics
Matches: 136, Mismatches: 4, Indels: 48
0.72 0.02 0.26
Matches are distributed among these distances:
16 3 0.02
17 86 0.63
23 44 0.32
24 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (17 bp):
ATTTTAGTAAGTAATTT
Found at i:16935577 original size:57 final size:57
Alignment explanation
Indices: 16935498--16935614 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
16935488 GTAATAAATT
16935498 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
** *
16935555 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
16935612 TAA
1 TAA
16935615 TAAATTTAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.42
Consensus pattern (57 bp):
TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
Found at i:16935592 original size:40 final size:40
Alignment explanation
Indices: 16935548--16935694 Score: 276
Period size: 40 Copynumber: 3.7 Consensus size: 40
16935538 TAAGTAATGT
16935548 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
16935588 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
16935628 ATTTTAGTAAGTAATTTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
16935668 ATTTTAGTAAGTAATTTATTTTAGTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA
16935695 GTAATGTATT
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:16935595 original size:23 final size:23
Alignment explanation
Indices: 16935565--16935685 Score: 101
Period size: 23 Copynumber: 5.8 Consensus size: 23
16935555 TAAGTAATGT
16935565 ATTTTAGTAA-TAAATTTAAACAA
1 ATTTTAGTAAGT-AATTTAAACAA
*
16935588 ATTTTAGTAAGTAATGT------
1 ATTTTAGTAAGTAATTTAAACAA
16935605 ATTTTAGTAA-TAAATTTAAACAA
1 ATTTTAGTAAGT-AATTTAAACAA
16935628 ATTTTAGTAAGTAATTT------
1 ATTTTAGTAAGTAATTTAAACAA
16935645 ATTTTAGTAA-TAAATTTAAACAA
1 ATTTTAGTAAGT-AATTTAAACAA
16935668 ATTTTAGTAAGTAATTTA
1 ATTTTAGTAAGTAATTTA
16935686 TTTTAGTAAG
Statistics
Matches: 79, Mismatches: 2, Indels: 34
0.69 0.02 0.30
Matches are distributed among these distances:
16 2 0.03
17 29 0.37
23 45 0.57
24 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (23 bp):
ATTTTAGTAAGTAATTTAAACAA
Found at i:16935616 original size:97 final size:94
Alignment explanation
Indices: 16935498--16935720 Score: 274
Period size: 97 Copynumber: 2.3 Consensus size: 94
16935488 GTAATAAATT
** *
16935498 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA-TAA-
*
16935563 GTATTTTAGTAATAAA-TTTA-AA-CAA-ATTTTAG
64 --A-TTTA--AACAAATTTTAGAAGCAATATTTTAG
*
16935595 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAATAAAT
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAAT
*
16935660 TTAAACAAATTTTAGTAAGTAATTTATTTTAG
66 TTAAACAAATTTTAG-AAGCAA--TATTTTAG
16935692 TAAGTAATGTATTTTAGTAATAAATTTAA
1 TAAGTAATGTATTTTAGTAATAAATTTAA
16935721 CATTCAATCG
Statistics
Matches: 113, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
90 5 0.04
91 4 0.04
92 4 0.04
93 3 0.03
94 2 0.02
96 3 0.03
97 92 0.81
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.43
Consensus pattern (94 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAATAAAT
TTAAACAAATTTTAGAAGCAATATTTTAG
Found at i:16937069 original size:11 final size:11
Alignment explanation
Indices: 16937053--16937092 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
16937043 GATGATAATA
16937053 CATTAGTTACC
1 CATTAGTTACC
16937064 CATTAGTTACC
1 CATTAGTTACC
*
16937075 CACTAGTTACC
1 CATTAGTTACC
16937086 CA-TAGTT
1 CATTAGTT
16937093 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:16938183 original size:84 final size:83
Alignment explanation
Indices: 16938076--16938276 Score: 330
Period size: 84 Copynumber: 2.4 Consensus size: 83
16938066 ATTAACACCG
16938076 TTTTGTGGCGTTTTTGGTAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
1 TTTTGTGGCGTTTTT-G-AAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTT
16938141 TCGTGGTCTGGAATTGCATT
64 TCGTGGTCTGGAATTGCATT
*
16938161 TTTTGTGGCGTTTTTAGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACGACACCGTTTT
1 TTTTGTGGCGTTTTT-GAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTT
16938226 CGTGGTCTGGAATTGCATT
65 CGTGGTCTGGAATTGCATT
* * *
16938245 ATTTGTGGCATTTTCTTAAAAACGCCACTAAA
1 TTTTGTGGCGTTTT-TGAAAAACGCCACTAAA
16938277 AGTTTAACTA
Statistics
Matches: 110, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
84 93 0.85
85 17 0.15
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (83 bp):
TTTTGTGGCGTTTTTGAAAAACGCCACTAAATATTACAGCTGTGAACAGAAACAACACCGTTTTC
GTGGTCTGGAATTGCATT
Found at i:16938682 original size:12 final size:12
Alignment explanation
Indices: 16938665--16938690 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16938655 TTAAAATAGC
16938665 ACGACCTCTTTT
1 ACGACCTCTTTT
16938677 ACGACCTCTTTT
1 ACGACCTCTTTT
16938689 AC
1 AC
16938691 AGTTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.35, G:0.08, T:0.38
Consensus pattern (12 bp):
ACGACCTCTTTT
Found at i:16939517 original size:112 final size:112
Alignment explanation
Indices: 16939303--16939891 Score: 984
Period size: 112 Copynumber: 5.3 Consensus size: 112
16939293 AACACCTAGA
* * *
16939303 TTAGCGGCGCTTTACAAAAAACGCCACTAA-TGCCCCCCAAAGGACACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
* * * * * ** *
16939367 GAGTATTATTTGCGGCATTTTTTTATAAGCGCTGCTAATGTTCACTCT
66 GTGTATTATTTGCGGC-GTTATCTATAAACGCCACTAATGCTCACTCT
16939415 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
16939480 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
**
16939527 TTAGCGGCGCTTCGCAATAAACGCCACTAAGT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
* *
16939591 GTGTATTATTTGCGGCGTTATTTATAAACGCCGCTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
*
16939638 TTAGCGGCGCTTTACAATAAATGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
16939703 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
16939750 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
16939815 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
66 GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
* **
16939862 TTAGCGGCGCTTTTCCTTAAACGCCACTAA
1 TTAGCGGCGCTTTACAATAAACGCCACTAA
16939892 TGCTCACTCT
Statistics
Matches: 451, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
111 106 0.24
112 298 0.66
113 47 0.10
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (112 bp):
TTAGCGGCGCTTTACAATAAACGCCACTAAGTCCCCCCCAAAGGCCACAAAACGGCACCGTCTGG
GTGTATTATTTGCGGCGTTATCTATAAACGCCACTAATGCTCACTCT
Found at i:16939884 original size:40 final size:40
Alignment explanation
Indices: 16939839--16939955 Score: 198
Period size: 40 Copynumber: 2.9 Consensus size: 40
16939829 GCGTTATCTA
**
16939839 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
16939879 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
* *
16939919 TAAACGCCGCTATTGCTCACTCTTTAGCGGCGCTTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTT
16939956 GCTCCAAACG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCGGCGCTTTTAAT
Found at i:16942557 original size:19 final size:21
Alignment explanation
Indices: 16942533--16942574 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
16942523 CAGACATTAT
*
16942533 AAAAGAAGAAA-AGAA-AAAA
1 AAAAGAAAAAATAGAACAAAA
16942552 AAAAGAAAAAATAGAACAAAA
1 AAAAGAAAAAATAGAACAAAA
16942573 AA
1 AA
16942575 GAAAGAAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 4 0.20
21 6 0.30
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAATAGAACAAAA
Found at i:16943592 original size:133 final size:132
Alignment explanation
Indices: 16943167--16943791 Score: 444
Period size: 131 Copynumber: 4.7 Consensus size: 132
16943157 TGAAATTCTG
* * * *
16943167 AGGAGATATTCGATGGTTTTG-GACAAATGA-AAAGCGCAACCCAGCACGATAGGGC-TCGATTC
1 AGGA-ATATTCGATTGTTTTGAG-CAAACGAGAAATCACAACCCAGCACGATAGGGCAT-GATTC
* * * * * * * *
16943229 TCAAATCGCCAAATATCGGACATCGCCTTCATTTTTAAATATTTTTTTATAAACATGAGTGAGAA
63 TCGAATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATATTTTTATAAACATGAGTGAAAA
**
16943294 TATAA
128 CCTAA
* * * * *
16943299 AGGAATGTTCGATCGTTTTGAGCAAACGAGAAATCATAACCCAGCATGATAGAGCATGATTCTCG
1 AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCG
* ** * * * *
16943364 AATTGTCAAATGCCGAATATTGCCTTCG-TTTTAAA-A-AGTTTTTAGAAAACACGAATGAAATT
66 AATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATA-TTTTTA-TAAACATGAGTGAAA-A
16943426 CC-AA
128 CCTAA
* * * * * ** * *
16943430 AGGGATATTCGATTATCTTGCGCACACGAGAAATTGCAACCCAACACGATAGGGCATGATTCCCC
1 AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATT-CTC
* *
16943495 GAATTGCCAAACATCGAATATTTCCTTCGTTTTTAAATATATATTTT-TAAACATGAGTGAAAAC
65 GAATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATAT-TTTTATAAACATGAGTGAAAAC
16943559 CTAA
129 CTAA
* * *
16943563 AGGAATATTCTATTGTTTTGAGCAAACGAGGAATCACAACCTAGCACGATAGGGCATGATTCTCG
1 AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCG
*** * * * ** * * * ***
16943628 AATTATTAAACACCGAGTATCACCTTTG-TTTTAAA-AGATTTTTAGAAGACATGAGTGAAATTT
66 AATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATATTTTTATAA-ACATGAGTGAAAACC
*
16943691 TGA
130 TAA
* * * * * * * * * * * *
16943694 AGTAATATTCGATTATTTTGAGTAAATGCGAAATTACAACCTAACTCGTTAAGGCACT-ATTTCG
1 AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCA-TGA-TTCT
* * *
16943758 CGAATTGCCAAATATCGAATCTCGTCTTCGTTTT
64 CGAATTGCCAAATATCGAATATTGCCTTCGTTTT
16943792 AAAGAATTCT
Statistics
Matches: 379, Mismatches: 97, Indels: 33
0.74 0.19 0.06
Matches are distributed among these distances:
129 4 0.01
130 12 0.03
131 154 0.41
132 127 0.34
133 75 0.20
134 2 0.01
135 5 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (132 bp):
AGGAATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCACGATAGGGCATGATTCTCG
AATTGCCAAATATCGAATATTGCCTTCGTTTTTAAATATATTTTTATAAACATGAGTGAAAACCT
AA
Found at i:16943764 original size:264 final size:264
Alignment explanation
Indices: 16943254--16943777 Score: 613
Period size: 264 Copynumber: 2.0 Consensus size: 264
16943244 TCGGACATCG
* * * *
16943254 CCTTCATTTTTAAATATTTTTTTATAAACATGAGTGAGAATATAAAGGAATGTTCGATCGTTTTG
1 CCTTCATTTTTAAATATTATTTTATAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTTG
* * * **
16943319 AGCAAACGAGAAATCATAACCCAGCATGATAGAGCATGATTCTCGAATTGTCAAATGCCGAATAT
66 AGCAAACGAGAAATCACAACCCAGCACGATAGAGCATGATTCTCGAATTATCAAACACCGAATAT
** *
16943384 TGCCTTCGTTTTAAAAAGTTTTTAGAAAACACGAATGAAATTCCAAAGGGATATTCGATTATCTT
131 CACCTTCGTTTTAAAAAGTTTTTAGAAAACACGAATGAAATTCCAAAGGAATATTCGATTATCTT
* * * *
16943449 GCGCACACGAGAAATTGCAACCCAACACGATAGGGCATGATTCCCCGAATTGCCAAACATCGAAT
196 GAGCAAACGAGAAATTACAACCCAACACGATAAGGCATGATTCCCCGAATTGCCAAACATCGAAT
16943514 ATTT
261 ATTT
* * * *
16943518 CCTTCGTTTTTAAATATATATTTT-TAAACATGAGTGAAAACCTAAAGGAATATTCTATTGTTTT
1 CCTTCATTTTTAAATAT-TATTTTATAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTT
* * * * *
16943582 GAGCAAACGAGGAATCACAACCTAGCACGATAGGGCATGATTCTCGAATTATTAAACACCGAGTA
65 GAGCAAACGAGAAATCACAACCCAGCACGATAGAGCATGATTCTCGAATTATCAAACACCGAATA
* * * * *** * *
16943647 TCACCTTTGTTTT-AAAAGATTTTTAGAAGACATGAGTGAAATTTTGAAGTAATATTCGATTATT
130 TCACCTTCGTTTTAAAAAG-TTTTTAGAAAACACGAATGAAATTCCAAAGGAATATTCGATTATC
* * * * * * * * *
16943711 TTGAGTAAATGCGAAATTACAACCTAACTCGTTAAGGCACT-ATTTCGCGAATTGCCAAATATCG
194 TTGAGCAAACGAGAAATTACAACCCAACACGATAAGGCA-TGATTCCCCGAATTGCCAAACATCG
16943775 AAT
258 AAT
16943778 CTCGTCTTCG
Statistics
Matches: 214, Mismatches: 43, Indels: 6
0.81 0.16 0.02
Matches are distributed among these distances:
263 5 0.02
264 203 0.95
265 6 0.03
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (264 bp):
CCTTCATTTTTAAATATTATTTTATAAACATGAGTGAAAACATAAAGGAATATTCGATCGTTTTG
AGCAAACGAGAAATCACAACCCAGCACGATAGAGCATGATTCTCGAATTATCAAACACCGAATAT
CACCTTCGTTTTAAAAAGTTTTTAGAAAACACGAATGAAATTCCAAAGGAATATTCGATTATCTT
GAGCAAACGAGAAATTACAACCCAACACGATAAGGCATGATTCCCCGAATTGCCAAACATCGAAT
ATTT
Found at i:16947275 original size:22 final size:20
Alignment explanation
Indices: 16947242--16947282 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
16947232 ATTAAAATTA
*
16947242 TTTTTTTATTATTATATATT
1 TTTTTTTATTATTACATATT
16947262 TTTTTTATATTTATTACATAT
1 TTTTTT-TA-TTATTACATAT
16947283 ACTTTGGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTTATTATTACATATT
Found at i:16957764 original size:17 final size:18
Alignment explanation
Indices: 16957718--16957766 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
16957708 TTTTGGTTAG
16957718 TTAATTAGTTTGAATTGAA
1 TTAATTAG-TTGAATTGAA
16957737 TTAATTA-TTGAATTG-A
1 TTAATTAGTTGAATTGAA
**
16957753 TTTTTTAGTTGAAT
1 TTAATTAGTTGAAT
16957767 ACTCAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.22
17 14 0.52
19 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (18 bp):
TTAATTAGTTGAATTGAA
Found at i:16959210 original size:20 final size:20
Alignment explanation
Indices: 16959185--16959225 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
16959175 AAGGAAGAAG
*
16959185 AAATAAAACATAAAAAGGAA
1 AAATAAAAAATAAAAAGGAA
16959205 AAATAAAAAATAAAAAGGAA
1 AAATAAAAAATAAAAAGGAA
16959225 A
1 A
16959226 TAATGTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (20 bp):
AAATAAAAAATAAAAAGGAA
Found at i:16959643 original size:30 final size:31
Alignment explanation
Indices: 16959607--16959664 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
16959597 ATGGTTGCCT
16959607 AACTATTCAAAAT-TTTTCA-TTAAGTCACTG
1 AACTATTC-AAATGTTTTCATTTAAGTCACTG
*
16959637 AACTATTCAAATGTTTTTATTTAAGTCA
1 AACTATTCAAATGTTTTCATTTAAGTCA
16959665 TTAGATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 13 0.52
31 8 0.32
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (31 bp):
AACTATTCAAATGTTTTCATTTAAGTCACTG
Found at i:16967916 original size:51 final size:51
Alignment explanation
