Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold228
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: 4123243
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 3 of 27
Found at i:362906 original size:92 final size:92
Alignment explanation
Indices: 362732--363001 Score: 477
Period size: 92 Copynumber: 2.9 Consensus size: 92
362722 GGATGTCAAC
* *
362732 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
*
362797 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
362827 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
362892 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
*
362919 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
362984 AGCGATATTGGACTTAAA
66 AGCGATATTGGACTTAAA
363002 AATGATGATG
Statistics
Matches: 171, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 131 0.77
94 4 0.02
95 36 0.21
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:363126 original size:358 final size:358
Alignment explanation
Indices: 362466--363899 Score: 2342
Period size: 358 Copynumber: 4.0 Consensus size: 358
362456 GGATGTCAAC
* *
362466 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
* *
362531 GCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
63 GCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
362596 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAG
128 ATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAG
362661 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAT
193 TGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAT
362726 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGA
258 GTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGA
362791 TTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
323 TTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
362827 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
362892 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
362957 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAGTGA
131 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAGTGA
363022 TAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
196 TAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
363087 AACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTC
261 AACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTC
363152 AAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
326 AAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
363185 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
363250 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
*
363315 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATG-TGCTGAGTC
131 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA------AATGATGATGAG--
* * *
363379 AAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTG
188 AA-G--AG------T-GA--T----A--AAGATGCCAATATGTTGATTCATGGCCAACGATATTG
* * * * *
363444 GAC-T-----T-----AAAGG-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGA
235 GGCTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGA
* *
363497 T-GAAGA--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAAT
300 TGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
*
363553 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
363618 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
66 AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
363683 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAGTGA
131 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAGTGA
363748 TAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
196 TAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
363813 AACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTC
261 AACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTC
*
363878 AAGGCCAGCTATATTGGGCTTA
326 AAGGCCAGCTATATTGGACTTA
363900 GAGGGGTTGC
Statistics
Matches: 1003, Mismatches: 28, Indels: 87
0.90 0.03 0.08
Matches are distributed among these distances:
343 36 0.04
344 1 0.00
345 1 0.00
349 2 0.00
351 2 0.00
352 1 0.00
354 5 0.00
355 40 0.04
356 4 0.00
358 528 0.53
360 5 0.00
361 38 0.04
362 4 0.00
363 12 0.01
364 4 0.00
365 2 0.00
366 1 0.00
368 225 0.22
370 4 0.00
371 40 0.04
372 5 0.00
374 1 0.00
375 2 0.00
377 2 0.00
381 1 0.00
382 1 0.00
383 36 0.04
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (358 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGAGTGA
TAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
AACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTC
AAGGCCAGCTATATTGGACTTAAAGGTGCCAAT
Found at i:363264 original size:92 final size:92
Alignment explanation
Indices: 363090--363727 Score: 1204
Period size: 92 Copynumber: 6.9 Consensus size: 92
363080 GGATGTCAAC
* * *
363090 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
*
363155 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCGATATTGGACTTAAAGGTGCCAAT
*
363185 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
363250 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
363277 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
363342 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
363369 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
363434 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
363461 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
363526 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
363553 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
363618 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
363645 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
363710 AGCGATATTGGACTTAAA
66 AGCGATATTGGACTTAAA
363728 AATGATGATG
Statistics
Matches: 539, Mismatches: 4, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
92 499 0.93
94 4 0.01
95 36 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (92 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:363883 original size:52 final size:55
Alignment explanation
Indices: 363752--363893 Score: 164
Period size: 55 Copynumber: 2.6 Consensus size: 55
363742 GAGTGATAAA
* * * * **
363752 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
* ** * *
363807 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
363860 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTG
363894 GGCTTAGAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
52 29 0.40
53 5 0.07
54 1 0.01
55 37 0.51
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (55 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
Found at i:364017 original size:35 final size:35
Alignment explanation
Indices: 363966--364409 Score: 571
Period size: 34 Copynumber: 12.9 Consensus size: 35
363956 GGGCTTTGGG
*
363966 AAGGAAAAA-AGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAA
364000 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
364036 AA-GAAAAA-AGTGCCACGGAGTTGTGGG-TTTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
364068 AAGGAAAAATAGTGCCACAGAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
364102 AAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
364135 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
364170 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
364206 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
364241 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
364277 AAAGAAAAAGTA-TGCCACAGAGTTGTGGGCTTTAA
1 AAGGAAAAAG-AGTGCCACGGAGTTGTGGGCTTTAA
* *
364312 GATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
364347 AA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
364379 AAGG-AAAAG-GTGCCACGAAGTTGTGGGCTTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
364410 GAAGAAAAAA
Statistics
Matches: 370, Mismatches: 21, Indels: 40
0.86 0.05 0.09
Matches are distributed among these distances:
32 34 0.09
33 80 0.22
34 104 0.28
35 77 0.21
36 26 0.07
37 49 0.13
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.21
Consensus pattern (35 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:364028 original size:71 final size:70
Alignment explanation
Indices: 363953--364409 Score: 568
Period size: 71 Copynumber: 6.6 Consensus size: 70
363943 CACCGACTTG
** *
363953 TGTGGGCTTTGGGAAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTGAAAAGGAAAAAAG-TGCCACGGAGTTGTGGGCTTTAAAA-GGAAAAAGAGTGCC
364017 ACGGAGT
64 ACGGAGT
* *
364024 TGTGGGCTTT-AAAA-GAAAAAAGTGCCACGGAGTTGTGGG-TTTAGAAGGAAAAATAGTGCCAC
1 TGTGGGCTTTGAAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCAC
*
364086 AGAGT
66 GGAGT
* * *
364091 TGTGGGC-TT-AGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT-AAAGG-AAAAGAGTGCCAC
1 TGTGGGCTTTGAAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCAC
364152 GGAGT
66 GGAGT
* *
364157 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCC
1 TGTGGGCTTTGAAAA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCC
364221 ACGGAGT
64 ACGGAGT
*
364228 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTA-TGC
1 TGTGGGCTTTGAAAA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAG-AGTGC
*
364292 CACAGAGT
63 CACGGAGT
* * *
364300 TGTGGGCTTT-AAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCA
1 TGTGGGCTTTGAAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAAGAGTGCCA
364362 CGGAGT
65 CGGAGT
* *
364368 TGTGGGCTTT--AAAGG-AAAAGGTGCCACGAAGTTGTGGGCTTT
1 TGTGGGCTTTGAAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTT
364410 GAAGAAAAAA
Statistics
Matches: 346, Mismatches: 27, Indels: 31
0.86 0.07 0.08
Matches are distributed among these distances:
66 53 0.15
67 58 0.17
68 47 0.14
69 43 0.12
70 33 0.10
71 87 0.25
72 25 0.07
ACGTcount: A:0.33, C:0.11, G:0.34, T:0.21
Consensus pattern (70 bp):
TGTGGGCTTTGAAAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCAC
GGAGT
Found at i:365475 original size:16 final size:16
Alignment explanation
Indices: 365454--365495 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
365444 CTCACCGAGA
*
365454 TTTTCTGTTTTGTTTT
1 TTTTCTGTTTTCTTTT
*
365470 TTTTCTTTTTTCTTTT
1 TTTTCTGTTTTCTTTT
*
365486 TTTTGTGTTT
1 TTTTCTGTTT
365496 GGAAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (16 bp):
TTTTCTGTTTTCTTTT
Found at i:372743 original size:52 final size:52
Alignment explanation
Indices: 372673--372793 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
372663 GAAAATTTAT
*
372673 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
372725 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
372777 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
372794 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:372806 original size:52 final size:51
Alignment explanation
Indices: 372673--372813 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
372663 GAAAATTTAT
372673 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
372725 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
372777 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
372814 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:372820 original size:13 final size:13
Alignment explanation
Indices: 372802--372826 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
372792 CAAAGATCAG
372802 TGTATCGATACAA
1 TGTATCGATACAA
372815 TGTATCGATACA
1 TGTATCGATACA
372827 TGTGAGTAAT
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:372897 original size:20 final size:20
Alignment explanation
Indices: 372868--372925 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
372858 GCAGTAGCTT
372868 AAAT-TGTATCGATACAAAA
1 AAATATGTATCGATACAAAA
*
372887 AAATATGTATCGATACAACA
1 AAATATGTATCGATACAAAA
***
372907 TTTTATGTATCGATACAAA
1 AAATATGTATCGATACAAA
372926 TCGTTGAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (20 bp):
AAATATGTATCGATACAAAA
Found at i:374642 original size:21 final size:20
Alignment explanation
Indices: 374612--374653 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
374602 GGAGAGGCCT
*
374612 CTTTTTATTGATGTTCATTC
1 CTTTTTATTGATATTCATTC
*
374632 CTTTATTATTGCTATTCATTC
1 CTTT-TTATTGATATTCATTC
374653 C
1 C
374654 CATTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.17, C:0.19, G:0.07, T:0.57
Consensus pattern (20 bp):
CTTTTTATTGATATTCATTC
Found at i:385631 original size:13 final size:13
Alignment explanation
Indices: 385569--385642 Score: 55
Period size: 13 Copynumber: 5.6 Consensus size: 13
385559 CCTTTTGCCA
385569 TTTGTCAAGAAA-
1 TTTGTCAAGAAAC
385581 TTATCGTCAAG-AAC
1 TT-T-GTCAAGAAAC
* **
385595 TTCTGTCGAGAATG
1 TT-TGTCAAGAAAC
385609 TTTGTC-AGAAAC
1 TTTGTCAAGAAAC
*
385621 TTTGTCAAGAAAT
1 TTTGTCAAGAAAC
385634 TTTCGTCAA
1 TTT-GTCAA
385643 TATGACCCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 12 0.24
13 20 0.41
14 17 0.35
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (13 bp):
TTTGTCAAGAAAC
Found at i:385641 original size:26 final size:26
Alignment explanation
Indices: 385569--385642 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 26
385559 CCTTTTGCCA
*
385569 TTTGTCAAGAAATTATCGTCAAGAAC
1 TTTGTCAAGAAATTTTCGTCAAGAAC
*
385595 TTCTGTCGAG-AATGTTT-GTC-AGAAAC
1 TT-TGTCAAGAAAT-TTTCGTCAAG-AAC
385621 TTTGTCAAGAAATTTTCGTCAA
1 TTTGTCAAGAAATTTTCGTCAA
385643 TATGACCCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
25 11 0.28
26 19 0.49
27 9 0.23
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (26 bp):
