Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 26 of 54
Found at i:11017784 original size:43 final size:43
Alignment explanation
Indices: 11017721--11017832 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
11017711 TATTGACTTG
11017721 GCTATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGACCC-
1 GCTATGTGCGAGTAGGGAGTGCGCATAA-CCAAGTGATGACCCA
* * **
11017763 GATTATGTGCGAGTACGGAGTGCGCATAACCCGGTGATGACCCA
1 G-CTATGTGCGAGTAGGGAGTGCGCATAACCAAGTGATGACCCA
*
11017807 GCCATGTGCGAGTAGGGAGTGCGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
11017833 GAGCTGGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
42 4 0.07
43 55 0.92
44 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.36, T:0.19
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCAAGTGATGACCCA
Found at i:11017842 original size:43 final size:43
Alignment explanation
Indices: 11017724--11017845 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
11017714 TGACTTGGCT
* **
11017724 ATGTGCGAGTAGGGAGTGCGCATAAGCCAAG-GATGACCCGATT
1 ATGTGCGAGTAGGGAGTGCGCATAAG-CAGGTGATGACCCGACC
* * *
11017767 ATGTGCGAGTACGGAGTGCGCATAACCCGGTGATGACCC-AGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGACCCGA-CC
* *
11017810 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGA
11017846 TGATGATGGG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 3 0.04
43 64 0.96
ACGTcount: A:0.25, C:0.20, G:0.37, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCAGGTGATGACCCGACC
Found at i:11018289 original size:59 final size:60
Alignment explanation
Indices: 11018222--11018365 Score: 184
Period size: 59 Copynumber: 2.4 Consensus size: 60
11018212 CGAAATACAT
* *
11018222 TCTCGCTGCAGCGAGAAACTTTCTGTTTCTGGG-TAGCAATTTCGCTGCAGCGAGATTGAA
1 TCTCGCTGCAGCGAGAAACATTCTGTTTCTGGGTTA-CAATTTCGCTACAGCGAGATTGAA
* * * *
11018282 T-TCGCTGCAGTGAGAAACATTCTGTTTCTGGGTTATAATTTTGCTACAGTGAGATTGAA
1 TCTCGCTGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGCTACAGCGAGATTGAA
* * *
11018341 TCTCACTGCAGCGAAAAACCTTCTG
1 TCTCGCTGCAGCGAGAAACATTCTG
11018366 CTTTGGTCTC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
59 50 0.69
60 22 0.31
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (60 bp):
TCTCGCTGCAGCGAGAAACATTCTGTTTCTGGGTTACAATTTCGCTACAGCGAGATTGAA
Found at i:11028538 original size:43 final size:43
Alignment explanation
Indices: 11028468--11028586 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
11028458 GTAATTATAT
* *
11028468 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
11028511 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
11028554 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
11028587 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:11028596 original size:43 final size:43
Alignment explanation
Indices: 11028478--11028599 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
11028468 TGACTCGGCT
* **
11028478 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
11028521 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
11028564 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
11028600 TGATGATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:11032808 original size:51 final size:51
Alignment explanation
Indices: 11032748--11032865 Score: 209
Period size: 51 Copynumber: 2.3 Consensus size: 51
11032738 CCACCATGAC
**
11032748 TTGAGTAGACAGGATTTTTAATTTAGAAATTTTGGGTTACAAGTTCAATAA
1 TTGAGTAGACAGGATTTTTAATTTAGAAAACTTGGGTTACAAGTTCAATAA
*
11032799 TTGAGTAGACAGAATTTTTAATTTAGAAAACTTGGGTTACAAGTTCAATAA
1 TTGAGTAGACAGGATTTTTAATTTAGAAAACTTGGGTTACAAGTTCAATAA
11032850 TTGAGTAGACAGGATT
1 TTGAGTAGACAGGATT
11032866 GAAATTTCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (51 bp):
TTGAGTAGACAGGATTTTTAATTTAGAAAACTTGGGTTACAAGTTCAATAA
Found at i:11039640 original size:31 final size:30
Alignment explanation
Indices: 11039599--11039657 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
11039589 TGCGGAAAGG
*
11039599 AAACAAACATTGCAGAAGAATTTTTAATCTAA
1 AAACAAACATTGCA-AA-AATATTTAATCTAA
*
11039631 AAAC-AACATTTCAAAAATATTTAATCT
1 AAACAAACATTGCAAAAATATTTAATCT
11039658 GTAACGTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 2 0.08
31 8 0.32
32 4 0.16
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (30 bp):
AAACAAACATTGCAAAAATATTTAATCTAA
Found at i:11041629 original size:40 final size:41
Alignment explanation
Indices: 11041581--11041685 Score: 158
Period size: 40 Copynumber: 2.6 Consensus size: 41
11041571 AAAGAGCTTA
* * *
11041581 AACATAAACTTAAATAACTATACACAAATATCCAAA-TAAC
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
*
11041621 AATATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
1 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
*
11041662 AACATAAACTTAAATAACCAAACA
1 AACATAAACTTAAATAACTAAACA
11041686 TTATTTTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 33 0.57
41 25 0.43
ACGTcount: A:0.60, C:0.20, G:0.01, T:0.19
Consensus pattern (41 bp):
AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAAC
Found at i:11042301 original size:2 final size:2
Alignment explanation
Indices: 11042296--11042336 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
11042286 ATAGAGTGTG
11042296 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11042337 ATCAATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11042359 original size:15 final size:17
Alignment explanation
Indices: 11042341--11042373 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11042331 ATTATAATCA
11042341 ATAA-TTTTATAA-GTT
1 ATAATTTTTATAATGTT
11042356 ATAATTTTTATAATGTT
1 ATAATTTTTATAATGTT
11042373 A
1 A
11042374 ACACAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 8 0.50
17 4 0.25
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
ATAATTTTTATAATGTT
Found at i:11042522 original size:512 final size:501
Alignment explanation
Indices: 11041692--11042831 Score: 1520
Period size: 512 Copynumber: 2.3 Consensus size: 501
11041682 AACATTATTT
* * * * * *
11041692 TATTATTTAATAATTATTAACTTATATAACAGTAATTATATTATTTATAAATGAACATAA-ATAT
1 TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATAAACATAATATAC
* * * * *
11041756 AACATAAAGTGTATGTGTTGAAAGACATTACAAGTTATATTCTATAAAGTG----------TGTA
66 AATATAAAGTGTATATGTTAAAAGACATTACAAGTTATATACTATAAAGTGTATATATAAATATA
* *
11041811 TATATATATGTATATATAT-TATA--AT--T-AATAATTTAATAAGTTCTAATTTTTATAATGTT
131 TATATATATATATATATATATATATTATAATCAATAATTTAATAAGTTATAATTTTTATAATGTT
*
11041870 ACCACAAAATAAAAAGTAAATATATTTATATTTAAAGTATAAATATTAAAGTATTTTAAGGTATA
196 AACACAAAATAAAAAGTAAATATATTTATATTTAAAGTATAAATATTAAAGTATTTTAAGGTATA
* *
11041935 TATATAATAGTAATTATGTTCCTTATAAATGAACCCAATATATATAAAGTATAGATATTAAAAGA
261 TATATAATAGTAATTATATTCCTTAGAAATGAACCCAATATATATAAAGTATAGATATTAAAAGA
* ** * *
11042000 CATGACAAGTTAATTAATAATTATAATTTCATTAATTAATTTAATTAAGTATATGGATTTGCCAT
326 CATGACAAGTTAATT--TAATCATAATTTCATTAATTAATTTAATTAACAATATGAATTTACCAT
* * * * *
11042065 TAATTACATGAAATT-AAGAAAATAGCTAAGTTTCGAAATTATTCTAACCTCACAGCTTCC-TTT
389 TAATTACATGAAATTAAAAAAAATAACTAAGTTTCAAAACTATTCTAACCTCACAAC-TCCTTTT
* * *
11042128 TAGATAATTAAGTTTATATATATTATAAGTTTATATAAACAAAGGTATATA
453 TAGATAATTAA-CTT-TATATATTATAAATTTATATAAACAAAAGTATATA
* *
11042179 TATTATTTAGTAATTATTAATTTATATAATATTAATTATATT-TTTATAAATAAACATAATATAT
1 TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATAAACATAATATAC
* * *
11042243 AATATAAAGTGTATATGTTAAAAGACATTACAAGTTATATACTATAGAGTGTGTATATATATATA
66 AATATAAAGTGTATATGTTAAAAGACATTACAAGTTATATACTATAAAGTGTATATATAAATATA
*
11042308 TATATATATATATATATATATATATTATAATCAATAATTTTATAAGTTATAATTTTTATAATGTT
131 TATATATATATATATATATATATATTATAATCAATAATTTAATAAGTTATAATTTTTATAATGTT
*
11042373 AACACAAAATAAAAAGTAAATA-ATTATATTTAACTTTTATATA-TATATATATATTAAAAGTGT
196 AACACAAAATAAAAAGTAAATATATT-TA--T-A--TTTA-A-AGTATA-A-ATATT-AAAGTAT
* *
11042436 TTT-AGTGTATATATATAATAGTAGTTATATTCCTTAGAAATGAATCCAATATATATAAAGTATA
250 TTTAAG-GTATATATATAATAGTAATTATATTCCTTAGAAATGAACCCAATATATATAAAGTATA
* *
11042500 GATATTAAAAGACATTACAAGTTAATTTAATCATAATTTTATTAATTAATTTAATTAACAATATG
314 GATATTAAAAGACATGACAAGTTAATTTAATCATAATTTCATTAATTAATTTAATTAACAATATG
* * *
11042565 AATTTATCTTTAATTACATGAAATTAAAAAAAAATAACTAAGTTTCAAAACTATTCTAATCTCAC
379 AATTTACCATTAATTACATGAAATT-AAAAAAAATAACTAAGTTTCAAAACTATTCTAACCTCAC
11042630 AACTCCTTTTTAGATAATTAACTTTATATATTATAAATTTATATAAACAAAAGTATATA
443 AACTCCTTTTTAGATAATTAACTTTATATATTATAAATTTATATAAACAAAAGTATATA
*
11042689 TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATGAACATAATATAC
1 TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATAAACATAATATAC
* * *
11042754 AATATAAAGTGTATGTGTTAAAAGATATTACAAGTTATATACTATAAAGTGTATGTATAAATATA
66 AATATAAAGTGTATATGTTAAAAGACATTACAAGTTATATACTATAAAGTGTATATATAAATATA
11042819 TATAT-TAT-TATAT
131 TATATATATATATAT
11042832 TTAATAATTT
Statistics
Matches: 573, Mismatches: 47, Indels: 44
0.86 0.07 0.07
Matches are distributed among these distances:
486 16 0.03
487 88 0.15
497 21 0.04
498 4 0.01
500 2 0.00
502 4 0.01
503 54 0.09
505 1 0.00
506 1 0.00
508 4 0.01
509 10 0.02
510 134 0.23
511 96 0.17
512 138 0.24
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (501 bp):
TATTATTTAGTAATTATTAATTTATATAATAGTAATTATATTCTTTATAAATAAACATAATATAC
AATATAAAGTGTATATGTTAAAAGACATTACAAGTTATATACTATAAAGTGTATATATAAATATA
TATATATATATATATATATATATATTATAATCAATAATTTAATAAGTTATAATTTTTATAATGTT
AACACAAAATAAAAAGTAAATATATTTATATTTAAAGTATAAATATTAAAGTATTTTAAGGTATA
TATATAATAGTAATTATATTCCTTAGAAATGAACCCAATATATATAAAGTATAGATATTAAAAGA
CATGACAAGTTAATTTAATCATAATTTCATTAATTAATTTAATTAACAATATGAATTTACCATTA
