Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold238
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: 1453955
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:489131 original size:13 final size:13
Alignment explanation
Indices: 489113--489138 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
489103 CAATTTTTTG
489113 TGTATCGATACAT
1 TGTATCGATACAT
489126 TGTATCGATACAT
1 TGTATCGATACAT
489139 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:489223 original size:20 final size:20
Alignment explanation
Indices: 489198--489270 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
489188 CATCCTTTTT
*
489198 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTACAAC
****
489218 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTACAAC
489239 ATGTATCGATACATTACAAC
1 ATGTATCGATACATTACAAC
489259 ATGTATCGATAC
1 ATGTATCGATAC
489271 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTACAAC
Found at i:489243 original size:21 final size:21
Alignment explanation
Indices: 489177--489253 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
489167 CTGCCAAGAA
*
489177 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
489198 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
489218 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
489239 ATGTATCGATACATT
1 ATGTATCGATACATT
489254 ACAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:489243 original size:41 final size:41
Alignment explanation
Indices: 489177--489270 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
489167 CTGCCAAGAA
*
489177 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTACAAC
*
489218 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTACAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTACAAC
489259 ATGTATCGATAC
1 ATGTATCGATAC
489271 TTTGAATTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 5 0.10
41 45 0.90
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTACAAC
Found at i:493364 original size:15 final size:16
Alignment explanation
Indices: 493344--493378 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
493334 CCCACAACAA
493344 AAAAC-AAAAAAAAAG
1 AAAACAAAAAAAAAAG
493359 AAAACAAAAAAAAAAG
1 AAAACAAAAAAAAAAG
493375 AAAA
1 AAAA
493379 AATAGCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAACAAAAAAAAAAG
Found at i:494742 original size:28 final size:27
Alignment explanation
Indices: 494611--495997 Score: 1532
Period size: 28 Copynumber: 49.1 Consensus size: 27
494601 TGTTCATCCT
* **
494611 TTTCAAAGCCTATGAGTCAGTGGCACC
1 TTTCAAAGCCCACAAGTCAGTGGCACC
*
494638 ATTTTCAAAGCCCACATGTCAGTGGCACCC
1 --TTTCAAAGCCCACAAGTCAGTGGCA-CC
* * *
494668 TTTTCAAAACCCACAAGTTAGTGGCACTAT
1 -TTTCAAAGCCCACAAGTCAGTGGCAC--C
* * *
494698 TTTCGAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
494726 TTTCAACA-CCCACAAGTCAGTGGCACTC
1 TTTCAA-AGCCCACAAGTCAGTGGCAC-C
* *
494754 TTTCAAAGCCCATAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
494782 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
494810 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-C
*
494838 TTTCAAAGCCCACAAGTCAGTGGTACC
1 TTTCAAAGCCCACAAGTCAGTGGCACC
*
494865 TTTTC-AAGCTCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCAC-C
494893 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
494921 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-C
494949 TTTCAAAGCCCACAAGTCAGTGGCACC
1 TTTCAAAGCCCACAAGTCAGTGGCACC
494976 TTTTC-AAGCCCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCAC-C
495004 TTTTCAAAGCCCACAAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CC
*
495033 TTTCAAAGTCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-C
*
495061 TTTCAAAGCCCACAAGTCAGTGGTACC
1 TTTCAAAGCCCACAAGTCAGTGGCACC
495088 TTTTC-AAGCCCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCAC-C
495116 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
* *
495144 TTTCAAAACCCACAAGTTAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-C
495172 TTTCAAAGCCCACAAGTCAGTGGCACC
1 TTTCAAAGCCCACAAGTCAGTGGCACC
** *
495199 TTTTTAAGCCCACAAGTCAGTGGTACC
1 TTTCAAAGCCCACAAGTCAGTGGCACC
*
495226 TTTTC-AAGCCTACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCAC-C
495254 TTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
495282 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-C
495310 TTTCAAAGCCCACAAGTCAGTGGCACC
1 TTTCAAAGCCCACAAGTCAGTGGCACC
495337 TTTTC-AAGCCCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCAC-C
495365 TTTTC-AAGCCCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCAC-C
*
495393 TTTCAAAGCCCACAAGTCAGTGGCATTCA
1 TTTCAAAGCCCACAAGTCAGTGGCA--CC
* * * **
495422 TTTTAGAGCTCACAAGTCAGTATCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
* *
495450 TTTCGAAGCCCACAAGTCGGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
* * * *
495478 TTGCGAAGCCCACAATTTAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-C
*
495506 TTTCAAAGCCCACAAGTCAGTGGAACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
* *
495534 TTTGAAAGCCCACATAAGTTAGTGGCACTCC
1 TTTCAAAGCCCAC--AAGTCAGTGGCA--CC
* *
495565 TTTTAAAGCCCACGCAAGTTAGTGGCACC
1 TTTCAAAGCCCA--CAAGTCAGTGGCACC
*
495594 TTTTCAAAGCCCACGAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCAC-C
495623 TTTCAAA-CCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
** *
495650 TTTTGAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
* * * *
495678 TTGT-GAAGCCCACAATTCAGTGGTACTA
1 TT-TCAAAGCCCACAAGTCAGTGGCAC-C
495706 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
495734 TTTCAAAGCCCACACAAGTCAGTGGCACTCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCA--CC
* *
495765 TTTTAGAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
*
495793 TTTCGAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
* * * *
495821 TTGCGAAGCCCACAATTTAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCAC-C
*
495849 TTTTAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
*
495877 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CC
495905 TTTCAAAGCCCACGCAAGTCAGTGGCACCC
1 TTTCAAAGCCCA--CAAGTCAGTGGCA-CC
* **
495935 TTTTAAAGCCCACGCAAGTCAGTAACACTC
1 TTTCAAAGCCCA--CAAGTCAGTGGCAC-C
* *
495965 TTTTCAAAGCCCACACGTGTCAGTGGCAAC
1 -TTTCAAAGCCCACA--AGTCAGTGGCACC
495995 TTT
1 TTT
495998 TTTCGAAGCG
Statistics
Matches: 1190, Mismatches: 108, Indels: 120
0.84 0.08 0.08
Matches are distributed among these distances:
27 178 0.15
28 733 0.62
29 142 0.12
30 84 0.07
31 52 0.04
33 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (27 bp):
TTTCAAAGCCCACAAGTCAGTGGCACC
Found at i:494926 original size:111 final size:111
Alignment explanation
Indices: 494611--495998 Score: 1644
Period size: 111 Copynumber: 12.3 Consensus size: 111
494601 TGTTCATCCT
* ** * *
494611 TTTCAAAGCCTATGAGTCAGTGGCACCATTTTCAAAGCCCACATGTCAGTGGCACCCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACC-TTTTC-AAGCCCACAAGTCAGTGGCACTC-TTTCAAA
* * ** * * *
494676 ACCCACAAGTTAGTGGCACTATTTTCGAAGCCCATAAGTTAGTGGCA-TCC
63 GCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACT-C
* *
494726 TTTCAACA-CCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCATAAGTTAGTGGCA-TCCTTTCAA
1 TTTCAA-AGCCCACAAGTCAGTGGCACCT-TTTC-AAGCCCACAAGTCAGTGGCACT-CTTTCAA
494788 AGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
62 AGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
494838 TTTCAAAGCCCACAAGTCAGTGGTACCTTTTCAAGCTCACAAGTCAGTGGCACTCTTTCAAAGCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCC
494903 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
66 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
494949 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGC
*
495014 CCACAAGTCAGTGGCATCCTTTCAAAGTCCACAAGTCAGTGGCACTC
65 CCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
*
495061 TTTCAAAGCCCACAAGTCAGTGGTACCTTTTCAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCC
* *
495126 CACAAGTCAGTGGCATCCTTTCAAAACCCACAAGTTAGTGGCACTC
66 CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
495172 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTTAAGCCCACAAGTCAGTGGTAC-CTTTTC-AAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGC
*
495235 CTACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGCA-TCC
65 CCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACT-C
495282 TTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTC-AA
1 TTTCAAAGCCCACAAGTCAGTGGCACCT-TTTC-AAGCCCACAAGTCAGTGGCACTC-TTTCAAA
*
495344 GCCCACAAGTCAGTGGCACTCTTTTC-AAGCCCACAAGTCAGTGGCACTC
63 GCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * ** *
495393 TTTCAAAGCCCACAAGTCAGTGGCATTCATTTT-AGAGCTCACAAGTCAGTATCA-TCCTTTCGA
1 TTTCAAAGCCCACAAGTCAGTGGCA--CCTTTTCA-AGCCCACAAGTCAGTGGCACT-CTTTCAA
* * * * * *
495456 AGCCCACAAGTCGGTGGCACCCTTGCGAAGCCCACAATTTAGTGGCACTC
62 AGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* ** * *
495506 TTTCAAAGCCCACAAGTCAGTGGAACCCTTTGAAAGCCCACATAAGTTAGTGGCACTCCTTTTAA
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAGCCCAC--AAGTCAGTGGCACT-CTTTCAA
* *
495571 AGCCCACGCAAGTTAGTGGCA-CCTTTTCAAAGCCCACGAGTCAGTGGCACTC
62 AGCCCA--CAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
495623 TTTCAAA-CCCACAAGTCAGTGGCACCCTTTTGAAGCCCACAAGTTAGTGGCACCCTTGT-GAAG
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAGCCCACAAGTCAGTGGCACTCTT-TCAAAG
* * * *
495686 CCCACAATTCAGTGGTA-CTATTTCAAAGCCCACAAGTCAGTGGCACCC
64 CCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACTC
* *
495734 TTTCAAAGCCCACACAAGTCAGTGGCACTCCTTTT-AGAGCCCACAAGTCAGTGGCACCCTTTCG
1 TTTCAAAG-CC-CACAAGTCAGTGGCA--CCTTTTCA-AGCCCACAAGTCAGTGGCACTCTTTCA
* * * * *
495798 AAGCCCACAAGTCAGTGGCACCCTTGCGAAGCCCACAATTTAGTGGCACTC
61 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
* * * *
495849 TTTTAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAATGGCACCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCACCTTTTC-AAGCCCACAAGTCAGTGGCACTCTTTCAAAGC
* * **
495914 CCACGCAAGTCAGTGGCACCCTTTTAAAGCCCACGCAAGTCAGTAACACTC
65 CCA--CAAGTCAGTGGCATCCTTTCAAAGCCCA--CAAGTCAGTGGCACTC
* *
495965 TTTTCAAAGCCCACACGTGTCAGTGGCAACTTTT