TTTGTCAAGAAATTTTCGTCAAGAAC
Found at i:385681 original size:29 final size:29
Alignment explanation
Indices: 385649--387791 Score: 2116
Period size: 29 Copynumber: 74.7 Consensus size: 29
385639 TCAATATGAC
385649 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
385678 CC-TTTCAAAGCCCACAAGTTAGGGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
385706 CC-TTTCAAAGCCCACATA-TCAGTGGCAT
1 CCTTTTCAAAGCCCACA-AGTCAGTGGCAT
385734 -CTTTCTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTT-TCAAAGCCCACAAGTCAGTGGCAT
* * *
385763 CCTTCTCAAAGCCCAGAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
385792 CC-TTTCAAAGCTCACATGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
385820 CCTTCTCAAAGCCCACATA-TCAGTGGCAT
1 CCTTTTCAAAGCCCACA-AGTCAGTGGCAT
* *
385849 CCTTCTCAAAGCCCACATA-TTAGTGGCAT
1 CCTTTTCAAAGCCCACA-AGTCAGTGGCAT
*
385878 CCTTCTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
385907 CATTCTCAAAGCCCACAAGTTAGTAGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
385936 CC-TTTCAAAGCCCACATGTCAGTAGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
385964 CTTTTTCAAAGCCCATGAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
385993 CCTTCTT-AAAG-CCATATA-TCAG-GTGCAT
1 CCTT-TTCAAAGCCCACA-AGTCAGTG-GCAT
* *
386021 CCTTCTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
386050 CCTCTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
386079 -CTTTTCAAAGCCCACATGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
386107 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
386136 CCTTCTCAAAGCCCACAAGTGC-GTGGCAT
1 CCTTTTCAAAGCCCACAAGT-CAGTGGCAT
* *
386165 CC-TTTCAAAGCCCACATGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* **
386193 CCTTTTCAAAGCCCACGAGTTGGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
386222 CCTCTTCAAAGCCCACAAGTCGGTGGCAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
386251 CCTCTCTCGAAGCCCACAAGTCAGTCGCAT
1 CCT-TTTCAAAGCCCACAAGTCAGTGGCAT
* * *
386281 TCTTCTCAAAGCCCACAAGTCTGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
**
386310 CC-TTTCAAAGCTAAC-AGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
386337 CCTTTTCAAAGCCCACGAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
386366 CCTTTTTAAAACCCACAAGTCGGTGGCAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
** * * *
386395 CCTCACTCAAAGCCGACAAGTCAGTGGTAG
1 CCT-TTTCAAAGCCCACAAGTCAGTGGCAT
* *
386425 CC-TTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
386453 CCTTTT-GAAGCCCACAAGTTAATGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
386480 CCCTTTCAAAGCCCACATGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
386509 CATTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
386538 -ATTTTCAAAGCCCACATA-TCAGTGGCAT
1 CCTTTTCAAAGCCCACA-AGTCAGTGGCAT
* *
386566 CTTTTTTCAAAGCCCACAAGTCAATGGCAT
1 C-CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
386596 TCTTCTCAAAGCCTACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
386625 CC-TTTCAAAGCCCACATGTCAATGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * **
386653 CATTTTCAAAGCCTATGAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
386682 CCTTTTCAAAGCCTACAAGTCGGTGGTAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
386711 CCTCTCTCAAAGCCCATAAGTCAGTGGCAT
1 CCT-TTTCAAAGCCCACAAGTCAGTGGCAT
* *
386741 TCTTTTCAAAGCCGACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
386770 CC-TTTCAAAGGCCACATGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
386798 CCTTTTCAAAGCCCACGAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
386827 -CTTTCTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTT-TCAAAGCCCACAAGTCAGTGGCAT
386856 CCTTCTT-AAAGCCCACAAGTCAGTGGCAT
1 CCTT-TTCAAAGCCCACAAGTCAGTGGCAT
* * *
386885 CCTTCTCAAAGCCCATAAGTGAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
386913 CCCTTTCAAAGCCCACATGTTATTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
386942 CATTTTCAAAGCCCACGAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
386971 CCTTCTCAAAGCCTACAAGTCAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
386999 ACTTTCTCATAGCCCACAAGTGAGTGGCAT
1 CCTTT-TCAAAGCCCACAAGTCAGTGGCAT
* *
387029 CC-TTTCAAAGCCCACATGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
387057 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
387086 CCTTCTCAAAGCCCA-AAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
387114 CCTTCTCAAAGCCCACAAGTGAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
387143 TC-TTTCAAAGCCCACATGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
387171 CCTTTTCAAAACCCATGAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * * *
387200 CCTTCTCAAAGCCCATAAGTCGGTGGAAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
387229 ACTCTCTCAAAGCCCATAAGTCAGTGGCAT
1 CCT-TTTCAAAGCCCACAAGTCAGTGGCAT
* * *
387259 TCTTCTCAAAGCCCACAAGTCTA-TGACAT
1 CCTTTTCAAAGCCCACAAGTC-AGTGGCAT
*
387288 CC-TTTCAAAGCCCACATG-CTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTC-AGTGGCAT
**
387316 CCTTTTCAAAG-CCATGAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
387344 CCTTCTT-AAAGCCCACAAGTCGGTGGCAA
1 CCTT-TTCAAAGCCCACAAGTCAGTGGCAT
* ** * * *
387373 CCTCTCTCAAAGCTGATAAGTCAGTGGTAG
1 CCT-TTTCAAAGCCCACAAGTCAGTGGCAT
*
387403 CC-TTTCAAAGCCCACAAGTTAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
** * *
387430 CCTTTTTGAAGCCCAAAAGTTAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * * *
387458 CCCTTTCAAAGCCCATATGTTAGTGGTAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
387487 CTTTTTCAAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
387516 CC-TTTCAAAGCCCACATGTCAATGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
387544 CCTTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
387573 CCTTCTT-TAAGCCCACACAAGTCGGTGGCAA
1 CCTT-TTCAAAG-CC-CACAAGTCAGTGGCAT
* * * *
387604 CCTCTCTT-AAAGCCTACAAGTCAATGGTAG
1 CCT-T-TTCAAAGCCCACAAGTCAGTGGCAT
* *
387634 CCTTTT-AAAGCCTACAAGTTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
*
387662 CC-TTTCGAAGCCCACAAGTCAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
** * * * * *
387690 -CTTTTTGAAGCCTACAAGTTAATTGCAC
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
387718 CCTTTT-AAAGCCCAGAAGTTAGTGGCA-
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * * *
387745 CCCTTTCAAA-ACTACAAATTAGTGGCAT
1 CCTTTTCAAAGCCCACAAGTCAGTGGCAT
387773 CCTTTT-AAAGCCCACAAGT
1 CCTTTTCAAAGCCCACAAGT
387792 TGGTGGCAAC
Statistics
Matches: 1764, Mismatches: 284, Indels: 133
0.81 0.13 0.06
Matches are distributed among these distances:
27 51 0.03
28 646 0.37
29 879 0.50
30 162 0.09
31 19 0.01
32 7 0.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (29 bp):
CCTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:385751 original size:57 final size:56
Alignment explanation
Indices: 385652--387791 Score: 2056
Period size: 57 Copynumber: 37.3 Consensus size: 56
385642 ATATGACCCT
*
385652 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGGGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* *
385708 TTTCAAAGCCCACATA-TCAGTGGCATCTTTCTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACA-AGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * * * *
385765 TTCTCAAAGCCCAGAAGTTAGTGGCATCCTTTCAAAGCTCACATGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
385822 TTCTCAAAGCCCACATA-TCAGTGGCATCCTTCTCAAAGCCCACATA-TTAGTGGCATCC
1 TT-TCAAAGCCCACA-AGTCAGTGGCATCCTT-TCAAAGCCCACA-AGTTAGTGGCATCC
* *
385880 TTCTCAAAGCCCACAAGTCAGTGGCATCATTCTCAAAGCCCACAAGTTAGTAGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * * **
385938 TTTCAAAGCCCACATGTCAGTAGCATCTTTTTCAAAGCCCATGAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCATCC
* *
385995 TTCTTAAAG-CCATATA-TCAG-GTGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCC
1 TT-TCAAAGCCCACA-AGTCAGTG-GCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * * *
386052 TCTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACATGTCAGTGGCATCC
1 T-TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* **
386109 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGCCCACAAGTGCGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * * *
386167 TTTCAAAGCCCACATGTTAGTGGCATCCTTTTCAAAGCCCACGAGTTGGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * * *
386224 TCTTCAAAGCCCACAAGTCGGTGGCAACCTCTCTCGAAGCCCACAAGTCAGTCGCATTC
1 T-TTCAAAGCCCACAAGTCAGTGGCATCCT-T-TCAAAGCCCACAAGTTAGTGGCATCC
* ** *
386283 TTCTCAAAGCCCACAAGTCTGTGGCATCCTTTCAAAGCTAAC-AGTCAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* * * ** *
386339 TTTTCAAAGCCCACGAGTCAGTGGCATCCTTTTTAAAACCCACAAGTCGGTGGCAACC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * *
386397 TCACTCAAAGCCGACAAGTCAGTGGTAGCCTTTCAAAGCCCACAAGTTAGTGGCACCC
1 T--TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
** * * * * *
386455 TTTTGAAGCCCACAAGTTAATGGCACCCTTTCAAAGCCCACATGTTAGTGGCATCAT
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-C
* ** * *
386512 TTTCAAAGCCCACAAGTTAGTGGCATATTTTCAAAGCCCACATA-TCAGTGGCATCTTT
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA-AGTTAGTGGCATC--C
* * *
386570 TTTCAAAGCCCACAAGTCAATGGCATTCTTCTCAAAGCCTACAAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * * * ** *
386627 TTTCAAAGCCCACATGTCAATGGCATCATTTTCAAAGCCTATGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * * * *
386684 TTTTCAAAGCCTACAAGTCGGTGGTAACCTCTCTCAAAGCCCATAAGTCAGTGGCATTCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCT-T-TCAAAGCCCACAAGTTAGTGGCA-TCC
* * * *
386744 TTTCAAAGCCGACAAGTCAGTGGCATCCTTTCAAAGGCCACATGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* * *
386800 TTTTCAAAGCCCACGAGTTAGTGGCATCTTTCTCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * * *
386858 TTCTTAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCATAAGTGAGTGGCACCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * * * * *
386916 TTTCAAAGCCCACATGTTATTGGCATCATTTTCAAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * *
386973 TTCTCAAAGCCTACAAGTCAGTGGCAACTTTCTCATAGCCCACAAGTGAGTGGCATCC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * *
387031 TTTCAAAGCCCACATGTTAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATCC
* *
387088 TTCTCAAAGCCCA-AAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTGAGTGGCATTC
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
* * * **
387145 TTTCAAAGCCCACATGTTAGTGGCATCCTTTTCAAAACCCATGAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * * * * *
387202 TTCTCAAAGCCCATAAGTCGGTGGAAAACTCTCTCAAAGCCCATAAGTCAGTGGCATTC
1 TT-TCAAAGCCCACAAGTCAGTGG-CATC-CTTTCAAAGCCCACAAGTTAGTGGCATCC
* * *
387261 TTCTCAAAGCCCACAAGTCTA-TGACATCCTTTCAAAGCCCACATGCTAGTGGCATCC
1 TT-TCAAAGCCCACAAGTC-AGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
** * ** *
387318 TTTTCAAAG-CCATGAGTCAGTGGCATCCTTCTTAAAGCCCACAAGTCGGTGGCAACC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGTGGCATCC
** * * *
387375 TCTCTCAAAGCTGATAAGTCAGTGGTAGCCTTTCAAAGCCCACAAGTTAGTGGCA-CC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
** * * * * * * *
387432 TTTTTGAAGCCCAAAAGTTAGTGGCACCCTTTCAAAGCCCATATGTTAGTGGTATCTT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATC-C
* * *
387490 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACATGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* ** ** *
387546 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTTTAAGCCCACACAAGTCGGTGGCAACC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAG-CC-CACAAGTTAGTGGCATCC
* * * * * * *
387606 TCTCTTAAAGCCTACAAGTCAATGGTAGCCTTTTAAAGCCTACAAGTTAGTGGCATCC
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* * ** * * * *
387664 TTTCGAAGCCCACAAGTCAGTGGCATCTTTTTGAAGCCTACAAGTTAATTGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
* * * * * * *
387720 TTTTAAAGCCCAGAAGTTAGTGGCACCCTTTCAAA-ACTACAAATTAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
*
387775 TTTTAAAGCCCACAAGT
1 TTTCAAAGCCCACAAGT
387792 TGGTGGCAAC
Statistics
Matches: 1733, Mismatches: 281, Indels: 141
0.80 0.13 0.07
Matches are distributed among these distances:
55 32 0.02
56 250 0.14
57 740 0.43
58 464 0.27
59 202 0.12
60 23 0.01
61 22 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC
Found at i:385798 original size:86 final size:85
Alignment explanation
Indices: 385652--387791 Score: 2053
Period size: 86 Copynumber: 24.9 Consensus size: 85
385642 ATATGACCCT
*
385652 TTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTTAGGGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
*
385716 CCCACATA-TCAGTGGCATCT
66 CCCACA-AGTCAGTGGCATCC
*
385736 TTCTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCAGAAGTTAGTGGCATCCTTTCAAA
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
* *
385801 GCTCACATGTCAGTGGCATCC
65 GCCCACAAGTCAGTGGCATCC
385822 TTCTCAAAGCCCACATA-TCAGTGGCATCCTTCTCAAAGCCCACATA-TTAGTGGCATCCTTCTC
1 TT-TCAAAGCCCACA-AGTCAGTGGCATCCTTCTCAAAGCCCACA-AGTTAGTGGCATCCTT-TC
*
385885 AAAGCCCACAAGTCAGTGGCATCA
62 AAAGCCCACAAGTCAGTGGCATCC
* * * * * *
385909 TTCTCAAAGCCCACAAGTTAGTAGCATCCTT-TCAAAGCCCACATGTCAGTAGCATCTTTTTCAA
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAA
** *
385973 AGCCCATGAGTTAGTGGCATCC
64 AGCCCACAAGTCAGTGGCATCC
* *
385995 TTCTTAAAG-CCATATA-TCAG-GTGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTCTTC
1 TT-TCAAAGCCCACA-AGTCAGTG-GCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCT-TTC
