Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 56 of 175
Found at i:16300056 original size:132 final size:132
Alignment explanation
Indices: 16299022--16300041 Score: 1724
Period size: 132 Copynumber: 7.8 Consensus size: 132
16299012 GAAGTGGATC
* *
16299022 GAAGA-TGTAGATCTTATCTCCCTAAGCAGAAGTGGAGCAGATCGAAGACGGCAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
* *
16299086 TCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
*
16299151 TC
131 TT
*
16299153 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
* * * * *
16299218 TCCAAGATAGTGGGAAGCAGATTTAAACCACAAAGCCTTGTCT--CTGAGCAGCAGTGGAGAAGA
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
16299281 TT
131 TT
*
16299283 GAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
* *
16299348 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTT-TCCTCCCTGAGCAGCAGCGGAGAAG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGT-CTCCCTGAGCAGCAGCGGAGTAG
16299412 GTT
130 GTT
* * * *
16299415 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCATATCGAAGATGACAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
* *
16299480 TCCAAGATAGTGGGAAACAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAACAGCGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
16299545 TT
131 TT
* *
16299547 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
*
16299612 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
16299677 TT
131 TT
16299679 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
*
16299744 TCTAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
16299809 TT
131 TT
*
16299811 GAAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
* *
16299876 TCCAAGATAGTGGGAAGCAGATTTAAGCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGG
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
16299941 TT
131 TT
* * **
16299943 GAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAAACGAAAAATCTTATCTT
1 GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
16300008 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA
66 TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAA
16300042 ATCCTATCTC
Statistics
Matches: 838, Mismatches: 46, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
129 1 0.00
130 120 0.14
131 5 0.01
132 711 0.85
133 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
GAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTT
TCCAAGATAGTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGG
TT
Found at i:16300574 original size:19 final size:19
Alignment explanation
Indices: 16300550--16300626 Score: 100
Period size: 19 Copynumber: 3.8 Consensus size: 19
16300540 AATCTTCGAG
16300550 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
*
16300569 GATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATAT
16300588 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
16300610 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
16300627 GATTTAATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
19 30 0.59
20 3 0.06
22 8 0.16
23 10 0.20
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:16300636 original size:22 final size:23
Alignment explanation
Indices: 16300592--16300636 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16300582 AGATATGATA
*
16300592 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
16300615 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
16300637 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:16304613 original size:14 final size:14
Alignment explanation
Indices: 16304594--16304632 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
16304584 TTGTTTCACT
*
16304594 GAAAATGGCTTCCG
1 GAAAATGACTTCCG
* *
16304608 GAAAATGATTTCTG
1 GAAAATGACTTCCG
16304622 GAAAATGACTT
1 GAAAATGACTT
16304633 ACTTTTCTGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (14 bp):
GAAAATGACTTCCG
Found at i:16305242 original size:18 final size:18
Alignment explanation
Indices: 16305204--16305239 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16305194 TTATTATTTT
*
16305204 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
16305222 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
16305240 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:16305274 original size:30 final size:31
Alignment explanation
Indices: 16305214--16305279 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
16305204 TAAAATTTAC
16305214 TATT-AAAATAAAATTTAAATATTAAATAATT
1 TATTAAAAATAAAATTT-AATATTAAATAATT
16305245 TATTAAAAATAATAATTT-ATATT-AATAATT
1 TATTAAAAATAA-AATTTAATATTAAATAATT
16305275 TATTA
1 TATTA
16305280 TATGACTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
30 12 0.36
31 9 0.27
32 7 0.21
33 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
TATTAAAAATAAAATTTAATATTAAATAATT
Found at i:16305564 original size:19 final size:19
Alignment explanation
Indices: 16305517--16305564 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 19
16305507 GAAAAAGGCT
16305517 TATTTTCCGTTGACCTGTAAG
1 TATTTTCCGTTGACC--TAAG
16305538 TCATTTTCCGTTGACC-AAG
1 T-ATTTTCCGTTGACCTAAG
16305557 CTATTTTC
1 -TATTTTC
16305565 TATGAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.36
20 1 0.04
21 1 0.04
22 14 0.56
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.44
Consensus pattern (19 bp):
TATTTTCCGTTGACCTAAG
Found at i:16309490 original size:51 final size:51
Alignment explanation
Indices: 16309362--16309549 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 51
16309352 TATCATTCGA
* * * *
16309362 TACACGTAGTAACCTTCACATAGTACTACACACGTGATC-AAACTTTCCAG
1 TACACGTAGTAACCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
* *
16309412 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
1 TACACGTAGTAACCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
* * ** * *
16309463 TACACATAGTAACCTGCACATAGTACTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAACCTGCACATAGTACTACACACGTGACCAAAACCT-TCCGG
* **
16309514 TACACGTAGTAGCCTGCAGTTAGTACTACACACGTG
1 TACACGTAGTAACCTGCACATAGTACTACACACGTG
16309550 TTTATAGGCA
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 35 0.30
51 81 0.69
52 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAACCTGCACATAGTACTACACACGTGACCAAAACCTTCCGG
Found at i:16314608 original size:17 final size:18
Alignment explanation
Indices: 16314583--16314626 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
16314573 GGTGAAAAGT
*
16314583 GTAATTGTGT-AAATGGG
1 GTAAATGTGTGAAATGGG
*
16314600 GTAAATGTGTGATATGGG
1 GTAAATGTGTGAAATGGG
16314618 GTAAATGTG
1 GTAAATGTG
16314627 AGATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.34
Consensus pattern (18 bp):
GTAAATGTGTGAAATGGG
Found at i:16314618 original size:18 final size:18
Alignment explanation
Indices: 16314595--16314632 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16314585 AATTGTGTAA
*
16314595 ATGGGGTAAATGTGTGAT
1 ATGGGGTAAATGTGAGAT
16314613 ATGGGGTAAATGTGAGAT
1 ATGGGGTAAATGTGAGAT
16314631 AT
1 AT
16314633 ATATGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.32
Consensus pattern (18 bp):
ATGGGGTAAATGTGAGAT
Found at i:16315049 original size:20 final size:20
Alignment explanation
Indices: 16315024--16315061 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16315014 GTCCAAGTTC
16315024 CATTTTATCTTATTTTATTT
1 CATTTTATCTTATTTTATTT
*
16315044 CATTTTATCTTGTTTTAT
1 CATTTTATCTTATTTTAT
16315062 CTTTGCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.11, G:0.03, T:0.68
Consensus pattern (20 bp):
CATTTTATCTTATTTTATTT
Found at i:16315081 original size:10 final size:10
Alignment explanation
Indices: 16315025--16315064 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
16315015 TCCAAGTTCC
16315025 ATTTTATCTT
1 ATTTTATCTT
16315035 ATTTTAT-TT
1 ATTTTATCTT
16315044 CATTTTATCTT
1 -ATTTTATCTT
*
16315055 GTTTTATCTT
1 ATTTTATCTT
16315065 TGCTTATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 2 0.07
10 23 0.85
11 2 0.07
ACGTcount: A:0.17, C:0.10, G:0.03, T:0.70
Consensus pattern (10 bp):
ATTTTATCTT
Found at i:16318820 original size:37 final size:37
Alignment explanation
Indices: 16318770--16318877 Score: 171
Period size: 37 Copynumber: 2.9 Consensus size: 37
16318760 ACCTTTAGCT
* * * *
16318770 CGGACGAAATCTCCACATGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
16318807 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
*
16318844 CGGGCAAAATCTCCACACGTAGTCATCGGGTCTT
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTT
16318878 TAGAGCCCGG
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:16319067 original size:47 final size:47
Alignment explanation
Indices: 16318996--16319693 Score: 1036
Period size: 47 Copynumber: 14.6 Consensus size: 47
16318986 CCCTTCGGGA
* * * * * *
16318996 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16319043 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16319090 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16319137 CTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16319184 CTTATCACATATATACACTTTCACATTCATCACATGGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16319231 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16319278 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16319327 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16319374 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16319423 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16319470 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16319519 CTTATCACATGTATACACTTTCATATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16319566 CTTATCACATATATATACGCTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16319615 CTTATCATATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16319662 CTTATCACATATATATACGCTTTCACATTCAT
1 CTTATCAC--ATATATACACTTTCACATTCAT
16319694 TCAAATATAC
Statistics
Matches: 592, Mismatches: 49, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
47 399 0.67
49 193 0.33
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16319342 original size:96 final size:96
Alignment explanation
Indices: 16318996--16319693 Score: 1201
Period size: 96 Copynumber: 7.3 Consensus size: 96
16318986 CCCTTCGGGA
* * * * *
16318996 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
16319059 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
16319090 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTACCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
*
16319153 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
16319184 CTTATCAC--ATATATACACTTTCACATTCATCACATGGGCTATTCGGCCTTATCACATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
16319247 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
16319278 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
16319343 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
16319374 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
16319439 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
16319470 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
*
16319535 ACTTTCATATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
16319566 CTTATCACATATATATACGCTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATGTATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
16319631 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
16319662 CTTATCACATATATATACGCTTTCACATTCAT
1 CTTATCACATATATATACACTTTCACATTCAT
16319694 TCAAATATAC
Statistics
Matches: 580, Mismatches: 20, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
93 1 0.00
94 179 0.31
96 400 0.69
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATGTATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16326050 original size:109 final size:109
Alignment explanation
Indices: 16325847--16326057 Score: 291
Period size: 109 Copynumber: 1.9 Consensus size: 109
16325837 AAGGGACGGA
* ** *
16325847 AAACCCTAGTATTACTAACTAGGGTTGTGGGCCCCTATACTTCCAGTTAGACTAGGAGTTCATTT
1 AAACCCTAATATTACTAACTAGGGTTGCCGCCCCCTATACTT-CAGTTAGACTAGGAGTTCATTT
*
16325912 TCTTAGTTGAAATAAACTTCTACAATTCAATAAGGGTGGGACAAC
65 TCTTAGTTGAAATAAACTTCTACAATTCAACAAGGGTGGGACAAC
* **
16325957 AAACCCTAATATTATTAACTAGGGTTGCCGCCCCCTATACTAT-AGTTAGACTAGGAGTTTGTTT
1 AAACCCTAATATTACTAACTAGGGTTGCCGCCCCCTATACT-TCAGTTAGACTAGGAGTTCATTT
* *
16326021 T-TCTAGTTGAAATAAATTTCTATAATTCAACAAGGGT
65 TCT-TAGTTGAAATAAACTTCTACAATTCAACAAGGGT
16326058 TCTACTTCTT
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
108 1 0.01
109 51 0.57
110 36 0.40
111 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (109 bp):
AAACCCTAATATTACTAACTAGGGTTGCCGCCCCCTATACTTCAGTTAGACTAGGAGTTCATTTT
CTTAGTTGAAATAAACTTCTACAATTCAACAAGGGTGGGACAAC
Found at i:16329849 original size:42 final size:44
Alignment explanation
Indices: 16329802--16329892 Score: 114
Period size: 45 Copynumber: 2.1 Consensus size: 44
16329792 CCTTTTCAAC
* *
16329802 CTTTTCATTTTCGAG-T-ATGCCATGGTATCTTTCAACCATGGT
1 CTTTTCATTTTCGAGATAATGCCATGATATATTTCAACCATGGT
* * *
16329844 CTTTTCCTTTTTGAGAATAATGCCATGATATATTTCAATCATGGT
1 CTTTTCATTTTCGAG-ATAATGCCATGATATATTTCAACCATGGT
16329889 CTTT
1 CTTT
16329893 CCCTTTACTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 13 0.32
44 1 0.02
45 27 0.66
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (44 bp):
CTTTTCATTTTCGAGATAATGCCATGATATATTTCAACCATGGT
Found at i:16331282 original size:22 final size:21
Alignment explanation
Indices: 16331252--16331294 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
16331242 GGAAAATATT
16331252 TTTATTTTTTAATATTAATATAA
1 TTTATTTTTT-A-ATTAATATAA
16331275 TTTA-TTTTTAATTAATATAA
1 TTTATTTTTTAATTAATATAA
16331295 ATATAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 1 0.05
22 5 0.25
23 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATTTTTTAATTAATATAA
Found at i:16333279 original size:17 final size:19
Alignment explanation
Indices: 16333236--16333278 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
16333226 GATAATGTTG
*
16333236 AAAAAATTATTTAGTTTAA
1 AAAAAATTATATAGTTTAA
16333255 AAATAAATT-TATAGTTTTAA
1 AAA-AAATTATATAG-TTTAA
16333275 AAAA
1 AAAA
16333279 TAGGATAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
AAAAAATTATATAGTTTAA
Found at i:16341841 original size:31 final size:31
Alignment explanation
Indices: 16341803--16341865 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
16341793 GTAAAGTTTG
16341803 ACAGTTAAAGGAATCGTATTAACACATATAT
1 ACAGTTAAAGGAATCGTATTAACACATATAT
16341834 ACAGTTAAAGGAATCGTATTAACACATATAT
1 ACAGTTAAAGGAATCGTATTAACACATATAT
16341865 A
1 A
16341866 AAATACTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (31 bp):
ACAGTTAAAGGAATCGTATTAACACATATAT
Found at i:16349082 original size:6 final size:7
Alignment explanation
Indices: 16349048--16349087 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
16349038 TTGCCACATC
16349048 ATAAAAA
1 ATAAAAA
* *
16349055 ATTCAACA
1 A-TAAAAA
16349063 ATAAAAA
1 ATAAAAA
16349070 ATAAAAA
1 ATAAAAA
16349077 ATAAAAA
1 ATAAAAA
16349084 ATAA
1 ATAA
16349088 TTTCTAGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 23 0.82
8 5 0.18
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (7 bp):
ATAAAAA
Found at i:16355362 original size:27 final size:26
Alignment explanation
Indices: 16355332--16355583 Score: 243
Period size: 27 Copynumber: 9.3 Consensus size: 26
16355322 TCTTCTCCTA
* *
16355332 GGGGTATAATAGTCATTTTATCCTATG
1 GGGGTAT-TTAGTCATTTTACCCTATG
* *
16355359 GGGGTATTTCGATCATTTTACCCTATA
1 GGGGTATTTAG-TCATTTTACCCTATG
* * * *
16355386 TGGGTATTTCATTCATTCTACCCTATA
1 GGGGTATTT-AGTCATTTTACCCTATG
*
16355413 GGGGTATTTCAGTCATTTTACCCTATT
1 GGGGTATTT-AGTCATTTTACCCTATG
* *
16355440 GGGGTATTTCGGTCATTTTATCCTATG
1 GGGGTATTT-AGTCATTTTACCCTATG
* * *
16355467 GGGGTATTTTGGTCATTTTACCTTATT
1 GGGGTA-TTTAGTCATTTTACCCTATG
* *
16355494 GGGGTATTCCAGTCATTTTACCTTATG
1 GGGGTATT-TAGTCATTTTACCCTATG
*
16355521 GGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTAG-TCATTTTACCCTATG
* * *
16355548 TGAGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTAG-TCATTTTACCCTATG
16355575 GGGGTATTT
1 GGGGTATTT
16355584 TCGTAATAAA
Statistics
Matches: 192, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
26 5 0.03
27 184 0.96
28 3 0.02
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (26 bp):
GGGGTATTTAGTCATTTTACCCTATG
Found at i:16355391 original size:54 final size:53
Alignment explanation
Indices: 16355332--16355583 Score: 285
Period size: 54 Copynumber: 4.7 Consensus size: 53
16355322 TCTTCTCCTA
* *
16355332 GGGGTATAATAGTCATTTTATCCTATGGGGGTATTTCGATCATTTTACCCTATAT
1 GGGGTAT-TTAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTAT-T
* * *
16355387 -GGGTATTTCATTCATTCTACCCTATAGGGGTATTTC-AGTCATTTTACCCTATT
1 GGGGTATTT-AGTCATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATT
* * * * *
16355440 GGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTTGGTCATTTTACCTTATT
1 GGGGTATTT-AGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATT
* *
16355494 GGGGTATTCCAGTCATTTTACCTTATGGGGGTATTTCGATCATTTTACCCTA-T
1 GGGGTATT-TAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATT
* *
16355547 GTGAGTATTTCGATCATTTTACCCTATGGGGGTATTT
1 G-GGGTATTTAG-TCATTTTACCCTATGGGGGTATTT
16355584 TCGTAATAAA
Statistics
Matches: 166, Mismatches: 24, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
53 6 0.04
54 160 0.96
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (53 bp):
GGGGTATTTAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATT
Found at i:16355456 original size:81 final size:80
Alignment explanation
Indices: 16355342--16355583 Score: 322
Period size: 81 Copynumber: 3.0 Consensus size: 80
16355332 GGGGTATAAT
* * *
16355342 AGTCATTTTATCCTATGGGGGTATTTCGATCATTTTACCCTATATGGGTATTTCATTCATTCTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGTGGGTATTTCA-TCATTTTAC
16355407 CCTATAGGGGTATTTC
65 CCTATAGGGGTATTTC
* * * * **
16355423 AGTCATTTTACCCTATTGGGGTATTTCGGTCATTTTATCCTATGGGGGTATTTTGGTCATTTTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGTGGGTA-TTTCATCATTTTAC
* * *
16355488 CTTATTGGGGTATTCC
65 CCTATAGGGGTATTTC
* *
16355504 AGTCATTTTACCTTATGGGGGTATTTCGATCATTTTACCCTATGTGAGTATTTCGATCATTTTAC
1 AGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGTGGGTATTTC-ATCATTTTAC
*
16355569 CCTATGGGGGTATTT
65 CCTATAGGGGTATTT
16355584 TCGTAATAAA
Statistics
Matches: 136, Mismatches: 23, Indels: 4
0.83 0.14 0.02
Matches are distributed among these distances:
80 3 0.02
81 130 0.96
82 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (80 bp):
AGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGTGGGTATTTCATCATTTTACC
CTATAGGGGTATTTC
Found at i:16357895 original size:21 final size:21
Alignment explanation
Indices: 16357857--16357898 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16357847 GAAATTAAAA
*
16357857 TGTTTTAATTTTAGTTTAATT
1 TGTTTTAATTTCAGTTTAATT
16357878 TGTTTTAATTTCCA-TTTAATT
1 TGTTTTAATTT-CAGTTTAATT
16357899 ACAAAATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (21 bp):
TGTTTTAATTTCAGTTTAATT
Found at i:16364105 original size:20 final size:20
Alignment explanation
Indices: 16364080--16364118 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16364070 AACATTCAAA
16364080 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
16364100 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
16364119 ACCATGTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:16364567 original size:20 final size:20
Alignment explanation
Indices: 16364525--16364568 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
16364515 CCCTTTCCAA
* ** *
16364525 ATTTTCTTACTTTCTTTTGC
1 ATTTTATTACTTTCCATTAC
16364545 ATTTTATTACTTTCCATTAC
1 ATTTTATTACTTTCCATTAC
16364565 ATTT
1 ATTT
16364569 ACTTTTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTATTACTTTCCATTAC
Found at i:16365314 original size:24 final size:25
Alignment explanation
Indices: 16365234--16365316 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 25
16365224 GTATGCTCTC
*
16365234 ACGAGCTGTAAATTGGTAAGCTCAT
1 ACGAGCTGAAAATTGGTAAGCTCAT
* *
16365259 ACGAGTTGAGAATTGGTAAGCTC-T
1 ACGAGCTGAAAATTGGTAAGCTCAT
*
16365283 CACGAGCT-AAAATCGGTAAGCTCAT
1 -ACGAGCTGAAAATTGGTAAGCTCAT
*
16365308 ACAAGCTGA
1 ACGAGCTGA
16365317 TTGATAATCC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 20 0.42
25 28 0.58
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
ACGAGCTGAAAATTGGTAAGCTCAT
Found at i:16375190 original size:25 final size:26
Alignment explanation
Indices: 16375158--16375212 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
16375148 TTATTAAATT
*
16375158 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
16375183 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
16375208 A-ATAT
1 ATATAT
16375213 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:16375398 original size:44 final size:45
Alignment explanation
Indices: 16375349--16375443 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
16375339 TTACACCTCT
* * *
16375349 ATTACATTCGACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
16375393 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
16375438 ATTACA
1 ATTACA
16375444 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 17 0.39
45 27 0.61
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:16375443 original size:16 final size:16
Alignment explanation
Indices: 16375424--16375491 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
16375414 GATTTGCTAT
* *
16375424 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
16375440 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16375456 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16375472 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16375488 TACA
1 TACA
16375492 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16377424 original size:51 final size:51
Alignment explanation
Indices: 16377342--16377664 Score: 253
Period size: 51 Copynumber: 6.4 Consensus size: 51
16377332 GATGAACACG
*
16377342 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACA
* * * * * ** **
16377393 TGTGTAGTACTAAGTGAAGGATACAATGTGTATCGAGACGCT--TTGGTCATG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATA-AATAATT-GTCACA
* * * * * *