ATTACATGAAATTAAAAAAAATAACTAAGTTTCAAAACTATTCTAACCTCACAACTCCTTTTTAG
ATAATTAACTTTATATATTATAAATTTATATAAACAAAAGTATATA
Found at i:11053008 original size:39 final size:39
Alignment explanation
Indices: 11052957--11053056 Score: 137
Period size: 39 Copynumber: 2.6 Consensus size: 39
11052947 GGTGCCAATA
*
11052957 ATGTGCGGTGTGGGAGAGCACACGTTAATGATATATGCC
1 ATGTGCGGTGTGGGAGAGCACACGATAATGATATATGCC
* * *
11052996 ATTTGCGGTGTGGGAGAGCACATGATGATGATATATGCC
1 ATGTGCGGTGTGGGAGAGCACACGATAATGATATATGCC
* * *
11053035 ATGTACAGTGTGGGAGTGCACA
1 ATGTGCGGTGTGGGAGAGCACA
11053057 TGACGGTGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (39 bp):
ATGTGCGGTGTGGGAGAGCACACGATAATGATATATGCC
Found at i:11053103 original size:36 final size:37
Alignment explanation
Indices: 11053035--11053131 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 37
11053025 GATATATGCC
* * * *
11053035 ATGTACAGTGTGGGAGTGCACATGACGGTGATG-GTG
1 ATGTGCAGTGTGGGAGTGCACATAACGATGATGTGTA
* * *
11053071 A-GCTGCGGTGTGGGAGTGCACCTAATGATGATGTTGTA
1 ATG-TGCAGTGTGGGAGTGCACATAACGATGATG-TGTA
11053109 ATGTGCAGTGTGGGAGTGCACAT
1 ATGTGCAGTGTGGGAGTGCACAT
11053132 GAGCTGAGGG
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
35 1 0.02
36 25 0.52
38 21 0.44
39 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.39, T:0.27
Consensus pattern (37 bp):
ATGTGCAGTGTGGGAGTGCACATAACGATGATGTGTA
Found at i:11057328 original size:74 final size:74
Alignment explanation
Indices: 11057243--11057406 Score: 292
Period size: 74 Copynumber: 2.2 Consensus size: 74
11057233 AAAAAGCTTA
*
11057243 TAATCGGTTAAAGCCTACCATGACCAATTAGAGGAAGTCTACTGAAGAAGAGAAGTTTAAAGACA
1 TAATCGGTTAAAGCCTACCATGACCAATTAGAGGAAGTCTACTAAAGAAGAGAAGTTTAAAGACA
11057308 GATAACTCT
66 GATAACTCT
* * *
11057317 TAATCGGTTAAAGCTTACCATGACCAGTTAGAGGAAGTCTACTAAAGAAGAGAAGTTTAAAGATA
1 TAATCGGTTAAAGCCTACCATGACCAATTAGAGGAAGTCTACTAAAGAAGAGAAGTTTAAAGACA
11057382 GATAACTCT
66 GATAACTCT
11057391 TAATCGGTTAAAGCCT
1 TAATCGGTTAAAGCCT
11057407 TCTGTAATTA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 85 1.00
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (74 bp):
TAATCGGTTAAAGCCTACCATGACCAATTAGAGGAAGTCTACTAAAGAAGAGAAGTTTAAAGACA
GATAACTCT
Found at i:11058914 original size:22 final size:22
Alignment explanation
Indices: 11058889--11058933 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
11058879 TGAAGGAAGA
11058889 AGAAGAAAAAGAAAAAAAAAAG
1 AGAAGAAAAAGAAAAAAAAAAG
** * *
11058911 AGAAGCCAAAGATAAAAAGAAG
1 AGAAGAAAAAGAAAAAAAAAAG
11058933 A
1 A
11058934 ACCTAGCCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.02
Consensus pattern (22 bp):
AGAAGAAAAAGAAAAAAAAAAG
Found at i:11069569 original size:88 final size:89
Alignment explanation
Indices: 11069420--11069595 Score: 320
Period size: 88 Copynumber: 2.0 Consensus size: 89
11069410 TTAACCATTG
11069420 GCCTAGGCATAATTCATCTAGACAGAATATTAATAATACAAATACCATATTATACACACATATAT
1 GCCTAGGCATAATTCATCTAGACAGAATATTAATAATACAAATACCATATTATACACACATATAT
*
11069485 ATATATATGT-TATA-ATATATAA
66 ATATATATATATATATATATATAA
11069507 NGCCTAGGCATAATTCATCTAGACAGAATATTAATAATACAAATACCATATTATACACACATATA
1 -GCCTAGGCATAATTCATCTAGACAGAATATTAATAATACAAATACCATATTATACACACATATA
11069572 TATATATATATATATATATATATA
65 TATATATATATATATATATATATA
11069596 TATATATTGC
Statistics
Matches: 85, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
88 74 0.87
89 4 0.05
90 7 0.08
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (89 bp):
GCCTAGGCATAATTCATCTAGACAGAATATTAATAATACAAATACCATATTATACACACATATAT
ATATATATATATATATATATATAA
Found at i:11069572 original size:2 final size:2
Alignment explanation
Indices: 11069567--11069602 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
11069557 TTATACACAC
11069567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11069603 TGCACAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11078067 original size:15 final size:15
Alignment explanation
Indices: 11078014--11078075 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
11078004 AAAAGAAATT
11078014 AAAATAAAATATATA
1 AAAATAAAATATATA
* * *
11078029 AGATTATAATAAGAAATA
1 A-A-AATAA-AATATATA
11078047 AAAATAAAATATATA
1 AAAATAAAATATATA
*
11078062 ACAATAAAA-ATATA
1 AAAATAAAATATATA
11078076 TTTAAGAGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
14 5 0.14
15 15 0.41
16 5 0.14
17 5 0.14
18 7 0.19
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAATAAAATATATA
Found at i:11078544 original size:17 final size:17
Alignment explanation
Indices: 11078506--11078546 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
11078496 AAGTTATAAG
*
11078506 TATTTAATTTTTAATAT
1 TATTTATTTTTTAATAT
11078523 T-TTTATTTTTTAA-ATT
1 TATTTATTTTTTAATA-T
11078539 TATTTATT
1 TATTTATT
11078547 AACAAAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 7 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTTATTTTTTAATAT
Found at i:11079089 original size:35 final size:35
Alignment explanation
Indices: 11079050--11079172 Score: 158
Period size: 35 Copynumber: 3.5 Consensus size: 35
11079040 ATAATGAAAA
** *
11079050 CAAGTGAAGTACTACTTCATGCAGAATAACTAGAG
1 CAAGTGAAGTACTACTTCACACAGAACAACTAGAG
* * * *
11079085 CAAGTGAAGCATTACTTTACACAAAACAACTAGAG
1 CAAGTGAAGTACTACTTCACACAGAACAACTAGAG
*
11079120 CAAGTGAAGTAGTACTTCACACAGAACAACTAGA-
1 CAAGTGAAGTACTACTTCACACAGAACAACTAGAG
*
11079154 AAAGTGAAGTACTACTTCA
1 CAAGTGAAGTACTACTTCA
11079173 TGCGAAGCAA
Statistics
Matches: 75, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
34 17 0.23
35 58 0.77
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (35 bp):
CAAGTGAAGTACTACTTCACACAGAACAACTAGAG
Found at i:11086031 original size:96 final size:96
Alignment explanation
Indices: 11085867--11086066 Score: 391
Period size: 96 Copynumber: 2.1 Consensus size: 96
11085857 ATTTTTCTAA
*
11085867 AATTTCTAAACCACTTTCTAATTTGTTAGAAAAGGATATTCCTTTTAATTTTGATGATGCTTGCC
1 AATTTCTAAACCACTTTCTAATTTGTTAAAAAAGGATATTCCTTTTAATTTTGATGATGCTTGCC
11085932 ATGATGCTTTTGTTGAATTGAAGAAAAGATT
66 ATGATGCTTTTGTTGAATTGAAGAAAAGATT
11085963 AATTTCTAAACCACTTTCTAATTTGTTAAAAAAGGATATTCCTTTTAATTTTGATGATGCTTGCC
1 AATTTCTAAACCACTTTCTAATTTGTTAAAAAAGGATATTCCTTTTAATTTTGATGATGCTTGCC
11086028 ATGATGCTTTTGTTGAATTGAAGAAAAGATT
66 ATGATGCTTTTGTTGAATTGAAGAAAAGATT
11086059 AATTTCTA
1 AATTTCTA
11086067 CTCCTATTAT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 103 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (96 bp):
AATTTCTAAACCACTTTCTAATTTGTTAAAAAAGGATATTCCTTTTAATTTTGATGATGCTTGCC
ATGATGCTTTTGTTGAATTGAAGAAAAGATT
Found at i:11092149 original size:21 final size:21
Alignment explanation
Indices: 11092125--11092165 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11092115 TTTATTTTTA
*
11092125 AAAATTAAAATCATAGAAAAT
1 AAAATTAAAATAATAGAAAAT
* *
11092146 AAAATTCACATAATAGAAAA
1 AAAATTAAAATAATAGAAAA
11092166 AAGAAGAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAATTAAAATAATAGAAAAT
Found at i:11104291 original size:15 final size:15
Alignment explanation
Indices: 11104271--11104314 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
11104261 CCTTAAAACA
11104271 ACTTTAAAACCAAAG
1 ACTTTAAAACCAAAG
*
11104286 ACTTTAAAATCTAAAG
1 ACTTTAAAA-CCAAAG
*
11104302 -CTTTAAAATCAAA
1 ACTTTAAAACCAAA
11104315 ATATCTGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 3 0.12
15 17 0.68
16 5 0.20
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (15 bp):
ACTTTAAAACCAAAG
Found at i:11106925 original size:27 final size:27
Alignment explanation
Indices: 11106874--11106925 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
11106864 ATGTCCTGGT
*
11106874 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTGACCCTGA
*
11106901 GGTGGCAAAATTACCATTTT-ACCCT
1 GGTGG-AAAATTACAATTTTGACCCT
11106926 TTTACTCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTGACCCTGA
Found at i:11106994 original size:20 final size:20
Alignment explanation
Indices: 11106979--11107016 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11106969 CCTCAAATCT
*
11106979 TACTCCAATAAGTCAAATTA
1 TACTCCAACAAGTCAAATTA
11106999 TACTCCAACAAGTCAAAT
1 TACTCCAACAAGTCAAAT
11107017 GGGGCCAAAA
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:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (20 bp):
TACTCCAACAAGTCAAATTA
Found at i:11107522 original size:83 final size:82
Alignment explanation
Indices: 11107382--11107546 Score: 321
Period size: 83 Copynumber: 2.0 Consensus size: 82
11107372 ATCCTTCTTC
11107382 TTGACTGATTTCGATATCCGACTAAATATTAATATTTTAATATTATTTCATTAATAAAATATTAT
1 TTGACTGATTTCGATATCCGACTAAATATTAATATTTTAATATTATTTCATTAATAAAATATTAT
11107447 TTTATTCTAAAAATTTT
66 TTTATTCTAAAAATTTT
11107464 TNTGACTGATTTCGATATCCGACTAAATATTAATATTTTAATATTATTTCATTAATAAAATATTA
1 T-TGACTGATTTCGATATCCGACTAAATATTAATATTTTAATATTATTTCATTAATAAAATATTA
11107529 TTTTATTCTAAAAATTTT
65 TTTTATTCTAAAAATTTT
11107547 ATCTTGTCTC
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 1 0.01
83 81 0.99
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.48
Consensus pattern (82 bp):
TTGACTGATTTCGATATCCGACTAAATATTAATATTTTAATATTATTTCATTAATAAAATATTAT
TTTATTCTAAAAATTTT
Found at i:11108686 original size:22 final size:22
Alignment explanation
Indices: 11108655--11108697 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11108645 GTGCATTTGC
*
11108655 GTGAGAAATCAATAACACTTGA
1 GTGAGAAATCAACAACACTTGA
*
11108677 GTGAGGAATCAACAACACTTG
1 GTGAGAAATCAACAACACTTG
11108698 TGTAGAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (22 bp):
GTGAGAAATCAACAACACTTGA
Found at i:11112656 original size:15 final size:15