1 -TTTCAAAGCCCACA--AGTCAGTGGCACCTTTT
495999 TTCGAAGCGT
Statistics
Matches: 1126, Mismatches: 98, Indels: 94
0.85 0.07 0.07
Matches are distributed among these distances:
109 4 0.00
110 73 0.06
111 376 0.33
112 231 0.21
113 125 0.11
114 92 0.08
115 111 0.10
116 46 0.04
117 54 0.05
119 14 0.01
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (111 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCC
CACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:496623 original size:20 final size:20
Alignment explanation
Indices: 496592--496666 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
496582 TTTTACCTAG
*
496592 ATGTATCAATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
496612 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
496632 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
496652 ATGTATCGATACATT
1 ATGTATCGATACATT
496667 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:496652 original size:40 final size:39
Alignment explanation
Indices: 496592--496669 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
496582 TTTTACCTAG
*
496592 ATGTATCAATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCAATACATTCTTCAATATATCGATACAT-TATGA
* * *
496632 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCAATACATTCTTCAATATATCGATACATTATG
496670 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (39 bp):
ATGTATCAATACATTCTTCAATATATCGATACATTATGA
Found at i:497615 original size:24 final size:23
Alignment explanation
Indices: 497575--497627 Score: 90
Period size: 24 Copynumber: 2.3 Consensus size: 23
497565 AGCCTTTGAC
497575 CATGCA-TTTTTTTATTATGTTT
1 CATGCATTTTTTTTATTATGTTT
497597 CATGCATTTTTTTTCATTATGTTT
1 CATGCATTTTTTTT-ATTATGTTT
497621 CATGCAT
1 CATGCAT
497628 CTTTAACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 6 0.21
23 7 0.24
24 16 0.55
ACGTcount: A:0.19, C:0.13, G:0.09, T:0.58
Consensus pattern (23 bp):
CATGCATTTTTTTTATTATGTTT
Found at i:502514 original size:432 final size:436
Alignment explanation
Indices: 501711--502577 Score: 1431
Period size: 432 Copynumber: 2.0 Consensus size: 436
501701 CCAAGGTATC
* *
501711 TTAAAACTAAGTCAATATTAAACTCGCAAACAAGGCTCTCGTTAAAAGCTAAACCTCAAGCATGC
1 TTAAAACTAAGTCAATACTAAACTCGCAAACAAGGCTCTCGTCAAAAGCTAAACCTCAAGCATGC
* *
501776 ATATTCTGATATCTGAAAAAATAAGTAAATTAAGAGAATGAGTATGGATACTCAGTAAGTAACTA
66 ATATTCTGATATCTGAAAAAATAAATAAATTAAGAGAATGAGTATGGATACTCAGCAAGTAACTA
501841 ACATCCCTTCAGTTGGATTAAGCATGTTATAAAACAATTAGGCTAAAATTATAAACAGTAATTTC
131 ACATCCCTTCAGTTGGATTAAGCATGTTATAAAACAATTAGGCTAAAATTATAAACAGTAATTTC
* * *
501906 AATGATAAAAATTTGGGTAATCTCATATTCAATAAACATATTACTTTTGAAATTATATTATTTAC
196 AATGATAAAAATTTGGATAATCTCATATTCAATAAACATATTACTTTCGAAATCATATTATTTAC
* *
501971 AAAATTAGGTTTATCACATAACCAAAACAATGTAGGATCGCAAATTATTAGTTTTCATTAGTCTC
261 AAAATTAGGTTTATCACATAACCAAAACAATGCAGGATCACAAATTATTAGTTTTCATTAGTCTC
*
502036 CCGTAATATACTAAAACCACATCTAACCCCTGTGGTATAGGTTAGAAC-AAAA-ACTA-CT-ATT
326 CCGTAACATACTAAAACCACATCTAACCCCTGTGGTATAGGTTAGAACAAAAACACTATCTAATT
*
502097 CTAATCCGGTGGCATGGTTCAGAACAAAAACTACTATTCTTATATT
391 CTAATCCGGTGGCATGGTTCAGAACAAAAACCACTATTCTTATATT
* *
502143 TTAAAACTAAGTCAATACTAAACTCGCAAACAAGGCTCTCGTCAAAAGCTAAACCTCGAGCATGT
1 TTAAAACTAAGTCAATACTAAACTCGCAAACAAGGCTCTCGTCAAAAGCTAAACCTCAAGCATGC
*
502208 ATATTCTGATATCTGAAAAAGTAAATAAATTAAG-GTAATGAGTATGGATACTCAGCAAGTAACT
66 ATATTCTGATATCTGAAAAAATAAATAAATTAAGAG-AATGAGTATGGATACTCAGCAAGTAACT
*
502272 AATATCCCTTCAGTTGGATTAAGCATGTTATAAAACAATTAGGCTAAAATTATAAACAGTAATTT
130 AACATCCCTTCAGTTGGATTAAGCATGTTATAAAACAATTAGGCTAAAATTATAAACAGTAATTT
502337 CAATGATAAAAATTTGGATAATCTCATATTCAATAAACATATTACTTTCGAAATCATATTATTTA
195 CAATGATAAAAATTTGGATAATCTCATATTCAATAAACATATTACTTTCGAAATCATATTATTTA
* * *
502402 CAAAATTAGAG-TTGTCACATAACCAAAATAATGCAGGATCATAAATTATTAGTTTTCATTAGTC
260 CAAAATTAG-GTTTATCACATAACCAAAACAATGCAGGATCACAAATTATTAGTTTTCATTAGTC
* ** * *
502466 TTCCGTAACATACTAAAATTACATTTAACCCTTGTGGTATAGGTTAGAACAAAAATCACTATTCT
324 TCCCGTAACATACTAAAACCACATCTAACCCCTGTGGTATAGGTTAGAACAAAAA-CACTA-TCT
* *
502531 AATTCTAATCTGGTGGCATGGTTCTGAACAAAAACCACTATTCTTAT
387 AATTCTAATCCGGTGGCATGGTTCAGAACAAAAACCACTATTCTTAT
502578 CCGGTGGCAC
Statistics
Matches: 402, Mismatches: 25, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
431 1 0.00
432 347 0.86
433 5 0.01
435 4 0.01
437 2 0.00
438 43 0.11
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (436 bp):
TTAAAACTAAGTCAATACTAAACTCGCAAACAAGGCTCTCGTCAAAAGCTAAACCTCAAGCATGC
ATATTCTGATATCTGAAAAAATAAATAAATTAAGAGAATGAGTATGGATACTCAGCAAGTAACTA
ACATCCCTTCAGTTGGATTAAGCATGTTATAAAACAATTAGGCTAAAATTATAAACAGTAATTTC
AATGATAAAAATTTGGATAATCTCATATTCAATAAACATATTACTTTCGAAATCATATTATTTAC
AAAATTAGGTTTATCACATAACCAAAACAATGCAGGATCACAAATTATTAGTTTTCATTAGTCTC
CCGTAACATACTAAAACCACATCTAACCCCTGTGGTATAGGTTAGAACAAAAACACTATCTAATT
CTAATCCGGTGGCATGGTTCAGAACAAAAACCACTATTCTTATATT
Found at i:502601 original size:30 final size:30
Alignment explanation
Indices: 502560--502679 Score: 152
Period size: 31 Copynumber: 3.9 Consensus size: 30
502550 GGTTCTGAAC
502560 AAAAACCACTATTCTTATCCGGTGGCACGG
1 AAAAACCACTATTCTTATCCGGTGGCACGG
* *
502590 AAAAACTACTATTCTTATTCGGTGGCAC-G
1 AAAAACCACTATTCTTATCCGGTGGCACGG
**
502619 ATGAAAACCACTATTCTTATCCAATGGCACGG
1 A--AAAACCACTATTCTTATCCGGTGGCACGG
* *
502651 CAAAAATCACTATTTTTATCCGGTGGCAC
1 -AAAAACCACTATTCTTATCCGGTGGCAC
502680 AGTTTGAAAC
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
29 2 0.03
30 26 0.34
31 46 0.61
32 1 0.01
33 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (30 bp):
AAAAACCACTATTCTTATCCGGTGGCACGG
Found at i:505460 original size:20 final size:20
Alignment explanation
Indices: 505435--505499 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
505425 TACAAGCCAA
505435 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATTTTTTG
505455 TGTATCGATAC-A-----T-
1 TGTATCGATACAATTTTTTG
505468 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATTTTTTG
505488 TGTATCGATACA
1 TGTATCGATACA
505500 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 2 0.05
19 2 0.05
20 23 0.61
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (20 bp):
TGTATCGATACAATTTTTTG
Found at i:505473 original size:13 final size:13
Alignment explanation
Indices: 505455--505513 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
505445 CAATTTTTTG
505455 TGTATCGATACAT
1 TGTATCGATACAT
505468 TGTATCGATACAATTTTTT
1 TGTATCGATAC-A-----T
505487 GTGTATCGATACAT
1 -TGTATCGATACAT
505501 TGTATCGATACAT
1 TGTATCGATACAT
505514 ACTTGCTGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 24 0.62
14 2 0.05
19 2 0.05
20 11 0.28
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:505477 original size:33 final size:33
Alignment explanation
Indices: 505435--505512 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
505425 TACAAGCCAA
505435 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTTTTTGTGTATCGATACAT
505468 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTTTTTGTGTATCGATACAT
505501 TGTATCGATACA
1 TGTATCGATACA
505513 TACTTGCTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATTTTTTGTGTATCGATACAT
Found at i:508073 original size:13 final size:13
Alignment explanation
Indices: 508055--508093 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
508045 ATAATCACCC
*
508055 TGTATCGATACAG
1 TGTATCGATACAA
508068 TGTATCGATACAA
1 TGTATCGATACAA
508081 TGTATCGATACAA
1 TGTATCGATACAA
508094 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:508104 original size:20 final size:20
Alignment explanation
Indices: 508079--508157 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
508069 GTATCGATAC
508079 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
508099 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
508124 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
508144 CATGTATCGATACA
1 AATGTATCGATACA
508158 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:510189 original size:15 final size:15
Alignment explanation
Indices: 510169--510199 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
510159 ATTTCGTTTG
*
510169 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
510184 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
510199 G
1 G
510200 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:512032 original size:21 final size:21
Alignment explanation
Indices: 512003--512047 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
511993 AAGTTTTCAT
*
512003 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
512023 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
512045 TTT
1 TTT
512048 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:512534 original size:34 final size:35
Alignment explanation
Indices: 512496--512562 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
512486 CCTTACAACA
512496 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
512530 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
512563 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:513039 original size:13 final size:13
Alignment explanation
Indices: 513021--513046 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
513011 CAATTTTTTG
513021 TGTATCGATACAT
1 TGTATCGATACAT
513034 TGTATCGATACAT
1 TGTATCGATACAT
513047 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:518006 original size:34 final size:35
Alignment explanation
Indices: 517968--518034 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
517958 CCTTACAACA
517968 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
518002 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
518035 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:518511 original size:13 final size:13
Alignment explanation
Indices: 518493--518518 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
518483 CAATTTTTTG
518493 TGTATCGATACAT
1 TGTATCGATACAT
518506 TGTATCGATACAT
1 TGTATCGATACAT
518519 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:521010 original size:13 final size:13
Alignment explanation
Indices: 520992--521017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
