Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold6
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: 4312818
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 226954 characters in sequence are not A, C, G, or T
File 2 of 14
Found at i:347004 original size:10 final size:10
Alignment explanation
Indices: 346989--347014 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
346979 CTTACTGATC
346989 TGTTAGTATT
1 TGTTAGTATT
346999 TGTTAGTATT
1 TGTTAGTATT
347009 TGTTAG
1 TGTTAG
347015 CACTTAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (10 bp):
TGTTAGTATT
Found at i:349379 original size:35 final size:36
Alignment explanation
Indices: 349331--349407 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 36
349321 ATTTGTTAGA
*
349331 TATTGATTATGTTTTAACCTTGTTGGATATTGAATT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
*
349367 TATT-ATTATGTTTTAAGCTTGTTGGATATTGAAAT
1 TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
349402 TATTGA
1 TATTGA
349408 AAATGATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 33 0.87
36 5 0.13
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.52
Consensus pattern (36 bp):
TATTGATTATGTTTTAACCTTGTTGGATATTGAAAT
Found at i:350730 original size:14 final size:14
Alignment explanation
Indices: 350707--350745 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
350697 ACAAAAAAGT
*
350707 AAAACATTTTCTAG
1 AAAACATTTTATAG
* *
350721 AAATCATTTTATGG
1 AAAACATTTTATAG
350735 AAAACATTTTA
1 AAAACATTTTA
350746 CTGGCAATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (14 bp):
AAAACATTTTATAG
Found at i:357772 original size:27 final size:26
Alignment explanation
Indices: 357691--357966 Score: 254
Period size: 27 Copynumber: 10.3 Consensus size: 26
357681 ATTCGTTGGC
357691 AAATGACTGAAATACCC-CTGAAGGGTA
1 AAATGAC-GAAATACCCTC-GAAGGGTA
* * *
357718 AAAAGACCGAAATATCC-AGAAGGGTA
1 AAATGA-CGAAATACCCTCGAAGGGTA
357744 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGA-CGAAATACCCTCGAAGGGTA
* * *
357771 AAATAACCAAAATACCCTCGAAGGATA
1 AAATGA-CGAAATACCCTCGAAGGGTA
*
357798 AAATGACTGAAATACCCTCAAAGGGTA
1 AAATGAC-GAAATACCCTCGAAGGGTA
* * *
357825 TAATTACTGAAATACCCTCGAAAGGTA
1 AAATGAC-GAAATACCCTCGAAGGGTA
357852 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGA-CGAAATACCCTCGAAGGGTA
* *
357879 AAATGACTGAAATACCCCCGAACGGTA
1 AAATGAC-GAAATACCCTCGAAGGGTA
* * *
357906 AAATGAGTGAAATACCC-CCATAAGGTA
1 AAATGA-CGAAATACCCTCGA-AGGGTA
* *
357933 AAATGAATGAAATACCC-CCATAGGGTA
1 AAATG-ACGAAATACCCTCGA-AGGGTA
357960 AAATGAC
1 AAATGAC
357967 TGTTATACCC
Statistics
Matches: 212, Mismatches: 29, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
26 27 0.13
27 182 0.86
28 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (26 bp):
AAATGACGAAATACCCTCGAAGGGTA
Found at i:357937 original size:81 final size:79
Alignment explanation
Indices: 357691--357977 Score: 294
Period size: 81 Copynumber: 3.6 Consensus size: 79
357681 ATTCGTTGGC
* * * *
357691 AAATGA-CTGAAATACCCCTGAAGGGTAAAAAGACCGAAATA-TCCAGAAGGGTAAAATGATCGA
1 AAATGATC-GAAATACCCC-GAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGAT-GA
*
357754 AATACCCTCGAAGGGTA
63 AATACCCTCGAAAGGTA
* * * * * * * *
357771 AAATAACCAAAATACCCTCGAAGGATAAAATGACTGAAATACCCTCAAAGGGTATAATTACTGAA
1 AAATGATCGAAATACCC-CGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGA-TGAA
357836 ATACCCTCGAAAGGTA
64 ATACCCTCGAAAGGTA
*
357852 AAATGATCGAAATACCCTCGAAGGGTAAAATGACTGAAATACCCCCGAACGGTAAAATGAGTGAA
1 AAATGATCGAAATACCC-CGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGA-TGAA
*
357917 ATACCC-CCATAAGGTA
64 ATACCCTCGA-AAGGTA
* **
357933 AAATGAAT-GAAATACCCCCATAGGGTAAAATGACTGTTATACCCC
1 AAATG-ATCGAAATACCCCGA-AGGGTAAAATGACTGAAATACCCC
357978 TAAGAGATGA
Statistics
Matches: 174, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
80 36 0.21
81 135 0.78
82 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.18
Consensus pattern (79 bp):
AAATGATCGAAATACCCCGAAGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATGATGAAAT
ACCCTCGAAAGGTA
Found at i:358356 original size:28 final size:28
Alignment explanation
Indices: 358319--358402 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
358309 CACTGTACTG
358319 GTTACTGTATTGGGCTAAGGCCCGCACT
1 GTTACTGTATTGGGCTAAGGCCCGCACT
** * *
358347 GTTACTGTATTTAGCAAAGGCCTGCACT
1 GTTACTGTATTGGGCTAAGGCCCGCACT
*
358375 GTTACTGTATTGGGCTAAGGCCCACACT
1 GTTACTGTATTGGGCTAAGGCCCGCACT
358403 ATACTGTTAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (28 bp):
GTTACTGTATTGGGCTAAGGCCCGCACT
Found at i:358440 original size:33 final size:33
Alignment explanation
Indices: 358372--358442 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
358362 AAAGGCCTGC
* *
358372 ACTGTTACTGTATTGGGCTAAGGCCCACACTAT
1 ACTGTTACTGTATAGGGCCAAGGCCCACACTAT
* *
358405 ACTGTTACTGTATAGGGCCCA-GCCCAGACTGAT
1 ACTGTTACTGTATAGGGCCAAGGCCCACACT-AT
358438 ACTGT
1 ACTGT
358443 ATGATTACTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 8 0.24
33 25 0.76
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (33 bp):
ACTGTTACTGTATAGGGCCAAGGCCCACACTAT
Found at i:360519 original size:11 final size:11
Alignment explanation
Indices: 360503--360536 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
360493 AGAACATCCT
360503 TTGAAGCTTCC
1 TTGAAGCTTCC
*
360514 TTGAAGGTTCC
1 TTGAAGCTTCC
*
360525 TTGAAGTTTCC
1 TTGAAGCTTCC
360536 T
1 T
360537 AGCATGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (11 bp):
TTGAAGCTTCC
Found at i:371541 original size:31 final size:31
Alignment explanation
Indices: 371506--371567 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
371496 TTCAATTTAG
* *
371506 AGTTTCATAGTTAATTTATACCTTTAACTAA
1 AGTTTCATAGTTAATTGATACATTTAACTAA
371537 AGTTTCATAGTTAATTGATACATTTAACTAA
1 AGTTTCATAGTTAATTGATACATTTAACTAA
371568 TAGAACTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTCATAGTTAATTGATACATTTAACTAA
Found at i:376598 original size:39 final size:39
Alignment explanation
Indices: 376558--376721 Score: 195
Period size: 39 Copynumber: 4.2 Consensus size: 39
376548 ATTCACTTTT
* * *
376558 AAGCATATATCACATTACACAT-TAAATCACATAACATTT
1 AAGCATATATCACAATACTCATAT-AATCACATAACATTC
* *
376597 AAGCATATATCACAATACTCATATAATTACATAACGTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* ** * *
376636 AAGCACATATTGCAATACTCATATGATCACGTAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* **
376675 AAGCATATATCGCAATACTCATACGATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
376714 AAGCATAT
1 AAGCATAT
376722 GTCGTAATAC
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
39 107 0.99
40 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:376731 original size:39 final size:39
Alignment explanation
Indices: 376583--376734 Score: 205
Period size: 39 Copynumber: 3.9 Consensus size: 39
376573 TACACATTAA
* * *
376583 ATCACATAACATTTAAGCATATATCACAATACTCATATA
1 ATCACATAACATTCAAGCATATATCGCAATACTCATATG
* * * *
376622 ATTACATAACGTTCAAGCACATATTGCAATACTCATATG
1 ATCACATAACATTCAAGCATATATCGCAATACTCATATG
* *
376661 ATCACGTAACATTCAAGCATATATCGCAATACTCATACG
1 ATCACATAACATTCAAGCATATATCGCAATACTCATATG
* *
376700 ATCACATAACATTCAAGCATATGTCGTAATACTCA
1 ATCACATAACATTCAAGCATATATCGCAATACTCA
376735 AAGACATGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 97 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (39 bp):
ATCACATAACATTCAAGCATATATCGCAATACTCATATG
Found at i:381461 original size:22 final size:22
Alignment explanation
Indices: 381410--381461 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
381400 AATTGAATAG
* *
381410 TTATTAATCTATTAGATTAAAA
1 TTATTAATATATCAGATTAAAA
381432 TTAGTTAATATATCA-ATTAAAA
1 TTA-TTAATATATCAGATTAAAA
381454 TATATTAA
1 T-TATTAA
381462 AATTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
TTATTAATATATCAGATTAAAA
Found at i:381921 original size:24 final size:24
Alignment explanation
Indices: 381893--381943 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
381883 GTAGTAGCAT
381893 ATAGATAAAAAAATTTTAGTGGGC
1 ATAGATAAAAAAATTTTAGTGGGC
*
381917 ATAGATACAAAAATTTTAGTGGGC
1 ATAGATAAAAAAATTTTAGTGGGC
381941 ATA
1 ATA
381944 CATGTGAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAGATAAAAAAATTTTAGTGGGC
Found at i:390004 original size:50 final size:51
Alignment explanation
Indices: 389934--390066 Score: 169
Period size: 51 Copynumber: 2.6 Consensus size: 51
389924 TATCATTCGA
* * * *
389934 TACACGTAGTGGCCTTCACATAGTACTACACACGTGA-TCAAACTTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGAGATTCAAACTATCTGG
* * * *
389984 TTCACGTAGTAGCATGCACATAGTACTACACACGAGATTGAAGCTATCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGAGATTCAAACTATCTGG
* *
390035 TACGCATAGTAGCCTGCACATAGTACTACACA
1 TACACGTAGTAGCCTGCACATAGTACTACACA
390067 TGCGACCTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
50 32 0.46
51 38 0.54
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGAGATTCAAACTATCTGG
Found at i:399497 original size:25 final size:26
Alignment explanation
Indices: 399440--399496 Score: 87
Period size: 29 Copynumber: 2.1 Consensus size: 26
399430 TCATTATATG
399440 TTTATTAATGTGTCTAAAGTCAGTCTATT
1 TTTATTAATGTGTCTAAAGTCAGTC---T
399469 TTTATTAATGTGTCTAAAGTCAGTCT
1 TTTATTAATGTGTCTAAAGTCAGTCT
399495 TT
1 TT
399497 AATTTTGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
26 3 0.11
29 25 0.89
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (26 bp):
TTTATTAATGTGTCTAAAGTCAGTCT
Found at i:404895 original size:50 final size:50
Alignment explanation
Indices: 404817--404949 Score: 169
Period size: 50 Copynumber: 2.7 Consensus size: 50
404807 TTTTCTGTAC
* * * *
404817 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCACACATGGTCTTACATGGGAGCTCTCATATCGG
* ** *
404867 TGCGC-ATGCTATGTCCCACACATGGTCTTACGGGGGAGCTCTCATCTCGG
1 TGC-CAATGCCATGTCCCACACATGGTCTTACATGGGAGCTCTCATATCGG
*
404917 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAATGCCATGTCCCACACATGGTCTTACAT
404950 TGGATCTCAT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 1 0.01
50 67 0.97
51 1 0.01
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCACACATGGTCTTACATGGGAGCTCTCATATCGG
Found at i:412044 original size:4 final size:4
Alignment explanation
Indices: 412027--412065 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
412017 ACTCGCTTCT
* **
412027 TTAC TTAC TCAC TTAC TTGT TTAC TTAC TTAC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
412066 AATAACTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.03, T:0.51
Consensus pattern (4 bp):
TTAC
Found at i:412051 original size:20 final size:20
Alignment explanation
Indices: 412026--412064 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
412016 TACTCGCTTC
412026 TTTACTTACTCACTTACTTG
1 TTTACTTACTCACTTACTTG
*
412046 TTTACTTACTTACTTACTT
1 TTTACTTACTCACTTACTT
412065 AAATAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.23, G:0.03, T:0.54
Consensus pattern (20 bp):
TTTACTTACTCACTTACTTG
Found at i:412525 original size:56 final size:51
Alignment explanation
Indices: 412330--412556 Score: 271
Period size: 50 Copynumber: 4.4 Consensus size: 51
412320 TGTCATATCT
* ** * * * *
412330 CAGATATGGTCTTACATGGGAGTTCTCATATCA-ATGCCCATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCAGGTGCCAACGCCATGTCC
* *
412380 CAGTCATGGTCTTACATGGGACCTCCCATCTC-GGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCAGGTGCCAACGCCATGTCC
*
412430 CAGACATGGTCTTACATAGGACCTCTCATCT-AGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCAGGTGCCAACGCCATGTCC
* * *
412480 CTGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-GGTGCCAACGCCATGTCC
412536 CAGACATGGTCTTACATGGGA
1 CAGACATGGTCTTACATGGGA
412557 TCTCATTCCC
Statistics
Matches: 152, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
50 111 0.73
53 4 0.03
55 1 0.01
56 36 0.24
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (51 bp):
CAGACATGGTCTTACATGGGACCTCTCATCTCAGGTGCCAACGCCATGTCC
Found at i:413955 original size:82 final size:82
Alignment explanation
Indices: 413814--413980 Score: 282
Period size: 82 Copynumber: 2.0 Consensus size: 82
413804 GGGTTCCAGG
413814 TTTGATTATTTCAGAGAAGGATCAGCAATTTACTTTGAGATTTTGGAAGAGTTTACAAGAAGCTT
1 TTTGATTATTTCAGAGAAGGATCAGCAATTTACTTTGAGATTTTGGAAGAGTTTACAAGAAGCTT
413879 TGGGATCGAAGCTTAGT
66 TGGGATCGAAGCTTAGT
* * * *
413896 TTTGATTATTTCAGATAAGGATTA-CTGATTTACTTTGAGATTTTGGAAGAGTTTGCAAGAAGCT
1 TTTGATTATTTCAGAGAAGGATCAGC-AATTTACTTTGAGATTTTGGAAGAGTTTACAAGAAGCT
413960 TTGGGATCGAAGCTTAGT
65 TTGGGATCGAAGCTTAGT
413978 TTT
1 TTT
413981 AGTACAACTT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
81 1 0.01
82 79 0.99
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (82 bp):
TTTGATTATTTCAGAGAAGGATCAGCAATTTACTTTGAGATTTTGGAAGAGTTTACAAGAAGCTT
TGGGATCGAAGCTTAGT
Found at i:415034 original size:22 final size:22
Alignment explanation
Indices: 415008--415052 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
414998 AGATCAACAC
415008 AAATAT-AATCACATACATATCA
1 AAATATAAATCACAT-CATATCA
*
415030 AAATATAAATCTCATCATATCA
1 AAATATAAATCACATCATATCA
415052 A
1 A
415053 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATATAAATCACATCATATCA
Found at i:424287 original size:26 final size:26
Alignment explanation
Indices: 424258--424313 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
424248 CAGTAGTTCC
*
424258 AGAATATCATAACATATATCAGTTTA
1 AGAATATCATAACATATATCAATTTA
* * *
424284 AGAATATCATAGCATGTATCAATTTT
1 AGAATATCATAACATATATCAATTTA
424310 AGAA
1 AGAA
424314 CACTTACAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (26 bp):
AGAATATCATAACATATATCAATTTA
Found at i:438034 original size:138 final size:138
Alignment explanation
Indices: 437868--438151 Score: 523
Period size: 138 Copynumber: 2.1 Consensus size: 138
437858 GAGAACATAG
* **
437868 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTCTT
1 ATATAATTAATATATAAAGATGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTCTT
437933 AATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
437998 TGGAAAGA
131 TGGAAAGA
* *
438006 ATATAATTAATATATAAAGATGATTCATACATAGTATTAATTGTATATATTTTATCGAATTTCTT
1 ATATAATTAATATATAAAGATGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTCTT
438071 AATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
66 AATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
438136 TGGAAAGA
131 TGGAAAGA
438144 ATATAATT
1 ATATAATT
438152 CATTTTTCTA
Statistics
Matches: 141, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 141 1.00
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.41
Consensus pattern (138 bp):
ATATAATTAATATATAAAGATGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTCTT
AATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTT
TGGAAAGA
Found at i:438362 original size:213 final size:213
Alignment explanation
Indices: 437989--438376 Score: 715
Period size: 213 Copynumber: 1.8 Consensus size: 213
437979 ATGGAAATTA
437989 ATATTCTTTTGGAAAGAATATAATTAATATATAAAGATGATTCATACATAGTATTAATTGTATAT
1 ATATTCTTTTGGAAAGAATATAATTAATATATAAAGATGATTCATACATAGTATTAATTGTATAT
* * *
438054 ATTTTATCGAATTTCTTAATATAAATAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACAT
66 ATTTTATCGAATTTATTAATATAAACAGTTATATCAATTAATTTCGGTCAAAATATAAAAGACAT
*
438119 GGAAATTAATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATTTGCTTTCTCTAT
131 GGAAATTAATATTCTTTTGGAAAAAATATAATTCATTTTTCTAACTTTTCATTTGCTTTCTCTAT
438184 TAATAAGAGAATGATCCT
196 TAATAAGAGAATGATCCT
438202 ATATTCTTTTGGAAAGAATATAATTAATATATAAAGATGATTCATACATAGTATTAATTGTATAT
1 ATATTCTTTTGGAAAGAATATAATTAATATATAAAGATGATTCATACATAGTATTAATTGTATAT
*
438267 ATTTTA-CTGAATTTATTAATATAAACAGTTATATCAATTAATTTCGGTCAAAATATAAAATACA
66 ATTTTATC-GAATTTATTAATATAAACAGTTATATCAATTAATTTCGGTCAAAATATAAAAGACA
438331 TGGAAATTAATATTCTTTTGGAAAAAATATAATTCATTTTTCTAAC
130 TGGAAATTAATATTCTTTTGGAAAAAATATAATTCATTTTTCTAAC
438377 GTTCCATTAA
Statistics
Matches: 169, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
212 1 0.01
213 168 0.99
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.42
Consensus pattern (213 bp):
ATATTCTTTTGGAAAGAATATAATTAATATATAAAGATGATTCATACATAGTATTAATTGTATAT
ATTTTATCGAATTTATTAATATAAACAGTTATATCAATTAATTTCGGTCAAAATATAAAAGACAT
GGAAATTAATATTCTTTTGGAAAAAATATAATTCATTTTTCTAACTTTTCATTTGCTTTCTCTAT
TAATAAGAGAATGATCCT
Found at i:438463 original size:75 final size:75
Alignment explanation
Indices: 438382--438562 Score: 281
Period size: 75 Copynumber: 2.4 Consensus size: 75
438372 CTAACGTTCC
*
438382 ATTAATAAGGGAATAATCCTATATTCTTTTGGAAAGTATACAATTCATTTTTCTAACTTTTCATT
1 ATTAATAAGGGAATAATCCTATATTCTTTTGGAAAGAATACAATTCATTTTTCTAACTTTTCATT
* *
438447 TGCTTTCTCT
66 TGCCTTCCCT
* * *
438457 ATTAATAAGAGAATGATCCTATATTCTTTTGGAAAGAATATAATTCATTTTTCTAACTTTTCATT
1 ATTAATAAGGGAATAATCCTATATTCTTTTGGAAAGAATACAATTCATTTTTCTAACTTTTCATT
438522 TGCCTTCCCT
66 TGCCTTCCCT
* *
438532 ATTAATTAGGGAATAATCCTTATTTTCTTTT
1 ATTAATAAGGGAATAATCC-TATATTCTTTT
438563 TTAATAAGTG
Statistics
Matches: 95, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 85 0.89
76 10 0.11
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.46