16377444 TGTGTAGTACTGTGTAAAGGCTACTACATGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACA
* * * * * ***
16377495 TATGTAGTATTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATT-GTCACA
* * * *
16377546 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTG-TCACA
* ** *
16377596 TGTGTAGTACTATGTGAAGGCTAATACGTGTATCGA-AAGATAAAAGTAACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATAATTGTCACA
* *
16377647 TGGGTAGTACTGTGTGAA
1 TGTGTAGTACTATGTGAA
16377665 AAACCCCAAA
Statistics
Matches: 207, Mismatches: 55, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
49 1 0.00
50 47 0.23
51 155 0.75
52 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACA
Found at i:16377524 original size:102 final size:102
Alignment explanation
Indices: 16377338--16377633 Score: 371
Period size: 102 Copynumber: 2.9 Consensus size: 102
16377328 TATCGATGAA
* *
16377338 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* * * *
16377403 TAAGTGAAGGATACAATGTGTATCGAGACGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTATCGAAAAGCTTTGGT
* * * * * *
16377440 CATGTGTGTAGTACTGTGTAAAGGCTACTACATGAATCGATAAATGATGGTCACATATGTAGTAT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
16377505 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTATCGAAAAGCTTTGGT
* * * * * *
16377542 CACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* * *
16377605 CTATGTGAAGGCTAATACGTGTATCGAAA
65 CTAAGTGAAGGCTACTATGTGTATCGAAA
16377634 GATAAAAGTA
Statistics
Matches: 164, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
101 42 0.26
102 122 0.74
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTATCGAAAAGCTTTGGT
Found at i:16385137 original size:51 final size:50
Alignment explanation
Indices: 16385055--16385340 Score: 308
Period size: 51 Copynumber: 5.6 Consensus size: 50
16385045 GATGAACACG
* * **
16385055 TGTGTAGTACTGTGTGAAGGCTATTACGTGTATTGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATGGTCACA
* * * * * *
16385106 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATGGTCACA
* * * *
16385157 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAGATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATGGTCACA
* * *
16385208 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TATGGTCACA
* * *
16385259 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA--TGGTCACA
16385309 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
16385341 TCGAATGATA
Statistics
Matches: 194, Mismatches: 34, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
50 40 0.21
51 152 0.78
52 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATGGTCACA
Found at i:16385231 original size:102 final size:102
Alignment explanation
Indices: 16385055--16385332 Score: 416
Period size: 102 Copynumber: 2.7 Consensus size: 102
16385045 GATGAACACG
* * *
16385055 TGTGTAGTACTGTGTGAAGGCTATTACGTGTATTGATAAATAATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
*
16385120 TGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACA
66 TGAAGGCTACAATGTGTACCGAAAAGCTTTGGTCACA
* *
16385157 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAGATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
*
16385222 TGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACA
66 TGAAGGCTACAATGTGTACCGAAAAGCTTTGGTCACA
* * * * * *
16385259 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTACTAA
16385322 GTGAAGGCTAC
65 GTGAAGGCTAC
16385333 TACGTGTATC
Statistics
Matches: 160, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
101 32 0.20
102 128 0.80
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACTAAG
TGAAGGCTACAATGTGTACCGAAAAGCTTTGGTCACA
Found at i:16385376 original size:101 final size:102
Alignment explanation
Indices: 16385055--16385377 Score: 328
Period size: 102 Copynumber: 3.2 Consensus size: 102
16385045 GATGAACACG
* * ** *
16385055 TGTGTAGTACTGTGTGAAGGCTATTACGTGTATTGATAAATA-ATGGTCACATGTGTAGTACTAA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAA-ACATGATCACATGTGTAGTACTAA
* * * * *** *
16385119 GTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACA
65 GTGAAGGCTACTACGTGTACCGAAAAGATAAAGTAACA
* * ** *
16385157 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAGATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAG
* * *** *
16385222 TGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACA
66 TGAAGGCTACTACGTGTACCGAAAAGATAAAGTAACA
* * * *
16385259 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTACTATG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAG
* *
16385323 TGAAGGCTACTACGTGTATCG-AATGATAAAAGTAACA
66 TGAAGGCTACTACGTGTACCGAAAAGAT-AAAGTAACA
*
16385360 TGGGTAGTACTGTGTGAA
1 TGTGTAGTACTGTGTGAA
16385378 AAACCCCAAA
Statistics
Matches: 193, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
100 4 0.02
101 62 0.32
102 127 0.66
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGAACCGATAAAACATGATCACATGTGTAGTACTAAG
TGAAGGCTACTACGTGTACCGAAAAGATAAAGTAACA
Found at i:16387474 original size:31 final size:31
Alignment explanation
Indices: 16387438--16387531 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
16387428 GATATTTAAT
16387438 TTAATTTAATATTTATCTAGATAGTATTTTA
1 TTAATTTAATATTTATCTAGATAGTATTTTA
* **
16387469 TTAATTTAATA-TTAAC-ATGAT-GTATTAAA
1 TTAATTTAATATTTATCTA-GATAGTATTTTA
* * *
16387498 TTCATTTTGATATTTATCTAGATAATATTTTA
1 TT-AATTTAATATTTATCTAGATAGTATTTTA
16387530 TT
1 TT
16387532 TAGTATTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
29 9 0.18
30 14 0.29
31 18 0.37
32 8 0.16
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (31 bp):
TTAATTTAATATTTATCTAGATAGTATTTTA
Found at i:16388467 original size:5 final size:5
Alignment explanation
Indices: 16388459--16388486 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
16388449 TATTATATAT
16388459 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
16388487 TAAAAGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:16388516 original size:15 final size:14
Alignment explanation
Indices: 16388453--16388516 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 14
16388443 TATATATATT
16388453 ATATATATAAAATA
1 ATATATATAAAATA
* *
16388467 AAATAAAATAAAATA
1 ATAT-ATATAAAATA
*
16388482 A-A-ATATAAAAGA
1 ATATATATAAAATA
16388494 ATAGTATATAAAAT-
1 ATA-TATATAAAATA
16388508 ATATATATA
1 ATATATATA
16388517 CAAACGTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
12 9 0.22
13 7 0.17
14 7 0.17
15 18 0.44
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
ATATATATAAAATA
Found at i:16388549 original size:24 final size:26
Alignment explanation
Indices: 16388473--16388568 Score: 65
Period size: 26 Copynumber: 3.7 Consensus size: 26
16388463 AATAAAATAA
*
16388473 AATAAAATAAAATATAAAAGAA-TA-G
1 AATAATATAAAATATAAAA-AAGTATG
* * * *
16388498 TATATAAAATATATATATACAAACGTAT-
1 -A-ATAATATA-AAATATAAAAAAGTATG
*
16388526 AA-AATGTAAAATATAAAAAAGTATG
1 AATAATATAAAATATAAAAAAGTATG
*
16388551 AATAGTATAAAATATAAA
1 AATAATATAAAATATAAA
16388569 TAGATATACG
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
24 13 0.24
25 6 0.11
26 15 0.28
27 10 0.19
28 10 0.19
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (26 bp):
AATAATATAAAATATAAAAAAGTATG
Found at i:16388741 original size:21 final size:23
Alignment explanation
Indices: 16388703--16388746 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
16388693 CATATGCGCG
16388703 TATATACATAAAAGTAATAATAA
1 TATATACATAAAAGTAATAATAA
*
16388726 TATATA-ATACAA-TAATAATAA
1 TATATACATAAAAGTAATAATAA
16388747 CGAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TATATACATAAAAGTAATAATAA
Found at i:16390172 original size:50 final size:48
Alignment explanation
Indices: 16390118--16390235 Score: 130
Period size: 48 Copynumber: 2.4 Consensus size: 48
16390108 AAACCAAATT
* *
16390118 CGCCGTTGTGACTCCAATCTGTTCCACTGCACTGCCAGGGAAGTAAGATC
1 CGCCGTTGTGACTTCAATCTGTTCCACTGCAC--CCAAGGAAGTAAGATC
* * * * *
16390168 CGCCGTCGT-AGCTTCAATCTGTTCCACTTCACCTAAGGAGGTAAGATT
1 CGCCGTTGTGA-CTTCAATCTGTTCCACTGCACCCAAGGAAGTAAGATC
*
16390216 CGCCGTTGTGGCTTCAATCT
1 CGCCGTTGTGACTTCAATCT
16390236 TTTTAATTGC
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
48 29 0.51
49 1 0.02
50 27 0.47
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.28
Consensus pattern (48 bp):
CGCCGTTGTGACTTCAATCTGTTCCACTGCACCCAAGGAAGTAAGATC
Found at i:16390335 original size:100 final size:100
Alignment explanation
Indices: 16390163--16390933 Score: 1014
Period size: 100 Copynumber: 7.8 Consensus size: 100
16390153 CAGGGAAGTA
*
16390163 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTTCA-C-CTAAGGAGGTAAGATTCGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
*
16390226 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACG
66 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
* * * *
16390261 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCATCGCTAAGGAGGTAATATTCGCTGTTGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
*
16390326 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
* *
16390361 AGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
16390426 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
* * * *
16390461 AGATTCGCCGTCGTAGCTTCAATCTGTTCTAGTGCACTGCTAAGGAGGTAAGATTCGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
* *
16390526 GCTTCAATCTTTTTAAATGCAATGTCGGGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
** * * * *** *
16390561 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTATACCACCAGGGAAACAAGATTTGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
**
16390626 GCTTCAATC-TTTTAATTGCAATGTTAAGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
* * * * * * * * *** * *
16390660 AGATCCACCGTCGTGGCTTTAATCGGTTCCACTACACCACCAGGGAAACAAGACTCGCCATTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
*
16390725 GCTTCAATC-TTTTAATTGCAATGTCGGGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
* * * * *
16390759 AGATTCGCTGTCGTAGCTTCAATCTGTTCCACTGTACCGCTAAGGAAGTAAGATTCGCCATTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
*
16390824 GCTTCAATCTTTTTAATTGCAATGTTG-GAGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGAG-GAAACC
* * * ***
16390859 AGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGC-CAGGAAAACAAGATTCGCCGTTGT
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGG-AGGTAAGATTCGCCGTTGT
16390923 GGCTTCAATCT
65 GGCTTCAATCT
16390934 GATCCACTGT
Statistics
Matches: 595, Mismatches: 73, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
98 35 0.06
99 174 0.29
100 386 0.65
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (100 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
Found at i:16390815 original size:398 final size:398
Alignment explanation
Indices: 16390163--16390933 Score: 1113
Period size: 398 Copynumber: 1.9 Consensus size: 398
16390153 CAGGGAAGTA
***
16390163 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTTCACCTAAGGAGGTAAGATTCGCCGTTGTGGC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTTCACCTAAGGAAACAAGATTCGCCGTTGTGGC
* * * *
16390228 TTCAATCTTTTTAATTGCAATGTCGAGGAAACGAGATCCGCCGTCGTAGCTTCAATCTGTTCCAC
66 TTCAATCTTTTTAATTGCAATGTCAAGGAAACCAGATCCACCGTCGTAGCTTCAATCGGTTCCAC