520982 CAATTTTTTG
520992 TGTATCGATACAT
1 TGTATCGATACAT
521005 TGTATCGATACAT
1 TGTATCGATACAT
521018 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:522209 original size:28 final size:28
Alignment explanation
Indices: 522166--522237 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
522156 GGAATAAAGC
**
522166 CGAGGTTGGAGTATCCCCTCGGA-AGTAA
1 CGAGGTTGGAGTATCCCCGAGGAGA-TAA
* *
522194 CGGGGTTGGAGTATCCCCGATGAGATAA
1 CGAGGTTGGAGTATCCCCGAGGAGATAA
522222 CGAGGTTGGAGTATCC
1 CGAGGTTGGAGTATCC
522238 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 37 0.97
29 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGAGGTTGGAGTATCCCCGAGGAGATAA
Found at i:522375 original size:105 final size:103
Alignment explanation
Indices: 522225--522447 Score: 277
Period size: 105 Copynumber: 2.1 Consensus size: 103
522215 GAGATAACGA
* * * * *
522225 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
*** *
522290 CCGATTAACGGAAAAATTGGTGTTTTGAAAATAAAATCGG
66 CCGATT-A-GGAAAAATCAATATTTTGAAAATAAAATCGG
* * *
522330 GGTTGTAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCGGGGTTGGAGTATC
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATC
* * *
522394 CCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
65 CCCGATTAGGAAAAATCAATATTTTGAAAATAAAATCGG
522433 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
522448 TCAGAAATAA
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
103 38 0.38
104 1 0.01
105 52 0.51
106 10 0.10
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGGAGTTGGAGTATCC
CCGATTAGGAAAAATCAATATTTTGAAAATAAAATCGG
Found at i:522377 original size:52 final size:51
Alignment explanation
Indices: 522225--522447 Score: 257
Period size: 52 Copynumber: 4.3 Consensus size: 51
522215 GAGATAACGA
* * * *
522225 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGGAAATAAAATCGG
* * * *
522277 AGTTGGAGTATCCCCGATTAACGGAAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-A-TGAAAAATTAGTGTTTTGGAAATAAAATCGG
* * * * *
522330 GGTTGTAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAAATCGG
* * * *
522382 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGG
522433 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
522448 TCAGAAATAA
Statistics
Matches: 144, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
51 38 0.26
52 61 0.42
53 34 0.24
54 11 0.08
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGG
Found at i:522571 original size:133 final size:131
Alignment explanation
Indices: 522329--522580 Score: 310
Period size: 133 Copynumber: 1.9 Consensus size: 131
522319 AATAAAATCG
* * *
522329 GGGTTGTAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATC
* * * * *
522394 CCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAAC
66 CCCGATTATGAAAAATCAATATCTTGAAAATAAAATCGGAGTTGGAATATCCCCTCAGAAATAAC
522459 A
131 A
* * * *
522460 GGGTTGGAGTATCCCCGATTGT-GAAAATTTGGTGTTTTTTTGGAAATAAAATCGGAGTTGGAGT
1 GGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTG---TTTTAGAAATAAAACCGGAGTTGGAGT
* * * *
522524 ATCCCTGATTAT-AGAAAATTAGTGTCTTGAAAATAAAATCGGAGTTGGAATATCCCC
63 ATCCCCGATTATGA-AAAATCAATATCTTGAAAATAAAATCGGAGTTGGAATATCCCC
522581 GATTGTGGAG
Statistics
Matches: 101, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
130 10 0.10
131 21 0.21
132 1 0.01
133 69 0.68
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (131 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATC
CCCGATTATGAAAAATCAATATCTTGAAAATAAAATCGGAGTTGGAATATCCCCTCAGAAATAAC
A
Found at i:524976 original size:33 final size:33
Alignment explanation
Indices: 524938--525004 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
524928 AAAATTTCCA
***
524938 AATGTATCAATACAAAGATCCATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
* *
524971 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCAATACAAAGAAAAATGTATCGATAC
525004 A
1 A
525005 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCAATACAAAGAAAAATGTATCGATAC
Found at i:524977 original size:13 final size:13
Alignment explanation
Indices: 524959--524984 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
524949 ACAAAGATCC
524959 ATGTATCGATACA
1 ATGTATCGATACA
524972 ATGTATCGATACA
1 ATGTATCGATACA
524985 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:525048 original size:19 final size:18
Alignment explanation
Indices: 525024--525091 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
525014 CAGTAGCTAA
525024 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
*
525043 TTATGTATTGATAC--A-
1 TTATGTATCGATACAAAC
525058 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
525075 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
525092 TTGTTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
13 10 0.24
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.59
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:525068 original size:32 final size:32
Alignment explanation
Indices: 525027--525089 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
525017 TAGCTAATTA
* *
525027 TGTATCGATACAATACTTATGTATTGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
525059 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
525090 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:525153 original size:21 final size:21
Alignment explanation
Indices: 525127--525203 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
525117 GTTGGGACCC
* *
525127 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
525148 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
525169 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
525190 TGTATCGATACATT
1 TGTATCGATACATT
525204 TGAATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:525800 original size:38 final size:38
Alignment explanation
Indices: 525701--525801 Score: 109
Period size: 38 Copynumber: 2.7 Consensus size: 38
525691 GTAACATACT
*
525701 AAAACCAC-ATT-TAACCCATGTGGCATAGGTTAGAACA
1 AAAACCACTATTCTAATCCA-GTGGCATAGGTTAGAACA
*
525738 AAAACCACTATTCTAATCTAGTGGCAT-GGTTCAGAACA
1 AAAACCACTATTCTAATCCAGTGGCATAGGTT-AGAACA
* * * *
525776 AAAACTATTATTCTTATCCGGTGGCA
1 AAAACCACTATTCTAATCCAGTGGCA
525802 CGGTGAAAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
37 12 0.22
38 37 0.69
39 5 0.09
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (38 bp):
AAAACCACTATTCTAATCCAGTGGCATAGGTTAGAACA
Found at i:525819 original size:31 final size:31
Alignment explanation
Indices: 525775--525867 Score: 105
Period size: 31 Copynumber: 3.0 Consensus size: 31
525765 GGTTCAGAAC
* *
525775 AAAAACTATTATTCTTATCCGGTGGCACGGT
1 AAAAACCACTATTCTTATCCGGTGGCACGGT
* * * *
525806 GAAAACCACTATTCTTATTCGGTGGCACAGC
1 AAAAACCACTATTCTTATCCGGTGGCACGGT
* * *
525837 AAAAACCACTATTTTTATCCAGTGACACGGT
1 AAAAACCACTATTCTTATCCGGTGGCACGGT
525868 TTGAAATTGG
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (31 bp):
AAAAACCACTATTCTTATCCGGTGGCACGGT
Found at i:528065 original size:15 final size:14
Alignment explanation
Indices: 528044--528078 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
528034 TTGGAAGAAT
528044 AAAGAAGAAAACAGA
1 AAAGAAGAAAA-AGA
*
528059 GAAGAAGAAAAAGA
1 AAAGAAGAAAAAGA
528073 AAAGAA
1 AAAGAA
528079 AAAGGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAAAAGA
Found at i:529496 original size:2 final size:2
Alignment explanation
Indices: 529491--529524 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
529481 TTTTATGGTA
529491 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
529525 ACAAACATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:534101 original size:18 final size:18
Alignment explanation
Indices: 534078--534112 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
534068 ATGTTAAGAA
534078 TTTTGAGATGTATATTAG
1 TTTTGAGATGTATATTAG
534096 TTTTGAGATGTATATTA
1 TTTTGAGATGTATATTA
534113 TCATATTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (18 bp):
TTTTGAGATGTATATTAG
Found at i:537252 original size:17 final size:17
Alignment explanation
Indices: 537200--537255 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
537190 TGGTTAAAAT
*
537200 AATTTATATT-TATATA
1 AATTTATATTATATAAA
* *
537216 AATTTGATA-TAT-TGAT
1 AATTT-ATATTATATAAA
537232 AATTTATATTATATAAA
1 AATTTATATTATATAAA
537249 AATTTAT
1 AATTTAT
537256 TTTTATCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
15 3 0.10
16 15 0.48
17 13 0.42
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
AATTTATATTATATAAA
Found at i:538554 original size:2 final size:2
Alignment explanation
Indices: 538549--538583 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
538539 TTTCTTTAAT
538549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
538584 GGTGTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:540797 original size:19 final size:19
Alignment explanation
Indices: 540762--540817 Score: 80
Period size: 19 Copynumber: 3.0 Consensus size: 19
540752 TAGATAATTA
*
540762 TATTTATT-AGGTAAATAT
1 TATTTATTAAGTTAAATAT
540780 TATTTATTAAGTTAAATAT
1 TATTTATTAAGTTAAATAT
540799 TATTTATTACA-TTAAATAT
1 TATTTATTA-AGTTAAATAT
540818 GGAGTTTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 8 0.23
19 26 0.74
20 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (19 bp):
TATTTATTAAGTTAAATAT
Found at i:541855 original size:17 final size:17
Alignment explanation
Indices: 541833--541866 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
541823 TTGTAAGTTT
541833 CAAGCCATGAACCTTTA
1 CAAGCCATGAACCTTTA
541850 CAAGCCATGAACCTTTA
1 CAAGCCATGAACCTTTA
541867 TAAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (17 bp):
CAAGCCATGAACCTTTA
Found at i:542749 original size:13 final size:13
Alignment explanation
Indices: 542731--542756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
542721 CAATTTTTTG
542731 TGTATCGATACAT
1 TGTATCGATACAT
542744 TGTATCGATACAT
1 TGTATCGATACAT
542757 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:545331 original size:13 final size:13
Alignment explanation
Indices: 545309--545347 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
545299 ATAATCACCC
* *
545309 TGTATTGATACAG
1 TGTATCGATACAA