Indices: 16967813--16967925 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
16967803 TAGCCTTCAA
* ** *
16967813 ATTTATACATTTTGTCAGTTTGCTCTTAATTTAACAAAGTTATTTCACAAT
1 ATTTATACATTTTGTCAATTTAATCTTAATTTAACAAAGTTATCTCACAAT
* *
16967864 ATTTATACATTTTGTCAATTTAATCTTAATTTAACAAATTTAGTCT-ATAAT
1 ATTTATACATTTTGTCAATTTAATCTTAATTTAACAAAGTTA-TCTCACAAT
*
16967915 ATTTACACATT
1 ATTTATACATT
16967926 CTATTAACAT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 52 0.96
52 2 0.04
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.48
Consensus pattern (51 bp):
ATTTATACATTTTGTCAATTTAATCTTAATTTAACAAAGTTATCTCACAAT
Found at i:16969763 original size:24 final size:24
Alignment explanation
Indices: 16969731--16969777 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
16969721 TGGAAAAAAT
**
16969731 AATTAAAAATCAATAAAAATTTTA
1 AATTAAAAAAAAATAAAAATTTTA
* *
16969755 AATTTAAAAAAAATTAAAATTTT
1 AATTAAAAAAAAATAAAAATTTT
16969778 TAAAAAGTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTAAAAAAAAATAAAAATTTTA
Found at i:16970872 original size:17 final size:20
Alignment explanation
Indices: 16970848--16970892 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
16970838 GTTTTACGGT
16970848 TAATTTTTA-T-AAATTTTA
1 TAATTTTTATTAAAATTTTA
16970866 T-ATTTTTATTAAAATTTTA
1 TAATTTTTATTAAAATTTTA
16970885 TAATTTTT
1 TAATTTTT
16970893 TGATGCAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 9 0.38
20 6 0.25
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATTTTTATTAAAATTTTA
Found at i:16971895 original size:20 final size:20
Alignment explanation
Indices: 16971857--16971904 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
16971847 TAAATTCTAA
* **
16971857 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
16971877 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
16971897 AAA-ATAAA
1 AAAGATAAA
16971905 ATCTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:16971929 original size:27 final size:27
Alignment explanation
Indices: 16971899--16971956 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
16971889 AGATAATTAA
16971899 AATAA-AATCTTAA-ATTTGAATAATCCT
1 AATAATAATCTTAATA-TT-AATAATCCT
* *
16971926 AATAATTATCTTAATATTAATTATCCT
1 AATAATAATCTTAATATTAATAATCCT
16971953 AATA
1 AATA
16971957 TATATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.63
28 9 0.33
29 1 0.04
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (27 bp):
AATAATAATCTTAATATTAATAATCCT
Found at i:16971948 original size:15 final size:15
Alignment explanation
Indices: 16971928--16971957 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16971918 ATAATCCTAA
*
16971928 TAATTATCTTAATAT
1 TAATTATCCTAATAT
16971943 TAATTATCCTAATAT
1 TAATTATCCTAATAT
16971958 ATATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:16973399 original size:15 final size:16
Alignment explanation
Indices: 16973379--16973408 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16973369 TTAGTATCTG
16973379 AAAATAATAA-ATAAT
1 AAAATAATAAGATAAT
16973394 AAAATAATAAGATAA
1 AAAATAATAAGATAA
16973409 AATAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAATAATAAGATAAT
Found at i:16973422 original size:14 final size:14
Alignment explanation
Indices: 16973391--16973438 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
16973381 AATAATAAAT
16973391 AATAAAAT-AATAA
1 AATAAAATAAATAA
*
16973404 GATAAAATAAATAA
1 AATAAAATAAATAA
*
16973418 AATAAAAATAGA-AA
1 AAT-AAAATAAATAA
16973432 AATAAAA
1 AATAAAA
16973439 ATTAGGTTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 11 0.37
14 12 0.40
15 7 0.23
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:16973440 original size:25 final size:24
Alignment explanation
Indices: 16973384--16973440 Score: 57
Period size: 23 Copynumber: 2.4 Consensus size: 24
16973374 ATCTGAAAAT
*
16973384 AATAAATAATAAAATAATAAGATAA
1 AATAAA-AATAAAATAAAAAGATAA
16973409 AAT--AAATAAAATAAAAATAGA-AA
1 AATAAAAATAAAAT-AAAA-AGATAA
16973432 AATAAAAAT
1 AATAAAAAT
16973441 TAGGTTGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
22 8 0.30
23 9 0.33
24 3 0.11
25 7 0.26
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (24 bp):
AATAAAAATAAAATAAAAAGATAA
Found at i:16979078 original size:17 final size:19
Alignment explanation
Indices: 16979042--16979080 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
16979032 AATAGTATTT
*
16979042 AAATTAAATTGAAATTACG
1 AAATTAAATTGAAATGACG
16979061 AAATTAAA-T-AAATGACG
1 AAATTAAATTGAAATGACG
16979078 AAA
1 AAA
16979081 ATTGAGATGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 1 0.05
19 8 0.42
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (19 bp):
AAATTAAATTGAAATGACG
Found at i:16979823 original size:10 final size:10
Alignment explanation
Indices: 16979808--16979839 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
16979798 TAAATACATT
16979808 TAATTAAAGA
1 TAATTAAAGA
16979818 TAATTAAAGA
1 TAATTAAAGA
16979828 TAATTAAA-A
1 TAATTAAAGA
16979837 TAA
1 TAA
16979840 AATCTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:16979865 original size:27 final size:26
Alignment explanation
Indices: 16979835--16979897 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
16979825 AGATAATTAA
16979835 AATAAAATCTTAA-ATTTGAATAATCCT
1 AATAAAATCTTAATA-TT-AATAATCCT
* *
16979862 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTTAATATTAATAATCCT
16979889 AATATAAAT
1 AATA-AAAT
16979898 AAAATGGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 19 0.63
28 10 0.33
29 1 0.03
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (26 bp):
AATAAAATCTTAATATTAATAATCCT
Found at i:16979884 original size:15 final size:15
Alignment explanation
Indices: 16979864--16979893 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16979854 ATAATCCTAA
*
16979864 TAATTATCTTAATAT
1 TAATTATCCTAATAT
16979879 TAATTATCCTAATAT
1 TAATTATCCTAATAT
16979894 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:16982026 original size:15 final size:15
Alignment explanation
Indices: 16982006--16982036 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16981996 CACCTATACT
16982006 TGGTGTGCAAACGAG
1 TGGTGTGCAAACGAG
16982021 TGGTGTGCAAACGAG
1 TGGTGTGCAAACGAG
16982036 T
1 T
16982037 TTCAAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.39, T:0.23
Consensus pattern (15 bp):
TGGTGTGCAAACGAG
Found at i:16986781 original size:31 final size:31
Alignment explanation
Indices: 16986745--16986822 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
16986735 GTTACAAATT
* *
16986745 AGTCACTAAATTATTCGAAAGTTTTCATTTA
1 AGTCACTAAATTATTCAAAAGTTTTCATCTA
* *
16986776 AGTCACTAAATTATGCAAAAGTTTTTATCTA
1 AGTCACTAAATTATTCAAAAGTTTTCATCTA
* *
16986807 AGTCATTAAACTATTC
1 AGTCACTAAATTATTC
16986823 CGCCAATGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (31 bp):
AGTCACTAAATTATTCAAAAGTTTTCATCTA