* * * * *** * * **
16390293 TGCATCGCTAAGGAGGTAATATTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
131 TACACCACCAAGGAAACAAGACTCGCCATTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
* *
16390358 ACCAGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTT
196 ACCAGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATT
16390423 GTGGCTTCAATCTTTTTAATTGCAATGTC-GAGGAAACCAGAT-TCGCCGTCGTAGCTTCAATCT
261 GTGGCTTCAATCTTTTTAATTGCAATGTCGGA-GAAACCAGATCT-GCCGTCGTAGCTTCAATCT
* * ***
16390486 GTTCTAGTGCACTGCTAAGG-AGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAATGCAATG
324 GTTCCACTGCACTGC-AAGGAAAACAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAATGCAATG
16390550 TCGGGGAAACC
388 TCGGGGAAACC
* *
16390561 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTATACCACC-AGGGAAACAAGATTTGCCGTTGT
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACT-T--CACCTAAGGAAACAAGATTCGCCGTTGT
* * *
16390625 GGCTTCAATC-TTTTAATTGCAATGTTAAGGAAACCAGATCCACCGTCGTGGCTTTAATCGGTTC
63 GGCTTCAATCTTTTTAATTGCAATGTCAAGGAAACCAGATCCACCGTCGTAGCTTCAATCGGTTC
* *
16390689 CACTACACCACCAGGGAAACAAGACTCGCCATTGTGGCTTCAATC-TTTTAATTGCAATGTCGGG
128 CACTACACCACCAAGGAAACAAGACTCGCCATTGTAGCTTCAATCTTTTTAATTGCAATGTCGGG
* * *
16390753 GAAACCAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTGTACCGCTAAGGAAGTAAGATTCGCC
193 GAAACCAGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCC
*
16390818 ATTGTGGCTTCAATCTTTTTAATTGCAATGTTGGAGAAACCAGATCTGCCGTCGTAGCTTCAATC
258 ATTGTGGCTTCAATCTTTTTAATTGCAATGTCGGAGAAACCAGATCTGCCGTCGTAGCTTCAATC
*
16390883 TGTTCCACTGCACTGCCAGGAAAACAAGATTCGCCGTTGTGGCTTCAATCT
323 TGTTCCACTGCACTGCAAGGAAAACAAGATTCGCCGTTGTGGCTTCAATCT
16390934 GATCCACTGT
Statistics
Matches: 330, Mismatches: 37, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
397 3 0.01
398 212 0.64
399 83 0.25
400 28 0.08
401 4 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (398 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTTCACCTAAGGAAACAAGATTCGCCGTTGTGGC
TTCAATCTTTTTAATTGCAATGTCAAGGAAACCAGATCCACCGTCGTAGCTTCAATCGGTTCCAC
TACACCACCAAGGAAACAAGACTCGCCATTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
ACCAGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATT
GTGGCTTCAATCTTTTTAATTGCAATGTCGGAGAAACCAGATCTGCCGTCGTAGCTTCAATCTGT
TCCACTGCACTGCAAGGAAAACAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAATGCAATGTCG
GGGAAACC
Found at i:16390940 original size:50 final size:49
Alignment explanation
Indices: 16390106--16390951 Score: 349
Period size: 50 Copynumber: 17.0 Consensus size: 49
16390096 GCAACGTCGG
* * *
16390106 GGAAACCAA-ATTCGCCGTTGTGACTCCAATCTGTTCCACTGCACTGCCA
1 GGAAA-CAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGCCA
** * * * *
16390155 GGGAAGTAAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTTC-A--CCTAA
1 -GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGCC--A
*** * ** * *
16390204 GGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGA
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATG-CCA
* * * * *
16390254 GGAAACGAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGC-ATCGCTAA
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAAT-GC-CA
*** * * * * ** * **
16390304 GGAGGTAATATTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATG-CCA
* * * * * * ** *
16390354 GGAAACCAGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAA
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGC-CA
*** * ** * *
16390404 GGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGA
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATG-CCA
* * * * * * *
16390454 GGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCTAGTGCACTGCTAA
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGC-CA
*** * ** * **
16390504 GGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAATGCAATGTCGG
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATG-CCA
* * * * ** ***
16390554 GGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTATACCACCA
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGCCA
* ** * **
16390603 GGGAAACAAGATTTGCCGTTGTGGCTTCAATCT-TTTAATTGCAATGTTAA
1 -GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATG-CCA
* * * * * * * ***
16390653 GGAAACCAGATCCACCGTCGTGGCTTTAATCGGTTCCACTACACCACCA
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGCCA
* * ** * **
16390702 GGGAAACAAGACTCGCCATTGTGGCTTCAATCT-TTTAATTGCAATGTCGG
1 -GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATG-CCA
* * * * * ** *
16390752 GGAAACCAGATTCGCTGTCGTAGCTTCAATCTGTTCCACTGTACCGCTAA
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGC-CA
** * * ** * ***
16390802 GGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTTG
1 GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGCCA
* * * *
16390851 GAGAAACCAGA-TCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCCA
1 G-GAAACAAGATTC-GCCGTTGTGGCTTCAATCTGTTCCACTGCAATGCCA
* *
16390901 GGAAAACAAGATTCGCCGTTGTGGCTTCAATCTGATCCACTGTAATGCCA
1 GG-AAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGCCA
16390951 G
1 G
16390952 AGAGATAGGA
Statistics
Matches: 551, Mismatches: 219, Indels: 52
0.67 0.27 0.06
Matches are distributed among these distances:
47 2 0.00
48 33 0.06
49 78 0.14
50 430 0.78
51 7 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (49 bp):
GGAAACAAGATTCGCCGTTGTGGCTTCAATCTGTTCCACTGCAATGCCA
Found at i:16391243 original size:167 final size:167
Alignment explanation
Indices: 16390866--16391275 Score: 469
Period size: 167 Copynumber: 2.5 Consensus size: 167
16390856 ACCAGATCTG
* * * * ** * * *
16390866 CCGTCGTAGCTTCAATCTGTTCCACTGCACTGCCAGGAAAACAAGATTCGCCGTTGTGGCTTCAA
1 CCGTCGTGGCTTCAATCTGCTCCACTGCAATGCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAA
* * * ***
16390931 TCTGATCCACTGTAATGCCAGAGAGATAGGATTCGCTGCCCACAGCTTTAATTTGCTCCACTTCA
66 TCTGATCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTCA
* *
16390996 GCCAATTCAAGTCTTAACGCCAGAGAGATAAGATTCA
131 GCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCA
* ** *
16391033 CCGTCGTGGCTTCAATCTGCTCCATTGCAATGCCAAAGAAGTAAAATTCACCGTTGCGGCTTTAA
1 CCGTCGTGGCTTCAATCTGCTCCACTGCAATGCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAA
* * * *
16391098 TCTGTTCTACTATAATGTCAAAGTGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTCA
66 TCTGATCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTCA
** * *
16391163 GTTAATCCAAGCCTTAACGCTAGGGAGATAAGATTCA
131 GCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCA
* ** * ** * *
16391200 CCGTCGTGGCTTTAATCTGCTCCACTATAATGCCAGGGAAGTAAGATTTGCCGTTGTGCCTTCAA
1 CCGTCGTGGCTTCAATCTGCTCCACTGCAATGCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAA
* *
16391265 TCCGTTCCACT
66 TCTGATCCACT
16391276 GCAACATCAA
Statistics
Matches: 200, Mismatches: 43, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
167 200 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (167 bp):
CCGTCGTGGCTTCAATCTGCTCCACTGCAATGCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAA
TCTGATCCACTATAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTCA
GCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCA
Found at i:16391408 original size:88 final size:88
Alignment explanation
Indices: 16391302--16391466 Score: 240
Period size: 88 Copynumber: 1.9 Consensus size: 88
16391292 AAGACTGATG
* * * *
16391302 TCTTCGATTTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCCATTTTCAACCTACTCCACAAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACAAC
*
16391367 TGCCCAGGGAGACAAGGCTGGTA
66 TGCCCAAGGAGACAAGGCTGGTA
* * * *
16391390 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACATGATCTGCTATTTTCAACTTACTCCACTAC
1 TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACAAC
*
16391455 TGCTCAAGGAGA
66 TGCCCAAGGAGA
16391467 TAATGTTGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (88 bp):
TCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCCATTTTCAACCTACTCCACAAC
TGCCCAAGGAGACAAGGCTGGTA
Found at i:16395296 original size:18 final size:18
Alignment explanation
Indices: 16395273--16395308 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16395263 CAATCATATC
16395273 GTCAACATAAACCTCAAT
1 GTCAACATAAACCTCAAT
16395291 GTCAACATAAACCTCAAT
1 GTCAACATAAACCTCAAT
16395309 CTCCTTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (18 bp):
GTCAACATAAACCTCAAT
Found at i:16396205 original size:23 final size:23
Alignment explanation
Indices: 16396179--16396232 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
16396169 TGAAAAAAAT
*
16396179 ATGATTATG-AAATGAATAAAAGA
1 ATGATTA-GAAAAAGAATAAAAGA
16396202 ATGATGTAGAAAAAGAATAAAAGA
1 ATGAT-TAGAAAAAGAATAAAAGA
*
16396226 ATAATTA
1 ATGATTA
16396233 CTCAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (23 bp):
ATGATTAGAAAAAGAATAAAAGA
Found at i:16396263 original size:27 final size:27
Alignment explanation
Indices: 16396211--16396267 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
16396201 AATGATGTAG
*
16396211 AAAAAGAATAAAAGAATAATTACTCAA
1 AAAAAGAATAAAAGAATAACTACTCAA
16396238 AAAAAGAATAAAAGAAT-ACTAGCTCAA
1 AAAAAGAATAAAAGAATAACTA-CTCAA
16396265 AAA
1 AAA
16396268 TGCCTACGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (27 bp):
AAAAAGAATAAAAGAATAACTACTCAA
Found at i:16396799 original size:18 final size:18
Alignment explanation
Indices: 16396776--16396819 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
16396766 TTCCTAATCC
16396776 TTTTCCCAGTACAACTCA
1 TTTTCCCAGTACAACTCA
*
16396794 TTTTCCCAGTACAACTCC
1 TTTTCCCAGTACAACTCA
16396812 TTTTCCCA
1 TTTTCCCA
16396820 CCATTAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.36, G:0.05, T:0.36
Consensus pattern (18 bp):
TTTTCCCAGTACAACTCA
Found at i:16415601 original size:44 final size:43
Alignment explanation
Indices: 16415464--16416048 Score: 203
Period size: 44 Copynumber: 13.5 Consensus size: 43
16415454 AAATTAAGTT
* * ***
16415464 TTATCTCCCTAAAG-TGCAGTGGAGCAGACTGAAGATGGCAAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGA-TTAAAACCTC-AATC
* * *
16415508 TTATCTCCCTAAAGTTGTAGTTGAGCAGATTAAAGCCGAT-AATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACC--TCAATC
* *
16415552 CTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAACCTCAGATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCTCA-ATC
* * * *** * *
16415596 TTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCT-AGTC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCTCAATC
* * * * * * * *
16415636 ATATCTCTCTGAGGTTGTAGTGGAGCAGACTACGCAA--GCAAGTC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTA--AAACCTCAA-TC
* * * ***
16415680 TTATC-CTCTTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCAAATC
1 TTATCTC-CCTAAAGTTGCAGTGGA-GCAGATTAAA-ACCTC-AATC
* * *
16415725 TTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAGCCGAT-AATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACC--TCAATC
* * * * *
16415769 CTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCTCA-ATC
* * *** * *
16415813 TTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCATCT-AGTC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCTCAATC
* * * * ** *