Alignment explanation
Indices: 11112633--11112663 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11112623 TTAAGGCGTC
11112633 ACTACCTAAAGTGTT
1 ACTACCTAAAGTGTT
*
11112648 ACTATCTAAAGTGTT
1 ACTACCTAAAGTGTT
11112663 A
1 A
11112664 TAATATAGGG
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:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (15 bp):
ACTACCTAAAGTGTT
Found at i:11113391 original size:28 final size:29
Alignment explanation
Indices: 11113350--11113409 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
11113340 GTCTATGGGC
*
11113350 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
11113378 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
11113408 AA
1 AA
11113410 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:11116033 original size:35 final size:34
Alignment explanation
Indices: 11115966--11116065 Score: 110
Period size: 35 Copynumber: 2.9 Consensus size: 34
11115956 AATGAGAACA
* * *
11115966 AGTGAAGTACTACTTCACGCAAAACCACTAGAGCG
1 AGTGAAGTACTACTTCACACAGAACAACTAGAG-G
* * * *
11116001 AGTGAAGCACTACTTCACACAGTACAATTAGAGT
1 AGTGAAGTACTACTTCACACAGAACAACTAGAGG
*
11116035 ACGTGAAGTACTACTTCACTCAGAACAACTA
1 A-GTGAAGTACTACTTCACACAGAACAACTA
11116066 CTTCACACAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
34 1 0.02
35 52 0.98
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (34 bp):
AGTGAAGTACTACTTCACACAGAACAACTAGAGG
Found at i:11116704 original size:45 final size:45
Alignment explanation
Indices: 11116654--11116744 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
11116644 TCATTTACTC
* * * *
11116654 CCTAATTCTCTTCTTATTCTCTTCCACTTGCCACGACATTCAGTA
1 CCTAATTCTCTTCTTAATCTCTTCCACCTACCACGACACTCAGTA
11116699 CCTAATTCTCTTCTTAATCTCTTCCACCTACCACGACACTCAGTA
1 CCTAATTCTCTTCTTAATCTCTTCCACCTACCACGACACTCAGTA
11116744 C
1 C
11116745 TTCAGGAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.22, C:0.36, G:0.05, T:0.36
Consensus pattern (45 bp):
CCTAATTCTCTTCTTAATCTCTTCCACCTACCACGACACTCAGTA
Found at i:11117341 original size:19 final size:20
Alignment explanation
Indices: 11117314--11117358 Score: 74
Period size: 19 Copynumber: 2.2 Consensus size: 20
11117304 CTCTTTCCAT
11117314 GATGAGTCCGTCTTAGGAT-A
1 GATG-GTCCGTCTTAGGATAA
11117334 GATGGTCCGTCTTAGGATAA
1 GATGGTCCGTCTTAGGATAA
11117354 GATGG
1 GATGG
11117359 CTCGCATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (20 bp):
GATGGTCCGTCTTAGGATAA
Found at i:11120594 original size:24 final size:24
Alignment explanation
Indices: 11120559--11120604 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
11120549 TGTTACAACC
*
11120559 TTTTTAACCATGGCGCGTAACATG
1 TTTTTAACCATGACGCGTAACATG
*
11120583 TTTTTATA-CATGACGTGTAACA
1 TTTTTA-ACCATGACGCGTAACA
11120605 ACAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (24 bp):
TTTTTAACCATGACGCGTAACATG
Found at i:11120615 original size:81 final size:81
Alignment explanation
Indices: 11120421--11120700 Score: 339
Period size: 80 Copynumber: 3.4 Consensus size: 81
11120411 TATCAAAATA
* * * * * *
11120421 TTTTTGAACATCATGTGTAACAATAATATTTTTTCTTCAACATGGCGTGTAACAACTTTTTTTAA
1 TTTTTGTACATGACGTGTAACAATAATATTTTTTTTTCAACATAGCGTGTAACAAC-CTTTTTAA
* *
11120486 TCATGACATGTAACATG
65 CCATGACGTGTAACATG
* * *
11120503 CTTTTGTACAT-AGCGTGTAACAATAAT-TTTTTTTTTCAACATAGCATGTTACAACCTTTTTAA
1 TTTTTGTACATGA-CGTGTAACAATAATATTTTTTTTTCAACATAGCGTGTAACAACCTTTTTAA
* *
11120566 CCATGGCGCGTAACATG
65 CCATGACGTGTAACATG
* *
11120583 TTTTTATACATGACGTGTAACAACAATATTTTTTTTTCCAACATAGCGTGTAACAACCTTTTTTA
1 TTTTTGTACATGACGTGTAACAATAATATTTTTTTTT-CAACATAGCGTGTAACAACC-TTTTTA
*
11120648 ACCATGACGTGTTAACATA
64 ACCATGACGTG-TAACATG
* *
11120667 TTTTTGTAAATGACGTGTAACAATAACATTTTTT
1 TTTTTGTACATGACGTGTAACAATAATATTTTTT
11120701 AAGTATGGTG
Statistics
Matches: 168, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
80 42 0.25
81 35 0.21
82 40 0.24
83 15 0.09
84 36 0.21
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (81 bp):
TTTTTGTACATGACGTGTAACAATAATATTTTTTTTTCAACATAGCGTGTAACAACCTTTTTAAC
CATGACGTGTAACATG
Found at i:11134137 original size:24 final size:24
Alignment explanation
Indices: 11134110--11134156 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
11134100 CTGTAGCTGT
* * *
11134110 TCATGGTGCTTCTCCTGCTGCTCA
1 TCATGCTGCTACTCCTACTGCTCA
11134134 TCATGCTGCTACTCCTACTGCTC
1 TCATGCTGCTACTCCTACTGCTC
11134157 CTCCTCTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.36, G:0.17, T:0.36
Consensus pattern (24 bp):
TCATGCTGCTACTCCTACTGCTCA
Found at i:11134167 original size:24 final size:24
Alignment explanation
Indices: 11134140--11134186 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
11134130 CTCATCATGC
* *
11134140 TGCTACTCCTACTGCTCCTCCTCT
1 TGCTACTACTACTGCCCCTCCTCT
* *
11134164 TGCTTCTACTGCTGCCCCTCCTC
1 TGCTACTACTACTGCCCCTCCTC
11134187 CTACTTCAGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.06, C:0.47, G:0.11, T:0.36
Consensus pattern (24 bp):
TGCTACTACTACTGCCCCTCCTCT
Found at i:11134434 original size:69 final size:69
Alignment explanation
Indices: 11134321--11134484 Score: 238
Period size: 69 Copynumber: 2.4 Consensus size: 69
11134311 ACAGATGAAT
* * *
11134321 ATGCAGATGCAGATGTAGTCAATGCAGTTGGAGATCTAGCAGTCAATGCAGTTGGAGATCCAGCA
1 ATGCAGATGCAGATGCAGTCAATGCAATTGGAGATCCAGCAGTCAATGCAGTTGGAGATCCAGCA
11134386 AGCA
66 AGCA
* *
11134390 ATGCAGATGCAGATGCAGTCAATGCAATTGGAGATCCAGTAGTCAATGCAGTTGGAGATCCAGCG
1 ATGCAGATGCAGATGCAGTCAATGCAATTGGAGATCCAGCAGTCAATGCAGTTGGAGATCCAGCA
* *
11134455 GGCG
66 AGCA
* * *
11134459 ATGCAAATGCAGACGCAGTCACTGCA
1 ATGCAGATGCAGATGCAGTCAATGCA
11134485 TGAGCATATC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 85 1.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (69 bp):
ATGCAGATGCAGATGCAGTCAATGCAATTGGAGATCCAGCAGTCAATGCAGTTGGAGATCCAGCA
AGCA
Found at i:11134437 original size:45 final size:47
Alignment explanation
Indices: 11134335--11134440 Score: 137
Period size: 45 Copynumber: 2.3 Consensus size: 47
11134325 AGATGCAGAT
* * *
11134335 GTAGTCAATGCAGTTGGAGATCTAGCAGTCAATGCAGTTGGAGATCCA
1 GTAGTCAATGCAGATGCAGA-CTAGCAGTCAATGCAATTGGAGATCCA
*
11134383 GCAAG-CAATGCAGATGCAGA-T-GCAGTCAATGCAATTGGAGATCCA
1 G-TAGTCAATGCAGATGCAGACTAGCAGTCAATGCAATTGGAGATCCA
11134428 GTAGTCAATGCAG
1 GTAGTCAATGCAG
11134441 TTGGAGATCC
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
44 2 0.04
45 32 0.63
46 1 0.02
48 14 0.27
49 2 0.04
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (47 bp):
GTAGTCAATGCAGATGCAGACTAGCAGTCAATGCAATTGGAGATCCA
Found at i:11134463 original size:24 final size:24
Alignment explanation
Indices: 11134337--11134453 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
11134327 ATGCAGATGT
*
11134337 AGTCAATGCAGTTGGAGATCTAGC
1 AGTCAATGCAGTTGGAGATCCAGC
11134361 AGTCAATGCAGTTGGAGATCCAGC
1 AGTCAATGCAGTTGGAGATCCAGC
* *
11134385 AAG-CAATGCAGATGCAGAT---GC
1 -AGTCAATGCAGTTGGAGATCCAGC
* *
11134406 AGTCAATGCAATTGGAGATCCAGT
1 AGTCAATGCAGTTGGAGATCCAGC
11134430 AGTCAATGCAGTTGGAGATCCAGC
1 AGTCAATGCAGTTGGAGATCCAGC
11134454 GGGCGATGCA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
20 2 0.03
21 15 0.19
24 60 0.76
25 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (24 bp):
AGTCAATGCAGTTGGAGATCCAGC
Found at i:11140435 original size:17 final size:17
Alignment explanation
Indices: 11140413--11140448 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11140403 CAATTGTTTC
*
11140413 CATCATCCACAGATCTT
1 CATCATCCACAAATCTT
11140430 CATCATCCACAAATCTT
1 CATCATCCACAAATCTT
11140447 CA
1 CA
11140449 GCGCTAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.28
Consensus pattern (17 bp):
CATCATCCACAAATCTT
Found at i:11141349 original size:19 final size:21
Alignment explanation
Indices: 11141311--11141361 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
11141301 ACGAAACGGT
*
11141311 ATCTATCGATATATATTTATC
1 ATCTATCGATATATACTTATC
11141332 ATCTATC-A-ATATACTTATC
1 ATCTATCGATATATACTTATC
* *
11141351 ATTTATGGATA
1 ATCTATCGATA
11141362 AATATTCCCG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 15 0.60
20 2 0.08
21 8 0.32
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (21 bp):
ATCTATCGATATATACTTATC
Found at i:11142917 original size:78 final size:78
Alignment explanation
Indices: 11142757--11142901 Score: 191
Period size: 78 Copynumber: 1.9 Consensus size: 78
11142747 TTTCAAAGAG
* * * *
11142757 ACATCTTGTGTTTTAGATTTGCTTTTCCCCCAGTCACCCCACTCAGTTTGCTACATTGTAGTGGT
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGCTACATTGTACTGGT
11142822 CAAAGCTGCTAAA
66 CAAAGCTGCTAAA
* * * * * * *
11142835 ACATCTTGTGTTTTAGATTTGCTTGTCCCTCAATCACAGCAGTCATTTTGCTTCGTTGTTCTGGT
1 ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGCTACATTGTACTGGT
11142900 CA
66 CA
11142902 CTGCTGCTGC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 56 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (78 bp):
ACATCTTGTGTTTTAGATTTGCTTGTCCCCCAATCACACCACTCAGTTTGCTACATTGTACTGGT
CAAAGCTGCTAAA
Found at i:11146584 original size:223 final size:223
Alignment explanation
Indices: 11146215--11146790 Score: 778
Period size: 223 Copynumber: 2.6 Consensus size: 223
11146205 AAACAAGAGG
* * * * *
11146215 TGAATTGCACAAGTCACGCGCCACAACTCTCGTAATACATAACAACAGGTCACCCAATATATAAA
1 TGAATTGCACAAGTCACGCACCACCACTCTCG-----C-T-ACAACAAGTAACGCAATATATAAA
* * * * * *
11146280 AACTAGTCATGCA-AGCCTAAAAGACTATTGAACAAAAGCCTCAAAACAACACATGAATCGCACA
59 AACCAGTCACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACA
* * *
11146344 AGTCACGCACCACCACTCTCGCTGCAACAGGTAACGCAATATATAAAAA-CTAGTTACGCAAGCC