Found at i:16997442 original size:20 final size:19
Alignment explanation
Indices: 16997397--16997445 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
16997387 AATTAAATTT
16997397 ATTTAAAATAAAAACATTAA
1 ATTT-AAATAAAAACATTAA
*
16997417 ATTTAAATTAAAA-ATTATA
1 ATTTAAATAAAAACATTA-A
16997436 ATATTAAATA
1 AT-TTAAATA
16997446 TTTAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.16
19 11 0.44
20 10 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTTAAATAAAAACATTAA
Found at i:16997450 original size:8 final size:8
Alignment explanation
Indices: 16997435--16997463 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
16997425 TAAAAATTAT
16997435 AATA-TTA
1 AATATTTA
16997442 AATATTTA
1 AATATTTA
16997450 AATATTTA
1 AATATTTA
16997458 AATATT
1 AATATT
16997464 AAAAAATGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATATTTA
Found at i:16997453 original size:15 final size:14
Alignment explanation
Indices: 16997412--16997466 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
16997402 AAATAAAAAC
16997412 ATTAAAT-TT-AA-
1 ATTAAATATTAAAT
*
16997423 ATTAAAAATTATAAT
1 ATTAAATATTA-AAT
16997438 ATTAAATATTTAAAT
1 ATTAAATA-TTAAAT
16997453 ATTTAAATATTAAA
1 A-TTAAATATTAAA
16997467 AAATGCTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 6 0.17
12 2 0.06
14 2 0.06
15 16 0.44
16 10 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAATATTAAAT
Found at i:16997853 original size:28 final size:27
Alignment explanation
Indices: 16997797--16997853 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
16997787 ATAAAGAAAT
**
16997797 ATTTTTAAACTTTTAAATTTTTTTCTA
1 ATTTTTAAACTTTTAAATTTTTTAATA
* *
16997824 ATTTTTAATTCTTTTACATTTTTTAATA
1 ATTTTTAA-ACTTTTAAATTTTTTAATA
16997852 AT
1 AT
16997854 ATTTGTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (27 bp):
ATTTTTAAACTTTTAAATTTTTTAATA
Found at i:17007933 original size:15 final size:16
Alignment explanation
Indices: 17007898--17007927 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17007888 TAAAAGTATT
17007898 TTAAAAATTAAAAATA
1 TTAAAAATTAAAAATA
17007914 TTAAAAA-TAAAAAT
1 TTAAAAATTAAAAAT
17007928 TCTAAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAAAAATTAAAAATA
Found at i:17010777 original size:21 final size:21
Alignment explanation
Indices: 17010753--17010792 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
17010743 TAATTTGTCT
17010753 CCAGTGTTGCAACATTAGAAA
1 CCAGTGTTGCAACATTAGAAA
17010774 CCAGTGTTGCAACATTAGA
1 CCAGTGTTGCAACATTAGA
17010793 CATGCAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (21 bp):
CCAGTGTTGCAACATTAGAAA
Found at i:17011138 original size:24 final size:24
Alignment explanation
Indices: 17011106--17011154 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
17011096 AGTGGAGTAG
17011106 CCTTAGTTTCCAAATGTGACATTC
1 CCTTAGTTTCCAAATGTGACATTC
17011130 CCTTAGTTTCCAAATGTGACATTC
1 CCTTAGTTTCCAAATGTGACATTC
17011154 C
1 C
17011155 TTGTTAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (24 bp):
CCTTAGTTTCCAAATGTGACATTC
Found at i:17014707 original size:20 final size:20
Alignment explanation
Indices: 17014684--17014728 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
17014674 AGGGACTAAA
* *
17014684 ATGAAAATTTGTAAAATTTG
1 ATGAAAACTTCTAAAATTTG
*
17014704 ATGAAAACTTCTAAAATTTT
1 ATGAAAACTTCTAAAATTTG
17014724 ATGAA
1 ATGAA
17014729 TACATGTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAACTTCTAAAATTTG
Found at i:17019369 original size:51 final size:51
Alignment explanation
Indices: 17019298--17019411 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
17019288 CTGATCACAT
17019298 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
17019349 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
17019400 TTGTCGCTTGTC
1 TTATCACTTGTC
17019412 GCTTGTCGCT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:17019409 original size:7 final size:7
Alignment explanation
Indices: 17019399--17019425 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17019389 CCACTTATCA
17019399 CTTGTCG
1 CTTGTCG
17019406 CTTGTCG
1 CTTGTCG
17019413 CTTGTCG
1 CTTGTCG
17019420 CTTGTC
1 CTTGTC
17019426 ACTTATCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.30, G:0.26, T:0.44
Consensus pattern (7 bp):
CTTGTCG
Found at i:17023029 original size:14 final size:14
Alignment explanation
Indices: 17023010--17023036 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17023000 CATGATAAAA
17023010 TAAAATACAAGTGG
1 TAAAATACAAGTGG
17023024 TAAAATACAAGTG
1 TAAAATACAAGTG
17023037 TGCAAGAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:17028278 original size:42 final size:42
Alignment explanation
Indices: 17028228--17028452 Score: 204
Period size: 49 Copynumber: 5.0 Consensus size: 42
17028218 CTTCATTTTC
** * *
17028228 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
17028271 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
* *
17028312 TCGATGCCATAGCCCAGCTATAGTCTTACATGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTAC-----A-CATAT-TCACATA
17028361 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
* *
17028410 TTGATGCCATAACCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
17028451 TC
1 TC
17028453 TCACTGATGC
Statistics
Matches: 154, Mismatches: 14, Indels: 30
0.78 0.07 0.15
Matches are distributed among these distances:
41 10 0.06
42 60 0.39
43 3 0.02
44 1 0.01
46 1 0.01
47 2 0.01
48 4 0.03
49 73 0.47
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:17028371 original size:49 final size:49
Alignment explanation
Indices: 17028298--17028530 Score: 271
Period size: 49 Copynumber: 4.8 Consensus size: 49
17028288 TATGGTCTTA
* * *
17028298 CACATATTCATATATCGATGCCATAGCCCAGCTATAGTCTTACATGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
17028348 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* *
17028397 CACATATCACATATTGATGCCATAACCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * * * *
17028445 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
* * * *
17028492 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
17028531 TACGGAAATC
Statistics
Matches: 165, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
46 26 0.16
47 37 0.22
48 13 0.08
49 83 0.50
50 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:17028372 original size:91 final size:92
Alignment explanation
Indices: 17028263--17028483 Score: 270
Period size: 91 Copynumber: 2.4 Consensus size: 92
17028253 TTACACATCT
* *
17028263 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACAC-AT-AT-TCATATATCGATGCCATAGC
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAAC
*
17028325 CCAGCTATAGTCTTACATGTAATCACATA
65 CCAGCTATAGTCTTACACG-AATCACATA
*
17028354 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATTGATGCCA
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACAC--AAT--CATATCACATATCGATGCCA