16415853 TTATCTCCCTGAACTTGTAGTGGAGCAGACT-AAACAAGCAGGTC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAAC-CTCA-ATC
* * * ****
16415897 TTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGAAATC
1 TTATCTC-CCTAAAGTTGCAGTGGA-GCAGA-TTAAAACCTCAATC
* * * *
16415941 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGACAATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACC-TCAATC
* * * * * *
16415985 CTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCACAGATC
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCTCA-ATC
* *
16416029 TTATCTCTCTGAAGTTGCAG
1 TTATCTCCCTAAAGTTGCAG
16416049 AGAGAGATCG
Statistics
Matches: 406, Mismatches: 99, Indels: 72
0.70 0.17 0.12
Matches are distributed among these distances:
40 37 0.09
41 17 0.04
42 11 0.03
43 30 0.07
44 257 0.63
45 48 0.12
46 6 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCTCAATC
Found at i:16415873 original size:217 final size:216
Alignment explanation
Indices: 16415478--16416099 Score: 973
Period size: 217 Copynumber: 2.9 Consensus size: 216
16415468 CTCCCTAAAG
* *
16415478 TGCAGTG-GAGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGTAGTTGAGCAGATTAAA
1 TGCAGTGAG-GCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAG-TGAGCAGATTAAA
* * * *
16415542 GCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAACCTCAGATCTTATCTCTCTG
64 GCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTG
* * * **
16415607 AAGTTGCAGAGAGCAGATCGCATCTAGTCATATCTCTCTGAGGTTGTAGTGGAGCAGACTACGCA
129 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAACA
*
16415672 AGCAAGTCTTATCCTCTTGAAGT
194 AGCAAGTCTTATCCTCCTGAAGT
*
16415695 TGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAAGCAGATTAAAG
1 TGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTG-AGCAGATTAAAG
* *
16415760 CCGATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAA
65 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGA
*
16415825 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAACTTGTAGTGGAGCAGACTAAACAA
130 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAACAA
*
16415890 GCAGGTCTTATCCTCCTGAAGT
195 GCAAGTCTTATCCTCCTGAAGT
*
16415912 TGCAGTGAGGCAGACTGAAGATGG-AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG
1 TGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGT-GAGCAGATTAAAG
* * *
16415976 CCGACAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGA
65 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGA
* *
16416041 AGTTGCAGAGAG-AGATCGCATCTAGTCTTATC-CCCTGAAGTTGCAGTGGAACAGACTAA
130 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAA
16416100 GTCAAGCTGA
Statistics
Matches: 375, Mismatches: 27, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
214 24 0.06
215 20 0.05
216 111 0.30
217 219 0.58
218 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (216 bp):
TGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGAGCAGATTAAAGC
CGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAA
GTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAACAAG
CAAGTCTTATCCTCCTGAAGT
Found at i:16415899 original size:84 final size:85
Alignment explanation
Indices: 16415770--16415925 Score: 192
Period size: 84 Copynumber: 1.8 Consensus size: 85
16415760 CCGATAATCC
* * * * *
16415770 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTAT-CTCTCTAAAGTTGCAGA
1 TATCTCCCTGAACTTGCAGTGGAGCAGACTAAAACAACAGATCTTATCCTC-CTAAAGTTGCAGA
16415834 GA-GCAGATCGCATCTAGTCT
65 GAGGCAGATCGCATCTAGTCT
* * * *
16415854 TATCTCCCTGAACTTGTAGTGGAGCAGACT-AAACAAGCAGGTCTTATCCTCCTGAAGTTGCAGT
1 TATCTCCCTGAACTTGCAGTGGAGCAGACTAAAACAA-CAGATCTTATCCTCCTAAAGTTGCAGA
16415918 GAGGCAGA
65 GAGGCAGA
16415926 CTGAAGATGG
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
83 5 0.08
84 47 0.78
85 8 0.13
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (85 bp):
TATCTCCCTGAACTTGCAGTGGAGCAGACTAAAACAACAGATCTTATCCTCCTAAAGTTGCAGAG
AGGCAGATCGCATCTAGTCT
Found at i:16424147 original size:15 final size:15
Alignment explanation
Indices: 16424127--16424157 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
16424117 CTTATCGGCC
16424127 TAAACTGTGTAAGGT
1 TAAACTGTGTAAGGT
16424142 TAAACTGTGTAAGGT
1 TAAACTGTGTAAGGT
16424157 T
1 T
16424158 TGTAGGGTTC
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:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (15 bp):
TAAACTGTGTAAGGT
Found at i:16429379 original size:25 final size:25
Alignment explanation
Indices: 16429340--16429433 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
16429330 TCATGTACAT
*
16429340 GTATGCTCA-TACGAGCTGTGAATCG
1 GTATGCTCACT-CGAGCTGTAAATCG
16429365 GTATGCTCACTCGAGCTGTAAATCG
1 GTATGCTCACTCGAGCTGTAAATCG
* * **
16429390 GTATGCTCTCACGAGCTACAAATCG
1 GTATGCTCACTCGAGCTGTAAATCG
* *
16429415 ATATTCTCA-TACGAGCTGT
1 GTATGCTCACT-CGAGCTGT
16429434 GGGTCAAAAC
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 55 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTGTAAATCG
Found at i:16432477 original size:29 final size:30
Alignment explanation
Indices: 16432442--16432548 Score: 103
Period size: 29 Copynumber: 3.7 Consensus size: 30
16432432 CAGCCTTTTC
*
16432442 GGCTATCTCAATTAAAAGGAAAG-CTTTGT
1 GGCTATCTCTATTAAAAGGAAAGACTTTGT
* * * *
16432471 GGTTATCTTTGTTAAAAGG-AAGTCTTTGT
1 GGCTATCTCTATTAAAAGGAAAGACTTTGT
* *
16432500 GGCTATTTCTACTAAAA-GAAAGACTTTGT
1 GGCTATCTCTATTAAAAGGAAAGACTTTGT
* * *
16432529 GGCAATCACTGTTAAAAGGA
1 GGCTATCTCTATTAAAAGGA
16432549 TGCCTTTGTG
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
28 4 0.07
29 54 0.90
30 2 0.03
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (30 bp):
GGCTATCTCTATTAAAAGGAAAGACTTTGT
Found at i:16432489 original size:58 final size:58
Alignment explanation
Indices: 16432420--16432560 Score: 151
Period size: 58 Copynumber: 2.4 Consensus size: 58
16432410 TATGGCTATA
* * *
16432420 TTTGTTTAAAGGCAGCCTTT-TCGGCTATCTCAATTAAAAGGAAAG-CTTTGTGGTTATC
1 TTTGTTAAAAGGAAGCCTTTGT-GGCTATCTCAACTAAAA-GAAAGACTTTGTGGTTATC
* * * **
16432478 TTTGTTAAAAGGAAGTCTTTGTGGCTATTTCTACTAAAAGAAAGACTTTGTGGCAATC
1 TTTGTTAAAAGGAAGCCTTTGTGGCTATCTCAACTAAAAGAAAGACTTTGTGGTTATC
** *
16432536 ACTGTTAAAAGGATGCCTTTGTGGC
1 TTTGTTAAAAGGAAGCCTTTGTGGC
16432561 AACACTCTGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 5 0.07
58 63 0.91
59 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (58 bp):
TTTGTTAAAAGGAAGCCTTTGTGGCTATCTCAACTAAAAGAAAGACTTTGTGGTTATC
Found at i:16435920 original size:26 final size:27
Alignment explanation
Indices: 16435876--16435931 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
16435866 TCTATATTAA
16435876 ACAATTTTACCCCCAAT-AAAATTTTG
1 ACAATTTTACCCCCAATAAAAATTTTG
* * *
16435902 ACAATTTTACTCTCGATAAAAAATTTTG
1 ACAATTTTACCCCCAAT-AAAAATTTTG
16435930 AC
1 AC
16435932 GGTTTACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
28 11 0.44
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (27 bp):
ACAATTTTACCCCCAATAAAAATTTTG
Found at i:16439410 original size:157 final size:157
Alignment explanation
Indices: 16439115--16439425 Score: 489
Period size: 157 Copynumber: 2.0 Consensus size: 157
16439105 TTAATATGAC
* * *
16439115 ATAATTTTGTATCATTCAATAAGAAAGATTTAACGTGTAAAACGTATCATTCATTTGACCATGTC
1 ATAATTCTGTATCATTCAATAAGAAAGATTTAACATGTAAAACGTATCATCCATTTGACCATGTC
* * *
16439180 AATTCACATACATATTCTATTTTTTTAAACAAATAACTTTGACACTAATATCGCATTTTGGAACG
66 AATTCACATACATATTCCATTTTTTTAAACAAATAACTCTAACACTAATATCGCATTTTGGAACG
*
16439245 ACGAAAATGTGCAAGTGTACACAAGTT
131 ACGAAAATGTGCAAGTCTACACAAGTT
*
16439272 ATAATTCTGTATCATTCAATAAGAAAGATTTAACATGTAAAATGTATCATCCA-TTGACCATGTC
1 ATAATTCTGTATCATTCAATAAGAAAGATTTAACATGTAAAACGTATCATCCATTTGACCATGTC
* * *
16439336 AATTGACATACATATTCCATTTTTTTAAAACACATAACTCTAACACTAATATCGCATTTTGGAAT
66 AATTCACATACATATTCCATTTTTTT-AAACAAATAACTCTAACACTAATATCGCATTTTGGAAC
* *
16439401 GATGGAAATGTGCAAGTCTACACAA
130 GACGAAAATGTGCAAGTCTACACAA
16439426 TCGTAACAAG
Statistics
Matches: 140, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
156 35 0.25
157 105 0.75
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (157 bp):
ATAATTCTGTATCATTCAATAAGAAAGATTTAACATGTAAAACGTATCATCCATTTGACCATGTC
AATTCACATACATATTCCATTTTTTTAAACAAATAACTCTAACACTAATATCGCATTTTGGAACG
ACGAAAATGTGCAAGTCTACACAAGTT
Found at i:16449226 original size:22 final size:21
Alignment explanation
Indices: 16449190--16449244 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
16449180 CACGTAATTG
* *
16449190 AACAAAAC-AAAACAAGAACT
1 AACAAAACAAAAACAAAAACA
*
16449210 AACATAGACAAAAACAAAAACA
1 AACA-AAACAAAAACAAAAACA
16449232 AACAAAACAAAAA
1 AACAAAACAAAAA
16449245 ATTACTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 11 0.38
22 14 0.48
ACGTcount: A:0.75, C:0.18, G:0.04, T:0.04
Consensus pattern (21 bp):
AACAAAACAAAAACAAAAACA
Found at i:16449278 original size:25 final size:25
Alignment explanation
Indices: 16449232--16449279 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16449222 AACAAAAACA
* *
16449232 AACAAAACAAAAAATTACTTAATTG
1 AACAAAACAAAAAATAAATTAATTG
16449257 AACAAAACAAAACAA-AAATTAAT
1 AACAAAACAAAA-AATAAATTAAT
16449280 GTAACTCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (25 bp):
AACAAAACAAAAAATAAATTAATTG
Found at i:16451596 original size:42 final size:42
Alignment explanation
Indices: 16451467--16451693 Score: 185
Period size: 42 Copynumber: 5.4 Consensus size: 42
16451457 CTTGGTGTAT
* * *
16451467 TCAGCATTTAGCAACCACC-TTA-AATTCAGTGATACAGGGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATGATACGGGGAA
* * * * * *
16451508 TCAACACATAGTAA-CTCCTTTCACAATCAAAGATACGATGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACG-GGGAA
* * * *
16451551 TCAGTACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
* *
16451593 TCAGCACATAGCAATC-CCTTTCACAATCAAAT-ATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATC-AATGATACGG-GGAA
* * * *
16451636 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGAGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
*
16451678 TCAACACTTAGCAACC
1 TCAGCACTTAGCAACC
16451694 CCTCGGGGAA
Statistics
Matches: 145, Mismatches: 31, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
40 3 0.02
41 17 0.12
42 58 0.40
43 56 0.39
44 11 0.08
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGGAA
Found at i:16451616 original size:85 final size:85
Alignment explanation
Indices: 16451467--16451692 Score: 289
Period size: 85 Copynumber: 2.7 Consensus size: 85
16451457 CTTGGTGTAT
* *
16451467 TCAGCATTTAGCAACCACC-TTAAATTCAGTGATACAGGGAATCAACACATAGTAACTCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAACACATAGCAACTCCTTTCA
16451531 CAATCAAAGATACGATGGAA
66 CAATCAAAGATACGATGGAA
* * * *
16451551 TCAGTACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAA-TCCCTTTC
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAACACATAGCAACT-CCTTTC
* *
16451615 ACAATCAAATATACGGTGGAA
65 ACAATCAAAGATACGATGGAA
* * * *
16451636 TCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTC-GAGGAATCAACACTTAGCAAC
1 TCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACAG-GGAATCAACACATAGCAAC
16451693 CCCTCGGGGA
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