124 AGTCACGCACCACCACTCTCGCTACAACAAGTAACGCAATATATAAAAATC-AGTCACGCAAGCC
*
11146408 TAAAAAACTACTGAACAAAAGCCTTAAAACAGCACA
188 TAAAAAACTACTGAACAAAAGCCTCAAAACAGCACA
* * *
11146444 TGAATTGTACAAGTCACGCACCACCACTCTCGCTACAATAGGTAACGCAATATATAAAAACCAGT
1 TGAATTGCACAAGTCACGCACCACCACTCTCGCTACAACAAGTAACGCAATATATAAAAACCAGT
** * *
11146509 CACGCACTGCCTAAAAAACTACAAAACAAAGGCCTCAAAACAACACATGAATTGCACAAGTCATG
66 CACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACG
* * * *
11146574 CGCCACCACTCTCGCTACAACAAGTAACGTAATATATAAAAATCAGTCATGTAAGCCTAAAAAAC
131 CACCACCACTCTCGCTACAACAAGTAACGCAATATATAAAAATCAGTCACGCAAGCCTAAAAAAC
*
11146639 TACTGAACAAAAGCCTCAAAATAGCACA
196 TACTGAACAAAAGCCTCAAAACAGCACA
* ** *
11146667 TGAATTGCACAAGTTACGTGCCACCACTCTCGCTACAACAAGTAACGAAATATATAAAAACCAGT
1 TGAATTGCACAAGTCACGCACCACCACTCTCGCTACAACAAGTAACGCAATATATAAAAACCAGT
*
11146732 CACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTACACAA
66 CACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAA
11146791 CTCAGTCGCG
Statistics
Matches: 309, Mismatches: 36, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
222 32 0.10
223 246 0.80
224 2 0.01
229 29 0.09
ACGTcount: A:0.44, C:0.27, G:0.12, T:0.18
Consensus pattern (223 bp):
TGAATTGCACAAGTCACGCACCACCACTCTCGCTACAACAAGTAACGCAATATATAAAAACCAGT
CACGCACTGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACG
CACCACCACTCTCGCTACAACAAGTAACGCAATATATAAAAATCAGTCACGCAAGCCTAAAAAAC
TACTGAACAAAAGCCTCAAAACAGCACA
Found at i:11146588 original size:112 final size:111
Alignment explanation
Indices: 11146184--11146790 Score: 757
Period size: 111 Copynumber: 5.4 Consensus size: 111
11146174 AATGCCTAAT
* * * ** *
11146184 AACTAGTGAACAAACGCC-CTAAAACAAGAGGTGAATTGCACAAGTCACGCGCCACAACTCTCGT
1 AACTACTGAACAAAAGCCTC-AAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCG-
* * * *
11146248 AATACATAACAACAGGTCACCCAATATATAAAAACTAGTCATGCAAGCCTAAAA
64 ----C-T-ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* * * *
11146302 GACTATTGAACAAAAGCCTCAAAACAACACATGAATCGCACAAGTCACGCACCACCACTCTCGCT
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
* * *
11146367 GCAACAGGTAACGCAATATATAAAAACTAGTTACGCAAGCCTAAAA
66 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* * * *
11146413 AACTACTGAACAAAAGCCTTAAAACAGCACATGAATTGTACAAGTCACGCACCACCACTCTCGCT
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
* *
11146478 ACAATAGGTAACGCAATATATAAAAACCAGTCACGCACTGCCTAAAA
66 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCA-AGCCTAAAA
** * *
11146525 AACTACAAAACAAAGGCCTCAAAACAACACATGAATTGCACAAGTCATGCGCCACCACTCTCGCT
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
* * * * *
11146590 ACAACAAGTAACGTAATATATAAAAATCAGTCATGTAAGCCTAAAA
66 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
* * * *
11146636 AACTACTGAACAAAAGCCTCAAAATAGCACATGAATTGCACAAGTTACGTGCCACCACTCTCGCT
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
* * *
11146701 ACAACAAGTAACGAAATATATAAAAACCAGTCACGCACTGCCTAAAA
66 ACAACAGGTAACGCAATATATAAAAACCAGTCACGCA-AGCCTAAAA
*
11146748 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTACACAA
1 AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAA
11146791 CTCAGTCGCG
Statistics
Matches: 430, Mismatches: 56, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
111 231 0.54
112 145 0.34
113 1 0.00
118 52 0.12
119 1 0.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.17
Consensus pattern (111 bp):
AACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCACAAGTCACGCGCCACCACTCTCGCT
ACAACAGGTAACGCAATATATAAAAACCAGTCACGCAAGCCTAAAA
Found at i:11150753 original size:33 final size:33
Alignment explanation
Indices: 11150681--11150743 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
11150671 TTTTACTGTC
* * *
11150681 ATATATTTCATTTTCATTTTTTATTATAATAGT
1 ATATATTTTATTTTCATTTCTTAATATAATAGT
11150714 ATATATTTTATTTTCATTTCTTAATATAAT
1 ATATATTTTATTTTCATTTCTTAATATAAT
11150744 TTTCTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (33 bp):
ATATATTTTATTTTCATTTCTTAATATAATAGT
Found at i:11151665 original size:24 final size:25
Alignment explanation
Indices: 11151612--11151670 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
11151602 TTTTGGACTT
* *
11151612 CTTAGCTAGAAAAAGGAGCAAGGAC
1 CTTAGCTAGAAAAAGGAACAAGAAC
*
11151637 CTTAGCTAGAAAAA-GAACATGAAC
1 CTTAGCTAGAAAAAGGAACAAGAAC
* *
11151661 TTTAGGTAGA
1 CTTAGCTAGA
11151671 TGAAGAAGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.19
Consensus pattern (25 bp):
CTTAGCTAGAAAAAGGAACAAGAAC
Found at i:11152935 original size:189 final size:191
Alignment explanation
Indices: 11152701--11153080 Score: 665
Period size: 191 Copynumber: 2.0 Consensus size: 191
11152691 GAAATCCTCC
*
11152701 TATCATTCTGGTAAAATTTGGGTACACTTTCTCACCTAAAGAGTTTCTCAAGAAACTTAT-CTAT
1 TATCATTCTGGTAAAATTCGGGTACACTTTCTCACCTAAAGAGTTTCTCAAGAAACTTATCCTAT
*
11152765 CAAGTTTCTCAAGAAAGT-CCCATCATCGAGATTGACAATTGTAAACAAAATATGTGTCACATGG
66 CAAGTTTCTCAAGAAAGTCCCCATCATCAAGATTGACAATTGTAAACAAAATATGTGTCACATGG
* *
11152829 TAGGATGCAAATTTCAAATTATTAAATACGTATTAGAGTCTTTTGTTGAAAACATCTCCCG
131 TAGGATGAAAATTTCAAATTATTAAATACCTATTAGAGTCTTTTGTTGAAAACATCTCCCG
* * *
11152890 TATCATTCTGGTAAAATTCGGGTACACTTTCTCACCTAGAGAGTTTCTTAAGAAACTTATCCTTT
1 TATCATTCTGGTAAAATTCGGGTACACTTTCTCACCTAAAGAGTTTCTCAAGAAACTTATCCTAT
11152955 CAAGTTTCTCAAGAAAGTCCCCATCATCAAGATTGACAATTGTAAACAAAATATGTGTCACATGG
66 CAAGTTTCTCAAGAAAGTCCCCATCATCAAGATTGACAATTGTAAACAAAATATGTGTCACATGG
* *
11153020 TAGGATGAAAATTTCAAATTATTGAATACCTATTAGAGTCTTTTGTTGAAAACGTCTCCCG
131 TAGGATGAAAATTTCAAATTATTAAATACCTATTAGAGTCTTTTGTTGAAAACATCTCCCG
11153081 AATCTTCCCA
Statistics
Matches: 180, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
189 57 0.32
190 21 0.12
191 102 0.57
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (191 bp):
TATCATTCTGGTAAAATTCGGGTACACTTTCTCACCTAAAGAGTTTCTCAAGAAACTTATCCTAT
CAAGTTTCTCAAGAAAGTCCCCATCATCAAGATTGACAATTGTAAACAAAATATGTGTCACATGG
TAGGATGAAAATTTCAAATTATTAAATACCTATTAGAGTCTTTTGTTGAAAACATCTCCCG
Found at i:11154050 original size:19 final size:19
Alignment explanation
Indices: 11154026--11154063 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11154016 CTGCCAAACC
*
11154026 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
11154045 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
11154064 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:11156360 original size:24 final size:21
Alignment explanation
Indices: 11156342--11156381 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11156332 GAAATGTAAC
11156342 TTAGTTTGAAAAACAAAATGA
1 TTAGTTTGAAAAACAAAATGA
* *
11156363 TTATTTTGACAAACAAAAT
1 TTAGTTTGAAAAACAAAAT
11156382 CATGAAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
TTAGTTTGAAAAACAAAATGA
Found at i:11157109 original size:35 final size:34
Alignment explanation
Indices: 11157070--11157152 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
11157060 GATAAATATT
*
11157070 AATATTTAAATTAAAATATTTAAAAATAAAAAATC
1 AATATTTAAATTAAAATAATT-AAAATAAAAAATC
* ** * *
11157105 AATATTTAACTTTAAAATAATTAATTTAAAATATT
1 AATATTTAA-ATTAAAATAATTAAAATAAAAAATC
11157140 AATATTTAAATTA
1 AATATTTAAATTA
11157153 TACAACACTA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 3 0.08
35 27 0.68
36 10 0.25
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (34 bp):
AATATTTAAATTAAAATAATTAAAATAAAAAATC
Found at i:11157134 original size:14 final size:14
Alignment explanation
Indices: 11157105--11157142 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11157095 ATAAAAAATC
*
11157105 AATATTTAACTTTAA
1 AATAATTAA-TTTAA
11157120 AATAATTAATTTAA
1 AATAATTAATTTAA
11157134 AAT-ATTAAT
1 AATAATTAAT
11157143 ATTTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 8 0.36
15 8 0.36
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
AATAATTAATTTAA
Found at i:11157324 original size:74 final size:74
Alignment explanation
Indices: 11157234--11157375 Score: 221
Period size: 74 Copynumber: 1.9 Consensus size: 74
11157224 ATAAATGGAA
* * *
11157234 TAAATCTTATTAATAATTATAATAAAAAATATTTCAATGATCATTATTTGATGAATACACATTTA
1 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATTATTTAATGAATACACATTTA
11157299 TAATAGGTT
66 TAATAGGTT
** **
11157308 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATTGTTATTTAATGAATACTTATTTA
1 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATTATTTAATGAATACACATTTA
11157373 TAA
66 TAA
11157376 ATATAAGTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (74 bp):
TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATTATTTAATGAATACACATTTA
TAATAGGTT
Found at i:11161886 original size:11 final size:11
Alignment explanation
Indices: 11161870--11161897 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11161860 TGGAATACTG
11161870 CAGCACAAGCA
1 CAGCACAAGCA
11161881 CAGCACAAGCA
1 CAGCACAAGCA
11161892 CAGCAC
1 CAGCAC
11161898 GATTATAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.39, G:0.18, T:0.00
Consensus pattern (11 bp):
CAGCACAAGCA
Found at i:11173888 original size:15 final size:15
Alignment explanation
Indices: 11173868--11173903 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
11173858 CCTACCGTTT
11173868 CTCATCTACAAGTTG
1 CTCATCTACAAGTTG
11173883 CTCATCTACAAGTTG
1 CTCATCTACAAGTTG
11173898 CTCATC
1 CTCATC
11173904 AATTGTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (15 bp):
CTCATCTACAAGTTG
Found at i:11180341 original size:20 final size:19
Alignment explanation
Indices: 11180303--11180348 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