545322 TGTATCGATACAA
1 TGTATCGATACAA
545335 TGTATCGATACAA
1 TGTATCGATACAA
545348 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:545358 original size:20 final size:20
Alignment explanation
Indices: 545333--545411 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
545323 GTATCGATAC
545333 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
545353 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
545378 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
545398 CATGTATCGATACA
1 AATGTATCGATACA
545412 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:547446 original size:15 final size:15
Alignment explanation
Indices: 547426--547456 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
547416 ATTTCGTTTG
*
547426 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
547441 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
547456 G
1 G
547457 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:549289 original size:21 final size:21
Alignment explanation
Indices: 549260--549304 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
549250 AAGTTTTCAT
*
549260 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
549280 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
549302 TTT
1 TTT
549305 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:551544 original size:13 final size:13
Alignment explanation
Indices: 551526--551551 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
551516 CAATTTTTTG
551526 TGTATCGATACAT
1 TGTATCGATACAT
551539 TGTATCGATACAT
1 TGTATCGATACAT
551552 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:556737 original size:57 final size:57
Alignment explanation
Indices: 556676--557002 Score: 365
Period size: 58 Copynumber: 5.7 Consensus size: 57
556666 TTCTTATATT
* *
556676 ATGGAAAATGACATAAATGACATCAAAATTCATAAAATTGCATCAAGTCCCTA-AGTA
1 ATGGAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAGTCCCTAGA-TC
* ** * *
556733 ATGGAAAATGACCCAAATGACA-CTAACTTTCATAAAATTACATCAACATCCCTAGATC
1 ATGGAAAATGACCTAAATGACATC-AAAATTCATAAAATTGCATCAA-GTCCCTAGATC
* * * * *
556791 ATGGAAAGTAACTTAAATGACATCAAAATTCAAAAAATTACATCACAGTCCCTAGATC
1 ATGGAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCA-AGTCCCTAGATC
* * * * *
556849 ATAGAATATAACCTAAATGACATCAAAATTCAAAAAATTAG-ATACAAGTCCTTAGATC
1 ATGGAAAATGACCTAAATGACATCAAAATTCATAAAATT-GCAT-CAAGTCCCTAGATC
* *
556907 ATGTAAAAATGACCTAAATGACATCAAAATTCATAAAA-TGCATCACAATCCCTAGATC
1 ATG-GAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCA-AGTCCCTAGATC
* *
556965 ATGGAATATGACCTATATGACATCAAAATTCATAAAAT
1 ATGGAAAATGACCTAAATGACATCAAAATTCATAAAAT
557003 GTTATAGAAA
Statistics
Matches: 228, Mismatches: 31, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
56 1 0.00
57 73 0.32
58 119 0.52
59 35 0.15
ACGTcount: A:0.47, C:0.18, G:0.10, T:0.25
Consensus pattern (57 bp):
ATGGAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAGTCCCTAGATC
Found at i:557025 original size:116 final size:115
Alignment explanation
Indices: 556680--557045 Score: 395
Period size: 116 Copynumber: 3.2 Consensus size: 115
556670 TATATTATGG
* * *
556680 AAAATGACATAAATGACATCAAAATTCATAAAATTGCATCA-AGTCCCTA-AGTAATGGAAAATG
1 AAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCACAGTCCCTAGA-TCATGGAATATG
* ** * * *
556743 ACCCAAATGACA-CTAACTTTCATAAAATTACATCAACATCCCTAGATCATGG
65 ACCTAAATGACATC-AAAATTCATAAAATTACAT-AAAATCCTTAGATCATGA
* * * * * * *
556795 AAAGTAACTTAAATGACATCAAAATTCAAAAAATTACATCACAGTCCCTAGATCATAGAATATAA
1 AAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCACAGTCCCTAGATCATGGAATATGA
* * *
556860 CCTAAATGACATCAAAATTCAAAAAATTAGATACAAGTCCTTAGATCATGTA
66 CCTAAATGACATCAAAATTCATAAAATTACATA-AAATCCTTAGATCATG-A
*
556912 AAAATGACCTAAATGACATCAAAATTCATAAAA-TGCATCACAATCCCTAGATCATGGAATATGA
1 AAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCACAGTCCCTAGATCATGGAATATGA
* * *
556976 CCTATATGACATCAAAATTCATAAAATGT-TATAGAAATCGTTA-AGTCATGA
66 CCTAAATGACATCAAAATTCATAAAAT-TACATA-AAATCCTTAGA-TCATGA
557027 AAAATGA-CTAAAATGACAT
1 AAAATGACCT-AAATGACAT
557046 AATATTTGCA
Statistics
Matches: 211, Mismatches: 32, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
114 2 0.01
115 55 0.26
116 122 0.58
117 32 0.15
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.25
Consensus pattern (115 bp):
AAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCACAGTCCCTAGATCATGGAATATGA
CCTAAATGACATCAAAATTCATAAAATTACATAAAATCCTTAGATCATGA
Found at i:561324 original size:71 final size:72
Alignment explanation
Indices: 561241--561379 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 72
561231 GATAAATATG
* * * * *
561241 GTTGGCAATAGCTACA-AAATGCTGAAAACCTTATTTTTATCGATA-AAAGTGAAAATATATCGA
1 GTTGGCAATAGCTAAACAAATCCTGAAAACCTCATTTGTATCAATACAAA-TGAAAATATATCGA
561304 TACATCTT
65 TACATCTT
* * * * *
561312 GTTGGCAGTAGCTAAACAAATCCTGAAACCCTCATTTGTATCAATACACATGAAATTGTATCGAT
1 GTTGGCAATAGCTAAACAAATCCTGAAAACCTCATTTGTATCAATACAAATGAAAATATATCGAT
561377 ACA
66 ACA
561380 GAATGTATCA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
71 14 0.25
72 40 0.71
73 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (72 bp):
GTTGGCAATAGCTAAACAAATCCTGAAAACCTCATTTGTATCAATACAAATGAAAATATATCGAT
ACATCTT
Found at i:562772 original size:21 final size:21
Alignment explanation
Indices: 562746--562798 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
562736 TTCAATAATT
562746 TGTATTGATACAATAAGCT-AA
1 TGTATTGATACAATAAG-TGAA
562767 TGTATTGATAC-ATAAGTGAA
1 TGTATTGATACAATAAGTGAA
*
562787 TGTATCGATACA
1 TGTATTGATACA
562799 GGACCATGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.03
20 17 0.59
21 11 0.38
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (21 bp):
TGTATTGATACAATAAGTGAA
Found at i:568971 original size:24 final size:23
Alignment explanation
Indices: 568939--568988 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 23
568929 CTTTTGTTGC
568939 AAATGCTTTGTATTAAATAATGGA
1 AAATGCTTTGTATTAAATAAT-GA
568963 AAATGCTTTGTATTAAATAATGA
1 AAATGCTTTGTATTAAATAATGA
568986 AAA
1 AAA
568989 GGATAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (23 bp):
AAATGCTTTGTATTAAATAATGA
Found at i:574143 original size:93 final size:92
Alignment explanation
Indices: 573945--574161 Score: 215
Period size: 92 Copynumber: 2.4 Consensus size: 92
573935 TTCAGGATTT
* ** **** * *
573945 AATGTATCGATACATCT-TGTGAATGTATCGATACATATGGTTGGCAGTAGTTGTGAAATGCTGA
1 AATGTATCGATACAT-TATGTGAATGTATTGATACATATCATTGGCAGTAGTAAACAAATCCTAA
* * *
574009 AACCCTTATTTTTATCGATACAAGTGAA
65 AACCCTCATTTGTATAGATACAAGTGAA
** * *
574037 AATGTATTAATACATTATGTGAATGTATTGATACATTTCATTGGTAGTAGCTAAACAAATCCTAA
1 AATGTATCGATACATTATGTGAATGTATTGATACATATCATTGGCAGTAG-TAAACAAATCCTAA
574102 AACCCTCATTTGTATAGATACACA-TGAA
65 AACCCTCATTTGTATAGATACA-AGTGAA
* * *
574130 ATTGTATCGATACAATAT-AGAATGTATTGATA
1 AATGTATCGATACATTATGTGAATGTATTGATA
574162 TTTTAAGTTA
Statistics
Matches: 101, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
91 1 0.01
92 54 0.53
93 45 0.45
94 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (92 bp):
AATGTATCGATACATTATGTGAATGTATTGATACATATCATTGGCAGTAGTAAACAAATCCTAAA
ACCCTCATTTGTATAGATACAAGTGAA
Found at i:574320 original size:13 final size:12
Alignment explanation
Indices: 574300--574335 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
574290 AACGAGGTTA
574300 AAAAAATAAAAT
1 AAAAAATAAAAT
574312 AATAAAATAAAAT
1 AA-AAAATAAAAT
*
574325 AAAAATTAAAA
1 AAAAAATAAAA
574336 ATTACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:574717 original size:21 final size:21
Alignment explanation
Indices: 574692--574742 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
574682 GTCCAGATGC
574692 ATCGATACATTCAAGAAATGT
1 ATCGATACATTCAAGAAATGT
574713 ATCGATACATTCAAGAAATGT
1 ATCGATACATTCAAGAAATGT
574734 ATCGATACA
1 ATCGATACA
574743 AGGTCCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (21 bp):
ATCGATACATTCAAGAAATGT
Found at i:579253 original size:19 final size:19
Alignment explanation
Indices: 579211--579282 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
579201 ATATCCAGAA
*
579211 GTATCGATACAT-TATGCTTT
1 GTATCGATACATGT-T-CATT
579231 GTATCGATACATGTTCATT
1 GTATCGATACATGTTCATT
**
579250 GTATCGATACATACTCAATT
1 GTATCGATACATGTTC-ATT
579270 GTATCGATACATG
1 GTATCGATACATG
579283 AAACTGGTAG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (19 bp):
GTATCGATACATGTTCATT
Found at i:583664 original size:291 final size:291
Alignment explanation
Indices: 583140--583702 Score: 991
Period size: 291 Copynumber: 1.9 Consensus size: 291
583130 TATAAAGGAA
* *
583140 AAAGGCCTAACATAAGCTATTTTCATCTATTTGGGTGCAAATATTTTGTTTTAAATAATGGAAAA
1 AAAGGCCTAACATAAGCTATTTTCATCCATTTGGATGCAAATATTTTGTTTTAAATAATGGAAAA
*
583205 GAAAATCTTAGTAAATTCGACACTAAAAGTGATGAAGAAATTTTTCTTGGTTATTCAACAAACTC
66 GAAAATCTTAGTAAATTCGAAACTAAAAGTGATGAAGAAATTTTTCTTGGTTATTCAACAAACTC
* *
583270 TAAAGCTTATCGAGTGTTTAATAAAAAAACCTTGATTGTCGAAGAATCAATCCATGTTGTTTTTT
131 TAAAGCTTATCGAGTATTTAATAAAAAAACCTTGATTGTCGAAGAATCAATCCATGTTGTTTTTG
*
583335 ATGAATCTAACTCTTCTGTGAGGAAGGTATCTTTTGTTGACAATGATGCAGAAATTTATGAAGAA
196 ATGAATCTAACTCTTCCGTGAGGAAGGTATCTTTTGTTGACAATGATGCAGAAATTTATGAAGAA
583400 AATTTAGAACAAATACCGCTTGCTATATTGT
261 AATTTAGAACAAATACCGCTTGCTATATTGT
*
583431 AAAGGCCTAACATAAGCTATTTTCATCCATTTGGATGCAAATGTTTTGTTTTAAATAATGGAAAA
1 AAAGGCCTAACATAAGCTATTTTCATCCATTTGGATGCAAATATTTTGTTTTAAATAATGGAAAA
* * * *
583496 GAAAATCTTGGTAAATTCGAAACTAAAAGTGATTAAGGAATTTTTTTTGGTTATTCAACAAACTC
66 GAAAATCTTAGTAAATTCGAAACTAAAAGTGATGAAGAAATTTTTCTTGGTTATTCAACAAACTC
* * * *
583561 TAAAGCTTATCGAGTATTTAATAAAAGAACCTTGGTTGTTGAATAATCAATCCATGTTGTTTTTG
131 TAAAGCTTATCGAGTATTTAATAAAAAAACCTTGATTGTCGAAGAATCAATCCATGTTGTTTTTG
583626 ATGAATCTAACTCTTCCGTGAGGAAGGTATCTTTTGTTGACAATGATGCAGAAATTTATGAAGAA
196 ATGAATCTAACTCTTCCGTGAGGAAGGTATCTTTTGTTGACAATGATGCAGAAATTTATGAAGAA
583691 AATTTAGAACAA
261 AATTTAGAACAA
583703 GCATCACACA
Statistics
Matches: 257, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
291 257 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (291 bp):