Consensus pattern (75 bp):
ATTAATAAGGGAATAATCCTATATTCTTTTGGAAAGAATACAATTCATTTTTCTAACTTTTCATT
TGCCTTCCCT
Found at i:441701 original size:21 final size:21
Alignment explanation
Indices: 441623--441701 Score: 52
Period size: 21 Copynumber: 3.6 Consensus size: 21
441613 ACACTATGGA
*
441623 ACTATACTGGAAATGAATAAG
1 ACTATACTTGAAATGAATAAG
* * *
441644 ACCATAGTTGAAA-GACACTATGAC
1 ACTATACTTGAAATGA-A-TA--AG
**
441668 ACTATACCAGAAATGAATAAG
1 ACTATACTTGAAATGAATAAG
*
441689 ACTATAGTTGAAA
1 ACTATACTTGAAA
441702 GACACTATGA
Statistics
Matches: 41, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
20 2 0.05
21 22 0.54
22 2 0.05
23 2 0.05
24 11 0.27
25 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (21 bp):
ACTATACTTGAAATGAATAAG
Found at i:441711 original size:45 final size:45
Alignment explanation
Indices: 441591--441713 Score: 194
Period size: 45 Copynumber: 2.7 Consensus size: 45
441581 GCTTGAAAAT
* **
441591 TGAATAAGACCATAGTTAAAAGACACTATGGA-ACTATACTGGAAA
1 TGAATAAGACCATAGTTGAAAGACACTAT-GACACTATACCAGAAA
441636 TGAATAAGACCATAGTTGAAAGACACTATGACACTATACCAGAAA
1 TGAATAAGACCATAGTTGAAAGACACTATGACACTATACCAGAAA
*
441681 TGAATAAGACTATAGTTGAAAGACACTATGACA
1 TGAATAAGACCATAGTTGAAAGACACTATGACA
441714 TGATGTCAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
44 2 0.03
45 71 0.97
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (45 bp):
TGAATAAGACCATAGTTGAAAGACACTATGACACTATACCAGAAA
Found at i:441724 original size:45 final size:43
Alignment explanation
Indices: 441591--441734 Score: 166
Period size: 45 Copynumber: 3.2 Consensus size: 43
441581 GCTTGAAAAT
*
441591 TGAATAAGACCATAGTTAAAAGACACTATGGAACTATACTG--GAAA
1 TGAATAAGACCATAGTTGAAAGACACTAT-G-AC-ATA-TGCAGAAA
*
441636 TGAATAAGACCATAGTTGAAAGACACTATGACACTATACCAGAAA
1 TGAATAAGACCATAGTTGAAAGACACTATGACA-TAT-GCAGAAA
*
441681 TGAATAAGACTATAGTTGAAAGACACTATGACATGATGTCAGAAA
1 TGAATAAGACCATAGTTGAAAGACACTATGACAT-ATG-CAGAAA
*
441726 TAAATAAGA
1 TGAATAAGA
441735 TCGTGACTGA
Statistics
Matches: 88, Mismatches: 5, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
42 2 0.02
43 4 0.05
44 2 0.02
45 80 0.91
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.22
Consensus pattern (43 bp):
TGAATAAGACCATAGTTGAAAGACACTATGACATATGCAGAAA
Found at i:445880 original size:140 final size:140
Alignment explanation
Indices: 445628--445904 Score: 432
Period size: 140 Copynumber: 2.0 Consensus size: 140
445618 TAGAAAAAGG
* *
445628 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCAATTATATTTTGACCGAAATTAATTAA
1 AATTATACTCTTTCCAAAAGAATATTAATTTCCATGTCAATTATATTTTGAACGAAATTAATTAA
* *
445693 AATAATTATTTTAATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAGATT
66 AACAATTATTTTAATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
445758 CATATATATT
131 CATATATATT
* * * *
445768 AATTATACTCTTTCCAAAATAATATTAATTTTCATGT-ATTTTATATTTTGAACGAAATTAGTTA
1 AATTATACTCTTTCCAAAAGAATATTAATTTCCATGTCA-ATTATATTTTGAACGAAATTAATTA
* *
445832 ATACAATT-GTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAA
65 AAACAATTATTTTA-ATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAA
445896 TTCATATAT
129 TTCATATAT
445905 TAAATATATC
Statistics
Matches: 125, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
139 5 0.04
140 120 0.96
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (140 bp):
AATTATACTCTTTCCAAAAGAATATTAATTTCCATGTCAATTATATTTTGAACGAAATTAATTAA
AACAATTATTTTAATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATATT
Found at i:452221 original size:150 final size:150
Alignment explanation
Indices: 451950--452252 Score: 570
Period size: 150 Copynumber: 2.0 Consensus size: 150
451940 CGATCGACAA
*
451950 CCAAGAATCTATGTACGAGGAACGAATTAGGTTCAAATAGGGTTGAAAATGTACCTTATTTACTG
1 CCAAGAATCTATGTACGAGGAACGAATTAGGTTCAAATAGGGTTGAAAATGTACCTTATTTACTA
*
452015 GAAATGTTGAAAGGATGTTGCTAATTCAATGTCCATTCCAAGCTGCAACGAAAACATCTCGGCCT
66 GAAATGTTGAAAGGATGTTGCTAATTCAATGTCCATTCCAAGCTGCAACGAAAACATCTCGACCT
452080 CTACATAGTCCAACGAACAG
131 CTACATAGTCCAACGAACAG
* *
452100 CCAAGGATCTATGTACGAGGAATGAATTAGGTTCAAATAGGGTTGAAAATGTACCTTATTTACTA
1 CCAAGAATCTATGTACGAGGAACGAATTAGGTTCAAATAGGGTTGAAAATGTACCTTATTTACTA
452165 GAAATGTTGAAAGGATGTTGCTAATTCAATGTCCATTCCAAGCTGCAACGAAAACATCTCGACCT
66 GAAATGTTGAAAGGATGTTGCTAATTCAATGTCCATTCCAAGCTGCAACGAAAACATCTCGACCT
452230 CTACATAGTCCAACGAACAG
131 CTACATAGTCCAACGAACAG
452250 CCA
1 CCA
452253 CTTTCTCTTG
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 149 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (150 bp):
CCAAGAATCTATGTACGAGGAACGAATTAGGTTCAAATAGGGTTGAAAATGTACCTTATTTACTA
GAAATGTTGAAAGGATGTTGCTAATTCAATGTCCATTCCAAGCTGCAACGAAAACATCTCGACCT
CTACATAGTCCAACGAACAG
Found at i:452532 original size:76 final size:76
Alignment explanation
Indices: 452388--452557 Score: 234
Period size: 76 Copynumber: 2.2 Consensus size: 76
452378 GGAAAACCAA
* * *
452388 GATTATTTCCTTATTAATAGAGAAGGCAAATGGAAAATTAGAAAAAAGAATTATATTATTTCCAA
1 GATTATTCCCTTATTAATAGAGAAGACAAATAGAAAATTAGAAAAAAGAATTATATTATTTCCAA
452453 AAAGAATATAG
66 AAAGAATATAG
* * * * **
452464 GATTATTCCCTTCTTAATAGAGAAGACAATTAGAAAGTTAGAAAAAAATAATTATATTATTT-GT
1 GATTATTCCCTTATTAATAGAGAAGACAAATAGAAAATTAG-AAAAAAGAATTATATTATTTCCA
452528 AAAAGAATATAG
65 AAAAGAATATAG
*
452540 GATTATTCTCTTATTAAT
1 GATTATTCCCTTATTAAT
452558 GAAAAGTTAG
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
76 63 0.77
77 19 0.23
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (76 bp):
GATTATTCCCTTATTAATAGAGAAGACAAATAGAAAATTAGAAAAAAGAATTATATTATTTCCAA
AAAGAATATAG
Found at i:452726 original size:138 final size:138
Alignment explanation
Indices: 452575--452997 Score: 695
Period size: 138 Copynumber: 3.1 Consensus size: 138
452565 TAGAAAAATG
* ** * *
452575 AATTATATCCTTTCCAAAAGAATATTTTTTTTTATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
452640 TATAACTGTTTATATTAATAAATTCGGTAAAACATATACAATTAATATTTTGTATGAATCAATTT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
452705 CATATATT
131 CATATATT
* *
452713 AATTATATTCTTTCTAAAAGAATATTAATTTTCATGTCTTTTATATTTTGATCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
452778 TATAA-TTTTGTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
66 TATAACTGTT-TATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
452842 TCATATATT
130 TCATATATT
*
452851 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
** *
452916 TATAACTGTTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAATTAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
452981 CATATATT
131 CATATATT
*
452989 AAGTATATT
1 AATTATATT
452998 TGTGTTCTCT
Statistics
Matches: 265, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
137 3 0.01
138 259 0.98
139 3 0.01
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
CATATATT
Found at i:464073 original size:17 final size:17
Alignment explanation
Indices: 464021--464073 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 17
464011 TATGGAAACA
* *
464021 TAATCTTCGAGGATATG
1 TAATCTTAGAAGATATG
*
464038 CAATCTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
464057 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
464074 ATTTTGTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 15 0.50
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:464073 original size:22 final size:23
Alignment explanation
Indices: 464045--464089 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
464035 ATGCAATCTT
464045 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
464067 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
464090 GATTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:464099 original size:22 final size:23
Alignment explanation
Indices: 464055--464099 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
464045 AGATATGATA
*
464055 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
464078 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
464100 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:471834 original size:44 final size:44
Alignment explanation
Indices: 471744--472286 Score: 249
Period size: 44 Copynumber: 12.6 Consensus size: 44
471734 NNNNNNNNNN
* ** * *
471744 TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGACA-ATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ATAGATCTTA
* *
471788 TCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCATAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCTTA
* * ***
471832 TCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC-TAG-TCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCTTA
* * * *
471872 TCTCCCTGAAGTTGCAATGGAGCAAACTAAGCAAGCA-AG-TCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCATAGATCTTA
* *
471916 TC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-A-ATCTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT--CATAGATCTTA
* * * *
471961 TCTCCCTGAAGTTGCAGTGAAGCAGGTTAAAACCGATA-ATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-ATAGATCTTA
** * ** * *
472005 TCTTTCTAAAGTTGCAGTGGAGTGGATTAAAA-CCTTGAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAG-ATCTTA
* * ***
472049 TCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCA-AG-TCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCTTA
* * *
472089 TC-CTCCTGAAGTTGCAGT-AAGGCAGACTGAAGATGGCA-A-ATCTTA
1 TCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT--CATAGATCTTA
* * ** *
472134 TTTCCCTGAAGTTGCAATGGAGCA-AGTTAAAGCCGATA-ATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAATC-ATAGATCTTA
* * * ** * *
472178 TCTTCTTGAAGTTACAGTGGAGTGGATTAAAACCTTAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCTTA
* * * ***
472222 TCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCATC-TAG-TCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCTTA
472262 TCTCCCTGAAGTTGCAGTGGAGCAG
1 TCTCCCTGAAGTTGCAGTGGAGCAG
472287 GCTANNNNNN
Statistics
Matches: 371, Mismatches: 94, Indels: 71
0.69 0.18 0.13
Matches are distributed among these distances:
39 1 0.00
40 60 0.16
41 23 0.06
42 14 0.04
43 30 0.08
44 183 0.49
45 56 0.15
46 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCATAGATCTTA
Found at i:472086 original size:173 final size:173
Alignment explanation
Indices: 471907--472280 Score: 610
Period size: 173 Copynumber: 2.2 Consensus size: 173
471897 ACTAAGCAAG
471907 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
* * *
471972 TTGCAGTGAAGCAGGTTAAAACCGATAATCCTATCTT-TCTAAAGTTGCAGTGGAGTGGATTAAA
66 TTGCAATGAAGCAAGTTAAAACCGATAATCCTATCTTCT-TAAAGTTACAGTGGAGTGGATTAAA
*
472036 ACCTT-GAATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCAT
130 ACCTTAG-ATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCAT
* *
472080 CAAGTCTTATCCTCCTGAAGTTGCAGTAAGGCAGACTGAAGATGGCAAATCTTATTTCCCTGAAG
1 CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
* * *
472145 TTGCAATGGAGCAAGTTAAAGCCGATAATCCTATCTTCTTGAAGTTACAGTGGAGTGGATTAAAA
66 TTGCAATGAAGCAAGTTAAAACCGATAATCCTATCTTCTTAAAGTTACAGTGGAGTGGATTAAAA
472210 CCTTAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCAT
131 CCTTAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCAT
*
472253 CTAGTCTTAT-CTCCCTGAAGTTGCAGTG
1 CAAGTCTTATCCT-CCTGAAGTTGCAGTG
472281 GAGCAGGCTA
Statistics
Matches: 187, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
172 2 0.01
173 183 0.98
174 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (173 bp):
CAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
TTGCAATGAAGCAAGTTAAAACCGATAATCCTATCTTCTTAAAGTTACAGTGGAGTGGATTAAAA
CCTTAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCAT
Found at i:472190 original size:217 final size:217
Alignment explanation
Indices: 471744--472238 Score: 562
Period size: 217 Copynumber: 2.3 Consensus size: 217
471734 NNNNNNNNNN
* * * * *
471744 TCTCCCTGAGGTTGCAGTGGAGCAGATTAAAGCCGACAATCCTATCTCCCTAAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAACCGATAATCCTATCTCTCTAAAGTTGCAGTGGA
* *
471809 GCGGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATC
66 GCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATC
* * *
471874 TCCCTGAAGTTGCAATGGAGCAAACTAAGCAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGC
131 TCCCTGAAGTTGCAATAGAGCAAACTAAGCAAGCAAATCTTATCCTCCTGAAGTTGCAATGAGGC
* *
471939 AGACTGAAGATGGCAAATCTTA
196 AGACTGAAGATGCCAAATCCTA
* *
471961 TCTCCCTGAAGTTGCAGTGAAGCAGGTTAAAACCGATAATCCTATCTTTCTAAAGTTGCAGTGGA
1 TCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAACCGATAATCCTATCTCTCTAAAGTTGCAGTGGA
* *
472026 GTGGATTAAAACC-TTGAATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTAT
66 GCGGATTAAAACCATAG-ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTAT
* * * *
472090 C-CTCCTGAAGTTGCAGTA-AGGCAGACTGAAG-ATGGCAAATCTTAT-TTCCCTGAAGTTGCAA
130 CTC-CCTGAAGTTGCAATAGA-GCAAACT-AAGCA-AGCAAATCTTATCCT-CCTGAAGTTGCAA
* *
472151 TG-GAGCA-AGTTAA-A-GCCGATAATCCTA
190 TGAG-GCAGACTGAAGATGCC-A-AATCCTA
* * * * * *
472178 TCTTCTTGAAGTTACAGTGGAG-TGGATTAAAACC-TTAGATCTTATCTCTCTAAAGTTGCAG
1 TCTCCCTGAAGTTGCAGTGGAGCAGG-TTAAAACCGATA-ATCCTATCTCTCTAAAGTTGCAG
472239 AGAGCAGATC
Statistics
Matches: 237, Mismatches: 30, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
215 2 0.01
216 10 0.04
217 195 0.82
218 30 0.13
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (217 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAACCGATAATCCTATCTCTCTAAAGTTGCAGTGGA
GCGGATTAAAACCATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAGTCTTATC
TCCCTGAAGTTGCAATAGAGCAAACTAAGCAAGCAAATCTTATCCTCCTGAAGTTGCAATGAGGC
AGACTGAAGATGCCAAATCCTA
Found at i:472280 original size:84 final size:84
Alignment explanation
Indices: 472013--472283 Score: 219
Period size: 84 Copynumber: 3.2 Consensus size: 84
472003 TATCTTTCTA
472013 AAGTTGCAGTGGAGTGGATTAAAACCTT-GAATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
1 AAGTTGCAGTGGAGTGGATTAAAACCTTAG-ATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCG
*
472077 CATCAAGTCTTATC-CTCCTG
65 CATCTAGTCTTATCTC-CCTG
* * * **** * * *
472097 AAGTTGCAGT-AAG-GCAGACTGAAGATGGCAAATCTTATTTCCCTGAAGTTGCA-ATGGAGCAA
1 AAGTTGCAGTGGAGTG--GA-TTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGA--GAGC-A
** *** * * * *
472159 GTTAAAGCCGATAATCCTATCTTCTTG
60 G--ATCGCATCTAGTCTTATCTCCCTG
* *
472186 AAGTTACAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGC
1 AAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGC
472251 ATCTAGTCTTATCTCCCTG
66 ATCTAGTCTTATCTCCCTG
472270 AAGTTGCAGTGGAG
1 AAGTTGCAGTGGAG
472284 CAGGCTANNN
Statistics
Matches: 132, Mismatches: 42, Indels: 26
0.66 0.21 0.13
Matches are distributed among these distances:
82 1 0.01
83 2 0.02
84 41 0.31
85 24 0.18
86 6 0.05
87 6 0.05
88 24 0.18
89 25 0.19
90 2 0.02
91 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (84 bp):
AAGTTGCAGTGGAGTGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGC
ATCTAGTCTTATCTCCCTG
Found at i:472909 original size:19 final size:19
Alignment explanation
Indices: 472885--472927 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
472875 AATCTTCGAG
472885 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
472904 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
472923 GATAT
1 GATAT
472928 ATNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:483985 original size:28 final size:28
Alignment explanation
Indices: 483945--484001 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
483935 GTAAGATAGT
*
483945 TTACATGAACATAAAGCTATTGAATTCA
1 TTACAAGAACATAAAGCTATTGAATTCA
483973 TTACAAGAACATAAAGCTATTGAATTCA
1 TTACAAGAACATAAAGCTATTGAATTCA
484001 T
1 T
484002 ACATTCCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.32
Consensus pattern (28 bp):
TTACAAGAACATAAAGCTATTGAATTCA
Found at i:492271 original size:16 final size:16
Alignment explanation
Indices: 492252--492285 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
492242 ATATCCACGA
492252 ATCCAGCCATCCATGT
1 ATCCAGCCATCCATGT
* *
492268 ATCCAGGCATTCATGT
1 ATCCAGCCATCCATGT
492284 AT
1 AT
492286 GCTCCCATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (16 bp):
ATCCAGCCATCCATGT
Found at i:495753 original size:13 final size:12
Alignment explanation
Indices: 495735--495792 Score: 64
Period size: 12 Copynumber: 4.6 Consensus size: 12
495725 ATATTTCTTT
495735 TTTTTTTCACGAA
1 TTTTTTT-ACGAA
495748 -TTTTTTACGAA
1 TTTTTTTACGAA
495759 TTTTTTTTACGAAA
1 -TTTTTTTACG-AA
495773 TATTTTTTACGAA
1 T-TTTTTTACGAA
*
495786 CTTTTTT
1 TTTTTTT
495793 CAGCTAATAC
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
11 5 0.12
12 12 0.30
13 12 0.30
14 11 0.28
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (12 bp):
TTTTTTTACGAA
Found at i:495753 original size:14 final size:13
Alignment explanation
Indices: 495734--495792 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
495724 TATATTTCTT
495734 TTTTTTTTCACGAA
1 TTTTTTTT-ACGAA
495748 --TTTTTTACGAA
1 TTTTTTTTACGAA
495759 TTTTTTTTACGAAA
1 TTTTTTTTACG-AA
*
495773 TATTTTTTACGAA
1 TTTTTTTTACGAA
*
495786 CTTTTTT
1 TTTTTTT
495793 CAGCTAATAC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
11 5 0.13
12 6 0.15
13 16 0.41
14 12 0.31