11180293 GAAAACTGGG
11180303 AAGAAA-CAGAGAGAGAAAGA
1 AAGAAATCAGAGA-A-AAAGA
11180323 ACAGAAATCAGAGAAAAAGA
1 A-AGAAATCAGAGAAAAAGA
11180343 AAGAAA
1 AAGAAA
11180349 AAGAAAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.21
20 7 0.29
21 6 0.25
22 6 0.25
ACGTcount: A:0.67, C:0.07, G:0.24, T:0.02
Consensus pattern (19 bp):
AAGAAATCAGAGAAAAAGA
Found at i:11180375 original size:17 final size:17
Alignment explanation
Indices: 11180355--11180411 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
11180345 GAAAAAGAAA
11180355 AATCCATCAGAAAAGGT
1 AATCCATCAGAAAAGGT
* **
11180372 AATCCTTC-GTAAAAGAAA
1 AATCCATCAG-AAAAG-GT
*
11180390 AATCCACCAGAAAAGGT
1 AATCCATCAGAAAAGGT
11180407 AATCC
1 AATCC
11180412 TTCGTCCTCA
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 1 0.03
17 17 0.57
18 11 0.37
19 1 0.03
ACGTcount: A:0.47, C:0.21, G:0.14, T:0.18
Consensus pattern (17 bp):
AATCCATCAGAAAAGGT
Found at i:11180387 original size:35 final size:35
Alignment explanation
Indices: 11180347--11180416 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
11180337 AAAAGAAAGA
*
11180347 AAAAGAAAAATCCATCAGAAAAGGTAATCCTTCGT
1 AAAAGAAAAATCCACCAGAAAAGGTAATCCTTCGT
11180382 AAAAGAAAAATCCACCAGAAAAGGTAATCCTTCGT
1 AAAAGAAAAATCCACCAGAAAAGGTAATCCTTCGT
11180417 CCTCAAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.19
Consensus pattern (35 bp):
AAAAGAAAAATCCACCAGAAAAGGTAATCCTTCGT
Found at i:11180403 original size:18 final size:18
Alignment explanation
Indices: 11180347--11180404 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
11180337 AAAAGAAAGA
11180347 AAAAGAAAAATCCATCAG
1 AAAAGAAAAATCCATCAG
** *
11180365 AAAAG-GTAATCCTTC-G
1 AAAAGAAAAATCCATCAG
*
11180381 TAAAAGAAAAATCCACCAG
1 -AAAAGAAAAATCCATCAG
11180400 AAAAG
1 AAAAG
11180405 GTAATCCTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 1 0.03
17 12 0.40
18 16 0.53
19 1 0.03
ACGTcount: A:0.55, C:0.17, G:0.14, T:0.14
Consensus pattern (18 bp):
AAAAGAAAAATCCATCAG
Found at i:11195652 original size:2 final size:2
Alignment explanation
Indices: 11195645--11195688 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
11195635 CAATCACCGA
*
11195645 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11195687 AT
1 AT
11195689 GTATGCATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11196528 original size:18 final size:19
Alignment explanation
Indices: 11196493--11196528 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11196483 CCTGAATTCA
11196493 ATTAAATTATTTTCTATTT
1 ATTAAATTATTTTCTATTT
*
11196512 ATTAAATT-TTTTTTATT
1 ATTAAATTATTTTCTATT
11196529 CTTACCGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTAAATTATTTTCTATTT
Found at i:11197958 original size:252 final size:251
Alignment explanation
Indices: 11197513--11198014 Score: 979
Period size: 252 Copynumber: 2.0 Consensus size: 251
11197503 TTTTATGGAG
11197513 AAGGTTTCGAGTTCAAATTCTAAAATATGAACCGAATGAGAATTGGTGTGCAAAAAAGTCCAAAT
1 AAGGTTTCGAGTTCAAATTCTAAAATATGAACCGAATGAGAATTGGTGTGCAAAAAAGTCCAAAT
11197578 CATTTATTGCATAATGTTACTGTCATTGACTATAAGAAGATGGGTAACTTGTTATTTCTTTTTTT
66 CATTTATTGCATAATGTTACTGTCATTGACTATAAGAAGATGGGTAACTTGTTATTTCTTTTTTT
11197643 TTTTTCTTTTTGAATGAAAGGAGATAATTTTTCTGGGAAGTTAACCTATTTTCTGTCCTTGTCAG
131 TTTTTCTTTTTGAATGAAAGGAGATAATTTTTCTGGGAAGTTAACCTATTTTCTGTCCTTGTCAG
11197708 TTTCAATTTATATTCGACCGTCCAATAGATTATAGATGCAATACTTTTATTTTTTC
196 TTTCAATTTATATTCGACCGTCCAATAGATTATAGATGCAATACTTTTATTTTTTC
11197764 NAAGGTTTCGAGTTCAAATTCTAAAATATGAACCGAATGAGAATTGGTGTGCAAAAAAGTCCAAA
1 -AAGGTTTCGAGTTCAAATTCTAAAATATGAACCGAATGAGAATTGGTGTGCAAAAAAGTCCAAA
11197829 TCATTTATTGCATAATGTTACTGTCATTGACTATAAGAAGATGGGTAA-TATGTTATTTCTTTTT
65 TCATTTATTGCATAATGTTACTGTCATTGACTATAAGAAGATGGGTAACT-TGTTATTTCTTTTT
11197893 TTTTTTTCTTTTTGAATGAAAGGAGATAATTTTTCTGGGAAGTTAACCTATTTTCTGTCCTTGTC
129 TTTTTTTCTTTTTGAATGAAAGGAGATAATTTTTCTGGGAAGTTAACCTATTTTCTGTCCTTGTC
11197958 AGTTTCAATTTATATTCGACCGTCCAATAGATTATAGATGCAATACTTTTATTTTTT
194 AGTTTCAATTTATATTCGACCGTCCAATAGATTATAGATGCAATACTTTTATTTTTT
11198015 TCCCTTAATT
Statistics
Matches: 249, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
251 1 0.00
252 248 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (251 bp):
AAGGTTTCGAGTTCAAATTCTAAAATATGAACCGAATGAGAATTGGTGTGCAAAAAAGTCCAAAT
CATTTATTGCATAATGTTACTGTCATTGACTATAAGAAGATGGGTAACTTGTTATTTCTTTTTTT
TTTTTCTTTTTGAATGAAAGGAGATAATTTTTCTGGGAAGTTAACCTATTTTCTGTCCTTGTCAG
TTTCAATTTATATTCGACCGTCCAATAGATTATAGATGCAATACTTTTATTTTTTC
Found at i:11201638 original size:18 final size:18
Alignment explanation
Indices: 11201615--11201650 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
11201605 GTGGGTGACC
11201615 AGGAAGAAGGAA-AGGAAA
1 AGGAAG-AGGAAGAGGAAA
11201633 AGGAAGAGGAAGAGGAAA
1 AGGAAGAGGAAGAGGAAA
11201651 TGAAGGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (18 bp):
AGGAAGAGGAAGAGGAAA
Found at i:11206088 original size:21 final size:21
Alignment explanation
Indices: 11206054--11206107 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
11206044 CCCAACTAAT
* * *
11206054 TATTAAACACAATATTTTGGC
1 TATTAGACATAATATTTTGAC
11206075 TATTAGACATAATATTTTGAC
1 TATTAGACATAATATTTTGAC
*
11206096 TATTAGAGATAA
1 TATTAGACATAA
11206108 GGTGCCACCC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (21 bp):
TATTAGACATAATATTTTGAC
Found at i:11206919 original size:12 final size:12
Alignment explanation
Indices: 11206902--11206927 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11206892 AAGTTGTAAC
11206902 ACAACTTGAGGA
1 ACAACTTGAGGA
11206914 ACAACTTGAGGA
1 ACAACTTGAGGA
11206926 AC
1 AC
11206928 CTAAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.15
Consensus pattern (12 bp):
ACAACTTGAGGA
Found at i:11208066 original size:66 final size:66
Alignment explanation
Indices: 11207957--11208091 Score: 180
Period size: 66 Copynumber: 2.0 Consensus size: 66
11207947 TATATTTTTT
* * *
11207957 GTTCTACATGGATTATAAATAATTTAATCATGGGTCTTGAATTCTTGAATGGGATTCATGTTGTT
1 GTTCTACATGGATTACAAATAATTTAATCATGGGTCTTAAATTCTTGAATAGGATTCATGTTGTT
11208022 G
66 G
* * * ** * *
11208023 GTTCTGCATGGATTACATATGATTTGGTCATGGGTCTTAAATTCTTGAATAGGATTTATGTTTTT
1 GTTCTACATGGATTACAAATAATTTAATCATGGGTCTTAAATTCTTGAATAGGATTCATGTTGTT
11208088 G
66 G
11208089 GTT
1 GTT
11208092 TCGCATGCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.44
Consensus pattern (66 bp):
GTTCTACATGGATTACAAATAATTTAATCATGGGTCTTAAATTCTTGAATAGGATTCATGTTGTT
G
Found at i:11210064 original size:19 final size:22
Alignment explanation
Indices: 11210025--11210069 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11210015 TGGGCAAGTT
11210025 AAATTTGTGTTTTGGATACTT-G
1 AAATTTGTGTTTT-GATACTTAG
11210047 AAATTTG-GTTTT-ATACTTAG
1 AAATTTGTGTTTTGATACTTAG
11210067 AAA
1 AAA
11210070 ATTTCATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.27
20 4 0.18
21 5 0.23
22 7 0.32
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
AAATTTGTGTTTTGATACTTAG
Found at i:11213552 original size:19 final size:19
Alignment explanation
Indices: 11213528--11213565 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11213518 CTGCCAAACC
*
11213528 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
11213547 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
11213566 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:11218511 original size:3 final size:3
Alignment explanation
Indices: 11218458--11218495 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
11218448 CCTGTTTACA
11218458 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11218496 TCTAATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11224557 original size:101 final size:101
Alignment explanation
Indices: 11224382--11224583 Score: 388
Period size: 101 Copynumber: 2.0 Consensus size: 101
11224372 GAGTTTCAAT
11224382 GAAATTAATTTATAAATTGTTTTGGAATTAATAATGATTTTGAAAAATAGAGTACACAGAGACTG
1 GAAATTAATTTATAAATTGTTTTGGAATTAATAATGATTTTGAAAAATAGAGTACACAGAGACTG
11224447 TTAATTGTGGC-AATTTGATTGTTTAAATTGACTGG
66 TTAATTGTGGCAAATTTGATTGTTTAAATTGACTGG
11224482 NGAAATTAATTTATAAATTGTTTTGGAATTAATAATGATTTTGAAAAATAGAGTACACAGAGACT
1 -GAAATTAATTTATAAATTGTTTTGGAATTAATAATGATTTTGAAAAATAGAGTACACAGAGACT
11224547 GTTAATTGTGGCAAATTTGATTGTTTAAATTGACTGG
65 GTTAATTGTGGCAAATTTGATTGTTTAAATTGACTGG
11224584 CTTATGATAA
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
101 76 0.76
102 24 0.24
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (101 bp):
GAAATTAATTTATAAATTGTTTTGGAATTAATAATGATTTTGAAAAATAGAGTACACAGAGACTG
TTAATTGTGGCAAATTTGATTGTTTAAATTGACTGG
Found at i:11227616 original size:13 final size:13
Alignment explanation
Indices: 11227598--11227623 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11227588 AGGAGAAATT
11227598 ATGATTTTATAAA
1 ATGATTTTATAAA
11227611 ATGATTTTATAAA
1 ATGATTTTATAAA
11227624 TTTTCTGAAA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATGATTTTATAAA
Found at i:11231381 original size:124 final size:123
Alignment explanation
Indices: 11231245--11231492 Score: 487
Period size: 124 Copynumber: 2.0 Consensus size: 123
11231235 CTTTGGTTTT
11231245 TCCCTCTTGCTTTCTATTTGATGTTTTGGAAGCTTAAGATAAAGGGGTTTTTTGCTTTCTTTTTT
1 TCCCTCTTGCTTTCTATTTGATGTTTTGGAAGCTTAAGATAAAGGGGTTTTTTGCTTTCTTTTTT
11231310 ATTGTTTCCTTTCTTGTCTTAACATTTTTCTTTGTCATTTTTCTTCTTTCCTTTTCGG
66 ATTGTTTCCTTTCTTGTCTTAACATTTTTCTTTGTCATTTTTCTTCTTTCCTTTTCGG
11231368 TNCCCTCTTGCTTTCTATTTGATGTTTTGGAAGCTTAAGATAAAGGGGTTTTTTGCTTTCTTTTT
1 T-CCCTCTTGCTTTCTATTTGATGTTTTGGAAGCTTAAGATAAAGGGGTTTTTTGCTTTCTTTTT
11231433 TATTGTTTCCTTTCTTGTCTTAACATTTTTCTTTGTCATTTTTCTTCTTTCCTTTTCGG