AAAGGCCTAACATAAGCTATTTTCATCCATTTGGATGCAAATATTTTGTTTTAAATAATGGAAAA
GAAAATCTTAGTAAATTCGAAACTAAAAGTGATGAAGAAATTTTTCTTGGTTATTCAACAAACTC
TAAAGCTTATCGAGTATTTAATAAAAAAACCTTGATTGTCGAAGAATCAATCCATGTTGTTTTTG
ATGAATCTAACTCTTCCGTGAGGAAGGTATCTTTTGTTGACAATGATGCAGAAATTTATGAAGAA
AATTTAGAACAAATACCGCTTGCTATATTGT
Found at i:586752 original size:451 final size:451
Alignment explanation
Indices: 585910--587257 Score: 2579
Period size: 451 Copynumber: 3.0 Consensus size: 451
585900 CTCGGGTGGT
* *
585910 CATTACGAATGACCATGAACTTAGAGTCGCCACCGATCATTTCGGGCTAGGCATGATCGGATGCC
1 CATTACGAATGACCATGAACTTGGAGTCGCCACCGATCATTTCAGGCTAGGCATGATCGGATGCC
585975 TATTGAAACCTATGTTTCGAGTCACGAAACTTGAAACATCGATCTCGGGGTCTACGTAATTCAGA
66 TATTGAAACCTATGTTTCGAGTCACGAAACTTGAAACATCGATCTCGGGGTCTACGTAATTCAGA
* *
586040 GATTCGTATTTGGGTTCGGGAGTTGGTTACGCGTGGGAAAGGATTAGCACCCCCACGACGCCCGA
131 GATTCGTATTTGGGTTCGGGAGTTGGTTACGCGTGGGGAAGGATTAGCACCCCCACGACGCTCGA
*
586105 AGTTAGTACCTTCTAACTATGCCTTACTTAAATCTTAATTTTCTCGGTTCCATTTTTATCATTAC
196 AGTCAGTACCTTCTAACTATGCCTTACTTAAATCTTAATTTTCTCGGTTCCATTTTTATCATTAC
*
586170 TTAGATGTAATTCCCTCTAATGCATGAAGTTTTGTGAAAACTATAAATCCGGATTTAAGATGAAA
261 TTAGATGTAATTCCCTCTAATGCATGAAGTTTTGTGAAAACTACAAATCCGGATTTAAGATGAAA
586235 ACTTATATCACCTATGCACCTCGGAGGAGTGAGGAACACGGTGATTTTTTTATAGAAAAGGTTTC
326 ACTTATATCACCTATGCACCTCGGAGGAGTGAGGAACACGGTGATTTTTTTATAGAAAAGGTTTC
*
586300 CAGATTAGGTTTGAAAAAAATCAAATATTTTGTGCCAAGCACTGGAGAGATACCGAATGAC
391 CAGATTAGGTTTGAAAAAAATCAAATATTTTGTGTCAAGCACTGGAGAGATACCGAATGAC
586361 CATTACGAATGACCATGAACTTGGAGTCGCCACCGATCATTTCAGGCTAGGCATGATCGGATGCC
1 CATTACGAATGACCATGAACTTGGAGTCGCCACCGATCATTTCAGGCTAGGCATGATCGGATGCC
*
586426 TATTGAAACCTATGTTTCGAGTCACGAAACTTGAAACATCGATCTCGGAGTCTACGTAATTCAGA
66 TATTGAAACCTATGTTTCGAGTCACGAAACTTGAAACATCGATCTCGGGGTCTACGTAATTCAGA
586491 GATTCGTATTTGGGTTCGGGAGTTGGTTACGCGTGGGGAAGGATTAGCACCCCCACGACGCTCGA
131 GATTCGTATTTGGGTTCGGGAGTTGGTTACGCGTGGGGAAGGATTAGCACCCCCACGACGCTCGA
586556 AGTCAGTACCTTCTAACTATGCCTTACTTAAATCTTAATTTTCTCGGTTCCATTTTTATCATTAC
196 AGTCAGTACCTTCTAACTATGCCTTACTTAAATCTTAATTTTCTCGGTTCCATTTTTATCATTAC
586621 TTAGATGTAATTCCCTCTAATGCATGAAGTTTTGTGAAAACTACAAATCCGGATTTAAGATGAAA
261 TTAGATGTAATTCCCTCTAATGCATGAAGTTTTGTGAAAACTACAAATCCGGATTTAAGATGAAA
586686 ACTTATATCACCTATGCACCTCGGAGGAGTGAGGAACACGGTGATTTTTTTATAGAAAAGGTTTC
326 ACTTATATCACCTATGCACCTCGGAGGAGTGAGGAACACGGTGATTTTTTTATAGAAAAGGTTTC
586751 CAGATTAGGTTTGAAAAAAATCAAATATTTTGTGTCAAGCACTGGAGAGATACCGAATGAC
391 CAGATTAGGTTTGAAAAAAATCAAATATTTTGTGTCAAGCACTGGAGAGATACCGAATGAC
*
586812 CATTACAAATGACCATGAACTTGGAGTCGCCACCGATCATTTCAGGCTAGGCATGATCGGATGCC
1 CATTACGAATGACCATGAACTTGGAGTCGCCACCGATCATTTCAGGCTAGGCATGATCGGATGCC
* *
586877 TATTGAAACCTATGTTTTGAGTCACGAAACTTGAAACATCGATCTCGGGGTCAACGTAATTCAGA
66 TATTGAAACCTATGTTTCGAGTCACGAAACTTGAAACATCGATCTCGGGGTCTACGTAATTCAGA
*
586942 GATTTGTATTTGGGTTCGGGAGTTGGTTACGCGTGGGGAAGGATTAGCACCCCCACGACGCTCGA
131 GATTCGTATTTGGGTTCGGGAGTTGGTTACGCGTGGGGAAGGATTAGCACCCCCACGACGCTCGA
*
587007 AGTCAGTACCTTCTAACTATGTCTTACTTAAATCTTAATTTTCTCGGTTCCATTTTTATCATTAC
196 AGTCAGTACCTTCTAACTATGCCTTACTTAAATCTTAATTTTCTCGGTTCCATTTTTATCATTAC
587072 TTAGATGTAATTCCCTCTAATGCATGAAGTTTTGTGAAAACTACAAATCCGGATTTAAGATGAAA
261 TTAGATGTAATTCCCTCTAATGCATGAAGTTTTGTGAAAACTACAAATCCGGATTTAAGATGAAA
587137 ACTTATATCACCTATGCACCTCGGAGGAGTGAGGAACACGGTGATTTTTTTATAGAAAAGGTTTC
326 ACTTATATCACCTATGCACCTCGGAGGAGTGAGGAACACGGTGATTTTTTTATAGAAAAGGTTTC
587202 CAGATTAGGTTTGAAAAAAATCAAATATTTTGTGTCAAGCACTGGAGAGATACCGA
391 CAGATTAGGTTTGAAAAAAATCAAATATTTTGTGTCAAGCACTGGAGAGATACCGA
587258 CACGAAATAT
Statistics
Matches: 883, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
451 883 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (451 bp):
CATTACGAATGACCATGAACTTGGAGTCGCCACCGATCATTTCAGGCTAGGCATGATCGGATGCC
TATTGAAACCTATGTTTCGAGTCACGAAACTTGAAACATCGATCTCGGGGTCTACGTAATTCAGA
GATTCGTATTTGGGTTCGGGAGTTGGTTACGCGTGGGGAAGGATTAGCACCCCCACGACGCTCGA
AGTCAGTACCTTCTAACTATGCCTTACTTAAATCTTAATTTTCTCGGTTCCATTTTTATCATTAC
TTAGATGTAATTCCCTCTAATGCATGAAGTTTTGTGAAAACTACAAATCCGGATTTAAGATGAAA
ACTTATATCACCTATGCACCTCGGAGGAGTGAGGAACACGGTGATTTTTTTATAGAAAAGGTTTC
CAGATTAGGTTTGAAAAAAATCAAATATTTTGTGTCAAGCACTGGAGAGATACCGAATGAC
Found at i:587816 original size:28 final size:26
Alignment explanation
Indices: 587766--587839 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 26
587756 AATAAAATCG
*
587766 GGGTTGGAGTATCCCTTCGGAAATAATA
1 GGGTTGGAGTATCCC--CGGAAATAACA
587794 GGGTTGGAGTATCCCCGATGAAATAACA
1 GGGTTGGAGTATCCCCG--GAAATAACA
* *
587822 GGGTTAGAATATCCCCGG
1 GGGTTGGAGTATCCCCGG
587840 TTGTGAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.07
28 38 0.93
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (26 bp):
GGGTTGGAGTATCCCCGGAAATAACA
Found at i:587889 original size:51 final size:51
Alignment explanation
Indices: 587831--587939 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
587821 AGGGTTAGAA
* * * **
587831 TATCCCCGGTTGTGAAAAATTGGTGTTTTGGAAATAAAA-TCGGAGTTGGAG
1 TATCCCCGATTATGAAAAATTGGTATTTTAAAAATAAAACT-GGAGTTGGAG
* *
587882 TATCCCCGATTATGGAAAATTGGTATTTTAAAAATAAAACTGGGGTTGGAG
1 TATCCCCGATTATGAAAAATTGGTATTTTAAAAATAAAACTGGAGTTGGAG
587933 TATCCCC
1 TATCCCC
587940 TCGAAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (51 bp):
TATCCCCGATTATGAAAAATTGGTATTTTAAAAATAAAACTGGAGTTGGAG
Found at i:587917 original size:158 final size:157
Alignment explanation
Indices: 587629--587979 Score: 410
Period size: 158 Copynumber: 2.2 Consensus size: 157
587619 TTTTGGAGAT
* * * *
587629 AATAATGGGGTTGGAGTATCCCC--TCGAAAATAACGAGGTTCGAGTATCCCTGATTGTGAAAAA
1 AATAATAGGGTTGGAGTATCCCCGAT-G-AAATAACGAGGTTAGAATATCCCCGATTGTGAAAAA
* * *
587692 TTGATGATTTTGAAATAAGGAAAGGGTTGAAGTATCCCTGATTATGGAAGATCGATGTTTTAAAA
64 TTGATGATTTTGAAATAA-GAAAGGGTTGAAGTATCCCCGATTATGGAAAATCGATATTTTAAAA
* *
587757 ATAAAA-TCGGGGTTGGAGTATCCCTTCGGA
128 ATAAAACT-GGGGTTGGAGTATCCCCTCGAA
*
587787 AATAATAGGGTTGGAGTATCCCCGATGAAATAAC-AGGGTTAGAATATCCCCGGTTGTGAAAAAT
1 AATAATAGGGTTGGAGTATCCCCGATGAAATAACGA-GGTTAGAATATCCCCGATTGTGAAAAAT
* * * * *
587851 TGGTG-TTTTGGAAATAA-AATCGGAGTTGGAGTATCCCCGATTATGGAAAATTGGTATTTTAAA
65 TGATGATTTT-GAAATAAGAA-AGG-GTTGAAGTATCCCCGATTATGGAAAATCGATATTTTAAA
587914 AATAAAACTGGGGTTGGAGTATCCCCTCGAA
127 AATAAAACTGGGGTTGGAGTATCCCCTCGAA
* **
587945 AATAA-CGGGATTGGAGTATCCTTGATGAAATAACG
1 AATAATAGGG-TTGGAGTATCCCCGATGAAATAACG
587980 GGGGGGTATT
Statistics
Matches: 166, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
156 2 0.01
157 10 0.06
158 151 0.91
159 2 0.01
160 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (157 bp):
AATAATAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTAGAATATCCCCGATTGTGAAAAATT
GATGATTTTGAAATAAGAAAGGGTTGAAGTATCCCCGATTATGGAAAATCGATATTTTAAAAATA
AAACTGGGGTTGGAGTATCCCCTCGAA
Found at i:588093 original size:28 final size:27
Alignment explanation
Indices: 588024--588094 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 27
588014 TATAAAGCCG
588024 GGGTTGGAGTATCCCCTCGGAAATAACA
1 GGGTTGGAGTAT-CCCTCGGAAATAACA
* * *
588052 GGGTTGGAATATCCCTGGCGAAATAACT
1 GGGTTGGAGTATCCCTCG-GAAATAACA
*
588080 GGGTTGGAGCATCCC
1 GGGTTGGAGTATCCC
588095 CAATTGTGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCTCGGAAATAACA
Found at i:588170 original size:28 final size:28
Alignment explanation
Indices: 588130--588203 Score: 100
Period size: 28 Copynumber: 2.6 Consensus size: 28
588120 GATATAAAGC
588130 CGGGGTTGGAGTATCCCCTCG-GAAATAA
1 CGGGGTTGGAGTATCCCCT-GAGAAATAA
588158 -GGGGATTGGAGTAT-CCCTGATGAAATAA
1 CGGGG-TTGGAGTATCCCCTGA-GAAATAA
588186 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
588204 AATTGTGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.02
27 8 0.20
28 25 0.61
29 7 0.17
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:588184 original size:108 final size:108
Alignment explanation
Indices: 587995--588215 Score: 372
Period size: 108 Copynumber: 2.0 Consensus size: 108
587985 GTATTATGGA
587995 AAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGA
1 AAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGA
* *
588060 ATATCCCTGGCGAAATAACTGGGTTGGAGCATCCCCAATTGTG
66 ATATCCCTGACGAAATAACGGGGTTGGAGCATCCCCAATTGTG
*
588103 AAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAA-GGGGATTGG
1 AAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACAGGG-TTGG
* * *
588167 AGTATCCCTGATGAAATAACGGGGTTGGAGTATCCCCAATTGTG
65 AATATCCCTGACGAAATAACGGGGTTGGAGCATCCCCAATTGTG
588211 AAAAA
1 AAAAA
588216 GTGGTGTTTT
Statistics
Matches: 106, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
107 3 0.03
108 103 0.97
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (108 bp):
AAAAAATCAATATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGA
ATATCCCTGACGAAATAACGGGGTTGGAGCATCCCCAATTGTG
Found at i:588349 original size:51 final size:51
Alignment explanation
Indices: 588190--588357 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 51
588180 AAATAACGGG
* * * *
588190 GTTGGAGTATCCCCAATTGTGAAAAAGTGGTGTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGGTGTTTTAGAAATAAAATCGGA
* ** * * *
588241 GTTGGAGTATCCCCGATTGCG-GTAATCGGTGCTTTAGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTGAGAAAAATTGGTGTTTTAGAAATAAAATCGGA
* * * *
588291 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTAGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTGAGAAAAATTGGTGTTTTAGAAATAAAATCGGA
588341 GATTGGAGTATCCCCGA
1 G-TTGGAGTATCCCCGA
588358 GATGAAAAAT
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
50 42 0.44
51 54 0.56
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGAGAAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:590717 original size:33 final size:33
Alignment explanation
Indices: 590675--590739 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
590665 TACATTATAA
590675 AATGTATCGATACAATGAGCAATATATCGATAC
1 AATGTATCGATACAATGAGCAATATATCGATAC
* *
590708 AATGTATCGATATAATGAGCAATGTATCGATA
1 AATGTATCGATACAATGAGCAATATATCGATA
590740 TAGTGCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATATATCGATAC
Found at i:590802 original size:20 final size:20