ACGTcount: A:0.24, C:0.10, G:0.07, T:0.59
Consensus pattern (13 bp):
TTTTTTTTACGAA
Found at i:495801 original size:27 final size:27
Alignment explanation
Indices: 495736--495794 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
495726 TATTTCTTTT
*
495736 TTTTTTCACG--A-ATTTTTTACGAAT
1 TTTTTTCACGAAATATTTTTTACGAAC
*
495760 TTTTTTTACGAAATATTTTTTACGAAC
1 TTTTTTCACGAAATATTTTTTACGAAC
495787 TTTTTTCA
1 TTTTTTCA
495795 GCTAATACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 9 0.31
26 1 0.03
27 19 0.66
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (27 bp):
TTTTTTCACGAAATATTTTTTACGAAC
Found at i:503043 original size:27 final size:28
Alignment explanation
Indices: 503013--503081 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
503003 CCTTATAGAG
* *
503013 GTATTTCGATTATTTTACCCTTCG-GGA
1 GTATTTCGATCATTTTACCCATCGAGGA
*
503040 GTATTTCGGTCATTTTACCCATCGAGGA
1 GTATTTCGATCATTTTACCCATCGAGGA
503068 -TATTTCGATCATTT
1 GTATTTCGATCATTT
503082 AACAACCTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 34 0.92
28 3 0.08
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.43
Consensus pattern (28 bp):
GTATTTCGATCATTTTACCCATCGAGGA
Found at i:510291 original size:24 final size:24
Alignment explanation
Indices: 510256--510317 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
510246 AAGGGGTTGT
* *
510256 TACATCAATTAAAAGAGAGCATTA
1 TACATCATTTAAAAGAAAGCATTA
*
510280 TACATCATTTAAAGGAAAGCATTA
1 TACATCATTTAAAAGAAAGCATTA
*
510304 TACATCCTTTAAAA
1 TACATCATTTAAAA
510318 TTCGGCAGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.29
Consensus pattern (24 bp):
TACATCATTTAAAAGAAAGCATTA
Found at i:512421 original size:12 final size:12
Alignment explanation
Indices: 512406--512435 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
512396 AATAATTAAA
512406 TAAATTAGAAAT
1 TAAATTAGAAAT
*
512418 TAAATTGGAAAT
1 TAAATTAGAAAT
512430 TAAATT
1 TAAATT
512436 CTGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:512774 original size:16 final size:15
Alignment explanation
Indices: 512743--512783 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
512733 CCCAAATCAG
*
512743 AAATAAATAAACAAA
1 AAATAAAAAAACAAA
*
512758 AATATAAAAAAATAAA
1 AA-ATAAAAAAACAAA
512774 AAATAAAAAA
1 AAATAAAAAA
512784 TAGTCCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (15 bp):
AAATAAAAAAACAAA
Found at i:512781 original size:6 final size:7
Alignment explanation
Indices: 512743--512785 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
512733 CCCAAATCAG
512743 AAATAAA
1 AAATAAA
*
512750 TAAACAAA
1 -AAATAAA
512758 AATATAAAA
1 AA-AT-AAA
512767 AAATAAA
1 AAATAAA
512774 AAATAAA
1 AAATAAA
512781 AAATA
1 AAATA
512786 GTCCTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 17 0.55
8 9 0.29
9 5 0.16
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (7 bp):
AAATAAA
Found at i:526716 original size:87 final size:88
Alignment explanation
Indices: 526607--526879 Score: 279
Period size: 87 Copynumber: 3.1 Consensus size: 88
526597 TAAAATAAAG
* * *
526607 GATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCCCCCCAAGATTACA
1 GATCTTATCTCTCTGAGAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACA
*
526671 GTGGAATAGACTGAAGAATTACA
66 GTGGAATAGACTAAAGAATTACA
** * * * * * * *
526694 GATCTTATCTCTCTGAGA-TTACAGCGGAGCAGATTGAAGCCGGTAATCCTATTTCCCTAAGATT
1 GATCTTATCTCTCTGAGAGTTACAGTAGAGTAGATCGCATCAGG---TCTTATCTCCCTAAGATT
** * *
526758 ACAGTGGAACGGA-TTAA-AA-TAAA
63 ACAGTGGAATAGACTAAAGAATTACA
**
526781 GGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTAC
1 -GATCTTATCTCTCTGAGAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTAC
*
526845 AGTGGAATAGACCAAAGAATTACA
65 AGTGGAATAGACTAAAGAATTACA
*
526869 GGTCTTATCTC
1 GATCTTATCTC
526880 CTTAAGATTA
Statistics
Matches: 144, Mismatches: 33, Indels: 18
0.74 0.17 0.09
Matches are distributed among these distances:
85 25 0.17
86 2 0.01
87 48 0.33
88 41 0.28
89 3 0.02
90 25 0.17
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (88 bp):
GATCTTATCTCTCTGAGAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGATTACA
GTGGAATAGACTAAAGAATTACA
Found at i:526717 original size:46 final size:46
Alignment explanation
Indices: 526663--526911 Score: 135
Period size: 46 Copynumber: 5.6 Consensus size: 46
526653 TATCCCCCCA
*
526663 AGATTACAGTGGAATAGACTGAAGAATTACAGATCTTATCTCTCTG
1 AGATTACAGTGGAATAGACTGAAGAATTACAGATCTTATCTCCCTG
* ** * *** * * *
526709 AGATTACAGCGGAGCAGATTGAAGCCGGT--A-ATCCTATTTCCCTA
1 AGATTACAGTGGAATAGACTGAAG-AATTACAGATCTTATCTCCCTG
** * * *
526753 AGATTACAGTGGAACGGA-TTAA-AA-TAAAGGATCTTATCTCTCTG
1 AGATTACAGTGGAATAGACTGAAGAATTACA-GATCTTATCTCCCTG
* * * * *
526797 A-AGTTACAGTAGAGTAGA-T--CGCA-T-CAGGTCTTATCTCCCTG
1 AGA-TTACAGTGGAATAGACTGAAGAATTACAGATCTTATCTCCCTG
* ** * * *
526838 GGATTACAGTGGAATAGACCAAAGAATTACAGGTCTTATCTCCTTA
1 AGATTACAGTGGAATAGACTGAAGAATTACAGATCTTATCTCCCTG
*
526884 AGATTACAGTGGAATAGACCGAAGAATT
1 AGATTACAGTGGAATAGACTGAAGAATT
526912 CCTAATCGGA
Statistics
Matches: 150, Mismatches: 40, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
40 1 0.01
41 26 0.17
42 3 0.02
43 6 0.04
44 50 0.33
45 2 0.01
46 61 0.41
47 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (46 bp):
AGATTACAGTGGAATAGACTGAAGAATTACAGATCTTATCTCCCTG
Found at i:526788 original size:175 final size:175
Alignment explanation
Indices: 526497--526892 Score: 650
Period size: 175 Copynumber: 2.3 Consensus size: 175
526487 TAGTCAGCAA
* *
526497 TGGAATAGACCGAAGAATTACAGATCTTTTCTCCTTGAGATTACAGGGGAGCAGATTGAAGCCAG
1 TGGAATAGACCGAAGAATTACAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCCAG
* *
526562 TAATCCTATTTCCCTGATATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGTT
66 TAATCCTATTTCCCTAAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGTT
526627 ACAGTAGAGTAGATCGCATCAGGTCTTATCCCCCCAAGATTACAG
131 ACAGTAGAGTAGATCGCATCAGGTCTTATCCCCCCAAGATTACAG
* *
526672 TGGAATAGACTGAAGAATTACAGATCTTATCT-CTCTGAGATTACAGCGGAGCAGATTGAAGCCG
1 TGGAATAGACCGAAGAATTACAGATCTTATCTCCT-TGAGATTACAGCGGAGCAGATTGAAGCCA
*
526736 GTAATCCTATTTCCCTAAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
65 GTAATCCTATTTCCCTAAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGT
* ***
526801 TACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAG
130 TACAGTAGAGTAGATCGCATCAGGTCTTATCCCCCCAAGATTACAG
* * *
526847 TGGAATAGACCAAAGAATTACAGGTCTTATCTCCTTAAGATTACAG
1 TGGAATAGACCGAAGAATTACAGATCTTATCTCCTTGAGATTACAG
526893 TGGAATAGAC
Statistics
Matches: 204, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
174 2 0.01
175 200 0.98
176 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
TGGAATAGACCGAAGAATTACAGATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCCAG
TAATCCTATTTCCCTAAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTAAAGTT
ACAGTAGAGTAGATCGCATCAGGTCTTATCCCCCCAAGATTACAG
Found at i:527002 original size:44 final size:44
Alignment explanation
Indices: 526954--527051 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
526944 CTGTTACGAT
* *
526954 GGAGCAGGTTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGC
1 GGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGC
* * * *
526998 GGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGATATTACAGT
1 GGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGC
527042 GGAGCAGATT
1 GGAGCAGATT
527052 AAAAAAAAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
GGAGCAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGC
Found at i:527258 original size:44 final size:44
Alignment explanation
Indices: 527029--527269 Score: 129
Period size: 44 Copynumber: 5.5 Consensus size: 44
527019 TCCTATTTCC
* * ** *
527029 CTGATATTACAGTGGAGCAGATTAAAAAAAAGGATCTTATCTCT
1 CTGAGATTACAGTAGAATAGATTAAAATAAAGGATCTTATCTCT
* * * * * *
527073 CTGA-AGTTACAGTAGAGTAGA-TCACAT-CAGG-TCTTATCGCC
1 CTGAGA-TTACAGTAGAATAGATTAAAATAAAGGATCTTATCTCT
* * ** *
527114 CTGAGATTACGGTGGAATAGACCGAAGAATTACA-GATCTTATCTCT
1 CTGAGATTACAGTAGAATAGA-TTAA-AA-TAAAGGATCTTATCTCT
* * * * * * * *
527160 CTGAGATTACAGCAGAACAGATTGAAGT--CGGTAATCCTATTTCC
1 CTGAGATTACAGTAGAATAGATTAAAATAAAGG--ATCTTATCTCT
*
527204 CTGAGATTACAGTGGAATAGATTAAAATAAAGGATCTTATCTCT
1 CTGAGATTACAGTAGAATAGATTAAAATAAAGGATCTTATCTCT
*
527248 CTGA-AGTTACAGTAGAGTAGAT
1 CTGAGA-TTACAGTAGAATAGAT
527270 CGCATCAGGT
Statistics
Matches: 144, Mismatches: 39, Indels: 28
0.68 0.18 0.13
Matches are distributed among these distances:
41 24 0.17
42 5 0.03
43 7 0.05
44 76 0.53
45 3 0.02
46 29 0.20
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