84 19 0.16
85 102 0.84
86 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (85 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAACACATAGCAACTCCTTTCA
CAATCAAAGATACGATGGAA
Found at i:16457585 original size:45 final size:45
Alignment explanation
Indices: 16457536--16457661 Score: 135
Period size: 45 Copynumber: 2.8 Consensus size: 45
16457526 GTTTGATTCG
* * *
16457536 TGATGCCATAGCGTCTTTCAACTATGGTTTTACTCGATAAAATCA
1 TGATGCCATAACGTCTTTCAATTATGGTCTTACTCGATAAAATCA
* * * * * **
16457581 TGATGTCATACCGTCTTTTAGTTATAGTCTTACTCGATGGAATCA
1 TGATGCCATAACGTCTTTCAATTATGGTCTTACTCGATAAAATCA
* * *
16457626 CGATTCCATAACATCTTTCAATTATGGTCTTACTCG
1 TGATGCCATAACGTCTTTCAATTATGGTCTTACTCG
16457662 TTTCTGGTAT
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAATTATGGTCTTACTCGATAAAATCA
Found at i:16468248 original size:40 final size:40
Alignment explanation
Indices: 16468191--16468370 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
16468181 ATTATTGAAC
* * * *
16468191 GATTGCACTTATGTGCCCCTATTTGTACCTCGGTACCTCT
1 GATTGCACTTACGTGCCCCTGTTTGTACCTCAGTACCCCT
*
16468231 GATTGCACTTACATGCCCCTGTTTGTACCTCAGTACCCCT
1 GATTGCACTTACGTGCCCCTGTTTGTACCTCAGTACCCCT
* * *
16468271 GATTGCACTTACGTGCTCCTGTTTGTACTTTAGTACCCCT
1 GATTGCACTTACGTGCCCCTGTTTGTACCTCAGTACCCCT
*
16468311 GATTGCACTTACGTGCCCCTGTTTGTACTTC-GATACCCCT
1 GATTGCACTTACGTGCCCCTGTTTGTACCTCAG-TACCCCT
* * *
16468351 AAATGCACTTTCGTGCCCCT
1 GATTGCACTTACGTGCCCCT
16468371 ATTTATACTC
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
39 1 0.01
40 124 0.99
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.36
Consensus pattern (40 bp):
GATTGCACTTACGTGCCCCTGTTTGTACCTCAGTACCCCT
Found at i:16468340 original size:20 final size:20
Alignment explanation
Indices: 16468197--16468340 Score: 96
Period size: 20 Copynumber: 7.2 Consensus size: 20
16468187 GAACGATTGC
* *
16468197 ACTTATGTGCCCCTATTTGT
1 ACTTACGTGCCCCTGTTTGT
* * * * *
16468217 ACCT-CGGTACCTCTGATTGC
1 ACTTAC-GTGCCCCTGTTTGT
*
16468237 ACTTACATGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
* * * *
16468257 ACCT-CAGTACCCCTGATTGC
1 ACTTAC-GTGCCCCTGTTTGT
*
16468277 ACTTACGTGCTCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
* * *
16468297 ACTTTA-GTACCCCTGATTGC
1 AC-TTACGTGCCCCTGTTTGT
16468317 ACTTACGTGCCCCTGTTTGT
1 ACTTACGTGCCCCTGTTTGT
16468337 ACTT
1 ACTT
16468341 CGATACCCCT
Statistics
Matches: 88, Mismatches: 30, Indels: 12
0.68 0.23 0.09
Matches are distributed among these distances:
19 4 0.05
20 79 0.90
21 5 0.06
ACGTcount: A:0.15, C:0.31, G:0.17, T:0.38
Consensus pattern (20 bp):
ACTTACGTGCCCCTGTTTGT
Found at i:16471860 original size:20 final size:20
Alignment explanation
Indices: 16471824--16471875 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
16471814 TTTACAAACA
*
16471824 AAAATAT-AATCTTAAAAAT
1 AAAATATAAATATTAAAAAT
* *
16471843 TAAATCTAAATATTAAAAAT
1 AAAATATAAATATTAAAAAT
16471863 AAAATATAAATAT
1 AAAATATAAATAT
16471876 ATAATATACA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATAAATATTAAAAAT
Found at i:16473654 original size:23 final size:23
Alignment explanation
Indices: 16473628--16473721 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
16473618 AAGTTAGAAG
16473628 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
16473651 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
16473674 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
16473697 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
16473720 AG
1 AG
16473722 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:16478159 original size:23 final size:23
Alignment explanation
Indices: 16478133--16478226 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
16478123 AAGTTAGAAG
16478133 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * * *
16478156 AGTGAAAAAAATTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
16478179 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
16478202 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
16478225 AG
1 AG
16478227 ATACACACAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.49, C:0.03, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:16478933 original size:42 final size:42
Alignment explanation
Indices: 16478874--16478956 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
16478864 GAATAAAAGT
16478874 AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCAA
1 AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCAA
16478916 AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCA
1 AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCA
16478957 GTCTACCGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (42 bp):
AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCAA
Found at i:16479370 original size:24 final size:24
Alignment explanation
Indices: 16479320--16479374 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
16479310 AATTTTTTTT
*
16479320 AAATATTAAAATTAAAAATCATAAA
1 AAAT-TTAAAATAAAAAATCATAAA
*
16479345 AAATTTATAAATAAAAAAT-ATTAA
1 AAATTTA-AAATAAAAAATCATAAA
16479369 AAATTT
1 AAATTT
16479375 CTTACTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATTTAAAATAAAAAATCATAAA
Found at i:16481154 original size:18 final size:18
Alignment explanation
Indices: 16481131--16481165 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16481121 GAAAAAGAAT
16481131 TAAAATAACAGT-ATGTAA
1 TAAAATAA-AGTAATGTAA
16481149 TAAAATAAAGTAATGTA
1 TAAAATAAAGTAATGTA
16481166 CATGCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
TAAAATAAAGTAATGTAA
Found at i:16483175 original size:44 final size:43
Alignment explanation
Indices: 16483078--16483239 Score: 132
Period size: 44 Copynumber: 3.7 Consensus size: 43
16483068 GATCATTTTG
* * * *
16483078 ATCTGCTCTACTGCAACTTCAGGGGGATAGGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAGGAT-TATGACTTCA
* *
16483122 AT-TCACTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCA
1 ATCT-GCTCCACTGCAACTTCAGGGAGATAGGATTAT-GACTTCA
* * * *
16483166 ATCTGCTCCACTGGAACCTCAGGGAGATAAGATT-TGCCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATG--A-CTTCA
* *
16483211 ATCT-ATCCCACTGCAACTTCAGGGGGATA
1 ATCTGCT-CCACTGCAACTTCAGGGAGATA
16483240 AGACCTGCTT
Statistics
Matches: 95, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 61 0.64
45 28 0.29
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAGGATTATGACTTCA
Found at i:16483522 original size:10 final size:10
Alignment explanation
Indices: 16483507--16483537 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16483497 TGAGCATTCG
*
16483507 ATCGAATCGA
1 ATCGAATCAA
16483517 ATCGAATCAA
1 ATCGAATCAA
16483527 ATCGAATCAA
1 ATCGAATCAA
16483537 A
1 A
16483538 AATTTTTGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (10 bp):
ATCGAATCAA
Found at i:16484336 original size:30 final size:31
Alignment explanation
Indices: 16484297--16484356 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
16484287 GGAGGTGGGA
*
16484297 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
16484328 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
16484357 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:16484585 original size:9 final size:9
Alignment explanation
Indices: 16484571--16484607 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16484561 TATAGTTTGA
16484571 TATTCGAAT
1 TATTCGAAT
16484580 TATTCGAAT
1 TATTCGAAT
*
16484589 TATTCGAGT
1 TATTCGAAT
16484598 TATTCGAAT
1 TATTCGAAT
16484607 T
1 T
16484608 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16484678 original size:9 final size:9
Alignment explanation
Indices: 16484661--16484691 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16484651 TCAAGTTGAT
16484661 TCGAATAAC
1 TCGAATAAC
*
16484670 TCGATTAAC
1 TCGAATAAC
16484679 TCGAATAAC
1 TCGAATAAC
16484688 TCGA
1 TCGA
16484692 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:16497241 original size:18 final size:18
Alignment explanation
Indices: 16497218--16497252 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16497208 GAAAAAGAAT
16497218 TAAAATAACAGT-ATGTAA
1 TAAAATAA-AGTAATGTAA
16497236 TAAAATAAAGTAATGTA
1 TAAAATAAAGTAATGTA
16497253 CATGCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
TAAAATAAAGTAATGTAA
Found at i:16499292 original size:17 final size:16
Alignment explanation
Indices: 16499270--16499304 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
16499260 TCAAATTTAA
16499270 TTTAATTTTTGTAGTTT
1 TTTAATTTTTGTA-TTT
16499287 TTTAATTTTTGTATTT
1 TTTAATTTTTGTATTT
16499303 TT
1 TT
16499305 AGAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTAATTTTTGTATTT
Found at i:16500245 original size:41 final size:42
Alignment explanation
Indices: 16500179--16500257 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
16500169 TTCCAAAAAA
* *
16500179 ATATTAATAACATTTTAAAAATCATGTAATTTGTAAAAATAT
1 ATATTAATAACATTATAAAAATCATGTAATATGTAAAAATAT
* *
16500221 ATATT-ATAATATTATAAAATTCATGTAATATGTAAAA
1 ATATTAATAACATTATAAAAATCATGTAATATGTAAAA
16500258 GAATTCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 28 0.85
42 5 0.15
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.41
Consensus pattern (42 bp):
ATATTAATAACATTATAAAAATCATGTAATATGTAAAAATAT
Found at i:16500378 original size:16 final size:17
Alignment explanation
Indices: 16500357--16500398 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
16500347 AAAGGGTGTT
16500357 TTTTTTAATAA-TAATA
1 TTTTTTAATAATTAATA
*
16500373 TTTTTT-ATAATTTATA
1 TTTTTTAATAATTAATA
*
16500389 ATTTTTAATA
1 TTTTTTAATA
16500399 GTTTTGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 4 0.18
16 15 0.68
17 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTAATAATTAATA
Found at i:16504599 original size:20 final size:22
Alignment explanation
Indices: 16504574--16504614 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
16504564 AGTTATTTTT
16504574 ATTATTT-TAAAT-ATAAAATA
1 ATTATTTCTAAATCATAAAATA
*
16504594 ATTATTTCTATATCATAAAAT
1 ATTATTTCTAAATCATAAAAT
16504615 TAAAATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTATTTCTAAATCATAAAATA
Found at i:16505878 original size:22 final size:22
Alignment explanation
Indices: 16505847--16505894 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
16505837 CTAGCAAACT
*
16505847 TAGCTTAATAACAGAACTTAGC
1 TAGCTCAATAACAGAACTTAGC
16505869 TAGCTCAATAACAGAACTTAGC
1 TAGCTCAATAACAGAACTTAGC
16505891 TAGC
1 TAGC
16505895 ACACTTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (22 bp):
TAGCTCAATAACAGAACTTAGC
Found at i:16510904 original size:22 final size:22
Alignment explanation
Indices: 16510876--16510917 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
16510866 AACTTAACTT
16510876 AATAACAAAACTTAGCTAGCTC
1 AATAACAAAACTTAGCTAGCTC
16510898 AATAACAAAACTTAGCTAGC
1 AATAACAAAACTTAGCTAGC
16510918 ACCTTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (22 bp):
AATAACAAAACTTAGCTAGCTC
Found at i:16512092 original size:18 final size:18
Alignment explanation
Indices: 16512066--16512103 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16512056 TGGATGTGCT
* *
16512066 TTCTGTTTCTTTCCAGGG