65 TATTGTTTCCTTTCTTGTCTTAACATTTTTCTTTGTCATTTTTCTTCTTTCCTTTTCGG
11231492 T
1 T
11231493 TTCATTTTTT
Statistics
Matches: 124, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 1 0.01
124 123 0.99
ACGTcount: A:0.12, C:0.17, G:0.14, T:0.57
Consensus pattern (123 bp):
TCCCTCTTGCTTTCTATTTGATGTTTTGGAAGCTTAAGATAAAGGGGTTTTTTGCTTTCTTTTTT
ATTGTTTCCTTTCTTGTCTTAACATTTTTCTTTGTCATTTTTCTTCTTTCCTTTTCGG
Found at i:11232337 original size:3 final size:3
Alignment explanation
Indices: 11232329--11232354 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11232319 CTTTCTTTCA
11232329 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
11232355 AATATCAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11233217 original size:33 final size:33
Alignment explanation
Indices: 11233179--11233264 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
11233169 AAAAAAAACT
** *
11233179 AAAATAAAATATATGATATA-AAAATTATATTAA
1 AAAATAAAA-ATAAAATATATAAAATTATAATAA
*
11233212 AAAATAAAAATAAAATATATAAGATTATAATAA
1 AAAATAAAAATAAAATATATAAAATTATAATAA
*
11233245 ATAATAAAAATAAAATATAT
1 AAAATAAAAATAAAATATAT
11233265 GGCATTAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 8 0.17
33 39 0.83
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (33 bp):
AAAATAAAAATAAAATATATAAAATTATAATAA
Found at i:11234217 original size:21 final size:20
Alignment explanation
Indices: 11234189--11234227 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11234179 GTGTAACAAA
* *
11234189 TTAATTTAATATATTAATAT
1 TTAATTTAAAAAATTAATAT
11234209 TTAACTTTAAAAAATTAAT
1 TTAA-TTTAAAAAATTAAT
11234228 TTAATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAATTTAAAAAATTAATAT
Found at i:11248590 original size:19 final size:19
Alignment explanation
Indices: 11248566--11248604 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
11248556 CCCGCCAAAC
11248566 CTTCAACCAGATACGGAAT
1 CTTCAACCAGATACGGAAT
11248585 CTTCAACCAGATACGGAAT
1 CTTCAACCAGATACGGAAT
11248604 C
1 C
11248605 AGATCTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.28, G:0.15, T:0.21
Consensus pattern (19 bp):
CTTCAACCAGATACGGAAT
Found at i:11249401 original size:20 final size:20
Alignment explanation
Indices: 11249376--11249442 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
11249366 AGTTTCACAA
11249376 TTTAAAACAATATCTTTAAT
1 TTTAAAACAATATCTTTAAT
* *
11249396 TTTAAATATAATA---ATAAGT
1 TTTAAA-ACAATATCTTTAA-T
11249415 NTTTAAAACAATATCTTTAAT
1 -TTTAAAACAATATCTTTAAT
11249436 TTTAAAA
1 TTTAAAA
11249443 TTATAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
18 3 0.08
19 6 0.16
20 19 0.51
21 6 0.16
22 3 0.08
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.43
Consensus pattern (20 bp):
TTTAAAACAATATCTTTAAT
Found at i:11249431 original size:40 final size:41
Alignment explanation
Indices: 11249376--11249458 Score: 143
Period size: 40 Copynumber: 2.0 Consensus size: 41
11249366 AGTTTCACAA
11249376 TTTAAAACAATATCTTTAATTTT-AAA-TATAATAATAAGT
1 TTTAAAACAATATCTTTAATTTTAAAATTATAATAATAAGT
11249415 NTTTAAAACAATATCTTTAATTTTAAAATTATAATAATAAGT
1 -TTTAAAACAATATCTTTAATTTTAAAATTATAATAATAAGT
11249457 TT
1 TT
11249459 GTGTAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
40 23 0.56
41 5 0.12
42 13 0.32
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.45
Consensus pattern (41 bp):
TTTAAAACAATATCTTTAATTTTAAAATTATAATAATAAGT
Found at i:11249588 original size:2 final size:2
Alignment explanation
Indices: 11249583--11249608 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11249573 TCTCTCTCTC
11249583 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
11249609 CGTTAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11254658 original size:5 final size:5
Alignment explanation
Indices: 11254639--11254672 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
11254629 ACATCAAATA
*
11254639 TCCCC -CCCA TCCCC TCCCC TCCCC TCCCC TCCCC
1 TCCCC TCCCC TCCCC TCCCC TCCCC TCCCC TCCCC
11254673 AAGTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.03, C:0.79, G:0.00, T:0.18
Consensus pattern (5 bp):
TCCCC
Found at i:11255943 original size:92 final size:91
Alignment explanation
Indices: 11255828--11256194 Score: 448
Period size: 92 Copynumber: 4.0 Consensus size: 91
11255818 AAGATACTAT
*
11255828 TTTTTCTTTTTCATATCTATTTGTAGAAACCTGAAAGTTTATTAATTTATACCTTTCGTTATTAG
1 TTTTT-TTTTTCATATCTTTTTGTAGAAACCTGAAAGTTTATTAATTTATACCTTTCGTTATTAG
*
11255893 ATTTGAAGGTTTATTCTATGCTTTTTA
65 AATTGAAGGTTTATTCTATGCTTTTTA
* * *
11255920 TTTCTTTTTTTCATATCTTTTTGTAGAAACCAGTAAGTTTATTAATGTATACC-TTCAGTTATTA
1 TTT-TTTTTTTCATATCTTTTTGTAGAAACCTGAAAGTTTATTAATTTATACCTTTC-GTTATTA
* *
11255984 GAACTGAAGGTTTATTCTATTCTTTTTA
64 GAATTGAAGGTTTATTCTATGCTTTTTA
* * * * * * * * *
11256012 TTATTATTTTTCATATCCTTTTGTGGAAGCCTCAAAGTTTATTAATTTATACCGTTAGTTGTTGG
1 TT-TTTTTTTTCATATCTTTTTGTAGAAACCTGAAAGTTTATTAATTTATACCTTTCGTTATTAG
* * *
11256077 AATTGAATGTTCACTCTATGCTTTTTA
65 AATTGAAGGTTTATTCTATGCTTTTTA
* * * * *
11256104 TTATTTTTCTTCATATCTTTTTGTGGAAACCTGAAAGTGTATTAATTTGTACCTTTGGTTATTAG
1 TT-TTTTTTTTCATATCTTTTTGTAGAAACCTGAAAGTTTATTAATTTATACCTTTCGTTATTAG
* *
11256169 AATTGAACGTTTATTCTATGTTTTTT
65 AATTGAAGGTTTATTCTATGCTTTTT
11256195 TTCTTCTCTT
Statistics
Matches: 233, Mismatches: 38, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
91 3 0.01
92 225 0.97
93 5 0.02
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (91 bp):
TTTTTTTTTTCATATCTTTTTGTAGAAACCTGAAAGTTTATTAATTTATACCTTTCGTTATTAGA
ATTGAAGGTTTATTCTATGCTTTTTA
Found at i:11257044 original size:27 final size:27
Alignment explanation
Indices: 11257014--11257100 Score: 86
Period size: 27 Copynumber: 3.2 Consensus size: 27
11257004 AGTGTAGTTG
*
11257014 TTACACGTTAAGTTAAAAATTTAATTA
1 TTACACGTCAAGTTAAAAATTTAATTA
*
11257041 TTACACGTCATA-TTGAAAAATATAATTA
1 TTACACGTCA-AGTT-AAAAATTTAATTA
** * * *
11257069 TTACATATCATGTTGAAGATTTAATTA
1 TTACACGTCAAGTTAAAAATTTAATTA
11257096 TTACA
1 TTACA
11257101 TGCCATATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
27 26 0.53
28 23 0.47
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.40
Consensus pattern (27 bp):
TTACACGTCAAGTTAAAAATTTAATTA
Found at i:11257068 original size:28 final size:28
Alignment explanation
Indices: 11257028--11257167 Score: 110
Period size: 27 Copynumber: 5.2 Consensus size: 28
11257018 ACGTTAAGTT
*
11257028 AAAAATTTAATTATTACACGTCATATTG
1 AAAAATTTAATTATTACATGTCATATTG
* * *
11257056 AAAAATATAATTATTACATATCATGTTG
1 AAAAATTTAATTATTACATGTCATATTG
* *
11257084 -AAGATTTAATTATTACATGCCATATT-
1 AAAAATTTAATTATTACATGTCATATTG
* * * * *
11257110 AAAGATTTAGTTGTTACA-CT-ATGTTG
1 AAAAATTTAATTATTACATGTCATATTG
* * * *
11257136 AAAAATTTAGTTGTTACAT-CCATAATG
1 AAAAATTTAATTATTACATGTCATATTG
11257163 AAAAA
1 AAAAA
11257168 GTTGTTAAAC
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.04
26 17 0.19
27 45 0.50
28 24 0.27
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (28 bp):
AAAAATTTAATTATTACATGTCATATTG
Found at i:11257166 original size:26 final size:25
Alignment explanation
Indices: 11257082--11257166 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 25
11257072 CATATCATGT
* * *
11257082 TGAAGATTTAATTATTACATGCCATA
1 TGAAAATTTAGTTGTTACAT-CCATA
* * *
11257108 TTAAAGATTTAGTTGTTACA-CTATGT
1 TGAAA-ATTTAGTTGTTACATCCAT-A
11257134 TGAAAAATTTAGTTGTTACATCCATAA
1 TG-AAAATTTAGTTGTTACATCCAT-A
11257161 TGAAAA
1 TGAAAA
11257167 AGTTGTTAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
25 3 0.07
26 22 0.49
27 20 0.44
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (25 bp):
TGAAAATTTAGTTGTTACATCCATA
Found at i:11260901 original size:50 final size:50
Alignment explanation
Indices: 11260842--11260941 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
11260832 AAATAAGTTT
* *
11260842 AAAATCCTCTTTGAATTCACTCATTTAGGTCAATGAAAGTATAAAAACAA
1 AAAATCCTCTTTGAATTCACTCATTTAGCTCAATAAAAGTATAAAAACAA
*
11260892 AAAATCCTCTTTGAATTCACTCATTTAGCTCAATAAAAGTATAGAAACAA
1 AAAATCCTCTTTGAATTCACTCATTTAGCTCAATAAAAGTATAAAAACAA
11260942 GCTTAAACGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (50 bp):
AAAATCCTCTTTGAATTCACTCATTTAGCTCAATAAAAGTATAAAAACAA
Found at i:11262140 original size:4 final size:4
Alignment explanation
Indices: 11262133--11262163 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
11262123 ATGTACATGT
*
11262133 ATAC ATAC ATAC ACAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
11262164 ACACAAGCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:11262231 original size:84 final size:84
Alignment explanation
Indices: 11262079--11262233 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
11262069 CCATGCATCA
* *** * * *
11262079 AACACATGCACAAATACATACATTATATATACATATACATATATATGTACATGTATACATACATA
1 AACACAAGCACAAATACATACATTATATATACATATACATATATATGTACACACACACACACACA
11262144 CACACATACATACATACAT
66 CACACATACATACATACAT
** *
11262163 AACACAAGCACAAATACATATGTTATATATACATATACATATATATGTATACACACACACACACA
1 AACACAAGCACAAATACATACATTATATATACATATACATATATATGTACACACACACACACACA
11262228 CACACA
66 CACACA
11262234 CAGAACTCAC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 61 1.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (84 bp):
AACACAAGCACAAATACATACATTATATATACATATACATATATATGTACACACACACACACACA
CACACATACATACATACAT
Found at i:11266786 original size:105 final size:105
Alignment explanation
Indices: 11266611--11266861 Score: 385
Period size: 105 Copynumber: 2.4 Consensus size: 105
11266601 AAGAGCTGAG
* * *
11266611 TGTCCCTTTGGTTTAGGGATGGCCTGCCATCCTTTGGAATCTTTGACGCCCTGTTCTAGAGCAGC