* *
386057 AAAGCCCACAAGTTAGTGGCATCT
62 AAAGCCCACAAGTCAGTGGCATCC
* *
386081 TTTCAAAGCCCACATGTCAGTGGCATCCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAA
386146 GCCCACAAGTGC-GTGGCATCC
65 GCCCACAAGT-CAGTGGCATCC
* * * * *
386167 TTTCAAAGCCCACATGTTAGTGGCATCCTTTTCAAAGCCCACGAGTTGGTGGCATCCTCTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCT-TTCAAA
* *
386232 GCCCACAAGTCGGTGGCAACC
65 GCCCACAAGTCAGTGGCATCC
* * *
386253 TCTCTCGAAGCCCACAAGTCAGTCGCATTCTTCTCAAAGCCCACAAGTCT-GTGGCATCCTTTCA
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGT-TAGTGGCATCCTTTCA
**
386317 AAGCTAAC-AGTCAGTGGCATCC
63 AAGCCCACAAGTCAGTGGCATCC
* * * * ** * *
386339 TTTTCAAAGCCCACGAGTCAGTGGCATCCTTTTTAAAACCCACAAGTCGGTGGCAACCTCACTCA
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCT--TTCA
* * *
386404 AAGCCGACAAGTCAGTGGTAGCC
63 AAGCCCACAAGTCAGTGGCATCC
* * ** * *
386427 TTTCAAAGCCCACAAGTTAGTGGCACCCTT-TTGAAGCCCACAAGTTAATGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
* * *
386491 CCCACATGTTAGTGGCATCAT
66 CCCACAAGTCAGTGGCATC-C
* * * * *
386512 TTTCAAAGCCCACAAGTTAGTGGCAT-ATTTTCAAAGCCCACATA-TCAGTGGCATCTTTTTTCA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACA-AGTTAGTGGCATC--CTTTCA
* *
386575 AAGCCCACAAGTCAATGGCATTC
63 AAGCCCACAAGTCAGTGGCATCC
* * * * * *
386598 TTCTCAAAGCCTACAAGTTAGTGGCATCCTT-TCAAAGCCCACATGTCAATGGCATCATTTTCAA
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAA
* **
386662 AGCCTATGAGTCAGTGGCATCC
64 AGCCCACAAGTCAGTGGCATCC
* * * * * * *
386684 TTTTCAAAGCCTACAAGTCGGTGGTAACCTCTCTCAAAGCCCATAAGTCAGTGGCATTCTTTTCA
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCT-TCTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCA
*
386749 AAGCCGACAAGTCAGTGGCATCC
63 AAGCCCACAAGTCAGTGGCATCC
* * * * *
386772 TTTCAAAGGCCACATGTCAGTGGCATCCTTTTCAAAGCCCACGAGTTAGTGGCATCTTTCTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAA
*
386837 GCCCACAAGTTAGTGGCATCC
65 GCCCACAAGTCAGTGGCATCC
* * * *
386858 TTCTTAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCATAAGTGAGTGGCACCCTTTCAAA
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
* * * *
386923 GCCCACATGTTATTGGCATCAT
65 GCCCACAAGTCAGTGGCATC-C
* * * * * *
386945 TTTCAAAGCCCACGAGTCAGTGGCATCCTTCTCAAAGCCTACAAGTCAGTGGCAACTTTCTCATA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAA
*
387010 GCCCACAAGTGAGTGGCATCC
65 GCCCACAAGTCAGTGGCATCC
* * * *
387031 TTTCAAAGCCCACATGTTAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAAA
387096 GCCCA-AAGTCAGTGGCATCC
65 GCCCACAAGTCAGTGGCATCC
* * *
387116 TTCTCAAAGCCCACAAGTGAGTGGCATTCTT-TCAAAGCCCACATGTTAGTGGCATCCTTTTCAA
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAA
* ** *
387180 AACCCATGAGTTAGTGGCATCC
64 AGCCCACAAGTCAGTGGCATCC
* * * ** * * *
387202 TTCTCAAAGCCCATAAGTCGGTGGAAAACTCTCTCAAAGCCCATAAGTCAGTGGCATTCTTCTCA
1 TT-TCAAAGCCCACAAGTCAGTGGCATCCT-TCTCAAAGCCCACAAGTTAGTGGCATCCTT-TCA
*
387267 AAGCCCACAAGTCTA-TGACATCC
63 AAGCCCACAAGTC-AGTGGCATCC
* * ** * *
387290 TTTCAAAGCCCACATG-CTAGTGGCATCCTTTTCAAAG-CCATGAGTCAGTGGCATCCTTCTTAA
1 TTTCAAAGCCCACAAGTC-AGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTT-TCAA
* *
387353 AGCCCACAAGTCGGTGGCAACC
64 AGCCCACAAGTCAGTGGCATCC
** * * * **
387375 TCTCTCAAAGCTGATAAGTCAGTGGTAGCCTT-TCAAAGCCCACAAGTTAGTGGCA-CCTTTTTG
1 T-T-TCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCC-TTTCA
* * *
387438 AAGCCCAAAAGTTAGTGGCACCC
63 AAGCCCACAAGTCAGTGGCATCC
* * * * * * *
387461 TTTCAAAGCCCATATGTTAGTGGTATCTTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
* *
387526 CCCACATGTCAATGGCATCC
66 CCCACAAGTCAGTGGCATCC
* ** ** *
387546 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTCTTTAAGCCCACACAAGTCGGTGGCAACCTCTCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAG-CC-CACAAGTTAGTGGCATCCT-T-T
* * * * *
387611 TAAAGCCTACAAGTCAATGGTAGCC
61 CAAAGCCCACAAGTCAGTGGCATCC
* * * * * * **
387636 TTTTAAAGCCTACAAGTTAGTGGCATCCTT-TCGAAGCCCACAAGTCAGTGGCATCTTTTTGAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
* * * * *
387700 CCTACAAGTTAATTGCACCC
66 CCCACAAGTCAGTGGCATCC
* * * * * * * *
387720 TTTTAAAGCCCAGAAGTTAGTGGCACCCTT-TCAAA-ACTACAAATTAGTGGCATCCTTTTAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
387783 CCCACAAGT
66 CCCACAAGT
387792 TGGTGGCAAC
Statistics
Matches: 1731, Mismatches: 260, Indels: 131
0.82 0.12 0.06
Matches are distributed among these distances:
83 30 0.02
84 98 0.06
85 281 0.16
86 766 0.44
87 330 0.19
88 172 0.10
89 33 0.02
90 21 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.26
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
CCCACAAGTCAGTGGCATCC
Found at i:394955 original size:10 final size:9
Alignment explanation
Indices: 394936--394974 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
394926 GTTTTTTAAT
*
394936 TTTTCATTC
1 TTTTCTTTC
394945 TATTTCTTTC
1 T-TTTCTTTC
394955 TTTTTCTTTC
1 -TTTTCTTTC
394965 TTTTCTTTC
1 TTTTCTTTC
394974 T
1 T
394975 CTATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 11 0.41
10 15 0.56
11 1 0.04
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:394969 original size:19 final size:20
Alignment explanation
Indices: 394935--394974 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
394925 AGTTTTTTAA
394935 TTTTTCATTCTATTTCTTTC
1 TTTTTCATTCTATTTCTTTC
*
394955 TTTTTCTTTCT-TTTCTTTC
1 TTTTTCATTCTATTTCTTTC
394974 T
1 T
394975 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTCATTCTATTTCTTTC
Found at i:395675 original size:18 final size:18
Alignment explanation
Indices: 395652--395700 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
395642 TTTAATAGTG
395652 ATTAAATAATAATATTTA
1 ATTAAATAATAATATTTA
*
395670 ATTAAATAATAATATTTG
1 ATTAAATAATAATATTTA
395688 ATTATAA-AATAAT
1 ATTA-AATAATAAT
395701 GGTGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 27 0.93
19 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATAATAATATTTA
Found at i:397554 original size:20 final size:22
Alignment explanation
Indices: 397511--397557 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
397501 TAGCGGATTG
*
397511 ATTAATTAAGTAAAATTTATAT
1 ATTAAATAAGTAAAATTTATAT
*
397533 ATTAAATAAGT-AATTTTA-AT
1 ATTAAATAAGTAAAATTTATAT
397553 ATTAA
1 ATTAA
397558 GTATGTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 6 0.26
22 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
ATTAAATAAGTAAAATTTATAT
Found at i:398802 original size:13 final size:13
Alignment explanation
Indices: 398784--398809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
398774 TACAGCAAGT
398784 ATGTATCGATACA
1 ATGTATCGATACA
398797 ATGTATCGATACA
1 ATGTATCGATACA
398810 CAAAAAATTG
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:401061 original size:21 final size:21
Alignment explanation
Indices: 401028--401072 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
401018 TTGCAAGTTG
*
401028 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
401050 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
401070 AAA
1 AAA
401073 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:402896 original size:15 final size:15
Alignment explanation
Indices: 402876--402906 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
402866 TAAAAATGTC
*
402876 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
402891 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
402906 C
1 C
402907 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:405998 original size:13 final size:13
Alignment explanation
Indices: 405980--406018 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
405970 ACATTTTTCT
405980 TTGTATCGATACA
1 TTGTATCGATACA
405993 TTGTATCGATACA
1 TTGTATCGATACA
406006 TTGTATCGATACA
1 TTGTATCGATACA
406019 GGGCGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:406163 original size:21 final size:21
Alignment explanation
Indices: 406139--406185 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
406129 AAATCTTTTG
406139 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
406160 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
406180 CAAAAT
1 CAAAAT
406186 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:406182 original size:20 final size:19
Alignment explanation
Indices: 406141--406183 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
406131 ATCTTTTGCA
406141 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
406161 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
406181 AAA
1 AAA
406184 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:408590 original size:13 final size:13
Alignment explanation
Indices: 408572--408597 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
408562 TACAGCAAGT
408572 ATGTATCGATACA
1 ATGTATCGATACA
408585 ATGTATCGATACA
1 ATGTATCGATACA
408598 CAAAAAATTG
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:409656 original size:18 final size:18
Alignment explanation
Indices: 409626--409673 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
409616 ATTTTAAGTT
*
409626 TAAAAAAT-TAATTTAGA
1 TAAAAAATAAAATTTAGA
* **
409643 TAAAAATTAAAATTTATT
1 TAAAAAATAAAATTTAGA
409661 TAAAAAATAAAAT
1 TAAAAAATAAAAT
409674 GAGTCTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 7 0.28
18 18 0.72
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAAATAAAATTTAGA
Found at i:409926 original size:14 final size:13
Alignment explanation
Indices: 409880--409940 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
409870 ATATATTAAC
*
409880 AAAAAAATT-ATT
1 AAAAAATTTAATT
409892 AAAAATATTTAATT
1 AAAAA-ATTTAATT
*
409906 ATTAAAATTTAAATT
1 A-AAAAATTT-AATT
* *
409921 AAAAAATATATTT
1 AAAAAATTTAATT
409934 AAAAAAT
1 AAAAAAT
409941 AAAAAATTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 5 0.12
13 13 0.32
14 14 0.35
15 8 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAATTTAATT
Found at i:410520 original size:11 final size:11
Alignment explanation
Indices: 410504--410528 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
410494 AAATAAAAAT
410504 ATAAAAATTAA
1 ATAAAAATTAA
410515 ATAAAAATTAA
1 ATAAAAATTAA
410526 ATA
1 ATA
410529 TGTTAATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAAAAATTAA
Found at i:416141 original size:85 final size:85
Alignment explanation
Indices: 415962--416142 Score: 215
Period size: 85 Copynumber: 2.1 Consensus size: 85
415952 CTACCAGGGG
* * *
415962 CAAAACCGACAAGTAGACAAAGGGTAAGAAAGGCTGACCAGGGACAAAGCTAACAGGTCACCAAG
1 CAAAACCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCAGGGACAAAGCCAACAAGTCACCAAG
* *
416027 AGTAAAAAGTTTACCAGAGA
66 AGTAAAAAGCTTACAAGAGA
* * * *
416047 CATAGCCGACAAGTAAACAAAGTGTAAGAAAGGCTGACC-GAGGACAAAGCCGACAAGTCACCAA
1 CAAAACCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCAG-GGACAAAGCCAACAAGTCACCAA
* *
416111 GAGTAATGAAGCCTT-CAAG-GT
65 GAGTAA-AAAG-CTTACAAGAGA
416132 CAAAACCGACA
1 CAAAACCGACA
416143 GGTAGACTGA
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
84 1 0.01
85 71 0.89
86 6 0.08
87 2 0.03
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (85 bp):
CAAAACCGACAAGTAAACAAAGGGTAAGAAAGGCTGACCAGGGACAAAGCCAACAAGTCACCAAG
AGTAAAAAGCTTACAAGAGA
Found at i:416217 original size:43 final size:41
Alignment explanation
Indices: 416129--416286 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 41
416119 AAGCCTTCAA
* * * * * *
416129 GGTCAAAACCGACAGGTAGACTGAGGGTAGGAAAATCTCTAG
1 GGTCAAAACCAACAGGCAGACTAAAGATAGG-AAATCTCCAG
* * *
416171 GGTCAAAGCCGATAGGCAGACTGAAAGATAGGAAAGTCTCCAG
1 GGTCAAAACCAACAGGCAGACT-AAAGATAGGAAA-TCTCCAG
** ** * *
416214 GGTCAAAGTCAACAGGCAGACTTTAGATGAGGCAATCTCCAA
1 GGTCAAAACCAACAGGCAGACTAAAGAT-AGGAAATCTCCAG
416256 GGTCAAAACCAACAGGCAGACTAAAGGATAG
1 GGTCAAAACCAACAGGCAGACTAAA-GATAG
416287 TGTCGCAACG
Statistics
Matches: 94, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
42 55 0.59
43 39 0.41
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.15
Consensus pattern (41 bp):
GGTCAAAACCAACAGGCAGACTAAAGATAGGAAATCTCCAG
Found at i:417182 original size:19 final size:19
Alignment explanation
Indices: 417158--417225 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
417148 AATTCAATAA
417158 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
417177 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
417192 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
417209 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
417226 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:417196 original size:32 final size:32
Alignment explanation
Indices: 417160--417222 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
417150 TTCAATAATT
*
417160 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
417192 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
417223 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:417197 original size:13 final size:13
Alignment explanation
Indices: 417179--417203 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
417169 ACATAAGTTT
417179 TGTATCGATACAA
1 TGTATCGATACAA
417192 TGTATCGATACA
1 TGTATCGATACA
417204 TAAGTATTGT
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:417283 original size:13 final size:13
Alignment explanation
Indices: 417265--417323 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
417255 CATTTTTCTG
417265 TGTATCGATACAT
1 TGTATCGATACAT