Alignment explanation
Indices: 590655--590831 Score: 104
Period size: 20 Copynumber: 8.8 Consensus size: 20
590645 AAAATGCTTG
590655 AATGTATCGATACATTAT-AA-
1 AATGTATCGATACA--ATGAAC
*
590675 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAAC
*
590695 AA--TAT--AT-CGAT--AC
1 AATGTATCGATACAATGAAC
* *
590708 AATGTATCGATATAATGAGC
1 AATGTATCGATACAATGAAC
* *
590728 AATGTATCGATATAGTGCAA-
1 AATGTATCGATACAATG-AAC
*
590748 AATGTACCGATACATATGGGTAAACCC
1 AATGTATCGATACA-AT--G--AA--C
590775 AGAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATGAAC
*
590797 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
590817 AATGTATCGATACAA
1 AATGTATCGATACAA
590832 ATTGTGAAAA
Statistics
Matches: 124, Mismatches: 14, Indels: 38
0.70 0.08 0.22
Matches are distributed among these distances:
13 3 0.02
15 6 0.05
16 2 0.02
17 2 0.02
18 7 0.06
19 1 0.01
20 79 0.64
21 2 0.02
22 1 0.01
23 1 0.01
24 4 0.03
26 1 0.01
28 2 0.02
29 13 0.10
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:597857 original size:141 final size:140
Alignment explanation
Indices: 597710--598279 Score: 564
Period size: 141 Copynumber: 4.1 Consensus size: 140
597700 ATACCCCAAT
*
597710 AGAAAACCATAAGAATATTAAAAAT-TAAAAAAAATTAAGATAATAATTTTTATTTAATTTTTAA
1 AGAAAACCATAAGAATATTAAAAATCT-TAAAAAATTAAGATAATAATTTTTATTT-ATTTTTAA
* ** **
597774 TTTTCAAAAATTTCATTTCGTACCTTAA-ATGAGAACTGAAAAGATATGAAAAATTTTGAAGATT
64 TTTTCAAAAAATTCATTTTATACCTTAATA-GAGAACCAAAAAGATATGAAAAATTTTGAAGATT
597838 TCTATA-CCTCTAC
128 TCTATACCCT-TAC
* * * * *
597851 GGAAAACCGTAAGAATATTAAAAATCTTGAGAAATTAAAATAATAA--TTT-TTTA----T--TT
1 AGAAAACCATAAGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTATTTTTAATT
* * * * *
597907 CT-AAAAAATTTATTTTATACCTTAATGGAGAACCAAAAAGATA-CAAAAAGTTTTGAGGATTTC
66 TTCAAAAAATTCATTTTATACCTTAATAGAGAACCAAAAAGATATGAAAAA-TTTTGAAGATTTC
*
597970 TATACCCTTAT
130 TATACCCTTAC
* * * *
597981 AGAAAACCATAGGAATATTAGAAATATTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAAT
1 AGAAAACCATAAGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTT-ATTTTTAAT
* *
598046 TTTCAAAAAATTCATTTTATACCTTAATAGAGAACCAAAAAGATATGAAAAGTTTT-AAGCTTTC
65 TTTCAAAAAATTCATTTTATACCTTAATAGAGAACCAAAAAGATATGAAAAATTTTGAAGATTTC
598110 TATACTCC-TAC
130 TATAC-CCTTAC
* * * **
598121 -GAAAAACTATAGGAATATTAGAAATCTTAAGTAATTAAGATAATAATTTTTATTTATTTTTAAA
1 AG-AAAACCATAAGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTATTTTT-AA
* * * * * * * * * *
598185 TTTTTAAGAAAATTCATTTTGTATCTTAAT-GAAAAATCGAAAAGATACGAAAAGTTTTAAATAT
64 TTTTCAA-AAAATTCATTTTATACCTTAATAG-AGAACCAAAAAGATATGAAAAATTTTGAAGAT
598249 TTCTATACCCTTAC
127 TTCTATACCCTTAC
*
598263 AGACAACCATAAGAATA
1 AGAAAACCATAAGAATA
598280 ATAGAAATAT
Statistics
Matches: 356, Mismatches: 49, Indels: 47
0.79 0.11 0.10
Matches are distributed among these distances:
129 5 0.01
130 90 0.25
131 6 0.02
132 3 0.01
133 4 0.01
134 1 0.00
137 1 0.00
138 4 0.01
139 10 0.03
140 73 0.21
141 127 0.36
142 31 0.09
143 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (140 bp):
AGAAAACCATAAGAATATTAAAAATCTTAAAAAATTAAGATAATAATTTTTATTTATTTTTAATT
TTCAAAAAATTCATTTTATACCTTAATAGAGAACCAAAAAGATATGAAAAATTTTGAAGATTTCT
ATACCCTTAC
Found at i:597938 original size:130 final size:128
Alignment explanation
Indices: 597764--598175 Score: 402
Period size: 130 Copynumber: 3.1 Consensus size: 128
597754 AATTTTTATT
* * ** **
597764 TAATTTTTAATTTTCAAAAATTTCATTTCGTACCTTAAATGAGAACTGAAAAGATATGAAAAATT
1 TAATTTTTTATTTTAAAAAATTT-ATTTTATACCTT-AATGAGAACCAAAAAGATATGAAAAATT
* * * *
597829 TTGAAGATTTCTATACCTCTACGGAAAACCGTAAGAATATTAAAAATCTTGAGAAATTAAAATAA
64 TTGAAGATTTCTATACCTCTACGGAAAACCATAGGAATATTAGAAATCTTGAGAAATTAAGATAA
*
597894 TAATTTTTTATTTCTAAAAAATTTATTTTATACCTTAATGGAGAACCAAAAAGATA-CAAAAAGT
1 TAATTTTTTATTT-TAAAAAATTTATTTTATACCTTAAT-GAGAACCAAAAAGATATGAAAAA-T
* ** * *
597958 TTTGAGGATTTCTATACC-CTTATAGAAAACCATAGGAATATTAGAAATATTGAAAAATTAAGAT
63 TTTGAAGATTTCTATACCTC-TACGGAAAACCATAGGAATATTAGAAATCTTGAGAAATTAAGAT
598022 AA
127 AA
*
598024 TAATTTTTATTTAATTTTTAATTTTCAAAAAATTCATTTTATACCTTAATAGAGAACCAAAAAGA
1 T-A-----A--T--TTTTT-ATTTT-AAAAAATTTATTTTATACCTTAAT-GAGAACCAAAAAGA
* * * * *
598089 TATGAAAAGTTTT-AAGCTTTCTATA-CTCCTACGAAAAACTATAGGAATATTAGAAATCTTAAG
53 TATGAAAAATTTTGAAGATTTCTATACCT-CTACGGAAAACCATAGGAATATTAGAAATCTTGAG
*
598152 TAATTAAGATAA
117 AAATTAAGATAA
598164 TAA-TTTTTATTT
1 TAATTTTTTATTT
598176 ATTTTTAAAT
Statistics
Matches: 233, Mismatches: 30, Indels: 40
0.77 0.10 0.13
Matches are distributed among these distances:
128 4 0.02
129 14 0.06
130 93 0.40
131 10 0.04
134 1 0.00
136 1 0.00
138 1 0.00
139 2 0.01
140 55 0.24
141 48 0.21
142 4 0.02
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (128 bp):
TAATTTTTTATTTTAAAAAATTTATTTTATACCTTAATGAGAACCAAAAAGATATGAAAAATTTT
GAAGATTTCTATACCTCTACGGAAAACCATAGGAATATTAGAAATCTTGAGAAATTAAGATAA
Found at i:599061 original size:18 final size:18
Alignment explanation
Indices: 599035--599077 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
599025 CTTTGCTTGA
*
599035 TTTTCCTATTTTTCTATT
1 TTTTTCTATTTTTCTATT
* *
599053 TTTTTCTATTTTTTTCTT
1 TTTTTCTATTTTTCTATT
599071 TTTTTCT
1 TTTTTCT
599078 CTCTCTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTATTTTTCTATT
Found at i:599086 original size:14 final size:14
Alignment explanation
Indices: 599067--599094 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
599057 TCTATTTTTT
599067 TCTTTTTTTCTCTC
1 TCTTTTTTTCTCTC
599081 TCTTTTTTTCTCTC
1 TCTTTTTTTCTCTC
599095 CCCATTCTAA
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:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (14 bp):
TCTTTTTTTCTCTC
Found at i:599093 original size:10 final size:10
Alignment explanation
Indices: 599043--599091 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
599033 GATTTTCCTA
599043 TTTTTCTATT
1 TTTTTCTATT
599053 TTTTTCTATT
1 TTTTTCTATT
*
599063 TTTTTCTTTT
1 TTTTTCTATT
*
599073 TTTCTCTCTCTT
1 TTT-T-TCTATT
599085 TTTTTCT
1 TTTTTCT
599092 CTCCCCATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 25 0.71
11 2 0.06
12 8 0.23
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTATT
Found at i:600245 original size:18 final size:18
Alignment explanation
Indices: 600211--600246 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
600201 CTCCACATTT
* *
600211 CAAAAAAAAGAAGAATTC
1 CAAAAAAAACAAAAATTC
600229 CAAAAAAAACAAAAATTC
1 CAAAAAAAACAAAAATTC
600247 ATAGAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.14, G:0.06, T:0.11
Consensus pattern (18 bp):
CAAAAAAAACAAAAATTC
Found at i:601515 original size:15 final size:15
Alignment explanation
Indices: 601495--601524 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
601485 TACAAGTTGA
601495 AAAGATCCATATATG
1 AAAGATCCATATATG
601510 AAAGATCCATATATG
1 AAAGATCCATATATG
601525 TTTTAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
AAAGATCCATATATG
Found at i:604685 original size:105 final size:104
Alignment explanation
Indices: 604563--604907 Score: 272
Period size: 105 Copynumber: 3.3 Consensus size: 104
604553 CCGATGAAAT
* * *
604563 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
*
604628 TATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAA
66 TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * * * * *
604667 AACCGGGGTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTTGAAAATAAAGTCGGGGTTGGA
1 AA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
* * * * * ** *
604731 GTATCCCCTCAGAAATAACGG-G--GTTGGAGTATCCCCGATGAT-T
65 GTAT-CCC-C-G-ATTAAAGGAGAAATTGGTGT-T--CTGAAAATAA
* *
604774 AACGGGGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTTGGAAATAAAATCGGAGTT
1 AACGGGGTTGGAGTATCCCCGATTGTGAA-AAATT-G-G-TATTTTTGGAAATAAAATCGGAGTT
* ** * *
604839 GGAGTATCCCCGATTATA-GA-AAATTAATGTTTTGAAAGTAA
62 GGAGTATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * *
604880 AATCGGAGTTGGAATATCCTCGATTGTG
1 AA-CGGGGTTGGAGTATCCCCGATTGTG
604908 GAGAATTGAG
Statistics
Matches: 180, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
104 27 0.15
105 43 0.24
106 30 0.17
107 33 0.18
108 16 0.09
109 1 0.01
110 4 0.02
111 26 0.14
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (104 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
Found at i:604728 original size:51 final size:51
Alignment explanation
Indices: 604568--604738 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
604558 GAAATAACGA
* * *
604568 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
604620 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
604673 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
604724 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
604739 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:604784 original size:27 final size:28
Alignment explanation
Indices: 604721--604796 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
604711 AAAATAAAGT
*
604721 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
604749 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
604776 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
604797 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:607282 original size:13 final size:13
Alignment explanation
Indices: 607264--607289 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
607254 ACAAAGATCC
607264 ATGTATCGATACA
1 ATGTATCGATACA
607277 ATGTATCGATACA
1 ATGTATCGATACA
607290 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:607285 original size:33 final size:33
Alignment explanation
Indices: 607243--607309 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
607233 AAAATTTCCA
***
607243 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
607276 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
607309 A
1 A
607310 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:607353 original size:19 final size:18
Alignment explanation
Indices: 607329--607396 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
607319 CAGTAGCTAA
607329 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
607348 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