1 TTCTATTTCTTCCCAGGG
16512084 TTCTATTTCTTCCCAGGG
1 TTCTATTTCTTCCCAGGG
16512102 TT
1 TT
16512104 AGGGGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.24, G:0.18, T:0.50
Consensus pattern (18 bp):
TTCTATTTCTTCCCAGGG
Found at i:16514182 original size:12 final size:12
Alignment explanation
Indices: 16514167--16514191 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16514157 TTTTTATGTA
16514167 TTTTATAATTTT
1 TTTTATAATTTT
16514179 TTTTATAATTTT
1 TTTTATAATTTT
16514191 T
1 T
16514192 ATAAAAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:16514191 original size:21 final size:21
Alignment explanation
Indices: 16514152--16514195 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16514142 AAAATATGAG
*
16514152 AATTTTTTTTATGTATTTTAT
1 AATTTTTTTTATATATTTTAT
16514173 AATTTTTTTTATA-ATTTTTAT
1 AATTTTTTTTATATA-TTTTAT
16514194 AA
1 AA
16514196 AAATTTAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
AATTTTTTTTATATATTTTAT
Found at i:16514261 original size:30 final size:30
Alignment explanation
Indices: 16514225--16514288 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
16514215 ATTTTTATAA
*
16514225 TTTTTTA-CCTTTTAATAAAATTTTAATATT
1 TTTTTTATACTTTTAATAAAA-TTTAATATT
*
16514255 TTTTTTATATTTTTAATAAAATTTAATATT
1 TTTTTTATACTTTTAATAAAATTTAATATT
16514285 TTTT
1 TTTT
16514289 ATACTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTTATACTTTTAATAAAATTTAATATT
Found at i:16514306 original size:77 final size:78
Alignment explanation
Indices: 16514166--16514315 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 78
16514156 TTTTTTATGT
* *
16514166 ATTTTATAATTTTTTTTATAATTTTTATAAAAATTTAGGATTTTTTAGGATTTTTATAATTTTTT
1 ATTTTATAATTTTTTTTATAATTTTTATAAAAATTTAAGATTTTTTAGGATTATTATAATTTTTT
16514231 ACCTTTTAATAAA
66 ACCTTTTAATAAA
* * **
16514244 ATTTTA-ATATTTTTTTTAT-ATTTTTA-ATAAAATTTAATATTTTTTA-TACTTATTATTGTTT
1 ATTTTATA-ATTTTTTTTATAATTTTTATA-AAAATTTAAGATTTTTTAGGA-TTATTATAATTT
*
16514305 TTTATCTTTTA
63 TTTACCTTTTA
16514316 TAATTTTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
76 2 0.03
77 43 0.69
78 17 0.27
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (78 bp):
ATTTTATAATTTTTTTTATAATTTTTATAAAAATTTAAGATTTTTTAGGATTATTATAATTTTTT
ACCTTTTAATAAA
Found at i:16514322 original size:17 final size:19
Alignment explanation
Indices: 16514282--16514324 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
16514272 AAAATTTAAT
*
16514282 ATTTTTTATACTTATTATT
1 ATTTTTTATACTTATTATA
*
16514301 GTTTTTTAT-CTT-TTATA
1 ATTTTTTATACTTATTATA
16514318 ATTTTTT
1 ATTTTTT
16514325 TTACCATATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 3 0.14
19 8 0.38
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTTTTTATACTTATTATA
Found at i:16523852 original size:14 final size:14
Alignment explanation
Indices: 16523833--16523860 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16523823 GAACCCTCCT
16523833 ATAAACTTCACTAA
1 ATAAACTTCACTAA
16523847 ATAAACTTCACTAA
1 ATAAACTTCACTAA
16523861 CTTGAACCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAACTTCACTAA
Found at i:16525237 original size:20 final size:20
Alignment explanation
Indices: 16525196--16525239 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16525186 TTAGATTTAG
* *
16525196 ATCATATTCAAATTAAATAT
1 ATCATACTCAAATTAAAGAT
16525216 ATCATACTC-AATTAACAGAT
1 ATCATACTCAAATTAA-AGAT
16525236 ATCA
1 ATCA
16525240 CAATGAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (20 bp):
ATCATACTCAAATTAAAGAT
Found at i:16528187 original size:29 final size:30
Alignment explanation
Indices: 16528115--16528185 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
16528105 GTAGGATCCG
*
16528115 TATAAAATTTTTAGGACTAAATAAAAAACA
1 TATAAAATTTTTAAGACTAAATAAAAAACA
*
16528145 TATAAAATTTTTAAGACTAAATCAAAAACA
1 TATAAAATTTTTAAGACTAAATAAAAAACA
*
16528175 TATAACATTTT
1 TATAAAATTTT
16528186 AATCACACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.34
Consensus pattern (30 bp):
TATAAAATTTTTAAGACTAAATAAAAAACA
Found at i:16531892 original size:25 final size:25
Alignment explanation
Indices: 16531864--16531946 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
16531854 CATACTGACA
*
16531864 TATAGCTCGTGAGAGCATATCAATT
1 TATAGCTCGTGAGAGCATATCGATT
* * * *
16531889 TATAGCTTGTGAGAGCAAACCGATC
1 TATAGCTCGTGAGAGCATATCGATT
* * *
16531914 TACAGCTCGAGTGAGCATATCGATT
1 TATAGCTCGTGAGAGCATATCGATT
*
16531939 CATAGCTC
1 TATAGCTC
16531947 ATATAAGCAT
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (25 bp):
TATAGCTCGTGAGAGCATATCGATT
Found at i:16540244 original size:12 final size:12
Alignment explanation
Indices: 16540227--16540254 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16540217 TTAGGCTATT
16540227 ACACGACCTAGC
1 ACACGACCTAGC
16540239 ACACGACCTAGC
1 ACACGACCTAGC
16540251 ACAC
1 ACAC
16540255 AGGCGTGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.43, G:0.14, T:0.07
Consensus pattern (12 bp):
ACACGACCTAGC
Found at i:16544400 original size:28 final size:29
Alignment explanation
Indices: 16544368--16544422 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
16544358 TACTTTTAAA
* *
16544368 TAACAACTAATATCTCAAA-TTCATCACT
1 TAACAACTAAAATCACAAATTTCATCACT
*
16544396 TAACATCTAAAATCACAAATTTCATCA
1 TAACAACTAAAATCACAAATTTCATCA
16544423 ATGGCAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.31
Consensus pattern (29 bp):
TAACAACTAAAATCACAAATTTCATCACT
Found at i:16547508 original size:7 final size:7
Alignment explanation
Indices: 16547498--16547538 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
16547488 TAATAAATAA
16547498 TATATAT
1 TATATAT
16547505 TATATAT
1 TATATAT
16547512 TATATAT
1 TATATAT
16547519 TATATAT
1 TATATAT
16547526 TATATAT
1 TATATAT
*
16547533 AATATA
1 TATATA
16547539 CTTTTTGGAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TATATAT
Found at i:16547522 original size:21 final size:21
Alignment explanation
Indices: 16547490--16547538 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
16547480 AAAATAAATA
*
16547490 ATAA-ATAATATATATTATAT
1 ATAATATATTATATATTATAT
*
16547510 ATTATATATTATATATTATAT
1 ATAATATATTATATATTATAT
16547531 ATAATATA
1 ATAATATA
16547539 CTTTTTGGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAATATATTATATATTATAT
Found at i:16550725 original size:16 final size:15
Alignment explanation
Indices: 16550700--16550732 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
16550690 GTCAACAAAT
16550700 AATTTAAAAATTATA
1 AATTTAAAAATTATA
16550715 AATTATAAAAATTATA
1 AATT-TAAAAATTATA
16550731 AA
1 AA
16550733 AAAAACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTTAAAAATTATA
Found at i:16553683 original size:124 final size:124
Alignment explanation
Indices: 16553502--16553911 Score: 547
Period size: 124 Copynumber: 3.3 Consensus size: 124
16553492 AAAACGACAC
* * * * *
16553502 CGTTCCACTACA-GGAAATAATTTTTTTAGTGGCGTTTTGATTGAAAATGCCTCAAAGGTGATAC
1 CGTTTCACTACAGGGAATTAA-ATTTTTAGTGGCGTTTTGACTGAAAATGCCTCAAAGGTTATAC
* * * *
16553566 ATTAGTGGCGTTTTTTATAAACACCGCAAAATTGCAATACCAATTTGACTTAAACGTCGT
65 ATTAGTGGCGTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGGCGT
* * *
16553626 CGTTTCACTACA-GAACATTAAACTTTTAGTGGCATTTTGACTGAAAATGCCGT-AAAGGTTATA
1 CGTTTCACTACAGGGA-ATTAAATTTTTAGTGGCGTTTTGACTGAAAATGCC-TCAAAGGTTATA
* * * *
16553689 CGTTAGTGGGGTTTTTCATAAACGCCGTAAAATTACAATACCAAATTGACTTAAACGGCGT
64 CATTAGTGGCGTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGGCGT
* * *
16553750 CGTTTCACTATAGGGAATTAAATTTTTAATGGCGTTTTGACCGAAAATGCCTCAAAGGTTATACA
1 CGTTTCACTACAGGGAATTAAATTTTTAGTGGCGTTTTGACTGAAAATGCCTCAAAGGTTATACA
* * *
16553815 TTAGTGGCATTTTTCATAAACGCCACAAAAATACAATACCAATTTGACTTAAACGGCGT
66 TTAGTGGCGTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGGCGT
* * *
16553874 TGTTTCACTACATGGAATTAAGTTTTTAGTGGCGTTTT
1 CGTTTCACTACAGGGAATTAAATTTTTAGTGGCGTTTT
16553912 TCATAAACGT
Statistics
Matches: 248, Mismatches: 34, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
123 1 0.00
124 240 0.97
125 7 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (124 bp):
CGTTTCACTACAGGGAATTAAATTTTTAGTGGCGTTTTGACTGAAAATGCCTCAAAGGTTATACA
TTAGTGGCGTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGGCGT
Found at i:16553959 original size:84 final size:85
Alignment explanation
Indices: 16553815--16553995 Score: 274
Period size: 84 Copynumber: 2.1 Consensus size: 85
16553805 AGGTTATACA
16553815 TTAGTGGCATTTTTCATAAACGCCACAAAAATACAATACCAATTTGACTTAAACGGCGTTGTTTC
1 TTAGTGGCATTTTTCATAAACGCCACAAAAATACAATACCAATTTGACTTAAACGGCGTTGTTTC
*
16553880 ACTACATGGAATTAAG-TTT
66 ACTACAGGGAATTAAGTTTT
* * * * *** *
16553899 TTAGTGGCGTTTTTCATAAACGTCGCAAAATTGTGATACCAATTTGACTTAAACGTCGTTGTTTC
1 TTAGTGGCATTTTTCATAAACGCCACAAAAATACAATACCAATTTGACTTAAACGGCGTTGTTTC
16553964 ACTACAGGGAATTAAGTTTT
66 ACTACAGGGAATTAAGTTTT
16553984 TTAGTGGCATTT
1 TTAGTGGCATTT
16553996 GGCCTAAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 72 0.84
85 14 0.16
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (85 bp):
TTAGTGGCATTTTTCATAAACGCCACAAAAATACAATACCAATTTGACTTAAACGGCGTTGTTTC
ACTACAGGGAATTAAGTTTT
Found at i:16554038 original size:87 final size:84
Alignment explanation
Indices: 16553815--16554030 Score: 270
Period size: 84 Copynumber: 2.5 Consensus size: 84
16553805 AGGTTATACA
** * * * *
16553815 TTAGTGGCATTTTTCATAAACGCCACAAAAATACAATACCAATTTGACTTAAACGGCGTTGTTTC
1 TTAGTGGCATTTGCCAAAAACGCCGCAAAATTGCAATACCAATTTGACTTAAACGGCGTTGTTTC
*
16553880 ACTACATGGAATTAAGTTT
66 ACTACAGGGAATTAAGTTT
* ** * * ** *
16553899 TTAGTGGCGTTTTTCATAAACGTCGCAAAATTGTGATACCAATTTGACTTAAACGTCGTTGTTTC
1 TTAGTGGCATTTGCCAAAAACGCCGCAAAATTGCAATACCAATTTGACTTAAACGGCGTTGTTTC
16553964 ACTACAGGGAATTAAGTTTT
66 ACTACAGGGAATTAAG-TTT
16553984 TTAGTGGCATTTGGCCTAAAAACGCCGCAAAATTGCAATACCAATTT
1 TTAGTGGCATTT-GCC-AAAAACGCCGCAAAATTGCAATACCAATTT
16554031 TATTTAAATG
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 72 0.64
85 14 0.12
86 1 0.01
87 26 0.23
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (84 bp):
TTAGTGGCATTTGCCAAAAACGCCGCAAAATTGCAATACCAATTTGACTTAAACGGCGTTGTTTC
ACTACAGGGAATTAAGTTT
Found at i:16554212 original size:7 final size:7
Alignment explanation
Indices: 16554197--16554311 Score: 52
Period size: 7 Copynumber: 15.6 Consensus size: 7
16554187 AATATTTTAT
*
16554197 TTTAGGG
1 TTTAAGG
16554204 TTTAAGG
1 TTTAAGG
* *
16554211 TTTATGAT
1 TTTAAG-G
*
16554219 TTTAGGG
1 TTTAAGG
*
16554226 TGTAAGG
1 TTTAAGG
16554233 TTT-AGAG
1 TTTAAG-G
*
16554240 TTTTAGG
1 TTTAAGG
16554247 ATTTTAAGG
1 --TTTAAGG
*
16554256 TTTAAAGT
1 TTT-AAGG
*
16554264 TTTAGAGT
1 TTTA-AGG
*
16554272 TTTAGGG
1 TTTAAGG
16554279 TTTAAGG
1 TTTAAGG
* *
16554286 TTTTGAGT
1 -TTTAAGG
16554294 TTTAAGG
1 TTTAAGG
*
16554301 TTTAGGG
1 TTTAAGG
16554308 TTTA
1 TTTA
16554312 TTTTCGTATA
Statistics
Matches: 82, Mismatches: 18, Indels: 16
0.71 0.16 0.14
Matches are distributed among these distances:
6 2 0.02
7 49 0.60
8 25 0.30
9 6 0.07
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (7 bp):
TTTAAGG
Found at i:16554221 original size:22 final size:21
Alignment explanation
Indices: 16554195--16554305 Score: 89