417278 TGTATCGATACA-
1 TGTATCGATACAT
*
417290 TG----GAT-CTT
1 TGTATCGATACAT
417298 TGTATCGATACAT
1 TGTATCGATACAT
417311 TGTATCGATACAT
1 TGTATCGATACAT
417324 GGATCTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
7 1 0.03
8 5 0.13
12 5 0.13
13 27 0.71
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:417287 original size:33 final size:33
Alignment explanation
Indices: 417245--417344 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
417235 GCCAAGGAAA
*** *
417245 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTTTGTATCGATACAT
417278 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTTTGTATCGATACAT
417311 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTTTGTATCGATACAT
417344 T
1 T
417345 TGGAAATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTTTGTATCGATACAT
Found at i:417302 original size:20 final size:20
Alignment explanation
Indices: 417277--417343 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 20
417267 TATCGATACA
417277 TTGTATCGATACATGGATCT
1 TTGTATCGATACATGGATCT
417297 TTGTATCGATAC----A---
1 TTGTATCGATACATGGATCT
417310 TTGTATCGATACATGGATCT
1 TTGTATCGATACATGGATCT
417330 TTGTATCGATACAT
1 TTGTATCGATACAT
417344 TTGGAAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.30
16 1 0.03
17 1 0.03
20 26 0.65
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATGGATCT
Found at i:421519 original size:15 final size:14
Alignment explanation
Indices: 421500--421556 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 14
421490 CCTTCTCTTC
421500 AAAAAAAAAAGAAG
1 AAAAAAAAAAGAAG
421514 CAAAAAAAAAAGAAG
1 -AAAAAAAAAAGAAG
*
421529 AAAAAACAAAACAA-
1 AAAAAA-AAAAGAAG
421543 AAAAAAACAAAGAA
1 AAAAAAA-AAAGAA
421557 AAAGAGAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
13 1 0.03
14 17 0.45
15 20 0.53
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAG
Found at i:421532 original size:26 final size:26
Alignment explanation
Indices: 421503--421577 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
421493 TCTCTTCAAA
421503 AAAAAAAGAAGCAAAAAAAAAAGAAG
1 AAAAAAAGAAGCAAAAAAAAAAGAAG
*
421529 AAAAAACA-AAACAAAAAAAAACA-AAG
1 AAAAAA-AGAAGCAAAAAAAAA-AGAAG
* *
421555 AAAAAGAG-AG-AAAAGAAAAAGAA
1 AAAAAAAGAAGCAAAAAAAAAAGAA
421578 CCTGCTTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
23 1 0.02
24 10 0.24
25 2 0.05
26 26 0.63
27 2 0.05
ACGTcount: A:0.81, C:0.05, G:0.13, T:0.00
Consensus pattern (26 bp):
AAAAAAAGAAGCAAAAAAAAAAGAAG
Found at i:421559 original size:15 final size:14
Alignment explanation
Indices: 421500--421574 Score: 69
Period size: 15 Copynumber: 5.1 Consensus size: 14
421490 CCTTCTCTTC
*
421500 AAAAAAAAAAGAAGC
1 AAAAAAAAAAGAA-A
421515 AAAAAAAAAAGAAGA
1 AAAAAAAAAAGAA-A
* *
421530 AAAAACAAAACAAA
1 AAAAAAAAAAGAAA
*
421544 AAAAAACAAAGAAA
1 AAAAAAAAAAGAAA
* *
421558 AAGAGAGAAAAGAAA
1 AA-AAAAAAAAGAAA
421573 AA
1 AA
421575 GAACCTGCTT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
14 14 0.28
15 36 0.72
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAAA
Found at i:421559 original size:36 final size:36
Alignment explanation
Indices: 421499--421568 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 36
421489 ACCTTCTCTT
*
421499 CAAAAAAAAAAGAAGCAAAAAAAAA-AGAAGAAAAAA
1 CAAAAAAAAAAGAAACAAAAAAAAAGAG-AGAAAAAA
*
421535 CAAAACAAAAAA-AAACAAAGAAAAAGAGAGAAAA
1 CAAAA-AAAAAAGAAACAAAAAAAAAGAGAGAAAA
421569 GAAAAAGAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 22 0.73
37 8 0.27
ACGTcount: A:0.81, C:0.07, G:0.11, T:0.00
Consensus pattern (36 bp):
CAAAAAAAAAAGAAACAAAAAAAAAGAGAGAAAAAA
Found at i:422720 original size:61 final size:59
Alignment explanation
Indices: 422544--423317 Score: 840
Period size: 55 Copynumber: 13.3 Consensus size: 59
422534 TCTTTTTAGC
* * * *
422544 CCTCAAAGAGCAGGATGCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
1 CCTCAAAGAGCAGGACGC-CTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGT
* * * *
422605 CCCCAAAGAGCAGGATC-CCTTT-C----GAAGCCCACACAAGTTGGTGACACTTCCCAGT
1 CCTCAAAGAGCAGGA-CGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TCAGT
* *
422660 CCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAGT
* * *
422721 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGT
* * * * * *
422780 CCTCAAAGAGCGGGATGCCTTTTCTTTTCAAGCCCACCCAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGT
* * * *
422839 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAATCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTCAGT
* * * ** *
422900 CCCCAAAGAGCAAGACCCCTTT-C--AAAAAGCCCACACAAGTTGGTGGCACTTCCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGT
* *
422956 CCTCAAAGAGCAGGACGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-TCAGT
* *
423017 CCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
1 CCTCAAAGAGCAGGACGCCTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGT
* * *
423078 CCTCAAAGAGCAGGA-----TGCCTTTTAAAGCCCACACAAATTGGTGGCACTTCCTAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC-AGT
* * **
423133 CCTCAAAGAGCGGGACGCTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGT
* *
423193 CCTCAAAGAGCAGGACACC--T-C--TTAAAGCCCATACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGT
* *
423248 CCTCAAAGAGCAGGACGCCTTT-C----AAAGCCCACACGAGTTGGTGGCACTTTTTAGT
1 CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGT
423303 CCTCAAAGAGCAGGA
1 CCTCAAAGAGCAGGA
423318 TACAGTTTAT
Statistics
Matches: 626, Mismatches: 60, Indels: 60
0.84 0.08 0.08
Matches are distributed among these distances:
54 4 0.01
55 186 0.30
56 27 0.04
57 26 0.04
58 2 0.00
59 87 0.14
60 129 0.21
61 165 0.26
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (59 bp):
CCTCAAAGAGCAGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGT
Found at i:422771 original size:176 final size:178
Alignment explanation
Indices: 422544--423318 Score: 808
Period size: 176 Copynumber: 4.4 Consensus size: 178
422534 TCTTTTTAGC
* * * *
422544 CCTCAAAGAGCAGGATGCTTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCC
1 CCTCAAAGAGCAGGACGC-CTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
* *
422609 AAAGAGCAGGATC-C-C-TTTCGAAGCCCACACAAGTTGGTGACA-CTTCCCAGTCCTCAAAGAG
64 AAAGAGCAGGATCGCTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAAGAG
*
422670 CAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGT
128 CAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
* *
422721 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCA
1 CCTCAAAGAGCAGGACGCC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCA
* *
422785 AAGAGCGGGAT-GCCTTTTCTTTTC-AAGCCCACCCAAGTTGGTGGCACCTT-CAGTCCTCAAAG
65 AAGAGCAGGATCG-C---TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
* * *
422847 AGCAGGATG-CTTTTTCTTTTCAAATCCCACACAAGTTGGTGGCACCTTTCAGT
126 AGCAGGATGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* * * ** **
422900 CCCCAAAGAGCAAGACCCCTTTC--AAAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAA
1 CCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
422962 AGAGCAGGA-CGC-CTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAA
66 AGAGCAGGATCGCTCTT-T--TC--AAAGCCCACACAAGTTGGTGGCACCTT-CCAGTCCTCAAA
** *
423024 GAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
125 GAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AGT
* * *
423078 CCTCAAAGAGCAGGATG-C---CTTTTAAAGCCCACACAAATTGGTGGCA-CTTCCTAGTCCTCA
1 CCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-TTAGTCCTCA
* * * *
423138 AAGAGCGGGA-CGCTTTTTTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGA
65 AAGAGCAGGATCGC---TCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGA
*
423202 GCAGGA--CAC--CT-C--TTAAAGCCCATACAAGTTGGTGGCACCTTTCAGT
127 GCAGGATGC-CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
* *
423248 CCTCAAAGAGCAGGACGCCTTTC----AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAA
1 CCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
423309 AGAGCAGGAT
66 AGAGCAGGAT
423319 ACAGTTTATT
Statistics
Matches: 511, Mismatches: 48, Indels: 84
0.79 0.07 0.13
Matches are distributed among these distances:
170 82 0.16
171 10 0.02
172 2 0.00
173 2 0.00
174 5 0.01
175 22 0.04
176 143 0.28
177 69 0.14
178 71 0.14
179 71 0.14
180 25 0.05
181 9 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (178 bp):
CCTCAAAGAGCAGGACGCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAA
AGAGCAGGATCGCTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAG
GATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
Found at i:424276 original size:28 final size:27
Alignment explanation
Indices: 424206--424281 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 27
424196 TTTCTTCACA
424206 ATCGGGGATACTCCAACCCCGTTAATC
1 ATCGGGGATACTCCAACCCCGTTAATC
*
424233 ATCGGGGATACTCCAACCCCGTT-ATT
1 ATCGGGGATACTCCAACCCCGTTAATC
*
424259 TTCGAGGGGATACTCCAACCCCG
1 ATC--GGGGATACTCCAACCCCG
424282 AATTTATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 4 0.09
27 23 0.51
28 18 0.40
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGTTAATC
Found at i:424392 original size:52 final size:50
Alignment explanation
Indices: 424097--424486 Score: 218
Period size: 51 Copynumber: 7.4 Consensus size: 50
424087 CTCAATTCTC
* * * *
424097 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * *
424147 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
1 C-ACAATCGGGGATACTCCAACCCCGATTTTA-TT-C-TAAAACACCAATTT-TT
* ** **
424202 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGATT--T--T-----ATTCTAAAACACCAATT-TTT
* * * * ***
424260 -TCGA--GGGGATACTCCAACCCCGAATTTATTTCTAAAATATTGATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTA-TTCTAAAACACCAATTTTT
* * *
424308 CATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACCCCGATTTTATT-CTAAAACACCAATTTTT
* * * *
424359 CCACAAACGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAA-TTTT
1 -CACAATCGGGGATACTCCAACCCCGATTTTATTCT-AAAACACCAATTTTT
* * * * *
424410 CCCTTTAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
1 CAC---AATCGGGGATACTCCAACCCCGATTTTA-TT-CTAAAACACCAATTTTT
*
424465 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
424487 TCGTTATTTC
Statistics
Matches: 259, Mismatches: 50, Indels: 60
0.70 0.14 0.16
Matches are distributed among these distances:
47 1 0.00
48 8 0.03
49 3 0.01
50 5 0.02
51 69 0.27
52 58 0.22
53 34 0.13
54 36 0.14
55 28 0.11
56 1 0.00
57 3 0.01
58 6 0.02
59 4 0.02
60 1 0.00
61 1 0.00
62 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTCTAAAACACCAATTTTT
Found at i:424506 original size:28 final size:28
Alignment explanation
Indices: 424474--424545 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
424464 TCACAATCGA
* *
424474 GGATACTCCAACCTCGTTATTTCATC-A-G
1 GGATACTCCAACCCCGTTACTTC--CGAGG
424502 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCCGAGG
424530 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
424546 GTTTTATTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 38 0.95
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCCGAGG
Found at i:424569 original size:264 final size:263
Alignment explanation
Indices: 424095--424596 Score: 758
Period size: 264 Copynumber: 1.9 Consensus size: 263
424085 TTCTCAATTC
* * *
424095 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAAACGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
*
424160 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * *
424225 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGAATTTATT
131 CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGAATTTATT
* * * *
424290 TCTAAAATATTGATTTTTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
196 CCCAAAATATTGATTTCTCATAATCGGGAATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
424355 TTT
261 TTT
* *
424358 TCCACAAACGGGGATACTCCAAC-CCTGGTTTTATTTTCAAAACACCAATTTTCCCTTTAATCGG
1 TCCACAAACGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT--CTATAATCGG
* *
424422 GGATATTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAA
63 GGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAA
* * **
424485 CCTCGTTATTTCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGTTT
128 CCCCGTTA-ATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGAATT
* *
424550 TATTCCCAAAATATTGATTTCTCATAATTGGGAATACTCGAACCCCG
192 TATTCCCAAAATATTGATTTCTCATAATCGGGAATACTCCAACCCCG
424597 TTATTTTTGA
Statistics
Matches: 214, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
262 2 0.01
263 73 0.34
264 104 0.49
265 35 0.16
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (263 bp):
TCCACAAACGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCAGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGAATTTATT
CCCAAAATATTGATTTCTCATAATCGGGAATACTCCAACCCCGGTTTTATTGCTAAAACACTAAT
TTT
Found at i:426250 original size:28 final size:26
Alignment explanation
Indices: 426194--426268 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 26
426184 GAATAAAGCC
**
426194 CGGGGTTGGAGTATCCCCTCAGAGGTAA
1 CGGGGTTGGAGTAT--CCTCAGAAATAA
426222 CGGGGTTGGAGTATCCTCGATGAAATAA
1 CGGGGTTGGAGTATCCTC-A-GAAATAA
*
426250 CGAGGTTGGAGTATCCTCA
1 CGGGGTTGGAGTATCCTCA
426269 ATTGTGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.10
27 2 0.05
28 36 0.86
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.24
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCTCAGAAATAA
Found at i:426318 original size:52 final size:51
Alignment explanation
Indices: 426253--426420 Score: 201
Period size: 52 Copynumber: 3.3 Consensus size: 51
426243 GAAATAACGA
* * *
426253 GGTTGGAGTATCCTCAATTGTGAAAAATTGGTGTTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCTCGATTGTGGAAAATTGGTG-TTTTGAAAATAAAACCGG
* * ** *
426305 AGTTGGAGTATCCTTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAGCCGG
1 GGTTGGAGTATCCTCGATT-GTGGAAAATTGGTGTTTTGAAAATAAAACCGG
* * * * *
426357 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGATTTGGAAATAAAACCGG
1 GGTTGGAGTATCCTCGATTGTGGAAAATTGGTGTTTTGAAAATAAAACCGG
426408 GGTTGGAGTATCC
1 GGTTGGAGTATCC
426421 CCTCAGAGAT
Statistics
Matches: 97, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
51 38 0.39
52 48 0.49
53 11 0.11
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCTCGATTGTGGAAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:426448 original size:79 final size:80
Alignment explanation
Indices: 426354--426533 Score: 233
Period size: 80 Copynumber: 2.3 Consensus size: 80
426344 AAAATAAAGC
* * *
426354 CGGGGTTGGAGTATCCCCGATTGTG-GAAAATCGATGA-TTTGGAAATAAA-ACCGGGGTTGGAG
1 CGGGGTTGGAGTATCCCCGATTATGAG-AAATCAAT-ATTTTAGAAATAAAGACCGGGGTTGGAG
*
426416 TATCCCCTC-AGAGATAA
64 TATCCCCTCGA-AAATAA
* * *
426433 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAGTCGGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGACCGGGGTTGGAGTA
426498 TCCCCTCGAAAATAA
66 TCCCCTCGAAAATAA
*
426513 TGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
426534 GATTAACGGG
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 41 0.46
80 46 0.52
81 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (80 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGACCGGGGTTGGAGTA
TCCCCTCGAAAATAA
Found at i:426552 original size:27 final size:27
Alignment explanation
Indices: 426486--426563 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
426476 AATAAAGTCG
* *
426486 GGGGTTGGAGTATCCCCTCGA-AAATAAT
1 GGGGTTGGAGTAT-CCC-CGATGAATAAC
*
426514 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
426541 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
426564 AAATTGATGT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 29 0.64
28 13 0.29
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:426639 original size:51 final size:50
Alignment explanation
Indices: 426544--426662 Score: 149
Period size: 51 Copynumber: 2.4 Consensus size: 50
426534 GATTAACGGG
*
426544 GTTGGAGTATCCCCGA-T-GAAAAATTGATGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATAAAAATTGATGTTTTAGAAATAAAATCGGA
*
426592 GTTGGAGTATCCCCGATTATAGAAAATT-AGTGTTTTCA-AAATGAAATCGGA
1 GTTGGAGTATCCCCGATTATA-AAAATTGA-TGTTTT-AGAAATAAAATCGGA
426643 GTTGG-GATATCCCCGATTAT
1 GTTGGAG-TATCCCCGATTAT
426663 GGAGAATTGA
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
48 16 0.25
49 1 0.02
50 3 0.05
51 42 0.67
52 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATAAAAATTGATGTTTTAGAAATAAAATCGGA
Found at i:429042 original size:13 final size:13
Alignment explanation
Indices: 429024--429049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
429014 CAAAGAATAG
429024 ATGTATCGATACA
1 ATGTATCGATACA
429037 ATGTATCGATACA
1 ATGTATCGATACA
429050 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:429046 original size:34 final size:33
Alignment explanation
Indices: 429003--429069 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
428993 AACTTCCTAG
*
429003 ATGTATCGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
429037 ATGTATCGATACACAGAAAAATGTATCGATACA
1 ATGTATCGATACAAAGAAAAATGTATCGATACA
429070 TTTCCTTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 14 0.45
34 17 0.55
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.25
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:429110 original size:13 final size:13
Alignment explanation
Indices: 429092--429116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
429082 TAGCTAATTA
429092 TGTATCGATACAT
1 TGTATCGATACAT
429105 TGTATCGATACA
1 TGTATCGATACA
429117 ACACTTATGT
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:432112 original size:21 final size:21
Alignment explanation
Indices: 432074--432118 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
432064 TTGCAAGTTG
*
432074 AAATAAAGACGTTGGCTAATGA
1 AAATAAAGACGTTAGCTAA-GA
*
432096 AAATAATGA-GTTAGCTAAGA
1 AAATAAAGACGTTAGCTAAGA
432116 AAA
1 AAA
432119 ATGAAAACTT
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:0.51, C:0.07, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGACGTTAGCTAAGA
Found at i:433942 original size:15 final size:15
Alignment explanation
Indices: 433922--433952 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
433912 TAAAAATGTC
*
433922 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
433937 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
433952 C
1 C
433953 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:436052 original size:13 final size:13
Alignment explanation
Indices: 436034--436058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
436024 CAATTTTTTG
436034 TGTATCGATACAT
1 TGTATCGATACAT
436047 TGTATCGATACA
1 TGTATCGATACA
436059 GGGTGATTAT
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:438633 original size:13 final size:13
Alignment explanation
Indices: 438615--438640 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
438605 TACAGCAAGT
438615 ATGTATCGATACA
1 ATGTATCGATACA
438628 ATGTATCGATACA
1 ATGTATCGATACA
438641 CAAAAAATTG
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:439465 original size:42 final size:43
Alignment explanation
Indices: 439401--440319 Score: 383
Period size: 43 Copynumber: 21.6 Consensus size: 43
439391 CAGTCTAAAA
* **
439401 GATAGGAAAGTCTCCAGGGTCAAAGCCGACAAACAGACTTTA-
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
** * *
439443 GATAAGG-CTGTCTCCAATGTCAAAGCCGACAAGCAGACTGAAG
1 GAT-AGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
** *
439486 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAG
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * * * *** * **
439529 GGTAGAAAAGTCTCTAAGGTCAAAGTCGATAGGTAAACTTTA-
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * *
439571 GATGAGG-TAGTCTCCAAGATCAAAGCCGATAGAGCAGACTGAAG
1 GAT-AGGAAAGTCTCCAAGGTCAAAGCCGACA-AACAGACTGAAG
* * * **
439615 GATAGAAAAGTCTCC-AGGATCAAAGCTGAC-AATAGACTTTA-
1 GATAGGAAAGTCTCCAAGG-TCAAAGCCGACAAACAGACTGAAG
* * * ** **
439656 GATGAGG-CAGTCTCCAGGGTCAAAGCCGATAAGTAGACTTTA-
1 GAT-AGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* *
439698 GAT--GAAGTAGTCTCCAAGGTCAAAGCCGGCAAGCAGACTGAAG
1 GATAGGAA--AGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * **
439741 GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTA-
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * ** *
439783 GATA--AAGTAGTCTCTAGGGTCAAAGCCGACAGGCAAACTGAAG
1 GATAGGAA--AGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * ** *
439826 GATAGAAAAGTCTTCAAGGTCAAAGCTGACAGGCAGACTAAAG
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* ** * * ** * **
439869 GGTAAAAAAGTCTCCAAGGTCAAAACTGACAGGCAAACTTTA-
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * * * ** * *
439911 GATGAGG-CAGTCTCCAAGGTGAAAACTGATAGGCAAACTGAAT
1 GAT-AGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * ** * *
439954 GATAGGAAAGTCTCCAAGGTCAAAGTCAACAGGCAGACTAAAA
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* ** * ** **
439997 GATAGGAAAGTCTTCAAGGTCAAAATCGATAGGCAGACTTTA-
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * * ** * *
440039 GAT-GAGACAGTCTCCAAGGTCAAAGTCAATAGGCAAAC-AAAG
1 GATAG-GAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * **** **
440081 GGTAGGAAAGTCTCCAAGGTTAAAACCGATGGGCAGACTTTA-
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * ** *
440123 GATGAGG-CAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAAG
1 GAT-AGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * *
440166 GATAAGAAAGTCTCCAAGGTCAAAGCTGACAAGCAGACTAAAAG
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACT-GAAG
* * ** * **
440210 G-TAGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAAACTTTA-
1 GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* * * ** *
440251 GATGAGG-CAGTCTCCAGGGTCAAATCCGACAGGCAGACTAAAG
1 GAT-AGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
* *
440294 GATAGGAAAGTCTCTAGGGTCAAAGC
1 GATAGGAAAGTCTCCAAGGTCAAAGC
440320 AAATAGGCAG
Statistics
Matches: 690, Mismatches: 150, Indels: 73
0.76 0.16 0.08
Matches are distributed among these distances:
39 1 0.00
40 2 0.00
41 22 0.03
42 297 0.43
43 339 0.49
44 24 0.03
45 5 0.01
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (43 bp):
GATAGGAAAGTCTCCAAGGTCAAAGCCGACAAACAGACTGAAG
Found at i:439583 original size:85 final size:84
Alignment explanation
Indices: 439399--440319 Score: 565
Period size: 85 Copynumber: 10.8 Consensus size: 84
439389 CACAGTCTAA
* ** ** *** *
439399 AAGAT-AGGAAAGTCTCCAGGGTCAAAGCCGACAAACAGACTTTAGATA-AGGCTGTCTCCAATG
1 AAGATGAGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGATAGA-AAAGTCTCCAAGG
* * *
439462 TCAAAGCCGACAAGCAGACTG
64 TCAAAGCCGACAGGCAAACTT
* *
439483 AAGGAT-AGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGGTAGAAAAGTCTCTAAG
1 AA-GATGAGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAA-GATAGAAAAGTCTCCAAG
* * *
439547 GTCAAAGTCGATAGGTAAACTT
63 GTCAAAGCCGACAGGCAAACTT
* * * * *
439569 TAGATGAGGTAGTCTCCAAGATCAAAGCCGATAGAGCAGACTGAAGGATAGAAAAGTCTCC-AGG
1 AAGATGAGGAAGTCTCCAAGGTCAAAGCCGACAG-GCAGACT-AAAGATAGAAAAGTCTCCAAGG
* ** *
439633 ATCAAAGCTGACA-ATAGACTT
64 -TCAAAGCCGACAGGCAAACTT
* * * * * * ** *
439654 TAGATGAGGCAGTCTCCAGGGTCAAAGCCGATAAGTAGACTTTAGAT-GAAGTAGTCTCCAAGGT
1 AAGATGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGATAGAA-AAGTCTCCAAGGT
* * * *
439718 CAAAGCCGGCAAGCAGACTG
65 CAAAGCCGACAGGCAAACTT
* * ** * * *
439738 AAG-GGTAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATA-AAGTAGTCTCTAGG
1 AAGATG-AGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGATAGAA-AAGTCTCCAAG
*
439801 GTCAAAGCCGACAGGCAAACTG
63 GTCAAAGCCGACAGGCAAACTT
* * * * *
439823 AAGGAT-AGAAAAGTCTTCAAGGTCAAAGCTGACAGGCAGACTAAAGGGTAAAAAAGTCTCCAAG
1 AA-GATGAG-GAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAA-GATAGAAAAGTCTCCAAG
* *
439887 GTCAAAACTGACAGGCAAACTT
63 GTCAAAGCCGACAGGCAAACTT
* * * * * * * * *
439909 TAGATGAGGCAGTCTCCAAGGTGAAAACTGATAGGCAAACTGAATGATAGGAAAGTCTCCAAGGT
1 AAGATGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAAGATAGAAAAGTCTCCAAGGT
* * * *
439974 CAAAGTCAACAGGCAGACTAA
65 CAAAGCCGACAGGCAAACT-T
* ** * ** *
439995 AAGAT-AGGAAAGTCTTCAAGGTCAAAATCGATAGGCAGACTTTAGAT-GAGACAGTCTCCAAGG
1 AAGATGAGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGATAGA-AAAGTCTCCAAGG
* * * *
440058 TCAAAGTCAATAGGCAAAC-A
64 TCAAAGCCGACAGGCAAACTT
* * * ** ** ** * *
440078 AAG-GGTAGGAAAGTCTCCAAGGTTAAAACCGATGGGCAGACTTTAGAT-GAGGCAGTCTCTAGG
1 AAGATG-AGG-AAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGATAGA-AAAGTCTCCAAG
* *
440141 GTCAAAGCCGACAGGCAGACTA
63 GTCAAAGCCGACAGGCAAACTT
* * * * * * *
440163 AAGGATAAGAAAGTCTCCAAGGTCAAAGCTGACAAGCAGACTAAAAGGTAGGAAAGTCTCCAGGG
1 AA-GATGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACT-AAAGATAGAAAAGTCTCCAAGG
*
440228 TCAAAGCTGACAGGCAAACTT
64 TCAAAGCCGACAGGCAAACTT
* * * * * * *
440249 TAGATGAGGCAGTCTCCAGGGTCAAATCCGACAGGCAGACTAAAGGATAGGAAAGTCTCTAGGGT
1 AAGATGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAA-GATAGAAAAGTCTCCAAGGT
440314 CAAAGC
65 CAAAGC
440320 AAATAGGCAG
Statistics
Matches: 665, Mismatches: 141, Indels: 61
0.77 0.16 0.07
Matches are distributed among these distances:
82 3 0.00
83 25 0.04
84 91 0.14
85 380 0.57
86 160 0.24
87 6 0.01
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (84 bp):
AAGATGAGGAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGATAGAAAAGTCTCCAAGGTC
AAAGCCGACAGGCAAACTT
Found at i:439872 original size:128 final size:128
Alignment explanation
Indices: 439452--440353 Score: 650
Period size: 128 Copynumber: 7.1 Consensus size: 128
439442 AGATAAGGCT
* *
439452 GTCTCCAATGTCAAAGCCGACAAGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCCGACA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCCGACA
** * * * * * ** **
439517 GGCAGACTAAAGGGTAGAA-AAGTCTCTAAGGTCAAAGTCGATAGGTAAACTTTA-GAT-GAGGT
66 GGCAGACTTTA-GATA-AAGCAGTCTCCAAGGTCAAAGCCGATAGGCAAACTAAAGGATAGA-AA
439579 A
128 A
* * * *
439580 GTCTCCAAGATCAAAGCCGATAGAGCAGACTGAAGGATAGAAAAGTCTCC-AGGATCAAAGCTGA
1 GTCTCCAAGGTCAAAGCCGACAG-GCAGACTGAAGGATAGGAAAGTCTCCAAGG-TCAAAGCCGA
** * * * * * * ** *
439644 CA-ATAGACTTTAGATGAGGCAGTCTCCAGGGTCAAAGCCGATAAGTAGACTTTA-GAT-GAAGT
64 CAGGCAGACTTTAGATAAAGCAGTCTCCAAGGTCAAAGCCGATAGGCAAACTAAAGGATAGAA-A
439706 A
128 A
* * *
439707 GTCTCCAAGGTCAAAGCCGGCAAGCAGACTGAAGGGTAGGAAAGTCTCCAAGGTCAAAGCCGACA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCCGACA
* * * * * *
439772 AGCAGACTTTAGATAAAGTAGTCTCTAGGGTCAAAGCCGACAGGCAAACTGAAGGATAGAAAA
66 GGCAGACTTTAGATAAAGCAGTCTCCAAGGTCAAAGCCGATAGGCAAACTAAAGGATAGAAAA
* * * * ** * *
439835 GTCTTCAAGGTCAAAGCTGACAGGCAGACTAAAGGGTAAAAAAGTCTCCAAGGTCAAAACTGACA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCCGACA
* * * * * * * * *