*
17028419 TAACCCAGCTATGGTCTTACACGAATCACATA
61 TAACCCAGCTATAGTCTTACACGAATCACATA
* * * *
17028451 TCTCA-CTGATGCCATATCCCAGATATGGTCTTA
1 TCACATATGATGCCATAGCCCAGCTATGGTCTTA
17028484 TACAGTAGCA
Statistics
Matches: 113, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
90 2 0.02
91 35 0.31
94 2 0.02
95 24 0.21
96 1 0.01
97 15 0.13
98 34 0.30
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (92 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATCGATGCCATAACC
CAGCTATAGTCTTACACGAATCACATA
Found at i:17028542 original size:95 final size:96
Alignment explanation
Indices: 17028313--17028530 Score: 255
Period size: 95 Copynumber: 2.3 Consensus size: 96
17028303 ATTCATATAT
* * *
17028313 CGATGCCATAGCCCAGCTATAGTCTTACATGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CGATGCCATAACCCAGCTATGGTCTTACACG-AATCACATATCACATATCGATGCCATAGCCCAG
* * *
17028378 CTATGGTCTTACACGTAATCACATATCACATAT
65 ATATGGTCTTACACGTAAGCACATATCACA-AC
* * * *
17028411 TGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCTCA-CT-GATGCCATATCCCAGA
1 CGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCACATATCGATGCCATAGCCCAGA
* *
17028474 TATGGTCTTATACAGT-AGCATATATCAC-AC
66 TATGGTCTTACAC-GTAAGCACATATCACAAC
* *
17028504 CGATGCCATATCCCAGATATGGTCTTA
1 CGATGCCATAACCCAGCTATGGTCTTA
17028531 TACGGAAATC
Statistics
Matches: 104, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
93 25 0.24
95 36 0.35
96 3 0.03
97 13 0.12
98 27 0.26
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (96 bp):
CGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCACATATCGATGCCATAGCCCAGA
TATGGTCTTACACGTAAGCACATATCACAAC
Found at i:17028587 original size:31 final size:31
Alignment explanation
Indices: 17028552--17028666 Score: 185
Period size: 31 Copynumber: 3.7 Consensus size: 31
17028542 CTTGTCACTT
*
17028552 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
17028583 GTAGCCGGAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
17028614 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
17028645 GTAGCAGAAGCTACCACTTTTC
1 GTAGCCGAAGCTACCACTTTTC
17028667 TCTTGTCATT
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 78 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:17028903 original size:17 final size:17
Alignment explanation
Indices: 17028883--17028917 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17028873 AAAATTAACA
17028883 AATAATCACTAAAATTT
1 AATAATCACTAAAATTT
17028900 AATAATCACTAAAATTT
1 AATAATCACTAAAATTT
17028917 A
1 A
17028918 GCCATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAATCACTAAAATTT
Found at i:17033573 original size:42 final size:46
Alignment explanation
Indices: 17033510--17033765 Score: 264
Period size: 49 Copynumber: 5.6 Consensus size: 46
17033500 CTTCGTTTTC
** *
17033510 TCGATGCCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACAT-A
*
17033553 T-GATGCCATAGCCCAGCTATGGTCTTACAC-AT--AT-TCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
*
17033594 TCGATGCCATAGTCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
17033643 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
* * *
17033692 TCGATGCCATAACCCAGCTATGGTCTTACACGAATCACATATCTCA-C
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATCACATA
* *
17033739 T-GATGCCATATCCCAGATATGGTCTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTA
17033766 TACAGTAGCA
Statistics
Matches: 191, Mismatches: 13, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
41 2 0.01
42 62 0.32
43 1 0.01
45 2 0.01
46 24 0.13
47 1 0.01
48 15 0.08
49 84 0.44
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:17033653 original size:49 final size:48
Alignment explanation
Indices: 17033580--17033810 Score: 260
Period size: 49 Copynumber: 4.8 Consensus size: 48
17033570 TATGGTCTTA
*
17033580 CACATATTCATATATCGATGCCATAGTCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATA-TCCAGCTATGGTCTTACACGTAAT
*
17033630 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATATCACATATCGATGCCATA-TCCAGCTATGGTCTTACACGTAAT
*
17033679 CACATATCACATATCGATGCCATAACCCAGCTATGGTCTTACACG-AAT
1 CACATATCACATATCGATGCCAT-ATCCAGCTATGGTCTTACACGTAAT
* * * * *
17033727 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAT-CCAGCTATGGTCTTACAC-GTAAT
* * *
17033774 CATATATCAC---CCGATGCCATATCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATATCCAGCTATGGTCTTA
17033811 TACGGAAATC
Statistics
Matches: 165, Mismatches: 11, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
45 16 0.10
46 34 0.21
47 11 0.07
48 13 0.08
49 84 0.51
50 7 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATATCCAGCTATGGTCTTACACGTAAT
Found at i:17033659 original size:91 final size:88
Alignment explanation
Indices: 17033545--17033810 Score: 284
Period size: 91 Copynumber: 2.9 Consensus size: 88
17033535 TTACACATCT
17033545 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATAGTCCA
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATA-TCCA
17033610 GCTATGGTCTTACACGTAATCACATA
64 GCTATGGTCTTACACG-AATCACATA
*
17033636 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCA
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCATATATCGATGCCA
*
17033701 TAACCCAGCTATGGTCTTACACGAATCACATA
58 T-ATCCAGCTATGGTCTTACACGAATCACATA
* * * * * *
17033733 TCTCA-CTGATGCCATATCCCAGATATGGTCTTATACAGTA-GCATATATCACCCGATGCCATAT
1 TCACATATGATGCCATAGCCCAGCTATGGTCTTACACA-TATTCATATAT----CGATGCCATAT
*
17033796 CCAGATATGGTCTTA
61 CCAGCTATGGTCTTA
17033811 TACGGAAATC
Statistics
Matches: 150, Mismatches: 11, Indels: 28
0.79 0.06 0.15
Matches are distributed among these distances:
88 6 0.04
90 3 0.02
91 50 0.33
92 10 0.07
93 1 0.01
94 2 0.01
95 26 0.17
96 1 0.01
97 15 0.10
98 35 0.23
99 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (88 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATATCCAGC
TATGGTCTTACACGAATCACATA
Found at i:17033761 original size:46 final size:46
Alignment explanation
Indices: 17033554--17033810 Score: 153
Period size: 49 Copynumber: 5.6 Consensus size: 46
17033544 TTCACATAAT
* * *
17033554 GATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCATATAT----C
1 GATGCCATATCCCAGATATGGTCTTACACAATA-GCATATATCACCC
* **
17033596 GATGCCATAGT-CCAGCTATGGTCTTACACGTAATCA-CATATCA-CATATC
1 GATGCCATA-TCCCAGATATGGTCTTACAC--AAT-AGCATAT-ATCA-CCC
* * **
17033645 GATGCCATAGCCCAGCTATGGTCTTACACGTAATCA-CATATCA-CATATC
1 GATGCCATATCCCAGATATGGTCTTACAC--AAT-AGCATAT-ATCA-CCC
* * * *
17033694 GATGCCATAACCCAGCTATGGTCTTACACGAATCA-CATATCTCA-CT
1 GATGCCATATCCCAGATATGGTCTTACAC-AAT-AGCATATATCACCC
* *
17033740 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACCC
1 GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACCC
17033786 GATGCCATAT-CCAGATATGGTCTTA
1 GATGCCATATCCCAGATATGGTCTTA
17033811 TACGGAAATC
Statistics