1 TGTCCCTTGGGTTTAGGGATCGCCTGCCATCCTTTGGAATCTTTGACGCACTGTTCTAGAGCAGC
*
11266676 AGCAGCTTCAGTTCTTTGAGGCACATTCTTCTGATCTAAC
66 AGCAGCTTCAGTTCTTTGAGGCACATTCTTCTCATCTAAC
* * * * *
11266716 TGTCCCTTGGGGTTAGGGTTTGCCTGCCATCCTTTGGAATCTTTGATGCACTGTTCTAGAGGAGC
1 TGTCCCTTGGGTTTAGGGATCGCCTGCCATCCTTTGGAATCTTTGACGCACTGTTCTAGAGCAGC
11266781 AGCAGCTTCAGTTCTTTGAGGCACATTCTTCTCATCTAAC
66 AGCAGCTTCAGTTCTTTGAGGCACATTCTTCTCATCTAAC
** * *
11266821 TGTCCCTTGCATTTAGGGATCGCCTGCCACCCTTGGGAATC
1 TGTCCCTTGGGTTTAGGGATCGCCTGCCATCCTTTGGAATC
11266862 CTTGCCATTT
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
105 131 1.00
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.34
Consensus pattern (105 bp):
TGTCCCTTGGGTTTAGGGATCGCCTGCCATCCTTTGGAATCTTTGACGCACTGTTCTAGAGCAGC
AGCAGCTTCAGTTCTTTGAGGCACATTCTTCTCATCTAAC
Found at i:11269473 original size:3 final size:3
Alignment explanation
Indices: 11269465--11269489 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11269455 AAAGGTCTAG
11269465 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
11269490 TCAAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:11269904 original size:16 final size:17
Alignment explanation
Indices: 11269864--11269899 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11269854 GGTGAACAAA
* *
11269864 ATTAAATTAAATTAATT
1 ATTAATTTAAATTAAAT
11269881 ATTAATTTAAATTAAAT
1 ATTAATTTAAATTAAAT
11269898 AT
1 AT
11269900 GATTTGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAATTTAAATTAAAT
Found at i:11270745 original size:11 final size:11
Alignment explanation
Indices: 11270720--11270760 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
11270710 TAATAATATA
11270720 TATATATATATT
1 TATATATA-ATT
*
11270732 TATATTTAATT
1 TATATATAATT
*
11270743 TATACATAATT
1 TATATATAATT
11270754 TATATAT
1 TATATAT
11270761 TTTATAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATAATT
Found at i:11270804 original size:223 final size:215
Alignment explanation
Indices: 11270385--11270785 Score: 540
Period size: 223 Copynumber: 1.8 Consensus size: 215
11270375 TCACCTTATT
11270385 TTTTATAACATACTATTTATAATTAGTTATTATTTATACAAACTTTGATATAAAATATTATAACA
1 TTTTATAACATACTATTTATAATTAGTTATTATTTATACAAACTTTGATATAAAATATTATAACA
*
11270450 TATAAGTTGTGTCATTAATTTCATATGTAAATAATAAAGTAATATATTATATATAAACATATATT
66 TATAAGTTGTGTCATTAATTTCATA-GCAAATAATAAAGTAATATATTATATATAAACATATATT
***
11270515 TAATTTATACATAAGTATTACTATAACTTATAATAGATTTTATTTATATTATTACACTTAATAAT
130 TAATTTATACATAAGTATTACTATAACTTATAATAGATGAAATTTATATTATTACACTTAATAAT
11270580 TTTATTAGTTATCGTCTTAAA
195 TTTATTAGTTATCGTCTTAAA
* *
11270601 TTTTATAACATATTGTTTATAATTAGTTATTATTTATACAAACTTTGATATAAAAATTAAAATAT
1 TTTTATAACATACTATTTATAATTAGTTATTATTTATACAAACTTTG--AT----A-TAAAATAT
* * *
11270666 TATAACATATAATTTGTGTCATTAATTTCATA-CATATAATAAAGTAATAATATATATATATATA
59 TATAACATATAAGTTGTGTCATTAATTTCATAGCAAATAATAAAGTAAT-ATAT-TATATATAAA
** **
11270730 TTTATATTTAATTTATACATAA-T-TTA-TATATTTTATAATTATGGATGAAATTTATA
122 CATATATTTAATTTATACATAAGTATTACTATAACTTATAA-TA--GATGAAATTTATA
11270786 AATTTTAATA
Statistics
Matches: 160, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
216 45 0.28
218 2 0.01
220 10 0.06
221 19 0.12
222 6 0.04
223 78 0.49
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (215 bp):
TTTTATAACATACTATTTATAATTAGTTATTATTTATACAAACTTTGATATAAAATATTATAACA
TATAAGTTGTGTCATTAATTTCATAGCAAATAATAAAGTAATATATTATATATAAACATATATTT
AATTTATACATAAGTATTACTATAACTTATAATAGATGAAATTTATATTATTACACTTAATAATT
TTATTAGTTATCGTCTTAAA
Found at i:11278875 original size:20 final size:20
Alignment explanation
Indices: 11278850--11278895 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
11278840 TTTTGACCCC
*
11278850 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATAGGAGTATA
*
11278870 ATTTGACTTATAGGAGTATG
1 ATTTGACTTATAGGAGTATA
11278890 ATTTGA
1 ATTTGA
11278896 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATAGGAGTATA
Found at i:11284207 original size:35 final size:34
Alignment explanation
Indices: 11284154--11284220 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
11284144 TTTAAGTTGT
11284154 TATTTGAATATTTGTTTTTAATTATTTAAATTAA
1 TATTTGAATATTTGTTTTTAATTATTTAAATTAA
* *
11284188 TATTTGACATATTTGTTTTTGATTGTTTAAATT
1 TATTTGA-ATATTTGTTTTTAATTATTTAAATT
11284221 TAAATTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 7 0.23
35 23 0.77
ACGTcount: A:0.30, C:0.01, G:0.09, T:0.60
Consensus pattern (34 bp):
TATTTGAATATTTGTTTTTAATTATTTAAATTAA
Found at i:11288003 original size:26 final size:26
Alignment explanation
Indices: 11287944--11288015 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
11287934 CCAGTGATAG
* **
11287944 ATAATTTTACTATCAGAA-TCTAAGA
1 ATAATTTTACCATCAGAAGTGGAAGA
* *
11287969 ATAGTTTTACCATCAGAAGTGGATGA
1 ATAATTTTACCATCAGAAGTGGAAGA
11287995 ATAATTTTACCATCAGAAGTG
1 ATAATTTTACCATCAGAAGTG
11288016 AATGGATGCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 16 0.40
26 24 0.60
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.33
Consensus pattern (26 bp):
ATAATTTTACCATCAGAAGTGGAAGA
Found at i:11288107 original size:18 final size:18
Alignment explanation
Indices: 11288057--11288107 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11288047 AATGAAAAAT
11288057 CCACCAAAAGTGGATAAC
1 CCACCAAAAGTGGATAAC
* * * *
11288075 CCATCATAAGCGGATCAC
1 CCACCAAAAGTGGATAAC
*
11288093 CTACCAAAAGTGGAT
1 CCACCAAAAGTGGAT
11288108 GACTACTTTC
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.27, G:0.18, T:0.16
Consensus pattern (18 bp):
CCACCAAAAGTGGATAAC
Found at i:11294180 original size:3 final size:3
Alignment explanation
Indices: 11294174--11294211 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11294164 TATTATATAG
11294174 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11294212 CTTATATATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11294599 original size:20 final size:20
Alignment explanation
Indices: 11294574--11294616 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
11294564 AGTTTAATGT
11294574 TTTGAGATGACATCTTAAAA
1 TTTGAGATGACATCTTAAAA
* *
11294594 TTTGAGATTACATTTTAAAA
1 TTTGAGATGACATCTTAAAA
11294614 TTT
1 TTT
11294617 TAAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (20 bp):
TTTGAGATGACATCTTAAAA
Found at i:11294684 original size:2 final size:2
Alignment explanation
Indices: 11294677--11294710 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11294667 CAAATCTACT
11294677 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11294711 AACCCTGATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11295222 original size:57 final size:57
Alignment explanation
Indices: 11295134--11295244 Score: 204
Period size: 57 Copynumber: 1.9 Consensus size: 57
11295124 GCCTTTCTGT
*
11295134 AAGTCTTTAGCCATTTTTGGCAATATTAATGAATACATACCATGTTTTTCAAATTTG
1 AAGTCTTTAGCCATTTTTGGCAAAATTAATGAATACATACCATGTTTTTCAAATTTG
*
11295191 AAGTCTTTAGCCTTTTTTGGCAAAATTAATGAATACATACCATGTTTTTCAAAT
1 AAGTCTTTAGCCATTTTTGGCAAAATTAATGAATACATACCATGTTTTTCAAAT
11295245 ATATATATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (57 bp):
AAGTCTTTAGCCATTTTTGGCAAAATTAATGAATACATACCATGTTTTTCAAATTTG
Found at i:11295243 original size:29 final size:29
Alignment explanation
Indices: 11295158--11295243 Score: 76
Period size: 29 Copynumber: 3.0 Consensus size: 29
11295148 TTTTGGCAAT
11295158 ATTAATGAATACATACCATGTTTTTC-AA
1 ATTAATGAATACATACCATGTTTTTCAAA
*
11295186 ATT--TGAAGT-CTTTAGCC-T-TTTTTGGCAAA
1 ATTAATGAA-TAC-ATA-CCATGTTTTT--CAAA
11295215 ATTAATGAATACATACCATGTTTTTCAAA
1 ATTAATGAATACATACCATGTTTTTCAAA
11295244 TATATATATA
Statistics
Matches: 45, Mismatches: 2, Indels: 21
0.66 0.03 0.31
Matches are distributed among these distances:
26 10 0.22
27 4 0.09
28 6 0.13
29 11 0.24
30 4 0.09
31 10 0.22
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (29 bp):
ATTAATGAATACATACCATGTTTTTCAAA
Found at i:11304408 original size:34 final size:34
Alignment explanation
Indices: 11304352--11304416 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
11304342 TTAGTAGAAA
11304352 ATGTTACACGTTAAGGTCAAAGCTTCAGCACCAG
1 ATGTTACACGTTAAGGTCAAAGCTTCAGCACCAG
* * * * *
11304386 ATGTTTCATGTTATGGTTAAAGCTTTAGCAC
1 ATGTTACACGTTAAGGTCAAAGCTTCAGCAC
11304417 TAAATATTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (34 bp):
ATGTTACACGTTAAGGTCAAAGCTTCAGCACCAG
Found at i:11304781 original size:15 final size:15
Alignment explanation
Indices: 11304761--11304792 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11304751 CGAGAACCCG
*
11304761 TCCTATTAACTCGAT
1 TCCTATTAACCCGAT
11304776 TCCTATTAACCCGAT
1 TCCTATTAACCCGAT
11304791 TC
1 TC
11304793 TAATCGACGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (15 bp):
TCCTATTAACCCGAT
Found at i:11305411 original size:23 final size:25
Alignment explanation
Indices: 11305363--11305412 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
11305353 ATTTATTGAC
*
11305363 TTATTCATATATTTATCGTTATTAT
1 TTATTCATATATTTATCATTATTAT
11305388 TTATT-AT-TATTTATCA-TATATAT
1 TTATTCATATATTTATCATTAT-TAT
11305411 TT
1 TT
11305413 TTTCTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 13 0.57
24 2 0.09
25 5 0.22
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (25 bp):
TTATTCATATATTTATCATTATTAT
Found at i:11305605 original size:3 final size:3
Alignment explanation
Indices: 11305591--11305644 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
11305581 CATTTATTTT
* *
11305591 TTA TTT TTA TTA TTA TTA TTA TTA -TA TT- TTA TTA TCT- TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
11305634 TCA TTA TTA TT