439900 GGCAAACTTTAGATGAGGCAGTCTCCAAGGTGAAAACTGATAGGCAAACTGAATGATAGGAAA
66 GGCAGACTTTAGATAAAGCAGTCTCCAAGGTCAAAGCCGATAGGCAAACTAAAGGATAGAAAA
* * * * * ** *
439963 GTCTCCAAGGTCAAAGTCAACAGGCAGACTAAAAGATAGGAAAGTCTTCAAGGTCAAAATCGATA
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCCGACA
* * * * *
440028 GGCAGACTTTAGAT-GAGACAGTCTCCAAGGTCAAAGTCAATAGGCAAAC-AAAGGGTAGGAAA
66 GGCAGACTTTAGATAAAG-CAGTCTCCAAGGTCAAAGCCGATAGGCAAACTAAAGGATAGAAAA
* * ** ** * * *
440090 GTCTCCAAGGTTAAAACCGATGGGCAGACTTTA-GATGAGG-CAGTCTCTAGGGTCAAAGCCGAC
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGAT-AGGAAAGTCTCCAAGGTCAAAGCCGAC
** * * * * * *
440153 AGGCAGACTAAAGGAT-AAGAAAGTCTCCAAGGTCAAAGCTGACAAGCAGACTAAAAGG-TAGGA
65 AGGCAGACTTTA-GATAAAG-CAGTCTCCAAGGTCAAAGCCGATAGGCAAACT-AAAGGATAGAA
440216 AA
127 AA
* * * ** * * *
440218 GTCTCCAGGGTCAAAGCTGACAGGCAAACTTTA-GATGAGG-CAGTCTCCAGGGTCAAATCCGAC
1 GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGAT-AGGAAAGTCTCCAAGGTCAAAGCCGAC
** * * ** * *
440281 AGGCAGACTAAAGGATAGGAA--AGTCTCTAGGGTCAAAGCAAATAGGCAGACTAAAGGGTAGAA
65 AGGCAGACTTTA-GATA--AAGCAGTCTCCAAGGTCAAAGCCGATAGGCAAACTAAAGGATAGAA
440344 AA
127 AA
440346 GTCTCCAA
1 GTCTCCAA
440354 AAGTTTAATG
Statistics
Matches: 630, Mismatches: 127, Indels: 34
0.80 0.16 0.04
Matches are distributed among these distances:
126 65 0.10
127 174 0.28
128 345 0.55
129 44 0.07
131 2 0.00
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (128 bp):
GTCTCCAAGGTCAAAGCCGACAGGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCCGACA
GGCAGACTTTAGATAAAGCAGTCTCCAAGGTCAAAGCCGATAGGCAAACTAAAGGATAGAAAA
Found at i:440084 original size:340 final size:341
Alignment explanation
Indices: 439403--440353 Score: 1148
Period size: 340 Copynumber: 2.8 Consensus size: 341
439393 GTCTAAAAGA
* * * **
439403 TAGGAAAGTCTCCAGGGTCAAAGCCGACAAACAGACTTTAGATAAGGCT-GTCTCCAATGTCAAA
1 TAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATAAGG-TAGTCTCTAGGGTCAAA
* * *
439467 GCCGACAAGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAAGGGT
65 GCCGACAGGCAGACTGAAGGATAGAAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAAGGGT
* * * * * * *
439532 AGAAAAGTCTCTAAGGTC-AAAGTCGATAGGTAAACTTTAGATGAGGTAGTCTCCAAGATCAAAG
130 AGAAAAGTCTCCAAGGTCAAAACT-GACAGGCAAACTTTAGATGAGGCAGTCTCCAAGGTCAAAA
* ** ** **
439596 CCGATAGAGCAGACTGAAGGATAGAAAAGTCTCC-AGGATCAAAGCTGACA-ATAGACT-TTAGA
194 CCGATAG-GCAGACTGAAGGATAGGAAAGTCTCCAAGG-TCAAAGCAAACAGGCAGACTAAAAGA
* * * * *
439658 TGAGG-CAGTCTCCAGGGTCAAAGCCGATAAGTAGACTTTAGATGAAGTAGTCTCCAAGGTCAAA
257 T-AGGAAAGTCTCCAAGGTCAAAACCGATAAGCAGACTTTAGATGAAGCAGTCTCCAAGGTCAAA
** * *
439722 GCCGGCAAGCAGACTGAAGGG
321 GCCAACAAGCAAACTAAAGGG
*
439743 TAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATAAAGTAGTCTCTAGGGTCAAAG
1 TAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATAAGGTAGTCTCTAGGGTCAAAG
* *
439808 CCGACAGGCAAACTGAAGGATAGAAAAGTCTTCAAGGTCAAAGCTGACAGGCAGACTAAAGGGTA
66 CCGACAGGCAGACTGAAGGATAGAAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAAGGGTA
* * *
439873 AAAAAGTCTCCAAGGTCAAAACTGACAGGCAAACTTTAGATGAGGCAGTCTCCAAGGTGAAAACT
131 GAAAAGTCTCCAAGGTCAAAACTGACAGGCAAACTTTAGATGAGGCAGTCTCCAAGGTCAAAACC
* *
439938 GATAGGCAAACTGAATGATAGGAAAGTCTCCAAGGTCAAAGTC-AACAGGCAGACTAAAAGATAG
196 GATAGGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAG-CAAACAGGCAGACTAAAAGATAG
* * * *
440002 GAAAGTCTTCAAGGTCAAAATCGATAGGCAGACTTTAGATG-AGACAGTCTCCAAGGTCAAAGTC
260 GAAAGTCTCCAAGGTCAAAACCGATAAGCAGACTTTAGATGAAG-CAGTCTCCAAGGTCAAAGCC
* *
440066 AATAGGCAAAC-AAAGGG
324 AACAAGCAAACTAAAGGG
* * *** * *
440083 TAGGAAAGTCTCCAAGGTTAAAACCGATGGGCAGACTTTAGATGAGGCAGTCTCTAGGGTCAAAG
1 TAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATAAGGTAGTCTCTAGGGTCAAAG
* * *
440148 CCGACAGGCAGACTAAAGGATA-AGAAAGTCTCCAAGGTCAAAGCTGACAAGCAGACTAAAAGGT
66 CCGACAGGCAGACTGAAGGATAGA-AAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAAGGGT
* * * * *
440212 AGGAAAGTCTCCAGGGTCAAAGCTGACAGGCAAACTTTAGATGAGGCAGTCTCCAGGGTCAAATC
130 AGAAAAGTCTCCAAGGTCAAAACTGACAGGCAAACTTTAGATGAGGCAGTCTCCAAGGTCAAAAC
* * * * * * *
440277 CGACAGGCAGACTAAAGGATAGGAAAGTCTCTAGGGTCAAAGCAAATAGGCAGACTAAAGGGTAG
195 CGATAGGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCAAACAGGCAGACTAAAAGATAG
*
440342 AAAAGTCTCCAA
260 GAAAGTCTCCAA
440354 AAGTTTAATG
Statistics
Matches: 525, Mismatches: 76, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
339 35 0.07
340 426 0.81
341 64 0.12
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (341 bp):
TAGGAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTTTAGATAAGGTAGTCTCTAGGGTCAAAG
CCGACAGGCAGACTGAAGGATAGAAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAAGGGTA
GAAAAGTCTCCAAGGTCAAAACTGACAGGCAAACTTTAGATGAGGCAGTCTCCAAGGTCAAAACC
GATAGGCAGACTGAAGGATAGGAAAGTCTCCAAGGTCAAAGCAAACAGGCAGACTAAAAGATAGG
AAAGTCTCCAAGGTCAAAACCGATAAGCAGACTTTAGATGAAGCAGTCTCCAAGGTCAAAGCCAA
CAAGCAAACTAAAGGG
Found at i:443085 original size:210 final size:210
Alignment explanation
Indices: 442723--443145 Score: 819
Period size: 210 Copynumber: 2.0 Consensus size: 210
442713 GCCAGAGTGG
442723 CTAGGGCATCTGCCATTTGATTGTCTTCACGGGATAAGTGAATAAAGTCCACTTTTTCAAATTCT
1 CTAGGGCATCTGCCATTTGATTGTCTTCACGGGATAAGTGAATAAAGTCCACTTTTTCAAATTCT
442788 TCTAATGCATTTAGAATCAACTTTTTATATTGCTGAAGTCTTGGGTCTCGCGTTTCCCATTCTCC
66 TCTAATGCATTTAGAATCAACTTTTTATATTGCTGAAGTCTTGGGTCTCGCGTTTCCCATTCTCC
442853 CCGTAGTTGATAAATTACCAAGGTTGAATCTTCGAAGACTTTTAAAACTTGGGCTCTCATTTCTG
131 CCGTAGTTGATAAATTACCAAGGTTGAATCTTCGAAGACTTTTAAAACTTGGGCTCTCATTTCTG
442918 CAGCTGTACGAAGCC
196 CAGCTGTACGAAGCC
442933 CTAGGGCATCTGCCATTTGATTGTCTTCACGGGATAAGTGAATAAAGTCCACTTTTTCAAATTCT
1 CTAGGGCATCTGCCATTTGATTGTCTTCACGGGATAAGTGAATAAAGTCCACTTTTTCAAATTCT
*
442998 TCTAATGCATTTAGAATCAGCTTTTTATATTGCTGAAGTCTTGGGTCTCGCGTTTCCCATTCTCC
66 TCTAATGCATTTAGAATCAACTTTTTATATTGCTGAAGTCTTGGGTCTCGCGTTTCCCATTCTCC
* *
443063 CCGTAGTTGATAAATTACCAAGGTTGAATCTTCGTAGACTTTTAAAACTTGGGCTCTCCTTTCTG
131 CCGTAGTTGATAAATTACCAAGGTTGAATCTTCGAAGACTTTTAAAACTTGGGCTCTCATTTCTG
443128 CAGCTGTACGAAGCC
196 CAGCTGTACGAAGCC
443143 CTA
1 CTA
443146 TAACACAGGC
Statistics
Matches: 210, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
210 210 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (210 bp):
CTAGGGCATCTGCCATTTGATTGTCTTCACGGGATAAGTGAATAAAGTCCACTTTTTCAAATTCT
TCTAATGCATTTAGAATCAACTTTTTATATTGCTGAAGTCTTGGGTCTCGCGTTTCCCATTCTCC
CCGTAGTTGATAAATTACCAAGGTTGAATCTTCGAAGACTTTTAAAACTTGGGCTCTCATTTCTG
CAGCTGTACGAAGCC
Found at i:444242 original size:21 final size:21
Alignment explanation
Indices: 444216--444272 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
444206 CAATTATCCA
444216 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
444237 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
444258 AATGTATCGATACAT
1 AATGTATCGATACAT
444273 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:444352 original size:19 final size:19
Alignment explanation
Indices: 444328--444382 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
444318 AATTCAACAA
444328 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
444347 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
444366 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
444383 TTAGCTACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:444440 original size:13 final size:13
Alignment explanation
Indices: 444422--444447 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
444412 CATTTTTCTA
444422 TGTATCGATACAT
1 TGTATCGATACAT
444435 TGTATCGATACAT
1 TGTATCGATACAT
444448 GGATCTTTGT
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:444447 original size:33 final size:33
Alignment explanation
Indices: 444402--444468 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
444392 ACCAAGGAAA
***
444402 TGTACCGATACATTTTTCTATGTATCGATACAT
1 TGTACCGATACATGGATCTATGTATCGATACAT
* *
444435 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTACCGATACATGGATCTATGTATCGATACAT
444468 T
1 T
444469 TGGAAATTTT
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:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTACCGATACATGGATCTATGTATCGATACAT
Found at i:447053 original size:52 final size:52
Alignment explanation
Indices: 446817--447095 Score: 296
Period size: 51 Copynumber: 5.3 Consensus size: 52
446807 AATTCTCCAC
*
446817 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCTAT
* * * * *
446868 AATCGGGGATACTCTAACTCCGATTTTATTTCCAAAATATTGATTTTTC-AT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCTAT
* * * * *
446919 AATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTTTTTAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACTAA---TTTTTCTAT
* * * * * *
446974 AATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCTAT
* * *
447026 AATCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACACCAATTTTTC-AC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTTCTAT
*
447078 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
447096 CTCGTTATTT
Statistics
Matches: 190, Mismatches: 30, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
50 3 0.02
51 71 0.37
52 56 0.29
53 15 0.08
54 5 0.03
55 38 0.20
56 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCTAT
Found at i:447115 original size:28 final size:28
Alignment explanation
Indices: 447079--447154 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
447069 ATTTTTCACA
* * * *
447079 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCATTACTTC
447107 ATCGGGGATACTCCAACCCCATTACTTC
1 ATCGGGGATACTCCAACCCCATTACTTC
***
447135 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
447155 GGCTTTTTCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTACTTC
Found at i:447240 original size:78 final size:77
Alignment explanation
Indices: 447109--447340 Score: 232
Period size: 78 Copynumber: 2.9 Consensus size: 77
447099 GTTATTTCAT
* * * *
447109 CGGGGATACTCCAACCCCATTACTTCCGAGGGGATACTCCAACCCCGGCTTTTTCCCAAAATATT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GTTTTTTCCCAAAATATT
** *
447174 GATTTCTCGTAAT
65 GATTTCTCACAAC
* * ** *
447187 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG-TTTTTTCCCAAAAT-AT
*
447251 CGATTTCTCACAAC
64 TGATTTCTCACAAC
* * * * *
447265 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTT-TTTTC-CCAAAATAT
*
447330 TAAATTTCTCA
64 T-GATTTCTCA
447341 TCGAGAAATA
Statistics
Matches: 123, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
77 6 0.05
78 103 0.84
79 3 0.02
80 11 0.09
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (77 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGTTTTTTCCCAAAATATTG
ATTTCTCACAAC
Found at i:459736 original size:11 final size:11
Alignment explanation
Indices: 459718--459758 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
459708 ACCTTCTCTT
459718 CAAAAAAAAAA
1 CAAAAAAAAAA
459729 GCAAAAAAAAAA
1 -CAAAAAAAAAA
459741 CAAAACAAAAAAA
1 C-AAA-AAAAAAA
459754 CAAAA
1 CAAAA
459759 CAAAGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 2 0.07
12 17 0.63
13 8 0.30
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:459737 original size:13 final size:13
Alignment explanation
Indices: 459719--459783 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 13
459709 CCTTCTCTTC
459719 AAAAAAAAAAGC-
1 AAAAAAAAAAGCA
459731 AAAAAAAAAA-CA
1 AAAAAAAAAAGCA
459743 AAACAAAAAAA-CA
1 AAA-AAAAAAAGCA
*
459756 AAACAAAGAAAAGGA
1 AAA-AAA-AAAAGCA
459771 GAGAAAAAAAAAG
1 -A-AAAAAAAAAG
459784 AACCTGCTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
11 1 0.02
12 13 0.28
13 16 0.35
14 4 0.09
15 6 0.13
16 4 0.09
17 2 0.04
ACGTcount: A:0.82, C:0.08, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGCA
Found at i:460838 original size:60 final size:59
Alignment explanation
Indices: 460745--460971 Score: 276
Period size: 55 Copynumber: 4.0 Consensus size: 59
460735 TCTCCTTACG
* *
460745 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACA
1 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAAGAGCAGGACA
*
460805 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACA
1 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
*
460864 -C----CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAAGAGCAGGACA
* * * * *
460919 CC-TTTC----AAAGCCCACACGAGTTGGTAGCACTTTTTACTCCTCAATGAGCAGGA
1 CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGA
460972 TACACTTTAT
Statistics
Matches: 151, Mismatches: 10, Indels: 17
0.85 0.06 0.10
Matches are distributed among these distances:
54 29 0.19
55 63 0.42
56 1 0.01
58 1 0.01
59 21 0.14
60 36 0.24
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (59 bp):
CCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGGACA
Found at i:461731 original size:21 final size:21
Alignment explanation
Indices: 461705--461761 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
461695 AAATTATCCA
*
461705 AATGTATCAATACATTTGTGG
1 AATGTATCGATACATTTGTGG
461726 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
461747 AATGTATCGATACAT
1 AATGTATCGATACAT
461762 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:461841 original size:19 final size:19
Alignment explanation
Indices: 461817--461884 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
461807 AATTCAACAA
461817 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
461836 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