Period size: 22 Copynumber: 5.0 Consensus size: 21
16554185 AAAATATTTT
16554195 ATTTTAGGGTTTAAGGTTTATG
1 ATTTTAGGGTTTAAGGTTTA-G
*
16554217 ATTTTAGGGTGTAAGGTTTAG
1 ATTTTAGGGTTTAAGGTTTAG
* *
16554238 AGTTTTAGGATTTTAAGGTTTAA
1 A-TTTTAGG-GTTTAAGGTTTAG
* *
16554261 AGTTTTAGAGTTTTAGGGTTTAAG
1 A-TTTTAG-GGTTTAAGGTTT-AG
* *
16554285 GTTTT-GAGTTTTAAGGTTTAG
1 ATTTTAG-GGTTTAAGGTTTAG
16554306 GGTTTATTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
21 4 0.05
22 39 0.51
23 32 0.42
24 2 0.03
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (21 bp):
ATTTTAGGGTTTAAGGTTTAG
Found at i:16554266 original size:15 final size:15
Alignment explanation
Indices: 16554248--16554304 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
16554238 AGTTTTAGGA
16554248 TTTTAAGGTTTAAAG
1 TTTTAAGGTTTAAAG
* *
16554263 TTTT-AGAGTTTTAGG
1 TTTTAAG-GTTTAAAG
* **
16554278 GTTTAAGGTTTTGAG
1 TTTTAAGGTTTAAAG
16554293 TTTTAAGGTTTA
1 TTTTAAGGTTTA
16554305 GGGTTTATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
14 2 0.06
15 29 0.88
16 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (15 bp):
TTTTAAGGTTTAAAG
Found at i:16554276 original size:8 final size:8
Alignment explanation
Indices: 16554233--16554310 Score: 58
Period size: 8 Copynumber: 10.2 Consensus size: 8
16554223 GGGTGTAAGG
16554233 TTTAGAGT
1 TTTAGAGT
16554241 TTTAG-GAT
1 TTTAGAG-T
*
16554249 TTTA-AGG
1 TTTAGAGT
*
16554256 TTTAAAGT
1 TTTAGAGT
16554264 TTTAGAGT
1 TTTAGAGT
*
16554272 TTTAGGGT
1 TTTAGAGT
*
16554280 TTAAG-GT
1 TTTAGAGT
16554287 TTT-GAGT
1 TTTAGAGT
*
16554294 TTTA-AGG
1 TTTAGAGT
*
16554301 TTTAGGGT
1 TTTAGAGT
16554309 TT
1 TT
16554311 ATTTTCGTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
6 1 0.02
7 20 0.36
8 34 0.62
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (8 bp):
TTTAGAGT
Found at i:16559392 original size:43 final size:43
Alignment explanation
Indices: 16559077--16559389 Score: 258
Period size: 43 Copynumber: 7.3 Consensus size: 43
16559067 GAACGGTGCT
* ** * *
16559077 TTTAGCAGCGTTTGTGATAAAAGTGCCATTAAAGATCATGTTG
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
* * * * **
16559120 TTTAACAGTGTTTGTGAAAAAAAAGCCGCTAAAAGG-CA--TTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCT-AAAGGTCATGTTC
* * * ** *
16559161 TTTATAACGGCGTTTGCGATAAATGCACCGCTAAAGGTCATGCTC
1 -TT-TAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
* * * **
16559206 TTTAGCAGCGCTTGTAATAAAAGCACCGCT-AAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
* * *
16559248 TTTAGTGGCGTTTGTGATAAAAGTGCCACTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
*
16559291 TTTAGCGGCGTTTGTGAGT-AAAGTGCCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGA-TAAAAGTGCCGCTAAAGGTCATGTTC
* ** * * *
16559334 TTTGGCGGTATTTTTTATAAAAGTGCCGCTAAAGTTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
*
16559377 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
16559390 TTTCACATAA
Statistics
Matches: 213, Mismatches: 48, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
41 2 0.01
42 42 0.20
43 160 0.75
44 7 0.03
45 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
Found at i:16565700 original size:32 final size:32
Alignment explanation
Indices: 16565664--16565732 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
16565654 TCTGAAATGG
*
16565664 AAATGATGGATAAATGTTGTAAGGTTGTGCTT
1 AAATGATGGATAAATGTTGTAAGGTTATGCTT
16565696 AAATGATGGATAAATGTTGTAAGGTTATGCTT
1 AAATGATGGATAAATGTTGTAAGGTTATGCTT
16565728 AAATG
1 AAATG
16565733 GTTATATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (32 bp):
AAATGATGGATAAATGTTGTAAGGTTATGCTT
Found at i:16575128 original size:131 final size:134
Alignment explanation
Indices: 16574983--16575258 Score: 387
Period size: 144 Copynumber: 2.0 Consensus size: 134
16574973 TGATAGAAAA
16574983 AAAAACATAAATATGGTGTTAAAGTAAAGG-TT-TC-TTGTATTTTGACATGCTGATGAAGAGAA
1 AAAAACATAAATATGGTGTTAAAGTAAAGGTTTCTCATTGTATTTTGACATGCTGATGAAGAGAA
**
16575045 AAGTTGAGAAAAAGAGTCAAGTGGTAGGAGAAGTAAAACGGAAGAGATTTTGATAGAAAAAGAGG
66 AAGTTGAGAAAAAGAGTCAAGTGGTAGGAGAAGTAAAAAAGAAGAGATTTTGATAGAAAAAGAGG
*
16575110 GAGT
131 AAGT
*
16575114 AAAAACATAAATATGGTGTTAAAGTAAAGGTTTCTCATGGGGAAATATTGTATTTTGACATGTTG
1 AAAAACATAAATATGGTGTTAAAGTAAAGGTTTCTC----------ATTGTATTTTGACATGCTG
* *
16575179 ATGAAGAGAAAAGTTGAGAAAGAGATTCAAGTGGTAGGAGAAGTAAAAAAGAAGAGATTTTGATA
56 ATGAAGAGAAAAGTTGAGAAAAAGAGTCAAGTGGTAGGAGAAGTAAAAAAGAAGAGATTTTGATA
16575244 GAAAAAGAGGAAGT
121 GAAAAAGAGGAAGT
16575258 A
1 A
16575259 CCCATGAACT
Statistics
Matches: 126, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
131 30 0.24
132 2 0.02
133 2 0.02
144 92 0.73
ACGTcount: A:0.44, C:0.04, G:0.27, T:0.25
Consensus pattern (134 bp):
AAAAACATAAATATGGTGTTAAAGTAAAGGTTTCTCATTGTATTTTGACATGCTGATGAAGAGAA
AAGTTGAGAAAAAGAGTCAAGTGGTAGGAGAAGTAAAAAAGAAGAGATTTTGATAGAAAAAGAGG
AAGT
Found at i:16575486 original size:51 final size:51
Alignment explanation
Indices: 16575422--16575539 Score: 202
Period size: 51 Copynumber: 2.3 Consensus size: 51
16575412 AATAATACAA
* *
16575422 GTGAAATACATAGAAATTTGATCTGAAAAATGAGATAGTAGAATTAATTAT
1 GTGAATTAAATAGAAATTTGATCTGAAAAATGAGATAGTAGAATTAATTAT
*
16575473 GTGAATTAAATAGAAATTTGATGTGAAAAATGAGATAGTAGAATTAATTAT
1 GTGAATTAAATAGAAATTTGATCTGAAAAATGAGATAGTAGAATTAATTAT
16575524 GTGAATTAAAT-GAAAT
1 GTGAATTAAATAGAAAT
16575540 GTGAAATAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
50 5 0.08
51 59 0.92
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (51 bp):
GTGAATTAAATAGAAATTTGATCTGAAAAATGAGATAGTAGAATTAATTAT
Found at i:16575671 original size:19 final size:20
Alignment explanation
Indices: 16575617--16575672 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
16575607 TATAGAAGTT
* *
16575617 TACAAGAAAATATTAATAAA
1 TACAAGAATATATGAATAAA
*
16575637 TA-AAGTATATAGTGAA-AAA
1 TACAAGAATATA-TGAATAAA
16575656 TACAAGAATATATGAAT
1 TACAAGAATATATGAAT
16575673 TTTTGCAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.27
Consensus pattern (20 bp):
TACAAGAATATATGAATAAA
Found at i:16577722 original size:67 final size:67
Alignment explanation
Indices: 16577613--16577745 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 67
16577603 GATTTGGGCA
*
16577613 TTGAGGCCCTGGGACATGTTGGAGAGATAAGGAAATGCGAGCTAAGCTTCATTCAACGGGATATG
1 TTGAGGCCCTGGGACATGTTGGAGAGATAAGGAAATGCGAGCTAAGCTCCATTCAACGGGATATG
16577678 TG
66 TG
* *
16577680 TTGAGGCCCTGGGACATGTTGGAGAGATAAGGGAATGTGAGCTAAGCTCCATTCAACGGGATATG
1 TTGAGGCCCTGGGACATGTTGGAGAGATAAGGAAATGCGAGCTAAGCTCCATTCAACGGGATATG
16577745 T
66 T
16577746 TTGGTGTGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.24
Consensus pattern (67 bp):
TTGAGGCCCTGGGACATGTTGGAGAGATAAGGAAATGCGAGCTAAGCTCCATTCAACGGGATATG
TG
Found at i:16577931 original size:25 final size:25
Alignment explanation
Indices: 16577897--16577947 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
16577887 ATTATCTCTA
*
16577897 AATATGATTGTATGTAAAGTGTTAT
1 AATATGATTGTATATAAAGTGTTAT
16577922 AATATGATTGTATATAAAGTGTTAT
1 AATATGATTGTATATAAAGTGTTAT
16577947 A
1 A
16577948 TGTTTAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (25 bp):
AATATGATTGTATATAAAGTGTTAT
Found at i:16581625 original size:14 final size:14
Alignment explanation
Indices: 16581608--16581638 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16581598 TTTATTTTTA
16581608 CTTAGTTTTTAACC
1 CTTAGTTTTTAACC
*
16581622 CTTAGTTTTTAATC
1 CTTAGTTTTTAACC
16581636 CTT
1 CTT
16581639 TAAACCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.55
Consensus pattern (14 bp):
CTTAGTTTTTAACC
Found at i:16591837 original size:182 final size:182
Alignment explanation
Indices: 16591530--16591899 Score: 659
Period size: 182 Copynumber: 2.0 Consensus size: 182
16591520 TTTTGTTATT
*
16591530 CAAACCAACACCAAAACCTACATATTTCAAAGCCAAAAAACCAATTCACCTAACCATTTAAACAT
1 CAAACCAACACCAAAACATACATATTTCAAAGCCAAAAAACCAATTCACCTAACCATTTAAACAT
16591595 ACAACCAATATGCCATCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
66 ACAACCAATATGCCATCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
* * *
16591660 AGCCATCTAAATTCACAATTTTAAGAATTCCAATTATAACATTTTCTTACCA
131 AACCATCTAAATTCACAATTTTAAGAATGCCAATTATAACATTTGCTTACCA
* *
16591712 CAAACCAACACCAAAACATACATATTTCAAAGCCAAAAAACCAATTTACCTAATCATTTAAACAT
1 CAAACCAACACCAAAACATACATATTTCAAAGCCAAAAAACCAATTCACCTAACCATTTAAACAT
* *
16591777 ACAACGAATATGCCCTCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
66 ACAACCAATATGCCATCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
16591842 AACCATCTAAATTCACAATTTTAAGAATGCCAATTATAACATTTGCTTACCA
131 AACCATCTAAATTCACAATTTTAAGAATGCCAATTATAACATTTGCTTACCA
*
16591894 AAAACC
1 CAAACC
16591900 CAAGTTTATA
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 179 1.00
ACGTcount: A:0.44, C:0.26, G:0.04, T:0.26
Consensus pattern (182 bp):
CAAACCAACACCAAAACATACATATTTCAAAGCCAAAAAACCAATTCACCTAACCATTTAAACAT
ACAACCAATATGCCATCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
AACCATCTAAATTCACAATTTTAAGAATGCCAATTATAACATTTGCTTACCA
Found at i:16592801 original size:46 final size:45
Alignment explanation
Indices: 16592672--16592830 Score: 131
Period size: 46 Copynumber: 3.4 Consensus size: 45
16592662 ATAGGTGAAA
* * *
16592672 ATAATAGTGTTTGGTTACCCGTTTAGGTTAAACCTACACGAATAATG
1 ATAATAGTGCTTGGTCACCC-TTAAGGTTAAACCTACACGAATAA-G
* * * **
16592719 AATCATAGTG-TCTGGTCAACCGTAAGGGTTGCACCTACACGAATAAG
1 -ATAATAGTGCT-TGGTCACCCTTAA-GGTTAAACCTACACGAATAAG
** **
16592766 ATAATAGTGCTTGGTCACCCATTAAGGTTAAACCTACATTAATCGG
1 ATAATAGTGCTTGGTCACCC-TTAAGGTTAAACCTACACGAATAAG
* *
16592812 AGAATAGTGCCTGGTCACC
1 ATAATAGTGCTTGGTCACC
16592831 TACTAGGTTG
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
46 48 0.54
47 8 0.09
48 33 0.37
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
ATAATAGTGCTTGGTCACCCTTAAGGTTAAACCTACACGAATAAG
Found at i:16603829 original size:15 final size:17
Alignment explanation
Indices: 16603804--16603836 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
16603794 TAAGTTTACT
16603804 TTTTATTTAAAAT-TAA
1 TTTTATTTAAAATATAA
16603820 TTTT-TTTAAAATATAA
1 TTTTATTTAAAATATAA
16603836 T
1 T
16603837 ACAAAATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTATTTAAAATATAA
Found at i:16604009 original size:31 final size:29
Alignment explanation
Indices: 16603942--16604015 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
16603932 GCCTCAGGTT
*
16603942 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
***
16603971 ACATTTTAGTCACTTATGTTATCGTGTTGTA
1 ACATTTTAGTCACTTATGTT-T-GAAATGTA
16604002 ACATTTTAGTCACT
1 ACATTTTAGTCACT
16604016 GAGTCATTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 20 0.51
30 1 0.03
31 18 0.46
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:16614701 original size:19 final size:20
Alignment explanation
Indices: 16614664--16614703 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16614654 TCTTTTCGCA
* *
16614664 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
16614684 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
16614703 T
1 T
16614704 AAACACGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Done.