Matches: 187, Mismatches: 13, Indels: 27
0.82 0.06 0.12
Matches are distributed among these distances:
42 27 0.14
44 6 0.03
45 28 0.15
46 38 0.20
48 12 0.06
49 76 0.41
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCACCC
Found at i:17033805 original size:140 final size:138
Alignment explanation
Indices: 17033545--17033810 Score: 310
Period size: 140 Copynumber: 1.9 Consensus size: 138
17033535 TTACACATCT
* *
17033545 TCACATAATGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCGATGCCATAGTCCA
1 TCACATAATGATGCCATAACCCAGCTATGGTCTTACACATATACATATATCGATGCCATAGTCCA
* * * *
17033610 GCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG
66 GATATGGTCTTACACGTAAGCACATATCAC--ACCGATGCCATAGCCCAGATATGGTCTTACACG
17033675 TAATCACATA
129 TAATCACATA
*
17033685 TCACAT-ATCGATGCCATAACCCAGCTATGGTCTTACACGA-ATCACATATCTCACTGATGCCAT
1 TCACATAAT-GATGCCATAACCCAGCTATGGTCTTACAC-ATAT-ACATATAT--C-GATGCCAT
* * *
17033748 A-TCCCAGATATGGTCTTATACAGT-AGCATATATCAC-CCGATGCCATA-TCCAGATATGGTCT
60 AGT-CCAGATATGGTCTTACAC-GTAAGCACATATCACACCGATGCCATAGCCCAGATATGGTCT
17033809 TA
123 TA
17033811 TACGGAAATC
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
139 2 0.02
140 50 0.46
141 17 0.16
143 2 0.02
144 35 0.32
145 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (138 bp):
TCACATAATGATGCCATAACCCAGCTATGGTCTTACACATATACATATATCGATGCCATAGTCCA
GATATGGTCTTACACGTAAGCACATATCACACCGATGCCATAGCCCAGATATGGTCTTACACGTA
ATCACATA
Found at i:17033866 original size:30 final size:31
Alignment explanation
Indices: 17033832--17033917 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 31
17033822 CTTGTCACTT
*
17033832 GTAGCCGAAGCTACCAC-TTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* * *
17033862 GTAGCTGGAGCTACCACTTTTCACGGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
17033893 GTAGTAGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
17033918 TGTAATTTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 15 0.31
31 33 0.69
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:17033989 original size:50 final size:51
Alignment explanation
Indices: 17033899--17034021 Score: 203
Period size: 50 Copynumber: 2.4 Consensus size: 51
17033889 TCAGGTAGTA
* *
17033899 GAAGCTACCACTTTTCACTTGTAATTTGTCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTAATTTGTCCTTGATCAGATAAGTGTAGCC
* *
17033950 GAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGTGTAGCT
1 GAAGCTATCACTTATCACTTGTAATTTGTCCTTGATCAGATAAGTGTAGCC
17034000 GAAGCTATCACTTATCACTTGT
1 GAAGCTATCACTTATCACTTGT
17034022 TGCCATGGTC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 48 0.72
51 19 0.28
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (51 bp):
GAAGCTATCACTTATCACTTGTAATTTGTCCTTGATCAGATAAGTGTAGCC
Found at i:17038949 original size:189 final size:183
Alignment explanation
Indices: 17038599--17038949 Score: 454
Period size: 189 Copynumber: 1.9 Consensus size: 183
17038589 TGAATGCCCA
* *
17038599 TTTTGTGATAAGGTGTTTCAATAGGGTCAAGCACTTGGTAGCCATAAAAAATTTCATTTTGGTTA
1 TTTTGTGATAAGGTGTTTCAACAGGGTCAAGCACTTGGTAGCCATAAAAAAGTTCATTTTGGTTA
* * * * * * *
17038664 CCACCCGTTGCTTATAATAAGATTTTCATTAAGTCGTCTATTGTTTAACCATTTGTTCTTAATTT
66 CCACCCGTTGCTCATAATAAGACTTTAATCAAGTCGTCTATTATTTAACCATTCGATCTTAATTT
*
17038729 ACTAACTTCAGAACAACATGTTAATGAAGTTAACTTAGCTCTGCTAATGCTCG
131 ACTAACTTCAGAACAACATGATAATGAAGTTAACTTAGCTCTGCTAATGCTCG
* * * *
17038782 TTTTGTGATAAGGTGTTTCAACCGGGTCAAGCA-TTTGTGGCCATAAGAAAGTTCATTTTGGTTA
1 TTTTGTGATAAGGTGTTTCAACAGGGTCAAGCACTTGGTAGCCATAAAAAAGTTCATTTTGGTTA
* *
17038846 CTTACCATCGGTTGCTCATAATAAGACTTTAATCAAGTCGCCATCTATTATTTAGCCATTCGATC
66 C-CACC--C-GTTGCTCATAATAAGACTTTAATCAAGTCG---TCTATTATTTAACCATTCGATC
* *
17038911 TTAATTTA-TCAAGTTCAGAACAAGATGATAATGAAGTTA
124 TTAATTTACT-AACTTCAGAACAACATGATAATGAAGTTA
17038950 GCCTAGTTCT
Statistics
Matches: 142, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
182 28 0.20
183 34 0.24
185 1 0.01
186 26 0.18
188 1 0.01
189 52 0.37
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (183 bp):
TTTTGTGATAAGGTGTTTCAACAGGGTCAAGCACTTGGTAGCCATAAAAAAGTTCATTTTGGTTA
CCACCCGTTGCTCATAATAAGACTTTAATCAAGTCGTCTATTATTTAACCATTCGATCTTAATTT
ACTAACTTCAGAACAACATGATAATGAAGTTAACTTAGCTCTGCTAATGCTCG
Found at i:17039302 original size:26 final size:26
Alignment explanation
Indices: 17039267--17039316 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17039257 ATATATGTGA
*
17039267 TTTTACATATT-TAATATTTAATTAAT
1 TTTTAAATATTAT-ATATTTAATTAAT
*
17039293 TTTTAAATATTATATTTTTAATTA
1 TTTTAAATATTATATATTTAATTA
17039317 TAATAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTAAATATTATATATTTAATTAAT
Found at i:17039755 original size:18 final size:17
Alignment explanation
Indices: 17039726--17039759 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
17039716 TAGCTGTAAA
17039726 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
17039743 TTAAATGTATAATTATT
1 TTAAAT-TATAATTATT
17039760 AGAACTCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:17047123 original size:22 final size:20
Alignment explanation
Indices: 17047092--17047140 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
17047082 ATCTTTTATC
17047092 TAAAATTTATTTAA-AATAAT
1 TAAAATTTATTTAATAAT-AT
17047112 GTAAAATATTATTTAATAATAT
1 -TAAAAT-TTATTTAATAATAT
17047134 TAAAATT
1 TAAAATT
17047141 AAAAATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 12 0.46
22 10 0.38
23 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAATTTATTTAATAATAT
Found at i:17064987 original size:14 final size:15
Alignment explanation
Indices: 17064963--17064991 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17064953 TTTACAAATC
17064963 CCATATTTTTGTAAT
1 CCATATTTTTGTAAT
17064978 CCAT-TTTTTGTAAT
1 CCATATTTTTGTAAT
17064992 TCTCCTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (15 bp):
CCATATTTTTGTAAT
Found at i:17074411 original size:8 final size:8
Alignment explanation
Indices: 17074398--17074432 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
17074388 CTTTTATACA
17074398 AAAAAAAG
1 AAAAAAAG
17074406 AAAAAAAG
1 AAAAAAAG
17074414 -AAAAAAG
1 AAAAAAAG
17074421 AAAAAAAG
1 AAAAAAAG
17074429 AAAA
1 AAAA
17074433 CATTTTCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:17074419 original size:15 final size:15
Alignment explanation
Indices: 17074399--17074432 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
17074389 TTTTATACAA
17074399 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
17074414 AAAAAAGAAAAAAAG
1 AAAAAAGAAAAAAAG
17074429 AAAA
1 AAAA
17074433 CATTTTCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:17079057 original size:19 final size:20
Alignment explanation
Indices: 17079033--17079080 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
17079023 CAGTAAAATG
*
17079033 TTTTTC-GAAAAATGATTTA
1 TTTTTCTGAAAAATAATTTA
* *