461851 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
461868 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
461885 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:461856 original size:13 final size:13
Alignment explanation
Indices: 461838--461862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
461828 ACATAAGTTT
461838 TGTATCGATACAA
1 TGTATCGATACAA
461851 TGTATCGATACA
1 TGTATCGATACA
461863 TAAGTATTGT
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:461860 original size:32 final size:32
Alignment explanation
Indices: 461819--461881 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
461809 TTCAACAATT
*
461819 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
461851 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
461882 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:461942 original size:13 final size:13
Alignment explanation
Indices: 461924--461949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
461914 CATTTTTCTG
461924 TGTATCGATACAT
1 TGTATCGATACAT
461937 TGTATCGATACAT
1 TGTATCGATACAT
461950 GGATCTTTGT
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:461946 original size:33 final size:33
Alignment explanation
Indices: 461904--461970 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
461894 GCCAAGGAAA
***
461904 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
461937 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
461970 T
1 T
461971 TGGAAATTTT
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:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:464555 original size:52 final size:52
Alignment explanation
Indices: 464319--464597 Score: 305
Period size: 51 Copynumber: 5.3 Consensus size: 52
464309 AATTCTCCAC
*
464319 AATCGGGGATAGTCCAACTCCGATTTTATTTTCAAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCTAT
* * * * *
464370 AATCGGGGATACTCTAACTCCGATTTTATTTCCAAAATATTGATTTTTC-AT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCTAT
* * * * *
464421 AATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTTTTTTAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACTAA---TTTTTCTAT
* * * * *
464476 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCTAT
* * *
464528 AATCGGGGATACTCCAACTCTGATTTTATTTTCAAAAACACCAATTTTTC-AC
1 AATCGGGGATACTCCAACTCCGATTTTATTTTC-AAAACACTAATTTTTCTAT
*
464580 AATCGAGGATACTCCAAC
1 AATCGGGGATACTCCAAC
464598 CTCGTTATTT
Statistics
Matches: 192, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
50 3 0.02
51 71 0.37
52 57 0.30
53 15 0.08
54 5 0.03
55 38 0.20
56 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (52 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACTAATTTTTCTAT
Found at i:464617 original size:28 final size:28
Alignment explanation
Indices: 464581--464657 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
464571 ATTTTTCACA
* * *
464581 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
464609 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
464637 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
464658 GCTTTTTTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:464743 original size:79 final size:79
Alignment explanation
Indices: 464611--464815 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 79
464601 GTTATTTCAT
* * *
464611 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTTTTCCCAAAAT-A
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTTTTCCC-AAATCA
* * *
464675 TTGATTTCTCATAAT
65 TCGATTTCTCACAAC
* * * ** *
464690 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTTCTAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTTTTCCCAAATCAT
464755 CGATTTCTCACAAC
66 CGATTTCTCACAAC
* * * * *
464769 CGGGGATACTCCAGCCCCGTTATTTTCAAAGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
464816 TTATTATCTC
Statistics
Matches: 106, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 3 0.03
79 103 0.97
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTTTTCCCAAATCAT
CGATTTCTCACAAC
Found at i:475871 original size:26 final size:28
Alignment explanation
Indices: 475842--475893 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
475832 TATTTTCTCC
475842 TTTTTCTC-TTTCTTT-TTCCTTTTTTT
1 TTTTTCTCTTTTCTTTATTCCTTTTTTT
* *
475868 TTTTTGTCTTTTCTTTATTTCTTTTT
1 TTTTTCTCTTTTCTTTATTCCTTTTT
475894 CAGCTGAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
27 7 0.32
28 8 0.36
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.81
Consensus pattern (28 bp):
TTTTTCTCTTTTCTTTATTCCTTTTTTT
Found at i:477663 original size:25 final size:26
Alignment explanation
Indices: 477625--477680 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
477615 CACTAATTCG
* *
477625 ATTTTTTCTCTTTTTTTATTATTTTA
1 ATTTTTTCTATTTTATTATTATTTTA
477651 ATTTTTT-TATTTTATTATTATTTTA
1 ATTTTTTCTATTTTATTATTATTTTA
477676 ATTTT
1 ATTTT
477681 ATATCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 21 0.75
26 7 0.25
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (26 bp):
ATTTTTTCTATTTTATTATTATTTTA
Found at i:477674 original size:17 final size:17
Alignment explanation
Indices: 477635--477682 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
477625 ATTTTTTCTC
477635 TTTTTTTATTATT-TTAA
1 TTTTTTTATT-TTATTAA
477652 TTTTTTTATTTTATT-A
1 TTTTTTTATTTTATTAA
*
477668 TTATTTTAATTTTAT
1 TT-TTTTTATTTTAT
477683 ATCAAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 5 0.18
17 23 0.82
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTTATTTTATTAA
Found at i:478371 original size:2 final size:2
Alignment explanation
Indices: 478364--478404 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
478354 GGAAATAGTT
478364 TA TA TA 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 TA TA TA T
478405 TTCACTACTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:478414 original size:117 final size:117
Alignment explanation
Indices: 478287--478506 Score: 413
Period size: 117 Copynumber: 1.9 Consensus size: 117
478277 TATATCGTCT
* *
478287 TTTCACTACTGCAAAGTTGTTTCTTTGCATTTTTACAATTCTTACGCAGGTTCGATATTTCCATG
1 TTTCACTACTGCAAAGTTGTTTCTTTGCATTCTTACAATTCTTACACAGGTTCGATATTTCCATG
*
478352 TTGGAAATAGTTTATATATATATATATATATATATATATATATATATATATA
66 TTGGAAATAGTATATATATATATATATATATATATATATATATATATATATA
478404 TTTCACTACTGCAAAGTTGTTTCTTTGCATTCTTACAATTCTTACACAGGTTCGATATTTCCATG
1 TTTCACTACTGCAAAGTTGTTTCTTTGCATTCTTACAATTCTTACACAGGTTCGATATTTCCATG
478469 TTGGAAATAGTATATATATATATATATATATATATATA
66 TTGGAAATAGTATATATATATATATATATATATATATA
478507 AATCCCTTTT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 100 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (117 bp):
TTTCACTACTGCAAAGTTGTTTCTTTGCATTCTTACAATTCTTACACAGGTTCGATATTTCCATG
TTGGAAATAGTATATATATATATATATATATATATATATATATATATATATA
Found at i:478486 original size:2 final size:2
Alignment explanation
Indices: 478479--478506 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
478469 TTGGAAATAG
478479 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
478507 AATCCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:483362 original size:15 final size:15
Alignment explanation
Indices: 483315--483365 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
483305 AAATAATTTT
*
483315 TTTTTGATCTTTTCAC
1 TTTTT-ATCTTTTCAA
483331 TTTTT-TCTTTCTCCAA
1 TTTTTATCTTT-T-CAA
483347 TTTTTATCTTTTCAA
1 TTTTTATCTTTTCAA
483362 TTTT
1 TTTT
483366 ATTTTCACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.16
15 8 0.26
16 13 0.42
17 5 0.16
ACGTcount: A:0.14, C:0.18, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTTATCTTTTCAA
Found at i:483365 original size:14 final size:14
Alignment explanation
Indices: 483316--483367 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
483306 AATAATTTTT
*
483316 TTTTGATCTTTTCAC
1 TTTT-ATCTTTTCAA
*
483331 TTTTTTCTTTCTCCAA
1 TTTTATCTTT-T-CAA
483347 TTTTTATCTTTTCAA
1 -TTTTATCTTTTCAA
483362 TTTTAT
1 TTTTAT
483368 TTTCACCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 11 0.35
15 8 0.26
16 3 0.10
17 9 0.29
ACGTcount: A:0.15, C:0.17, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTTATCTTTTCAA
Found at i:484066 original size:19 final size:20
Alignment explanation
Indices: 484029--484066 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
484019 ATTATTCTAC
* *
484029 TGAAATAATTTATTTTTTAA
1 TGAAATAATGTATTGTTTAA
484049 TGAAA-AATGTATTGTTTA
1 TGAAATAATGTATTGTTTA
484067 GCAATTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (20 bp):
TGAAATAATGTATTGTTTAA
Found at i:485700 original size:17 final size:17
Alignment explanation
Indices: 485680--485745 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
485670 GAGACATGAC
485680 AAAAATAAAATATATAA
1 AAAAATAAAATATATAA
*
485697 AAAAA-ATAATATA-AA
1 AAAAATAAAATATATAA
* *
485712 TATAATATAAATATATAA
1 AAAAATA-AAATATATAA
*
485730 ATAAATAAAATATATA
1 AAAAATAAAATATATA
485746 TGTAAAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
15 5 0.13
16 8 0.21
17 20 0.51
18 6 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATAAAATATATAA
Found at i:485708 original size:14 final size:14
Alignment explanation
Indices: 485681--485754 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 14
485671 AGACATGACA
485681 AAAATAAAATATAT
1 AAAATAAAATATAT
485695 AAAA-AAAATA-AT
1 AAAATAAAATATAT
*
485707 ATAAATATAATATA-
1 A-AAATAAAATATAT
* *
485721 AATATATAAATAAAT
1 AAAATA-AAATATAT
* *
485736 AAAAT-ATATATGT
1 AAAATAAAATATAT
485749 AAAATA
1 AAAATA
485755 TTATATAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
12 3 0.07
13 23 0.50
14 15 0.33
15 5 0.11
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (14 bp):
AAAATAAAATATAT
Found at i:485711 original size:23 final size:25
Alignment explanation
Indices: 485682--485808 Score: 88
Period size: 28 Copynumber: 5.0 Consensus size: 25
485672 GACATGACAA
485682 AAATAAAATATATAAA-A-A-AAAT
1 AAATAAAATATATAAATATATAAAT
485704 AATATAAATATAATATAAATATATAAAT
1 AA-ATAAA-AT-ATATAAATATATAAAT
*
485732 AAATAAAATATAT--ATGTA-AAAT
1 AAATAAAATATATAAATATATAAAT
* *
485754 ATTATATAAATATGT-AATATATTAAAT
1 A-AATA-AAATATATAAATATA-TAAAT
*
485781 AATAAAAAAATAATATAAATATATAAAT
1 -A-AATAAAAT-ATATAAATATATAAAT
485809 TTTTCTCTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 22
0.74 0.06 0.19
Matches are distributed among these distances:
22 7 0.08
23 12 0.14
24 9 0.11
25 15 0.18
26 3 0.04
27 14 0.17
28 18 0.21
29 6 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATAAAATATATAAATATATAAAT
Found at i:485716 original size:11 final size:11
Alignment explanation
Indices: 485702--485803 Score: 72
Period size: 11 Copynumber: 9.3 Consensus size: 11
485692 TATAAAAAAA
485702 ATAATATAAAT
1 ATAATATAAAT
485713 ATAATAT-AA-
1 ATAATATAAAT
485722 AT-ATATAAAT
1 ATAATATAAAT
485732 A-AATA-AAAT
1 ATAATATAAAT
*
485741 ATATATGTAAAAT
1 ATA-ATAT-AAAT
*
485754 ATTATATAAAT
1 ATAATATAAAT
485765 ATGTAATATATTAA-
1 A--TAATATA--AAT
* *
485779 ATAATAAAAAA
1 ATAATATAAAT
485790 ATAATATAAAT
1 ATAATATAAAT
485801 ATA
1 ATA
485804 TAAATTTTTC
Statistics
Matches: 72, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
8 4 0.06
9 9 0.12
10 9 0.12
11 26 0.36
12 9 0.12
13 12 0.17
14 1 0.01
15 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:485751 original size:17 final size:17
Alignment explanation
Indices: 485682--485801 Score: 83
Period size: 16 Copynumber: 7.3 Consensus size: 17
485672 GACATGACAA
485682 AAATAAAATATATAAA-
1 AAATAAAATATATAAAT
*
485698 AAA-AATA-ATATAAAT
1 AAATAAAATATATAAAT
485713 ATAATATAAATATATAAAT
1 A-AATA-AAATATATAAAT
**
485732 AAATAAAATATATATGT
1 AAATAAAATATATAAAT
* *
485749 AAA-ATATTATATAAAT
1 AAATAAAATATATAAAT
** *
485765 ATGTAATATAT-TAAAT
1 AAATAAAATATATAAAT
*
485781 -AATAAAA-AAATAATAT
1 AAATAAAATATATAA-AT
485797 AAATA
1 AAATA
485802 TATAAATTTT
Statistics
Matches: 78, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
14 8 0.10
15 11 0.14
16 22 0.28
17 22 0.28
18 6 0.08
19 9 0.12
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATAAAATATATAAAT
Found at i:485760 original size:18 final size:19
Alignment explanation
Indices: 485739--485784 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
485729 AATAAATAAA
485739 ATAT-ATATGTAAAATATT
1 ATATAATATGTAAAATATT
*
485757 ATATAAATATGTAATATATT
1 ATAT-AATATGTAAAATATT
*
485777 AAATAATA
1 ATATAATA
485785 AAAAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (19 bp):
ATATAATATGTAAAATATT
Found at i:485785 original size:52 final size:50
Alignment explanation
Indices: 485682--485799 Score: 125
Period size: 52 Copynumber: 2.3 Consensus size: 50
485672 GACATGACAA
*
485682 AAATAAAATATATAAAAAAAATAATATAAATATAATATAAATATATAAAT
1 AAATAAAATATATAAAAAAAATAATATAAATATAATATAAATAAATAAAT
* * * *
485732 AAATAAAATATATATGTAAAATATTATATAAATATGTAATAT-ATTAAAT-AAT
1 AAATAAAATATATA--AAAAAAATAATATAAATA--TAATATAAATAAATAAAT
485784 AAA-AAAATAATATAAA
1 AAATAAAAT-ATATAAA
485800 TATATAAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
50 15 0.26
51 5 0.09
52 26 0.46
53 5 0.09
54 6 0.11
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (50 bp):
AAATAAAATATATAAAAAAAATAATATAAATATAATATAAATAAATAAAT
Found at i:485800 original size:9 final size:8
Alignment explanation
Indices: 485687--485808 Score: 57
Period size: 8 Copynumber: 15.5 Consensus size: 8
485677 GACAAAAATA