607363 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
607380 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
607397 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:607369 original size:13 final size:13
Alignment explanation
Indices: 607351--607375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
607341 ACAATACTTA
607351 TGTATCGATACAT
1 TGTATCGATACAT
607364 TGTATCGATACA
1 TGTATCGATACA
607376 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:607373 original size:32 final size:32
Alignment explanation
Indices: 607332--607394 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
607322 TAGCTAATTA
*
607332 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
607364 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
607395 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:607437 original size:1 final size:1
Alignment explanation
Indices: 607431--607474 Score: 61
Period size: 1 Copynumber: 44.0 Consensus size: 1
607421 ATACATTTAA
***
607431 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
607475 CAAACACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.05, C:0.02, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:608154 original size:55 final size:55
Alignment explanation
Indices: 608070--608967 Score: 1365
Period size: 55 Copynumber: 16.3 Consensus size: 55
608060 ATAAATTGTA
* * * ** * *
608070 TCCTGCTCATTGAGGAGTAAAAAATGCCACCAACTCGTGTGGGCTTTGAA-AGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
608125 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAA-AAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
608180 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
608235 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
* *
608290 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
608345 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
608400 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
608455 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
608510 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
608565 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
608620 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
608675 TCCTGCTCTTTGAGGACTGGACAA--TGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GA-AAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
*
608730 TCCCGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
608785 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
* * *
608840 TCCTGCTCGTTGAGGATTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
608895 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
*
608950 TCCTGCTCTTTGGGGACT
1 TCCTGCTCTTTGAGGACT
608968 AAAAAGCGGA
Statistics
Matches: 787, Mismatches: 35, Indels: 42
0.91 0.04 0.05
Matches are distributed among these distances:
53 4 0.01
54 22 0.03
55 737 0.94
56 20 0.03
57 4 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
Found at i:608809 original size:26 final size:26
Alignment explanation
Indices: 608336--608810 Score: 81
Period size: 26 Copynumber: 17.3 Consensus size: 26
608326 GTGTGGGCTT
* *
608336 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCAGCTCTTTGGGGAC
* *
608362 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCAGC-TCTT-TG-GGGAC
* *
608389 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCAGCTCTTTGGGGAC
* *
608417 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCAGC-TCTT-TG-GGGAC
* * *
608444 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCAGCTCTTTGGGGAC
* *
608472 TGGACAA--TG-CCACCAACTTGTGTGGG-C
1 T-GA-AAGGTGTCCAGC-TCTT-TG-GGGAC
* *
608499 TTTGAAAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCAGCTCTTTGGGGAC
* *
608527 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCAGC-TCTT-TG-GGGAC
* * *
608554 TTTAAAAGGTGTCCTGCTCTTTGAGGAC
1 --TGAAAGGTGTCCAGCTCTTTGGGGAC
* *
608582 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCAGC-TCTT-TG-GGGAC
* *
608609 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCAGCTCTTTGGGGAC
* *
608637 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCAGC-TCTT-TG-GGGAC
* * *
608664 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCAGCTCTTTGGGGAC
* *
608692 TGGACAA--TG-CCACCAACTTGTGTGGG-C
1 T-GA-AAGGTGTCCAGC-TCTT-TG-GGGAC
* *
608719 TTTGAAAGGTGTCCCGCTCTTTGAGGAC
1 --TGAAAGGTGTCCAGCTCTTTGGGGAC
* *
608747 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCAGC-TCTT-TG-GGGAC
* *
608774 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCAGCTCTTTGGGGAC
608802 TGAAAGGTG
1 TGAAAGGTG
608811 CCACCAACTT
Statistics
Matches: 314, Mismatches: 71, Indels: 128
0.61 0.14 0.25
Matches are distributed among these distances:
25 24 0.08
26 78 0.25
27 58 0.18
28 65 0.21
29 65 0.21
30 24 0.08
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (26 bp):
TGAAAGGTGTCCAGCTCTTTGGGGAC
Found at i:609953 original size:1 final size:1
Alignment explanation
Indices: 609949--610012 Score: 83
Period size: 1 Copynumber: 64.0 Consensus size: 1
609939 CTTTTCTCTC
* * * * *
609949 TTTTTCTTTGTTTTGTTTTTTTTTTGTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
610013 GAAGAGAAGG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (1 bp):
T
Found at i:609968 original size:16 final size:14
Alignment explanation
Indices: 609933--610012 Score: 83
Period size: 14 Copynumber: 5.8 Consensus size: 14
609923 CTTAAGTAGG
* *
609933 TTTTTTCTTTTCTC
1 TTTTTTTTTTTCTT
* * *
609947 TCTTTTTCTTTGTT
1 TTTTTTTTTTTCTT
*
609961 TTGTTTTTTTTT-TG
1 TT-TTTTTTTTTCTT
609975 TTTTTTTTTTTCTT
1 TTTTTTTTTTTCTT
609989 TTTTTTTTTTT-TT
1 TTTTTTTTTTTCTT
610002 TTTTTTTTTTT
1 TTTTTTTTTTT
610013 GAAGAGAAGG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
13 22 0.40
14 25 0.45
15 8 0.15
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTTTCTT
Found at i:609985 original size:32 final size:29
Alignment explanation
Indices: 609949--610012 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 29
609939 CTTTTCTCTC
609949 TTTTTCTTTGTTTTGTTTTTTTTTTGTTTTTT
1 TTTTTCTTT-TTTT-TTTTTTTTTT-TTTTTT
609981 TTTTTCTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTCTTTTTTTTTTTTTTTTTTTTTTT
610010 TTT
1 TTT
610013 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 9 0.28
30 10 0.31
31 4 0.12
32 9 0.28
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (29 bp):
TTTTTCTTTTTTTTTTTTTTTTTTTTTTT
Found at i:622586 original size:105 final size:104
Alignment explanation
Indices: 622464--622808 Score: 272
Period size: 105 Copynumber: 3.3 Consensus size: 104
622454 CCGATGAAAT
* * *
622464 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
*
622529 TATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAA
66 TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * * * * *
622568 AACCGGGGTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTTGAAAATAAAGTCGGGGTTGGA
1 AA-CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGA
* * * * * ** *
622632 GTATCCCCTCAGAAATAACGG-G--GTTGGAGTATCCCCGATGAT-T
65 GTAT-CCC-C-G-ATTAAAGGAGAAATTGGTGT-T--CTGAAAATAA
* *
622675 AACGGGGTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTTGGAAATAAAATCGGAGTT
1 AACGGGGTTGGAGTATCCCCGATTGTGAA-AAATT-G-G-TATTTTTGGAAATAAAATCGGAGTT
* ** * *
622740 GGAGTATCCCCGATTATA-GA-AAATTAATGTTTTGAAAGTAA
62 GGAGTATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
* * *
622781 AATCGGAGTTGGAATATCCTCGATTGTG
1 AA-CGGGGTTGGAGTATCCCCGATTGTG
622809 GAGAATTGAG
Statistics
Matches: 180, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
104 27 0.15
105 43 0.24
106 30 0.17
107 33 0.18
108 16 0.09
109 1 0.01
110 4 0.02
111 26 0.14
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.30
Consensus pattern (104 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAG
TATCCCCGATTAAAGGAGAAATTGGTGTTCTGAAAATAA
Found at i:622629 original size:51 final size:51
Alignment explanation
Indices: 622469--622639 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
622459 GAAATAACGA
* * *
622469 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
622521 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * *
622574 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTGAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
622625 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
622640 TCAGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 39 0.40
52 16 0.16
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:622685 original size:27 final size:28
Alignment explanation
Indices: 622622--622697 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 28
622612 AAAATAAAGT
*
622622 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATGAAATAA
*
622650 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
622677 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
622698 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:625182 original size:13 final size:13
Alignment explanation
Indices: 625164--625189 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
625154 ACAAAGATCC
625164 ATGTATCGATACA
1 ATGTATCGATACA
625177 ATGTATCGATACA
1 ATGTATCGATACA
625190 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:625185 original size:33 final size:33
Alignment explanation
Indices: 625143--625209 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
625133 AAAATTTCCA
***
625143 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
625176 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
625209 A
1 A
625210 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:625253 original size:19 final size:18
Alignment explanation
Indices: 625229--625296 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
625219 CAGTAGCTAA
625229 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
625248 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
625263 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
625280 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
625297 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:625269 original size:13 final size:13
Alignment explanation
Indices: 625251--625275 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