17079052 TTTTTCTTATAAATAATTTA
1 TTTTTCTGAAAAATAATTTA
17079072 TTTTTCTGA
1 TTTTTCTGA
17079081 TGTTTAGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCTGAAAAATAATTTA
Found at i:17081187 original size:13 final size:13
Alignment explanation
Indices: 17081169--17081195 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17081159 ATTGACTAAG
17081169 TTGAATTATACCT
1 TTGAATTATACCT
17081182 TTGAATTATACCT
1 TTGAATTATACCT
17081195 T
1 T
17081196 CTTTTGCAAG
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:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (13 bp):
TTGAATTATACCT
Found at i:17082406 original size:32 final size:32
Alignment explanation
Indices: 17082365--17082426 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
17082355 AGCCTAGACA
17082365 TTAGACCCAAATTCGAAAGATTACATTAGTTG
1 TTAGACCCAAATTCGAAAGATTACATTAGTTG
*
17082397 TTAGACCCAAATTCGGAAGATTACATTAGT
1 TTAGACCCAAATTCGAAAGATTACATTAGT
17082427 CACCAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (32 bp):
TTAGACCCAAATTCGAAAGATTACATTAGTTG
Found at i:17082773 original size:17 final size:19
Alignment explanation
Indices: 17082737--17082773 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
17082727 AATAATTAAG
17082737 ATATAATAATAAATCTAAA
1 ATATAATAATAAATCTAAA
*
17082756 ATAT-ATAATCAA-CTAAA
1 ATATAATAATAAATCTAAA
17082773 A
1 A
17082774 CTAAACCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (19 bp):
ATATAATAATAAATCTAAA
Found at i:17082777 original size:23 final size:21
Alignment explanation
Indices: 17082737--17082778 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
17082727 AATAATTAAG
*
17082737 ATATAATAATAAATCTAAAAT
1 ATATAATAATAAAACTAAAAT
17082758 ATATAATCAACTAAAACTAAA
1 ATATAAT-AA-TAAAACTAAA
17082779 CCGAGACGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
ATATAATAATAAAACTAAAAT
Found at i:17084648 original size:40 final size:40
Alignment explanation
Indices: 17084577--17084652 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
17084567 ACACACCATG
*
17084577 TGGGGATAAAATTGACCCACATATCCCTACACACCAAATA
1 TGGGGATAAAATTGACCCACATATCCATACACACCAAATA
17084617 TGGGGATAAAATTGACCCATCCA-A-CCATACACACCA
1 TGGGGATAAAATTGACCCA--CATATCCATACACACCA
17084653 TAAAGTACCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
40 30 0.91
41 1 0.03
42 2 0.06
ACGTcount: A:0.39, C:0.29, G:0.13, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATTGACCCACATATCCATACACACCAAATA
Found at i:17091459 original size:40 final size:39
Alignment explanation
Indices: 17091372--17091466 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 39
17091362 ACCAACTTCG
*
17091372 TCCAACCCAACACACC-ATATGAGGATAAAATCGACCCA
1 TCCAACCCTACACACCAATATGAGGATAAAATCGACCCA
* *
17091410 -CCTATCCCTACACACCAAATAT-AGGGATAAAATCGACCTA
1 TCC-AACCCTACACACC-AATATGA-GGATAAAATCGACCCA
*
17091450 TCCAACCCTACATACCA
1 TCCAACCCTACACACCA
17091467 TATAAGTACC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
37 2 0.04
38 11 0.23
39 2 0.04
40 30 0.64
41 2 0.04
ACGTcount: A:0.40, C:0.35, G:0.08, T:0.17
Consensus pattern (39 bp):
TCCAACCCTACACACCAATATGAGGATAAAATCGACCCA
Found at i:17093660 original size:25 final size:24
Alignment explanation
Indices: 17093632--17093700 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
17093622 CATATGACGA
* *
17093632 GAAGCTCATGTGAGCTATGTAACAG
1 GAAGCTCATGTGAGCCA-ATAACAG
* *
17093657 GAAGCTCATGCGAGCCAATATCAG
1 GAAGCTCATGTGAGCCAATAACAG
*
17093681 GAAACTCATGTGAGCCAATA
1 GAAGCTCATGTGAGCCAATA
17093701 TCGGGAAACT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
24 23 0.61
25 15 0.39
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
GAAGCTCATGTGAGCCAATAACAG
Found at i:17093688 original size:24 final size:24
Alignment explanation
Indices: 17093654--17093711 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
17093644 AGCTATGTAA
*
17093654 CAGGAAGCTCATGCGAGCCAATAT
1 CAGGAAACTCATGCGAGCCAATAT
*
17093678 CAGGAAACTCATGTGAGCCAATAT
1 CAGGAAACTCATGCGAGCCAATAT
*
17093702 CGGGAAACTC
1 CAGGAAACTC
17093712 GTGAAAGACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.17
Consensus pattern (24 bp):
CAGGAAACTCATGCGAGCCAATAT
Found at i:17093732 original size:25 final size:24
Alignment explanation
Indices: 17093672--17093737 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
17093662 TCATGCGAGC
* ** *
17093672 CAATATCAGGAAACTCATGTGAGC
1 CAATATCAGGAAACTCGTGAAAGA
*
17093696 CAATATCGGGAAACTCGTGAAAGA
1 CAATATCAGGAAACTCGTGAAAGA
*
17093720 CATATATCAGGAAGCTCG
1 CA-ATATCAGGAAACTCG
17093738 AGAGAGCCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 21 0.62
25 13 0.38
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (24 bp):
CAATATCAGGAAACTCGTGAAAGA
Found at i:17094673 original size:13 final size:13
Alignment explanation
Indices: 17094655--17094680 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17094645 TTGGTCAAGT
17094655 ATCGATACCTTTG
1 ATCGATACCTTTG
17094668 ATCGATACCTTTG
1 ATCGATACCTTTG
17094681 TCCCTAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
ATCGATACCTTTG
Found at i:17096092 original size:26 final size:25
Alignment explanation
Indices: 17096015--17096310 Score: 230
Period size: 26 Copynumber: 11.8 Consensus size: 25
17096005 TTAAGGAGTA
17096015 TAAA-AAATAATATAT--AAAAATT
1 TAAATAAATAATATATAAAAAAATT
* * * *
17096037 TAAA-AGATAATATATACAATAGTT
1 TAAATAAATAATATATAAAAAAATT
17096061 TAAAATAAATAATATATGAAAAAAATT
1 T-AAATAAATAATATAT-AAAAAAATT
***
17096088 TAAATAAATAATATATAAAATGGTT
1 TAAATAAATAATATATAAAAAAATT
* * * *
17096113 CAGAATAAACAATATAT-ATAAATTT
1 TA-AATAAATAATATATAAAAAAATT
* * *
17096138 TAACATAAATAAGATATAAAACAGTT
1 TAA-ATAAATAATATATAAAAAAATT
** * *
17096164 TGAAATAAATGGTTTATAAAACAATT
1 T-AAATAAATAATATATAAAAAAATT
*
17096190 TAAAGTAAATAATATATAAAATAATT
1 TAAA-TAAATAATATATAAAAAAATT
* *
17096216 TAAA-ATAATAATACA-AAACAAATT
1 TAAATA-AATAATATATAAAAAAATT
* *
17096240 AAAATAAATAATATGATAAAACAATT
1 TAAATAAATAATAT-ATAAAAAAATT
*
17096266 TAAAATAAATACTATATAAAAAAATT
1 T-AAATAAATAATATATAAAAAAATT
*
17096292 AAAATAAATAATA-ATAAAA
1 TAAATAAATAATATATAAAA
17096311 CTGTTCAAAA
Statistics
Matches: 216, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
22 14 0.06
24 31 0.14
25 50 0.23
26 100 0.46
27 21 0.10
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (25 bp):
TAAATAAATAATATATAAAAAAATT
Found at i:17096121 original size:52 final size:51
Alignment explanation
Indices: 17096019--17096330 Score: 307
Period size: 52 Copynumber: 6.2 Consensus size: 51
17096009 GGAGTATAAA
* *
17096019 AAATAATATAT--AAAAATTTAAA-AGATAATATATACAATAGTTTAAAAT
1 AAATAATATATAAAAAAATTTAAATAAATAATATATAAAATAGTTTAAAAT
* * *
17096067 AAATAATATATGAAAAAAATTTAAATAAATAATATATAAAATGGTTCAGAAT
1 AAATAATATAT-AAAAAAATTTAAATAAATAATATATAAAATAGTTTAAAAT
* * * * * *
17096119 AAACAATATAT-ATAAATTTTAACATAAATAAGATATAAAACAGTTTGAAAT