CTGAGATTACAGTAGAATAGATTAAAATAAAGGATCTTATCTCT
Found at i:527265 original size:175 final size:175
Alignment explanation
Indices: 526974--527319 Score: 575
Period size: 175 Copynumber: 2.0 Consensus size: 175
526964 GAAGCCAGAA
* * *
526974 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGATATTAC
1 ATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
*
527039 AGTGGAGCAGATTAAAAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
66 AGTGGAACAGATTAAAAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
*
527104 TCTTATCGCCCTGAGATTACGGTGGAATAGACCGAAGAATTACAG
131 TCTTATCGCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
* * *
527149 ATCTTATCTCTCTGAGATTACAGCAGAACAGATTGAAGTCGGTAATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
* * *
527214 AGTGGAATAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 AGTGGAACAGATTAAAAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
* *
527279 TGTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATT
131 TCTTATCGCCCTGAGATTACAGTGGAATAGACCGAAGAATT
527320 CCTAATCGAA
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 158 1.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCAGAACAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTAC
AGTGGAACAGATTAAAAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGG
TCTTATCGCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
Found at i:527307 original size:85 final size:85
Alignment explanation
Indices: 527026--527309 Score: 313
Period size: 85 Copynumber: 3.3 Consensus size: 85
527016 TAATCCTATT
* ** *
527026 TCCCTGATATTACAGTGGAGCAGATTAAAAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
1 TCCCTGAGATTACAGTGGAATAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
* *
527091 AGATCACATCAGGTCTTATC
66 AGATCGCATCAGGTATTATC
* * ** * *
527111 GCCCTGAGATTACGGTGGAATAGACCGAAGAATTACA-GATCTTATCTCTCTG-AGATTACAGCA
1 TCCCTGAGATTACAGTGGAATAGA-TTAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTACAGTA
** * * *
527174 GAACAGATTGAAGTC-GGTAATCCTATT
62 GAGTAGATCGCA-TCAGGT-AT--TATC
527201 TCCCTGAGATTACAGTGGAATAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
1 TCCCTGAGATTACAGTGGAATAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
*
527266 AGATCGCATCAGGTGTTATC
66 AGATCGCATCAGGTATTATC
527286 TCCCTGAGATTACAGTGGAATAGA
1 TCCCTGAGATTACAGTGGAATAGA
527310 CCGAAGAATT
Statistics
Matches: 159, Mismatches: 29, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
85 46 0.29
86 4 0.03
87 40 0.25
88 40 0.25
89 4 0.03
90 25 0.16
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (85 bp):
TCCCTGAGATTACAGTGGAATAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGT
AGATCGCATCAGGTATTATC
Found at i:527415 original size:44 final size:44
Alignment explanation
Indices: 527337--527459 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
527327 GAAAATGGTG
* * * *
527337 AATCTTATCTCCCTACTG-TTACGGTGGAGTAGATTGAAGCTAGA
1 AATCTTATCTCCCTA-AGATTACAGTGGAGCAGATTGAAGCCAGA
* *
527381 AATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCCAGT
1 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGA
* * * *
527425 AATCCTATTTCCCTGAGATTACAGTGGAACAGATT
1 AATCTTATCTCCCTAAGATTACAGTGGAGCAGATT
527460 AAAATAAAGG
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
43 1 0.01
44 66 0.99
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAGCCAGA
Found at i:527892 original size:9 final size:9
Alignment explanation
Indices: 527878--527920 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
527868 GAGGGGCAGC
527878 TGTTTGTTT
1 TGTTTGTTT
527887 TGTTTGTTTT
1 TGTTTG-TTT
* *
527897 CTTTTTTTTT
1 -TGTTTGTTT
527907 TGTTTGTTT
1 TGTTTGTTT
527916 TGTTT
1 TGTTT
527921 TATTTTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 18 0.64
10 6 0.21
11 4 0.14
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.81
Consensus pattern (9 bp):
TGTTTGTTT
Found at i:527909 original size:20 final size:21
Alignment explanation
Indices: 527884--527928 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
527874 CAGCTGTTTG
527884 TTTTGTTTGTTTTCTTTT-TT
1 TTTTGTTTGTTTTCTTTTATT
*
527904 TTTTGTTTGTTTTGTTTTATT
1 TTTTGTTTGTTTTCTTTTATT
527925 TTTT
1 TTTT
527929 TCATTTTCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.02, C:0.02, G:0.11, T:0.84
Consensus pattern (21 bp):
TTTTGTTTGTTTTCTTTTATT
Found at i:527917 original size:25 final size:25
Alignment explanation
Indices: 527880--527929 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
527870 GGGGCAGCTG
*
527880 TTTGTTTTGTTTGTTTTCTTTTTTT
1 TTTGTTTTGTTTGTTTTATTTTTTT
527905 TTTG-TTTGTTTTGTTTTATTTTTTT
1 TTTGTTTTG-TTTGTTTTATTTTTTT
527930 CATTTTCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (25 bp):
TTTGTTTTGTTTGTTTTATTTTTTT
Found at i:542921 original size:28 final size:28
Alignment explanation
Indices: 542889--542973 Score: 143
Period size: 28 Copynumber: 3.0 Consensus size: 28
542879 GTGTTTGCTG
*
542889 AGATTTTCACATTAGATAACGTATTAAA
1 AGATTTTCACATTAGATCACGTATTAAA
542917 AGATTTTCACATTAGATCACGTATTAAA
1 AGATTTTCACATTAGATCACGTATTAAA
* *
542945 ATATTTTCACATTAGATCACGCATTAAA
1 AGATTTTCACATTAGATCACGTATTAAA
542973 A
1 A
542974 TCTAAGTTAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.35
Consensus pattern (28 bp):
AGATTTTCACATTAGATCACGTATTAAA
Found at i:543035 original size:29 final size:29
Alignment explanation
Indices: 543003--543058 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
542993 TCATGACTAA
*
543003 AATGGGTTAATTGTGCGTTTAGATTTGCG
1 AATGGGTTAATCGTGCGTTTAGATTTGCG
543032 AATGGGTTAATCGTGCGTTTAGATTTG
1 AATGGGTTAATCGTGCGTTTAGATTTG
543059 TGACCAAGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.21, C:0.07, G:0.30, T:0.41
Consensus pattern (29 bp):
AATGGGTTAATCGTGCGTTTAGATTTGCG
Found at i:544423 original size:22 final size:23
Alignment explanation
Indices: 544391--544511 Score: 94
Period size: 22 Copynumber: 5.5 Consensus size: 23
544381 AACCTTTCCA
*
544391 ATCAATCATAGTAATCGATTTAG
1 ATCAATCATAGTAATTGATTTAG
* **
544414 ATCAA-CATAG-AGATTTATACA-
1 ATCAATCATAGTA-ATTGATTTAG
*
544435 ATCAATCATAGTAATCGATTTAG
1 ATCAATCATAGTAATTGATTTAG
* * **
544458 ACCAA-CATAG-AGATTTATACA-
1 ATCAATCATAGTA-ATTGATTTAG
544479 ATCAATCATAGTAATTGATTTAG
1 ATCAATCATAGTAATTGATTTAG
544502 ATCAA-CATAG
1 ATCAATCATAG
544512 AGATTTATAC
Statistics
Matches: 73, Mismatches: 17, Indels: 17
0.68 0.16 0.16
Matches are distributed among these distances:
21 11 0.15
22 46 0.63
23 16 0.22
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (23 bp):
ATCAATCATAGTAATTGATTTAG
Found at i:544438 original size:44 final size:44
Alignment explanation
Indices: 544389--544524 Score: 254
Period size: 44 Copynumber: 3.1 Consensus size: 44
544379 GAAACCTTTC
544389 CAATCAATCATAGTAATCGATTTAGATCAACATAGAGATTTATA
1 CAATCAATCATAGTAATCGATTTAGATCAACATAGAGATTTATA
*
544433 CAATCAATCATAGTAATCGATTTAGACCAACATAGAGATTTATA
1 CAATCAATCATAGTAATCGATTTAGATCAACATAGAGATTTATA
*
544477 CAATCAATCATAGTAATTGATTTAGATCAACATAGAGATTTATA
1 CAATCAATCATAGTAATCGATTTAGATCAACATAGAGATTTATA
544521 CAAT
1 CAAT
544525 ATGCAACCTT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 89 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (44 bp):
CAATCAATCATAGTAATCGATTTAGATCAACATAGAGATTTATA
Found at i:545841 original size:21 final size:21
Alignment explanation
Indices: 545817--545856 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
545807 TAATTTTGAT
*
545817 AAATCATTATAAATTGTAAAA
1 AAATAATTATAAATTGTAAAA
* *
545838 AAATAATTGTAATTTGTAA
1 AAATAATTATAAATTGTAA
545857 TTTATATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (21 bp):
AAATAATTATAAATTGTAAAA
Found at i:546984 original size:37 final size:37
Alignment explanation
Indices: 546938--547021 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
546928 GTAAACAACT
* * * *
546938 CTCAATTGAGCTTTATTTAGTATATCAGTAGAT-ATCG
1 CTCAGTTGAGCTTTAGTCAGTATATCAATAGATAAT-G
* *
546975 CTCAGTTGAGCTTTAGTCGGTATATCAATAGGTAATG
1 CTCAGTTGAGCTTTAGTCAGTATATCAATAGATAATG
547012 CTCAGTTGAG
1 CTCAGTTGAG
547022 TAACACTTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
37 38 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (37 bp):
CTCAGTTGAGCTTTAGTCAGTATATCAATAGATAATG
Found at i:548199 original size:30 final size:30
Alignment explanation
Indices: 548164--548404 Score: 295
Period size: 30 Copynumber: 7.9 Consensus size: 30
548154 GACCTCATAA
*
548164 ATATACAAATCAATTCGGTAATGTATATCT
1 ATATACAAATCAATTCGGCAATGTATATCT
* *
548194 ATATACAAATCACTTCGGTAATGTATAT-T
1 ATATACAAATCAATTCGGCAATGTATATCT