1 TTA TTA TTA TT
11305645 TTCTGATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
2 5 0.12
3 35 0.85
4 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11309557 original size:145 final size:146
Alignment explanation
Indices: 11309303--11309575 Score: 388
Period size: 145 Copynumber: 1.9 Consensus size: 146
11309293 TAAGAAAGGA
* * * * *
11309303 TATACAATTGATTTTTTTTGTCTTTCACATTAACGTGTATAGCTCTAAAAGAGTTAAAACACTTT
1 TATACAACTGATTTTTTTTGCCTTTAACATTAACGTGCATAGCTCTAAAAGAGCTAAAACACTTT
* * *
11309368 GCAAACATAGGTCTTGTCTAATATCAAGCTCAAAATGCTCCAATTCATATTTCATATGCAATTAA
66 GCAAACATAGATATTGTCTAATATCAAGCTCAAAATGCTACAATTCATATTTCATATGCAATTAA
11309433 ATGATCTAGGAGAATG
131 ATGATCTAGGAGAATG
* * *
11309449 TATACAACTGA-TTTTTTTGCCTTTAACATTAA-TTGGCATAGTTCTAAAAGAGCTGAAACACTT
1 TATACAACTGATTTTTTTTGCCTTTAACATTAACGT-GCATAGCTCTAAAAGAGCTAAAACACTT
* * * *
11309512 TGTACACATAGATATTGTCTAATATCAAGTTCAAAATGTTACAATTCATATTTCATATGCAATT
65 TGCAAACATAGATATTGTCTAATATCAAGCTCAAAATGCTACAATTCATATTTCATATGCAATT
11309576 TTTCTTGACG
Statistics
Matches: 111, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
144 1 0.01
145 100 0.90
146 10 0.09
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (146 bp):
TATACAACTGATTTTTTTTGCCTTTAACATTAACGTGCATAGCTCTAAAAGAGCTAAAACACTTT
GCAAACATAGATATTGTCTAATATCAAGCTCAAAATGCTACAATTCATATTTCATATGCAATTAA
ATGATCTAGGAGAATG
Found at i:11309829 original size:38 final size:39
Alignment explanation
Indices: 11309742--11309831 Score: 103
Period size: 37 Copynumber: 2.3 Consensus size: 39
11309732 GGATAAAAAG
*
11309742 GGAAAAAAGAAAAGAAAAATAGTTCCAAAATTTGAGCTAA
1 GGAAAAAA-AAAAGAAAAATAATTCCAAAATTTGAGCTAA
* * * * *
11309782 TG-AATAAAAAGGAAAAA-AATTCTAAAATTTTAGCTAA
1 GGAAAAAAAAAAGAAAAATAATTCCAAAATTTGAGCTAA
11309819 GGAAAAAAAAAAG
1 GGAAAAAAAAAAG
11309832 GGAAAAGGAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
37 18 0.45
38 17 0.43
39 4 0.10
40 1 0.03
ACGTcount: A:0.60, C:0.06, G:0.16, T:0.19
Consensus pattern (39 bp):
GGAAAAAAAAAAGAAAAATAATTCCAAAATTTGAGCTAA
Found at i:11313979 original size:32 final size:34
Alignment explanation
Indices: 11313943--11314008 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
11313933 CAAAAACCAT
*
11313943 ATACCCTAAA-TTTCCAACCACG-TTTTAAAGAC
1 ATACCCCAAATTTTCCAACCACGTTTTTAAAGAC
*
11313975 ATACCCCAAATTTTCCAGCCACGTTTTTAAAGAC
1 ATACCCCAAATTTTCCAACCACGTTTTTAAAGAC
11314009 TTGTGCTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.30
33 11 0.37
34 10 0.33
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (34 bp):
ATACCCCAAATTTTCCAACCACGTTTTTAAAGAC
Found at i:11319835 original size:28 final size:28
Alignment explanation
Indices: 11319799--11319862 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
11319789 AAAATTTCCA
11319799 CTATCTATTGTGATAATCTCAACACCAC
1 CTATCTATTGTGATAATCTCAACACCAC
11319827 CTATCTATTGTGATAATCTCAACACCAC
1 CTATCTATTGTGATAATCTCAACACCAC
11319855 CTATCTAT
1 CTATCTAT
11319863 CTCTAAATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (28 bp):
CTATCTATTGTGATAATCTCAACACCAC
Found at i:11321817 original size:25 final size:25
Alignment explanation
Indices: 11321788--11321849 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
11321778 AAGAAAATAA
11321788 AATCCCTATAATTATGATGA-TTCT
1 AATCCCTATAATTATGATGATTTCT
*
11321812 CAATCCCTATAATTATGGTGATTTCT
1 -AATCCCTATAATTATGATGATTTCT
*
11321838 AATTCCTATAAT
1 AATCCCTATAAT
11321850 CACGTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (25 bp):
AATCCCTATAATTATGATGATTTCT
Found at i:11326354 original size:25 final size:25
Alignment explanation
Indices: 11326320--11326381 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
11326310 AAAGAAAATA
11326320 AATCCCTATAATTATGATGA-TTCT
1 AATCCCTATAATTATGATGATTTCT
*
11326344 CAATCCCTATAATTATGGTGATTTCT
1 -AATCCCTATAATTATGATGATTTCT
*
11326370 AATTCCTATAAT
1 AATCCCTATAAT
11326382 CACGTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (25 bp):
AATCCCTATAATTATGATGATTTCT
Found at i:11347699 original size:18 final size:18
Alignment explanation
Indices: 11347665--11347706 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
11347655 TTAATTTTTT
11347665 TTATT-TTTTAATGTATA
1 TTATTATTTTAATGTATA
* *
11347682 TTATTATTTTTATTTATA
1 TTATTATTTTAATGTATA
*
11347700 TTTTTAT
1 TTATTAT
11347707 ACTATTTGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATTATTTTAATGTATA
Found at i:11354781 original size:20 final size:19
Alignment explanation
Indices: 11354737--11354781 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
11354727 TCATTTTTCC
* *
11354737 CAATAGCAGTAAATTAAAG
1 CAATAGCAGTAAATCAAAA
11354756 CAAATAGCAGATAAATCAAAA
1 C-AATAGCAG-TAAATCAAAA
11354777 CAATA
1 CAATA
11354782 AGATACAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 12 0.55
21 9 0.41
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.18
Consensus pattern (19 bp):
CAATAGCAGTAAATCAAAA
Found at i:11357360 original size:2 final size:2
Alignment explanation
Indices: 11357353--11357471 Score: 143
Period size: 2 Copynumber: 59.5 Consensus size: 2
11357343 ACACATGTAC
11357353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* ** ** *
11357395 AT AT AT ACT AN NN NN A- AT GAC AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT A-T AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT
*
11357437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11357472 AACACGAATA
Statistics
Matches: 106, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
1 2 0.02
2 101 0.95
3 3 0.03
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11357631 original size:63 final size:63
Alignment explanation
Indices: 11357529--11357684 Score: 240
Period size: 63 Copynumber: 2.5 Consensus size: 63
11357519 CACATCATAG
* * *
11357529 TCGGCATGTGCACTTCCCACTTCGCACATGCACGGTTGTAATTGTCACAACATTGTCATTCAA
1 TCGGCATGTGCACTGCCCACTCCGCACATGCACGATTGTAATTGTCACAACATTGTCATTCAA
* * *
11357592 TCGGCATGTGCAATGCCCACTCCTCACATGCATGATTGTAATTGTCACAACATTGTCATTCAA
1 TCGGCATGTGCACTGCCCACTCCGCACATGCACGATTGTAATTGTCACAACATTGTCATTCAA
* *
11357655 CCAGCATGTGCACTGCCCACTCCGCACATG
1 TCGGCATGTGCACTGCCCACTCCGCACATG
11357685 GACGGTTACA
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 83 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (63 bp):
TCGGCATGTGCACTGCCCACTCCGCACATGCACGATTGTAATTGTCACAACATTGTCATTCAA
Found at i:11359154 original size:14 final size:12
Alignment explanation
Indices: 11359129--11359187 Score: 52
Period size: 11 Copynumber: 5.0 Consensus size: 12
11359119 TTTTAATTTT
11359129 AAATAAATAAAA
1 AAATAAATAAAA
*
11359141 AAATATAAT-GAA
1 AAATA-AATAAAA
*
11359153 AAATAAA-AATA
1 AAATAAATAAAA
*
11359164 TAAT-AATAAAA
1 AAATAAATAAAA
11359175 AAATAAAATAAAA
1 AAAT-AAATAAAA
11359188 TAAACTTCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
10 2 0.06
11 12 0.33
12 12 0.33
13 10 0.28
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (12 bp):
AAATAAATAAAA
Found at i:11359158 original size:20 final size:22
Alignment explanation
Indices: 11359128--11359190 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 22
11359118 TTTTTAATTT
*
11359128 TAAATAAATAAAAAAAT-ATAA
1 TAAAAAAATAAAAAAATAATAA
* *
11359149 T-GAAAAATAAAAATATAATAA
1 TAAAAAAATAAAAAAATAATAA
*
11359170 TAAAAAAATAAAATAA-AATAA
1 TAAAAAAATAAAAAAATAATAA
11359191 ACTTCACAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.35
21 11 0.32
22 11 0.32
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (22 bp):
TAAAAAAATAAAAAAATAATAA
Found at i:11359162 original size:18 final size:17
Alignment explanation
Indices: 11359130--11359191 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 17
11359120 TTTAATTTTA
11359130 AATAAATAA-AAAAATAT
1 AATAAA-AATAAAAATAT
11359147 AATGAAAAATAAAAATAT
1 AAT-AAAAATAAAAATAT
* *
11359165 AATAATAA-AAAAATAA
1 AATAAAAATAAAAATAT
11359181 AAT-AAAATAAA
1 AATAAAAATAAA
11359192 CTTCACAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 3 0.08
16 13 0.33
17 9 0.23
18 14 0.36
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AATAAAAATAAAAATAT
Found at i:11362438 original size:27 final size:28
Alignment explanation
Indices: 11362372--11362447 Score: 127
Period size: 28 Copynumber: 2.8 Consensus size: 28
11362362 ATTTGGAGTA
*
11362372 TAGGGGTAAAATGGTAATTTTGCCATCT
1 TAGGGGTAAAATGGTAATTTTGCCATCC
11362400 TAGGGGTAAAATGGTAATTTTGCCA-CC
1 TAGGGGTAAAATGGTAATTTTGCCATCC
*
11362427 TAGGGGTAAAATTGTAATTTT
1 TAGGGGTAAAATGGTAATTTT
11362448 CTACCACCAG
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 21 0.46
28 25 0.54
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (28 bp):
TAGGGGTAAAATGGTAATTTTGCCATCC
Found at i:11364558 original size:20 final size:18
Alignment explanation
Indices: 11364521--11364583 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
11364511 GAAAATAGAA
11364521 TATTTTATTAAAAATTAT
1 TATTTTATTAAAAATTAT
11364539 TATTTTATTCAAACAATTAT
1 TATTTTATT-AAA-AATTAT
* * **
11364559 AATTTCATTTCAAATTAT
1 TATTTTATTAAAAATTAT
*
11364577 TAGTTTA
1 TATTTTA
11364584 GACATCTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 19 0.53
19 4 0.11
20 13 0.36
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (18 bp):
TATTTTATTAAAAATTAT
Found at i:11367020 original size:19 final size:19
Alignment explanation
Indices: 11366996--11367033 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11366986 CATATTAACT
*
11366996 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
11367015 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
11367034 GGTTTGGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Done.