485687 AAATATAT
1 AAATATAT
485695 AAA-A-A-
1 AAATATAT
485700 AAATAATAT
1 AAAT-ATAT
485709 AAATATAATAT
1 -AA-AT-ATAT
485720 AAATATAT
1 AAATATAT
*
485728 AAATAAAT
1 AAATATAT
485736 AAA-ATAT
1 AAATATAT
* * *
485743 ATATGTAA
1 AAATATAT
485751 AATATTATAT
1 AA-A-TATAT
*
485761 AAATATGT
1 AAATATAT
485769 -AATATATT
1 AAATATA-T
485777 AAATA-AT
1 AAATATAT
485784 -AA-A-A-
1 AAATATAT
485788 AAATAATAT
1 AAAT-ATAT
485797 AAATATAT
1 AAATATAT
485805 AAAT
1 AAAT
485809 TTTTCTCTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 32
0.68 0.08 0.25
Matches are distributed among these distances:
5 7 0.08
6 3 0.03
7 14 0.16
8 36 0.41
9 12 0.14
10 9 0.10
11 7 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (8 bp):
AAATATAT
Found at i:486526 original size:18 final size:18
Alignment explanation
Indices: 486481--486527 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
486471 GTGTTAAACA
486481 ATTTATTATAAAAATAATG
1 ATTTATTAT-AAAATAATG
* *
486500 ATATATTATAAAATAATT
1 ATTTATTATAAAATAATG
*
486518 ATTTTTTATA
1 ATTTATTATA
486528 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATTTATTATAAAATAATG
Found at i:486750 original size:21 final size:21
Alignment explanation
Indices: 486720--486774 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
486710 AATAACGATG
* * *
486720 ATGATGAGATTTATTATTATA
1 ATGATAAGATTAAGTATTATA
486741 ATGATAAGATTAAGTATTATA
1 ATGATAAGATTAAGTATTATA
* *
486762 ACGATAATATTAA
1 ATGATAAGATTAA
486775 AATCGATAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.02, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGATAAGATTAAGTATTATA
Found at i:486911 original size:35 final size:31
Alignment explanation
Indices: 486888--487063 Score: 127
Period size: 31 Copynumber: 5.7 Consensus size: 31
486878 ATTAAAAATT
486888 ATTAAAATTATATTTATATTAAATAA-TAAA
1 ATTAAAATTATATTTATATTAAATAATTAAA
*
486918 ATTAAAATTTTATTTAT-TTAAATAA-T--A
1 ATTAAAATTATATTTATATTAAATAATTAAA
* * * *
486945 ATTGAAATTAAATTTACACTAAA-AA-TAAGTA
1 ATTAAAATTATATTTATATTAAATAATTAA--A
** *
486976 ATTAACTTTATATTTATATTAAATAATAAAA
1 ATTAAAATTATATTTATATTAAATAATTAAA
* *
487007 CATATATTAAATTGTA-TTATATTAAATAA-TAGCA
1 -AT-TA--AAATTATATTTATATTAAATAATTA-AA
*
487041 ATTAAAATTATATTTATTTTAAA
1 ATTAAAATTATATTTATATTAAA
487064 AATAAATTAA
Statistics
Matches: 113, Mismatches: 20, Indels: 25
0.72 0.13 0.16
Matches are distributed among these distances:
27 17 0.15
28 4 0.04
29 9 0.08
30 23 0.20
31 28 0.25
32 6 0.05
33 7 0.06
34 14 0.12
35 5 0.04
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (31 bp):
ATTAAAATTATATTTATATTAAATAATTAAA
Found at i:486958 original size:32 final size:30
Alignment explanation
Indices: 486888--487073 Score: 136
Period size: 30 Copynumber: 6.2 Consensus size: 30
486878 ATTAAAAATT
*
486888 ATTAAAATTATATTTATATTAAATAATAAA
1 ATTAAAATTTTATTTATATTAAATAATAAA
486918 ATTAAAATTTTATTTAT-TTAAATAAT--A
1 ATTAAAATTTTATTTATATTAAATAATAAA
* ** * *
486945 ATTGAAATTAAATTTACACTAAA-AATAAGTA
1 ATTAAAATTTTATTTATATTAAATAATAA--A
*
486976 ATT-AACTTTATATTTATATTAAATAATAAAA
1 ATTAAAATTT-TATTTATATTAAATAAT-AAA
* *
487007 CATATATTAAATTGTA-TTATATTAAATAATAGCA
1 -AT-TA--AAATTTTATTTATATTAAATAATA-AA
* *
487041 ATTAAAATTATATTTATTTTAAA-AAT-AA
1 ATTAAAATTTTATTTATATTAAATAATAAA
487069 ATTAA
1 ATTAA
487074 CAAAATAAAT
Statistics
Matches: 124, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
27 17 0.14
28 10 0.08
29 9 0.07
30 30 0.24
31 24 0.19
32 7 0.06
33 6 0.05
34 15 0.12
35 2 0.02
36 4 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (30 bp):
ATTAAAATTTTATTTATATTAAATAATAAA
Found at i:487080 original size:13 final size:13
Alignment explanation
Indices: 487061--487109 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
487051 TATTTATTTT
487061 AAAAATAAAT-TA
1 AAAAATAAATATA
487073 ACAAAATAAATATA
1 A-AAAATAAATATA
*
487087 AAAAGTAAATAATA
1 AAAAATAAAT-ATA
487101 AAAAATAAA
1 AAAAATAAA
487110 AATGTTAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 1 0.03
13 17 0.53
14 14 0.44
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (13 bp):
AAAAATAAATATA
Found at i:492793 original size:40 final size:41
Alignment explanation
Indices: 492738--492852 Score: 187
Period size: 40 Copynumber: 2.8 Consensus size: 41
492728 CCATTACCTA
*
492738 TCATCTATAACATAAGTTGAATCACTCAGGATTTCCGA-TT
1 TCATCTCTAACATAAGTTGAATCACTCAGGATTTCCGATTT
* *
492778 TCATCTCTAACATAAGGTGAACCACTCAGGATTTCCGATTT
1 TCATCTCTAACATAAGTTGAATCACTCAGGATTTCCGATTT
*
492819 TCATCTCTAACATAGGTTGAATCACTCAGGATTT
1 TCATCTCTAACATAAGTTGAATCACTCAGGATTT
492853 GCCTCAGTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 35 0.51
41 33 0.49
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (41 bp):
TCATCTCTAACATAAGTTGAATCACTCAGGATTTCCGATTT
Found at i:494674 original size:13 final size:13
Alignment explanation
Indices: 494658--494708 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
494648 ATATGATATT
494658 TATA-ATTTAT-A
1 TATATATTTATAA
* *
494669 TCTATATCTATAA
1 TATATATTTATAA
*
494682 TGTATATTTATAA
1 TATATATTTATAA
494695 TATATATTTATAA
1 TATATATTTATAA
494708 T
1 T
494709 CAATTAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 3 0.09
12 5 0.15
13 25 0.76
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (13 bp):
TATATATTTATAA
Found at i:494680 original size:19 final size:19
Alignment explanation
Indices: 494653--494706 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
494643 TTAGAATATG
*
494653 ATATTTATAATTTATATCT
1 ATATATATAATTTATATCT
* * *
494672 ATATCTATAATGTATATTT
1 ATATATATAATTTATATCT
494691 ATA-ATATATATTTATA
1 ATATATATA-ATTTATA
494707 ATCAATTAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (19 bp):
ATATATATAATTTATATCT
Found at i:494795 original size:16 final size:17
Alignment explanation
Indices: 494764--494796 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
494754 TATTTTTTTA
*
494764 ATTTTTATATTCATTAT
1 ATTTTTAAATTCATTAT
494781 ATTTTTAAATT-ATTAT
1 ATTTTTAAATTCATTAT
494797 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTAAATTCATTAT
Found at i:503416 original size:10 final size:10
Alignment explanation
Indices: 503401--503628 Score: 92
Period size: 10 Copynumber: 20.9 Consensus size: 10
503391 TGATTCCTTG
503401 TAATAATATT
1 TAATAATATT
503411 TAATAATATATTT
1 TAAT-A-ATA-TT
*
503424 TAATATTTAATT
1 TAATA-AT-ATT
503436 TAATAATATT
1 TAATAATATT
503446 TAATGATATATT
1 TAAT-A-ATATT
*
503458 TAATAGTATAT
1 TAATAATAT-T
503469 TAA-ACATATTT
1 TAATA-ATA-TT
503480 TAATATTATATT
1 TAATA--ATATT
*
503492 TAATAATGTAT
1 TAATAATAT-T
503503 TAA-AATAATTT
1 TAATAAT-A-TT
*
503514 TAAAAATATTATT
1 T---AATAATATT
*
503527 TAATCATATT
1 TAATAATATT
*
503537 AAATAATA-T
1 TAATAATATT
503546 TAATAATATAT
1 TAATAATAT-T
503557 TAAATAATATT
1 T-AATAATATT
503568 TAAT-AT-TT
1 TAATAATATT
* *
503576 TATTAAATGTTT
1 TAAT-AAT-ATT
*
503588 TAAAAATATTATT
1 T---AATAATATT
503601 TAATAATATAT
1 TAATAATAT-T
503612 T-A-AATATT
1 TAATAATATT
503620 TAATAATAT
1 TAATAATAT
503629 ATTAGATTTT
Statistics
Matches: 169, Mismatches: 18, Indels: 62
0.68 0.07 0.25
Matches are distributed among these distances:
8 7 0.04
9 16 0.09
10 52 0.31
11 26 0.15
12 43 0.25
13 16 0.09
14 5 0.03
15 4 0.02
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (10 bp):
TAATAATATT
Found at i:503423 original size:12 final size:12
Alignment explanation
Indices: 503401--503631 Score: 107
Period size: 12 Copynumber: 20.8 Consensus size: 12
503391 TGATTCCTTG
503401 TAATAATATTTAA
1 TAAT-ATATTTAA
503414 TAATATATTTTAA
1 TAATATA-TTTAA
*
503427 T-ATTTAATTTAA
1 TAATAT-ATTTAA
503439 T-A-ATATTTAA
1 TAATATATTTAA
*
503449 TGATATATTTAA
1 TAATATATTTAA
*
503461 TAGTATA-TTAA
1 TAATATATTTAA
503472 -ACATAT-TTTAA
1 TA-ATATATTTAA
*
503483 TATTATATTTAA
1 TAATATATTTAA
*
503495 TAATGTA-TTAA
1 TAATATATTTAA
503506 -AATA-ATTTTAA
1 TAATATA-TTTAA
*
503517 AAATATTATTTAA
1 TAATA-TATTTAA
* *
503530 T--CATATTAAA
1 TAATATATTTAA
503540 T-A-ATA-TTAA
1 TAATATATTTAA
*
503549 TAATATATTAAA
1 TAATATATTTAA
503561 T-A-ATATTTAA
1 TAATATATTTAA
* *
503571 TATTTTA-TT-A
1 TAATATATTTAA
*
503581 -AATGT-TTTAA
1 TAATATATTTAA
*
503591 AAATATTATTTAA
1 TAATA-TATTTAA
503604 TAATATA--T--
1 TAATATATTTAA
503612 TAA-ATATTTAA
1 TAATATATTTAA
503623 TAATATATT
1 TAATATATT
503632 AGATTTTTTT
Statistics
Matches: 168, Mismatches: 21, Indels: 59
0.68 0.08 0.24
Matches are distributed among these distances:
7 3 0.02
8 3 0.02
9 11 0.07
10 33 0.20
11 37 0.22
12 55 0.33
13 25 0.15
14 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (12 bp):
TAATATATTTAA
Found at i:503583 original size:22 final size:21
Alignment explanation
Indices: 503402--503628 Score: 110
Period size: 22 Copynumber: 10.4 Consensus size: 21
503392 GATTCCTTGT
503402 AATAATATTTAATAATATATTTTA
1 AATAATA-TTAATAATATA--TTA
503426 ATATTTAAT-TTAATAATAT-TT-
1 A-A--TAATATTAATAATATATTA
*
503447 AATGATATATTTAATAGTATATTA
1 AAT-A-ATA-TTAATAATATATTA
* * * *
503471 AACATATTTTAATATTATATTT
1 AATA-ATATTAATAATATATTA
*
503493 AATAATGTATTAA-AATAATTTTA
1 AATAA--TATTAATAAT-ATATTA
*
503516 AA-AATATTATTTAATCATATTA
1 AATAATATTA-ATAAT-ATATTA
503538 AATAATATTAATAATATATTA
1 AATAATATTAATAATATATTA
* *
503559 AATAATATTTAATATTTTATTA
1 AATAATA-TTAATAATATATTA
* * * *
503581 AAT-GTTTTAAAAATATTATTT
1 AATAATATTAATAATA-TATTA
* *
503602 AATAATA-TATTAA-ATATTT
1 AATAATATTAATAATATATTA
503621 AATAATAT
1 AATAATAT
503629 ATTAGATTTT
Statistics
Matches: 158, Mismatches: 26, Indels: 42
0.70 0.12 0.19
Matches are distributed among these distances:
18 1 0.01
19 13 0.08
20 15 0.09
21 27 0.17
22 60 0.38
23 24 0.15
24 3 0.02
25 11 0.07
27 4 0.03
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (21 bp):
AATAATATTAATAATATATTA
Found at i:503601 original size:74 final size:77
Alignment explanation
Indices: 503474--503632 Score: 211
Period size: 74 Copynumber: 2.1 Consensus size: 77
503464 TATATTAAAC
* *
503474 ATATTTTAATATTATATTTAATAATGTATTAAAATAATTTTAAAAATATTATTTAAT-CATATTA
1 ATATATTAATATAATATTTAATAATGTATTAAAATAATTTTAAAAATATTATTTAATACATATTA
503538 AATAATATTAATA
66 AAT-ATATTAATA
* * * *
503551 ATATATTAA-ATAATATTTAATATTTTATT-AAAT-GTTTTAAAAATATTATTTAATAATATATT
1 ATATATTAATATAATATTTAATAATGTATTAAAATAATTTTAAAAATATTATTTAAT-ACATATT
503613 AAATAT-TTAATA
65 AAATATATTAATA
503625 ATATATTA
1 ATATATTA
503633 GATTTTTTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
74 34 0.46
75 6 0.08
76 26 0.35
77 8 0.11
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (77 bp):
ATATATTAATATAATATTTAATAATGTATTAAAATAATTTTAAAAATATTATTTAATACATATTA
AATATATTAATA
Found at i:508011 original size:20 final size:20
Alignment explanation
Indices: 507973--508011 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
507963 TGCATGCATC
* * *
507973 TATCGATACATTCAGTTATG
1 TATCAATACATTAACTTATG
507993 TATCAATACATTAACTTAT
1 TATCAATACATTAACTTAT
508012 TATATCGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (20 bp):
TATCAATACATTAACTTATG
Found at i:515261 original size:43 final size:43
Alignment explanation
Indices: 515149--515346 Score: 158
Period size: 43 Copynumber: 4.7 Consensus size: 43
515139 ATATAAACAC
* * * *
515149 CACTAAGTTTTAAAATTTAGTGGCGTTTATA-TCTAAAAATGT
1 CACTAAATATTAAAATTTAGTGGCATTTATAGCCTAAAAATGT
* * *
515191 CACTAAAT-TTATATATTTAGCGACATTTATAGCCTAAAAATGT
1 CACTAAATATTA-AAATTTAGTGGCATTTATAGCCTAAAAATGT
* * *
515234 CACTAAATATTAAAATTTAGTAGCATTTTTTATG--TATAAATGT
1 CACTAAATATTAAAATTTAGTGGCA-TTTATA-GCCTAAAAATGT
* * * ** * *
515277 CACTACACA--AAAATTTAATGGTGTTTATAGCTTAAAAATGC
1 CACTAAATATTAAAATTTAGTGGCATTTATAGCCTAAAAATGT
515318 CACTAAATA-TATAAATTTAGTGGCATTTA
1 CACTAAATATTA-AAATTTAGTGGCATTTA
515347 CCAAATAAAC
Statistics
Matches: 121, Mismatches: 26, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 27 0.22
42 23 0.19
43 56 0.46
44 8 0.07
45 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.38
Consensus pattern (43 bp):
CACTAAATATTAAAATTTAGTGGCATTTATAGCCTAAAAATGT
Found at i:518987 original size:21 final size:21
Alignment explanation
Indices: 518963--519039 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
518953 AAAATTTCCA
518963 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
518984 AATGTATCGATACATTTGT-G
1 AATGTATCGATACATTTGTAG
* *
519004 AAATGTATCGATACA-TTCTACA
1 -AATGTATCGATACATTTGTA-G
519026 AATGTATCGATACA
1 AATGTATCGATACA
519040 GGGTCCCAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.08
21 47 0.92
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:519099 original size:19 final size:19
Alignment explanation
Indices: 519075--519142 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
519065 AATTCAACGA
519075 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
519094 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
519109 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
519126 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
519143 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:519113 original size:32 final size:32
Alignment explanation
Indices: 519077--519139 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
519067 TTCAACGATT
*
519077 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
519109 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
519140 TAATTAGCTA
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:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Done.