*
548223 CATATACAAATCAATTCGGCAATGTATATCC
1 -ATATACAAATCAATTCGGCAATGTATATCT
*
548254 ATATACAAATCAATTCAGCAATGTATATCT
1 ATATACAAATCAATTCGGCAATGTATATCT
*
548284 ATATACAAATCAATTCGGCAATGTATATCC
1 ATATACAAATCAATTCGGCAATGTATATCT
*
548314 ATATACAAATCAATTCGGCTATATATATATCT
1 ATATACAAATCAATTCGGC-A-ATGTATATCT
* * * * *
548346 ATATATAAATAAATTTGGCAATATATATATCC
1 ATATACAAATCAATTCGGC-A-ATGTATATCT
* * *
548378 ATATACAAATTAATTCAGCAATATATA
1 ATATACAAATCAATTCGGCAATGTATA
548405 AAACATGTAC
Statistics
Matches: 188, Mismatches: 19, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
29 1 0.01
30 135 0.72
31 2 0.01
32 50 0.27
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (30 bp):
ATATACAAATCAATTCGGCAATGTATATCT
Found at i:560097 original size:21 final size:22
Alignment explanation
Indices: 560072--560115 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
560062 ACTTTAAAAT
* *
560072 TTTAGCTTTATTTATA-TATTA
1 TTTAGATTTATTTAAATTATTA
*
560093 TTTAGATTTTTTTAAATTATTA
1 TTTAGATTTATTTAAATTATTA
560115 T
1 T
560116 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTAGATTTATTTAAATTATTA
Found at i:560113 original size:19 final size:18
Alignment explanation
Indices: 560089--560192 Score: 57
Period size: 19 Copynumber: 5.2 Consensus size: 18
560079 TTATTTATAT
*
560089 ATTATTTAGATTTTTTTAA
1 ATTATTTA-ATTTTTTAAA
560108 ATTATTATAATTTTTTAAA
1 ATTATT-TAATTTTTTAAA
560127 ATATATTTTTTTGAATTTTTATAAA
1 AT-TA----TTT-AATTTTT-TAAA
* *
560152 TATT-TTGAATTTTTGAAA
1 -ATTATTTAATTTTTTAAA
*
560170 ATTATTTTGAATTTTTAAAA
1 ATTA-TTT-AATTTTTTAAA
560190 ATT
1 ATT
560193 GTTTTGAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
17 3 0.04
18 3 0.04
19 26 0.38
20 19 0.28
23 1 0.01
24 9 0.13
25 5 0.07
26 2 0.03
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTATTTAATTTTTTAAA
Found at i:560132 original size:42 final size:43
Alignment explanation
Indices: 560085--560191 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 43
560075 AGCTTTATTT
* *
560085 ATATATTATTTAG-ATTTTTTTAAATTATTAT-AATTTTTTAAA
1 ATATATTATTTAGAATTTTTATAAA-TATTATGAATTTTTGAAA
* * *
560127 ATATATTTTTTTGAATTTTTATAAATATTTTGAATTTTTGAAA
1 ATATATTATTTAGAATTTTTATAAATATTATGAATTTTTGAAA
*
560170 AT-TA-T-TTT-GAATTTTTAAAAAT
1 ATATATTATTTAGAATTTTTATAAAT
560192 TGTTTTGAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
39 13 0.23
40 3 0.05
41 1 0.02
42 18 0.32
43 22 0.39
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (43 bp):
ATATATTATTTAGAATTTTTATAAATATTATGAATTTTTGAAA
Found at i:560165 original size:20 final size:19
Alignment explanation
Indices: 560089--560203 Score: 99
Period size: 20 Copynumber: 5.7 Consensus size: 19
560079 TTATTTATAT
* * *
560089 ATTATTTAGATTTTTTTAA
1 ATTATTTTGAATTTTTAAA
*
560108 ATTATTAT-AATTTTTTAAA
1 ATTATTTTGAA-TTTTTAAA
560127 ATATATTTTTTTGAATTTTTATAA
1 AT-TA---TTTTGAATTTTTA-AA
560151 A-TATTTTGAATTTTTGAAA
1 ATTATTTTGAATTTTT-AAA
560170 ATTATTTTGAATTTTTAAAA
1 ATTATTTTGAATTTTT-AAA
*
560190 ATTGTTTTGAATTT
1 ATTATTTTGAATTT
560204 GTTTTGTAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
18 1 0.01
19 30 0.38
20 33 0.41
22 2 0.03
23 9 0.11
24 5 0.06
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (19 bp):
ATTATTTTGAATTTTTAAA
Found at i:575949 original size:24 final size:25
Alignment explanation
Indices: 575918--575974 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 25
575908 GGATATTGAC
575918 TTAA-TTTTGT-TCATGTATATAGT
1 TTAATTTTTGTATCATGTATATAGT
575941 TTAATTTTT-TATCATGTATATAGT
1 TTAATTTTTGTATCATGTATATAGT
*
575965 TAAATTTTTG
1 TTAATTTTTG
575975 ATATTGTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 5 0.17
24 25 0.83
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.58
Consensus pattern (25 bp):
TTAATTTTTGTATCATGTATATAGT
Found at i:577380 original size:75 final size:75
Alignment explanation
Indices: 577201--577376 Score: 232
Period size: 75 Copynumber: 2.4 Consensus size: 75
577191 GGCTTAAGCG
* * * * * *
577201 AATTATGTTTTTATCAATAGTTATTTATGTTTAGTTTTTGGATATTGAATTTATGTTCTACTTAT
1 AATTATG-TTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATATTCCACTTAT
*
577266 TTTTGTGTATC
65 TTTTGTGTATA
*
577277 AATTATGTTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATATTCCACTTATT
1 AATTATGTTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATATTCCACTTATT
577342 TTT-T-TATTA
66 TTTGTGTA-TA
*
577351 AATTA-GTTTTATTAATGGTTGTTTAT
1 AATTATGTTTTATTAATAGTTGTTTAT
577377 ATGTGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
73 22 0.24
74 7 0.08
75 54 0.60
76 7 0.08
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (75 bp):
AATTATGTTTTATTAATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATATTCCACTTATT
TTTGTGTATA
Found at i:580831 original size:41 final size:41
Alignment explanation
Indices: 580774--580940 Score: 334
Period size: 41 Copynumber: 4.1 Consensus size: 41
580764 TATCTCCATC
580774 TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
1 TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
580815 TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
1 TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
580856 TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
1 TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
580897 TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
1 TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
580938 TGT
1 TGT
580941 GTCACCCTTA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 126 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (41 bp):
TGTTGTATATCTATACTATTTATTAAGTTTTCTACTAAGTT
Found at i:585039 original size:28 final size:28
Alignment explanation
Indices: 585007--585064 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
584997 TGTGTTGGAA
* * * *
585007 GATAGTGGGCAACGGTGCATTTTACGAT
1 GATAGCGGGCAACCGTACATTCTACGAT
585035 GATAGCGGGCAACCGTACATTCTACGAT
1 GATAGCGGGCAACCGTACATTCTACGAT
585063 GA
1 GA
585065 CATGATGCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (28 bp):
GATAGCGGGCAACCGTACATTCTACGAT
Found at i:587634 original size:27 final size:26
Alignment explanation
Indices: 587552--587636 Score: 120
Period size: 26 Copynumber: 3.3 Consensus size: 26
587542 TCCATGGGCC
587552 GTAAAATTATCGAAATAC-CCAAAGG
1 GTAAAATTATCGAAATACTCCAAAGG
587577 GTAAAATTATCGAAATACTCCAAAGG
1 GTAAAATTATCGAAATACTCCAAAGG
* *
587603 ATAAAATTA-CTGAAATACCTCCATAGG
1 GTAAAATTATC-GAAATA-CTCCAAAGG
587630 GTAAAAT
1 GTAAAAT
587637 GACTGTTATA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
25 19 0.35
26 21 0.39
27 14 0.26
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.24
Consensus pattern (26 bp):
GTAAAATTATCGAAATACTCCAAAGG
Found at i:596762 original size:20 final size:20
Alignment explanation
Indices: 596737--596839 Score: 57
Period size: 20 Copynumber: 5.2 Consensus size: 20
596727 CACATACGTG
596737 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
596757 CCCCTGATTGCACATAC-GTG
1 CCCCTGTTTGTAC-TTCGGTA
* *
596777 CCCCTATTTGTACTTTGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * * ** *
596797 CCCTTGATTGCACATATGTG
1 CCCCTGTTTGTACTTCGGTA
596817 CCCCTGTTTGTA-TTCCGGTA
1 CCCCTGTTTGTACTT-CGGTA
596837 CCC
1 CCC
596840 TTGATTGCAC
Statistics
Matches: 55, Mismatches: 25, Indels: 6
0.64 0.29 0.07
Matches are distributed among these distances:
19 2 0.04
20 51 0.93
21 2 0.04
ACGTcount: A:0.15, C:0.31, G:0.18, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:596776 original size:40 final size:40
Alignment explanation
Indices: 596721--597043 Score: 371
Period size: 40 Copynumber: 8.1 Consensus size: 40
596711 AACTATTGTA
596721 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
596761 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
596801 TGATTGCACATATGTGCCCCTGTTTGTA-TTCCGGTACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTT-CGGTACCCC
* * * * *
596841 TGATTGCACATACGTGCCCTTTTTTGTACTTTGATAACCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
596881 TGATTGCACATATGTGCCCCTGTTTGTACTTTGATTCCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* ** *
596921 TGATTGTACATATATGCCCCTGTTTGTACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * **
596961 TGAATGCACATACCTGCCCTTGTTTGTATTTCAATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
597001 TGATTGCACATACATGCCCCTGTTTGTAC-TCTGGTATCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTC-GGTACCCC
597041 TGA
1 TGA
597044 ATCAAATAGT
Statistics
Matches: 240, Mismatches: 40, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
39 4 0.02
40 234 0.98
41 2 0.01