625241 ACAATACTTA
625251 TGTATCGATACAT
1 TGTATCGATACAT
625264 TGTATCGATACA
1 TGTATCGATACA
625276 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:625273 original size:32 final size:32
Alignment explanation
Indices: 625232--625294 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
625222 TAGCTAATTA
*
625232 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
625264 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
625295 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:625376 original size:21 final size:21
Alignment explanation
Indices: 625352--625408 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
625342 CATTTGTAGG
* *
625352 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCAAAAA
625373 ATGTATCGATACATTCAAAAA
1 ATGTATCGATACATTCAAAAA
*
625394 ATGTATCAATACATT
1 ATGTATCGATACATT
625409 TAATTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.32
Consensus pattern (21 bp):
ATGTATCGATACATTCAAAAA
Found at i:625418 original size:1 final size:1
Alignment explanation
Indices: 625412--625455 Score: 61
Period size: 1 Copynumber: 44.0 Consensus size: 1
625402 ATACATTTAA
***
625412 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
625456 CAAACACTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.05, C:0.02, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:626584 original size:20 final size:20
Alignment explanation
Indices: 626561--626613 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
626551 CAATTTATGG
626561 TGTATCGATACA-AAGCAATT
1 TGTATCGATACATAA-CAATT
626581 TGTATCGATACATAACAATT
1 TGTATCGATACATAACAATT
*
626601 TGTATCAATACAT
1 TGTATCGATACAT
626614 CTGGGTGTGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATAACAATT
Found at i:629232 original size:32 final size:32
Alignment explanation
Indices: 629187--629247 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
629177 AGTTGAAATA
*
629187 TATCGAAACAATTTTAATGTATCGATACAGTG
1 TATCGAAACAATTTTAATGTATCAATACAGTG
* *
629219 TATCGATATAATTTTAATGTATCAATACA
1 TATCGAAACAATTTTAATGTATCAATACA
629248 TTATATCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (32 bp):
TATCGAAACAATTTTAATGTATCAATACAGTG
Found at i:629320 original size:20 final size:20
Alignment explanation
Indices: 629295--629332 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
629285 GAAAAGTCCG
*
629295 ATGTATCGATACATTTTGCA
1 ATGTATCAATACATTTTGCA
629315 ATGTATCAATACATTTTG
1 ATGTATCAATACATTTTG
629333 GAAAAATCCA
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:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
ATGTATCAATACATTTTGCA
Found at i:629472 original size:21 final size:21
Alignment explanation
Indices: 629435--629477 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
629425 CAAATTCATG
* *
629435 AACAATTAACCATACAACATC
1 AACAATTAACAACACAACATC
*
629456 AACAATTAACAACACAAGATC
1 AACAATTAACAACACAACATC
629477 A
1 A
629478 TTCAAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.26, G:0.02, T:0.16
Consensus pattern (21 bp):
AACAATTAACAACACAACATC
Found at i:632380 original size:78 final size:78
Alignment explanation
Indices: 632251--632407 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
632241 GGTTTTTCCC
632251 AGACAACTTAGTGAGTATACTTATACTTGCATGTCCTAACCTTCTATGCCAAAGCCAGGTAAGTC
1 AGACAACTTAGTGAGTATACTTATACTTGCATGTCCTAACCTTCTATGCCAAAGCCAGGTAAGTC
632316 ATTGTTATCCGCA
66 ATTGTTATCCGCA
632329 AGACAACTTAGTGAGTATACTTATACTTGCATGTCCTAACCTTCTATGCCAAAGCCAGGTAAGTC
1 AGACAACTTAGTGAGTATACTTATACTTGCATGTCCTAACCTTCTATGCCAAAGCCAGGTAAGTC
632394 ATTGTTATCCGCA
66 ATTGTTATCCGCA
632407 A
1 A
632408 CAAAACATAC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (78 bp):
AGACAACTTAGTGAGTATACTTATACTTGCATGTCCTAACCTTCTATGCCAAAGCCAGGTAAGTC
ATTGTTATCCGCA
Found at i:636307 original size:17 final size:17
Alignment explanation
Indices: 636285--636319 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
636275 TTATAAGTAA
636285 TATTT-ATAAAATGATAT
1 TATTTAATAAAAT-ATAT
636302 TATTTAATAAAATATAT
1 TATTTAATAAAATATAT
636319 T
1 T
636320 TAAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (17 bp):
TATTTAATAAAATATAT
Found at i:637064 original size:2 final size:2
Alignment explanation
Indices: 637057--637112 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
637047 CCCCACCTTA
* * *
637057 AT AT AT AT AT AT AT AT AT GT GT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
637099 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
637113 TATCCTCCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:639657 original size:16 final size:15
Alignment explanation
Indices: 639590--639656 Score: 73
Period size: 16 Copynumber: 4.3 Consensus size: 15
639580 GTCTAAACTC
639590 AAAAAAATTTAAATT
1 AAAAAAATTTAAATT
* *
639605 TAAAAAATCTCT-AATA
1 AAAAAAAT-T-TAAATT
639621 AAAAAAATTTAAATTT
1 AAAAAAATTTAAA-TT
*
639637 AAAATAATTTAAATT
1 AAAAAAATTTAAATT
639652 AAAAA
1 AAAAA
639657 TGATCTGACT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
14 1 0.02
15 16 0.38
16 24 0.57
17 1 0.02
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAAAAATTTAAATT
Found at i:646342 original size:19 final size:19
Alignment explanation
Indices: 646314--646350 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
646304 TAGATGCAAA
*
646314 TAAAATTAAAAAAAAAATC
1 TAAAAGTAAAAAAAAAATC
*
646333 TAAAAGTAAAACAAAAAT
1 TAAAAGTAAAAAAAAAAT
646351 TTAAGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (19 bp):
TAAAAGTAAAAAAAAAATC
Found at i:647029 original size:4 final size:4
Alignment explanation
Indices: 647013--647045 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
647003 AGCAAAAGAA
647013 AAAG AAA- AAAG AAAG AAAG AAAG AAA- AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
647046 CTCAAATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:647031 original size:15 final size:15
Alignment explanation
Indices: 647013--647045 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
647003 AGCAAAAGAA
647013 AAAGAAA-AAAGAAAG
1 AAAGAAAGAAA-AAAG
647028 AAAGAAAGAAAAAAG
1 AAAGAAAGAAAAAAG
647043 AAA
1 AAA
647046 CTCAAATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAGAAAGAAAAAAG
Found at i:658006 original size:52 final size:52
Alignment explanation
Indices: 657921--658045 Score: 232
Period size: 52 Copynumber: 2.4 Consensus size: 52
657911 ATATGAAAAG
*
657921 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
657973 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
658025 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
658046 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:658058 original size:52 final size:51
Alignment explanation
Indices: 657921--658065 Score: 220
Period size: 52 Copynumber: 2.8 Consensus size: 51
657911 ATATGAAAAG
657921 TTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
657973 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
658025 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
658066 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.98
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:658072 original size:13 final size:13
Alignment explanation
Indices: 658054--658078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
658044 CAAAGATCAG
658054 TGTATCGATACAA
1 TGTATCGATACAA
658067 TGTATCGATACA
1 TGTATCGATACA
658079 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:658160 original size:13 final size:13
Alignment explanation
Indices: 658142--658166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
658132 CAAAAAAATA
658142 TGTATCGATACAT
1 TGTATCGATACAT
658155 TGTATCGATACA
1 TGTATCGATACA
658167 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:658162 original size:33 final size:33
Alignment explanation
Indices: 658120--658186 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
658110 AGTAGCTTAA
658120 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
658153 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
658186 A
1 A
658187 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:660685 original size:13 final size:13
Alignment explanation
Indices: 660667--660724 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
660657 AATTTTTTTG
660667 TGTATCGATACAT
1 TGTATCGATACAT
660680 TGTATCGATACATACTT
1 TGTATCGATAC--A--T
660697 GGTGTATCGATACAT
1 --TGTATCGATACAT
*
660712 TATATCGATACAT
1 TGTATCGATACAT
660725 ACTTGGTGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:660704 original size:19 final size:19
Alignment explanation
Indices: 660680--660742 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
660670 ATCGATACAT
660680 TGTATCGATACATACTTGG
1 TGTATCGATACATACTTGG
660699 TGTATCGATAC--A--T--
1 TGTATCGATACATACTTGG
*
660712 TATATCGATACATACTTGG
1 TGTATCGATACATACTTGG
660731 TGTATCGATACA
1 TGTATCGATACA
660743 AGTTTGGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATACTTGG
Found at i:660707 original size:32 final size:32
Alignment explanation
Indices: 660666--660742 Score: 145
Period size: 32 Copynumber: 2.4 Consensus size: 32
660656 CAATTTTTTT
*
660666 GTGTATCGATACATTGTATCGATACATACTTG
1 GTGTATCGATACATTATATCGATACATACTTG
660698 GTGTATCGATACATTATATCGATACATACTTG
1 GTGTATCGATACATTATATCGATACATACTTG
660730 GTGTATCGATACA
1 GTGTATCGATACA
660743 AGTTTGGCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (32 bp):
GTGTATCGATACATTATATCGATACATACTTG
Found at i:665108 original size:13 final size:13
Alignment explanation
Indices: 665090--665127 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
665080 ATAATCCCCC
665090 TGTATCGATACAG
1 TGTATCGATACAG
*
665103 TGTATCGATACAT
1 TGTATCGATACAG
665116 TGTATCGATACA
1 TGTATCGATACA
665128 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:667229 original size:15 final size:15
Alignment explanation
Indices: 667209--667239 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
667199 ATTTCGTTTG
*
667209 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
667224 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
667239 G
1 G
667240 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Done.