1 AAATAATATATAAAAAAATTTAA-ATAAATAATATATAAAATAGTTTAAAAT
** * * *
17096170 AAATGGTTTATAAAACAATTTAAAGTAAATAATATATAAAATAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAA-TAAATAATATATAAAATAGTTTAAAAT
* * * * *
17096222 -AATAATACA-AAACAAATTAAAATAAATAATATGATAAAACAATTTAAAAT
1 AAATAATATATAAAAAAATTTAAATAAATAATAT-ATAAAATAGTTTAAAAT
* * *
17096272 AAATACTATATAAAAAAATTAAAATAAATAATA-ATAAAACT-GTTCAAAAT
1 AAATAATATATAAAAAAATTTAAATAAATAATATATAAAA-TAGTTTAAAAT
17096322 AAATAATAT
1 AAATAATAT
17096331 GAAAGATTTA
Statistics
Matches: 213, Mismatches: 40, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
48 11 0.05
49 10 0.05
50 56 0.26
51 53 0.25
52 83 0.39
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (51 bp):
AAATAATATATAAAAAAATTTAAATAAATAATATATAAAATAGTTTAAAAT
Found at i:17096282 original size:76 final size:77
Alignment explanation
Indices: 17096019--17096332 Score: 218
Period size: 77 Copynumber: 4.1 Consensus size: 77
17096009 GGAGTATAAA
* * ** *
17096019 AAATAATAT-AT-AAA-AATTT-AAA-AGATAATATATACAATAGTTTAAAATAAATAATATATG
1 AAATAATATGATAAAACAATTTAAAATAAATAATATATA-AAAAAATTAAAATAAATAATA-A-C
* *
17096079 AAAAAAATT-TAAAT
63 AAAACAATTCAAAAT
*** * * * * ** * * *
17096093 AAATAATAT-ATAAAATGGTTCAGAATAAACAATATATATAAATTTTAACATAAATAAGATATAA
1 AAATAATATGATAAAACAATTTAAAATAAATAATATATAAAAAAATTAAAATAAATAATA-ACAA
* **
17096157 AACAGTTTGAAAT
65 AACAATTCAAAAT
** * * *
17096170 AAATGGT-TTATAAAACAATTTAAAGTAAATAATATATAAAATAATTTAAAAT-AATAAT-ACAA
1 AAATAATATGATAAAACAATTTAAAATAAATAATATATAAAA-AAATTAAAATAAATAATAACAA
17096232 AACAAATT-AAAAT
65 AAC-AATTCAAAAT
* *
17096245 AAATAATATGATAAAACAATTTAAAATAAATACTATATAAAAAAATTAAAATAAATAATAATAAA
1 AAATAATATGATAAAACAATTTAAAATAAATAATATATAAAAAAATTAAAATAAATAATAACAAA
**
17096310 ACTGTTCAAAAT
66 ACAATTCAAAAT
17096322 AAATAATATGA
1 AAATAATATGA
17096333 AAGATTTATA
Statistics
Matches: 188, Mismatches: 40, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
74 11 0.06
75 27 0.14
76 52 0.28
77 80 0.43
78 18 0.10
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (77 bp):
AAATAATATGATAAAACAATTTAAAATAAATAATATATAAAAAAATTAAAATAAATAATAACAAA
ACAATTCAAAAT
Found at i:17096470 original size:50 final size:48
Alignment explanation
Indices: 17096187--17096470 Score: 195
Period size: 50 Copynumber: 5.8 Consensus size: 48
17096177 TTATAAAACA
* ** *
17096187 ATTTAAAGTAAATAATATATAAAATAA-TTTAAAAT-AATAATA-CAAAACA
1 ATTTAAAATAAATAA-A-AT-AAATAAGTTTAAAATAAATAATATTGAAA-G
* * * * *
17096236 AATTAAAATAAATAATATGATAAA-ACAATTTAAAATAAATACTATATAAAAA
1 ATTTAAAATAAATAA-A--ATAAATA-AGTTTAAAATAAATAATAT-TGAAAG
* * *
17096288 AATTAAAATAAATAATAATAAA-ACTGTTCAAAATAAATAATA-TGAAAG
1 ATTTAAAATAAATAA-AATAAATA-AGTTTAAAATAAATAATATTGAAAG
* * * *
17096336 ATTTATAATGAATAAAATAAGTAAGTTTAAAAATAAATAACATATGAAAG
1 ATTTAAAATAAATAAAATAAATAAGTTT-AAAATAAATAATAT-TGAAAG
* * * *
17096386 ATTTAAAAT-AACAAAATAAACAAGTTTAACATAAATAATATGTGAGAG
1 ATTTAAAATAAATAAAATAAATAAGTTTAAAATAAATAATAT-TGAAAG
*
17096434 ATTTAAAAATAAATAAAATAAATAAGTTTAATATAAA
1 ATTT-AAAATAAATAAAATAAATAAGTTTAAAATAAA
17096471 CAGTATCTGA
Statistics
Matches: 194, Mismatches: 29, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
47 8 0.04
48 51 0.26
49 39 0.20
50 68 0.35
51 6 0.03
52 18 0.09
53 4 0.02
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.29
Consensus pattern (48 bp):
ATTTAAAATAAATAAAATAAATAAGTTTAAAATAAATAATATTGAAAG
Found at i:17101035 original size:12 final size:12
Alignment explanation
Indices: 17101018--17101050 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
17101008 TTTGAGGACG
17101018 GTTTGAGGGATA
1 GTTTGAGGGATA
*
17101030 GTTTGACGGATA
1 GTTTGAGGGATA
17101042 GTTTGAGGG
1 GTTTGAGGG
17101051 TTCTGATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.42, T:0.33
Consensus pattern (12 bp):
GTTTGAGGGATA
Found at i:17106966 original size:47 final size:47
Alignment explanation
Indices: 17106817--17106990 Score: 207
Period size: 47 Copynumber: 3.7 Consensus size: 47
17106807 AACCCGCCCC
* *
17106817 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGC-GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACAGTTCACATCCA
17106863 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACATCCA
* * * *
17106911 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACATCCA
17106957 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17106991 TGTTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 19
0.80 0.07 0.14
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 3 0.03
46 32 0.29
47 56 0.51
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACATCCA
Found at i:17106982 original size:94 final size:93
Alignment explanation
Indices: 17106822--17106992 Score: 281
Period size: 94 Copynumber: 1.8 Consensus size: 93
17106812 GCCCCTAAGT
* * *
17106822 GAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTTGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
17106887 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
17106915 GAACTCAGACTCAACTCAACGAG-TTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCAGACTCAACTCAACGAGCTT-GGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTC
17106979 AACGAGTTCGGATG
64 AACGAGTTCGGATG
17106993 TTCAACCATC
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 2 0.03
93 25 0.35
94 45 0.62
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTTGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17107446 original size:30 final size:30
Alignment explanation
Indices: 17107412--17107471 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
17107402 CCTTAATACG
17107412 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* *
17107442 AACTTTTGCACAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
17107472 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:17110273 original size:16 final size:16
Alignment explanation
Indices: 17110252--17110283 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
17110242 CACGATTCAC
17110252 TATTATACTATATTTA
1 TATTATACTATATTTA
17110268 TATTATACTATATTTA
1 TATTATACTATATTTA
17110284 ACTCATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATACTATATTTA
Found at i:17110998 original size:34 final size:34
Alignment explanation
Indices: 17110922--17111029 Score: 96
Period size: 34 Copynumber: 3.1 Consensus size: 34
17110912 CTCAAAACGG
* * *
17110922 ATCAATACGGTAGCATTTAATTATGCTTTTAACAGA
1 ATCAATATGGTAGCA-ATAA-TATGCTTATAACAGA
17110958 AT-AATATGGTAGCAATCAATATGCTTATAACA-A
1 ATCAATATGGTAGCAAT-AATATGCTTATAACAGA
* * * *
17110991 TTCAATATAGTGGCAAATAATATGCTTATAATAG-
1 ATCAATATGGTAGC-AATAATATGCTTATAACAGA
17111025 ATCAA
1 ATCAA
17111030 CTCAGTAGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
33 2 0.03
34 40 0.67
35 16 0.27
36 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (34 bp):
ATCAATATGGTAGCAATAATATGCTTATAACAGA
Done.