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:596882 original size:120 final size:120
Alignment explanation
Indices: 596721--597041 Score: 439
Period size: 120 Copynumber: 2.7 Consensus size: 120
596711 AACTATTGTA
* * * *
596721 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGATTGCACATACGTGCCCCTATTT
1 TGATTGCACATACGTGCCCTTGTTTGTACTTTGATACCCCTGATTGCACATACGTGCCCCTGTTT
* * *
596786 GTACTTTGGTACCCTTGATTGCACATATGTGCCCCTGTTTGTA-TTCCGGTACCCT
66 GTACTTTGGTACCCTTGATTGCACATATATGCCCCTGTTTGTACTT-CAGTACCCC
* * *
596841 TGATTGCACATACGTGCCCTTTTTTGTACTTTGATAACCCTGATTGCACATATGTGCCCCTGTTT
1 TGATTGCACATACGTGCCCTTGTTTGTACTTTGATACCCCTGATTGCACATACGTGCCCCTGTTT
* * *
596906 GTACTTTGATTCCCTTGATTGTACATATATGCCCCTGTTTGTACTTCAGTACCCC
66 GTACTTTGGTACCCTTGATTGCACATATATGCCCCTGTTTGTACTTCAGTACCCC
* * * *
596961 TGAATGCACATACCTGCCCTTGTTTGTA-TTTCAATACCCCTGATTGCACATACATGCCCCTGTT
1 TGATTGCACATACGTGCCCTTGTTTGTACTTT-GATACCCCTGATTGCACATACGTGCCCCTGTT
*
597025 TGTACTCTGGTATCCCT
65 TGTACTTTGGTA-CCCT
597042 GAATCAAATA
Statistics
Matches: 175, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
119 3 0.02
120 166 0.95
121 6 0.03
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.37
Consensus pattern (120 bp):
TGATTGCACATACGTGCCCTTGTTTGTACTTTGATACCCCTGATTGCACATACGTGCCCCTGTTT
GTACTTTGGTACCCTTGATTGCACATATATGCCCCTGTTTGTACTTCAGTACCCC
Found at i:596947 original size:20 final size:20
Alignment explanation
Indices: 596878--596949 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
596868 ACTTTGATAA
* *
596878 CCCTGATTGCACATATGTGC
1 CCCTGATTGTACATATATGC
* * *
596898 CCCTGTTTGTAC-TTTGATTC
1 CCCTGATTGTACATAT-ATGC
*
596918 CCTTGATTGTACATATATGC
1 CCCTGATTGTACATATATGC
*
596938 CCCTGTTTGTAC
1 CCCTGATTGTAC
596950 TTCAGTACCC
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 2 0.05
20 35 0.90
21 2 0.05
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (20 bp):
CCCTGATTGTACATATATGC
Found at i:599562 original size:28 final size:28
Alignment explanation
Indices: 599519--599606 Score: 135
Period size: 28 Copynumber: 3.2 Consensus size: 28
599509 AGAGGTGAGA
*
599519 GATTTTTACACGAGGATTTTGGAGGAGG
1 GATTTTTACACAAGGATTTTGGAGGAGG
*
599547 GATTGTTACACAAGGATTTTGGAGGAGG
1 GATTTTTACACAAGGATTTTGGAGGAGG
599575 GATTTTTACA-AGAGGATTTTGGAGG-GG
1 GATTTTTACACA-AGGATTTTGGAGGAGG
599602 GATTT
1 GATTT
599607 GGGGAGAGCA
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
27 8 0.14
28 48 0.86
ACGTcount: A:0.26, C:0.06, G:0.35, T:0.33
Consensus pattern (28 bp):
GATTTTTACACAAGGATTTTGGAGGAGG
Found at i:603736 original size:20 final size:20
Alignment explanation
Indices: 603711--603808 Score: 65
Period size: 20 Copynumber: 4.9 Consensus size: 20
603701 ATGAGATTTG
* *
603711 CACTTCTGTGCCCCTGTATA
1 CACTTCGGTGCCCCTGTTTA
* * *
603731 CACTTCGGTGTCTCTATTTA
1 CACTTCGGTGCCCCTGTTTA
* * *
603751 CA-TTACAGTGGCCCTGTTTG
1 CACTT-CGGTGCCCCTGTTTA
* *
603771 CACATT-TGTGCCCCTGTCTA
1 CAC-TTCGGTGCCCCTGTTTA
*
603791 CACTTCGGTGCCCTTGTT
1 CACTTCGGTGCCCCTGTT
603809 ATGCATCCAC
Statistics
Matches: 57, Mismatches: 17, Indels: 8
0.70 0.21 0.10
Matches are distributed among these distances:
19 4 0.07
20 51 0.89
22 2 0.04
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.38
Consensus pattern (20 bp):
CACTTCGGTGCCCCTGTTTA
Found at i:605727 original size:26 final size:26
Alignment explanation
Indices: 605697--605757 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
605687 TCTAACCTAC
** *
605697 AGCTCGTGTGAGTAGGCCCATTTCAT
1 AGCTCGTGTGAACAGACCCATTTCAT
* * *
605723 AGCTCTTGTGAACATACTCATTTCAT
1 AGCTCGTGTGAACAGACCCATTTCAT
605749 AGCTCGTGT
1 AGCTCGTGT
605758 AAGCATATAT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (26 bp):
AGCTCGTGTGAACAGACCCATTTCAT
Found at i:612913 original size:20 final size:19
Alignment explanation
Indices: 612884--612928 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
612874 ATTAGGATGT
612884 AAAAATT-AAATTAAAAATA
1 AAAAATTAAAATT-AAAATA
612903 AAAATATTAAAATTAAAATA
1 AAAA-ATTAAAATTAAAATA
612923 AAAAAT
1 AAAAAT
612929 GACTAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 13 0.54
21 5 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATTAAAATTAAAATA
Found at i:612936 original size:21 final size:20
Alignment explanation
Indices: 612890--612939 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
612880 ATGTAAAAAT
*
612890 TAAATTAAAAATAAAAATAT
1 TAAATTAAAAATAAAAATAC
612910 TAAAATT-AAAATAAAAAATGAC
1 T-AAATTAAAAAT-AAAAAT-AC
612932 TAAATTAA
1 TAAATTAA
612940 TAGAAACAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
TAAATTAAAAATAAAAATAC
Found at i:626330 original size:36 final size:36
Alignment explanation
Indices: 626275--626356 Score: 137
Period size: 36 Copynumber: 2.2 Consensus size: 36
626265 TTTGAGTACT
*
626275 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATC-AGAAACAAAGTGATAAGTGGCTACACTTA
*
626312 TCTGATCAGAAACAAAGTGATAGGTGGCTACACTTA
1 TCTGATCAGAAACAAAGTGATAAGTGGCTACACTTA
626348 TCTGATCAG
1 TCTGATCAG
626357 GGACAAGGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
36 36 0.84
37 7 0.16
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (36 bp):
TCTGATCAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:636152 original size:35 final size:35
Alignment explanation
Indices: 636111--636182 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
636101 TTAATTGATC
*
636111 AGCTTTGACAATTGGAGTT-CTCGAACAGTCATTGA
1 AGCTTTGACAATTGAAGTTCCT-GAACAGTCATTGA
*
636146 AGCTTTGACAATTGAAGTTCCTGAATAGTCATTGA
1 AGCTTTGACAATTGAAGTTCCTGAACAGTCATTGA
636181 AG
1 AG
636183 TGGAATTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (35 bp):
AGCTTTGACAATTGAAGTTCCTGAACAGTCATTGA
Found at i:640297 original size:15 final size:16
Alignment explanation
Indices: 640269--640298 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
640259 TATTTTGGTT
640269 TAAATATAATTTTTTA
1 TAAATATAATTTTTTA
640285 TAAATAT-ATTTTTT
1 TAAATATAATTTTTT
640299 CTACATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAAATATAATTTTTTA
Found at i:644546 original size:21 final size:21
Alignment explanation
Indices: 644505--644546 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
644495 TTATCTAAGT
**
644505 TAAAATTTGAACTTCTATAAA
1 TAAAATTTGAAAATCTATAAA
644526 TAAAATTTTGAAAATCT-TAAA
1 TAAAA-TTTGAAAATCTATAAA
644547 ATTTAGACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (21 bp):
TAAAATTTGAAAATCTATAAA
Found at i:645148 original size:1 final size:1
Alignment explanation
Indices: 645142--645169 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
645132 GGCCTTCTTC
645142 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
645170 GGGGAGTGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:645727 original size:29 final size:29
Alignment explanation
Indices: 645668--645732 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
645658 GTATTTATAT
* ** *
645668 AAAATGTTCAATATAATACATTTACTTTC
1 AAAATATTCAATATAATACATGAACTATC
645697 AAAATATTCAATATAATACATGAACTATC
1 AAAATATTCAATATAATACATGAACTATC
*
645726 AATATAT
1 AAAATAT
645733 ACTTTATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (29 bp):
AAAATATTCAATATAATACATGAACTATC
Found at i:646882 original size:14 final size:13
Alignment explanation
Indices: 646862--646910 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
646852 AAGAATTCTC
646862 AATTTATTAAAAT
1 AATTTATTAAAAT
646875 ATATTTATTAAAAT
1 A-ATTTATTAAAAT
646889 AATTTATGTAATAAT
1 AATTTAT-TAA-AAT
646904 AAATTTA
1 -AATTTA
646911 AAAAAATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.22
14 16 0.50
15 3 0.09
16 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
AATTTATTAAAAT
Found at i:646914 original size:27 final size:26
Alignment explanation
Indices: 646862--646915 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
646852 AAGAATTCTC
*
646862 AATTTATTAAAATATATTTATTAAAAT
1 AATTTATTAAAATAAATTTA-TAAAAT
*
646889 AATTTATGTAATAATAAATTTAAAAAA
1 AATTTAT-TAA-AATAAATTTATAAAA
646916 ATCAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 7 0.30
28 7 0.30
29 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
AATTTATTAAAATAAATTTATAAAAT
Found at i:653826 original size:28 final size:28
Alignment explanation
Indices: 653773--653877 Score: 147
Period size: 28 Copynumber: 3.8 Consensus size: 28
653763 TGTACAATGA
* *
653773 GGGCCTTAGCCCAATTCAGTAGCAGTGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
* *
653801 GGGCCTTAGCCAAATACAATATCAGTGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
* *
653829 GGGCCTTAGTCCAATATAGTATCAGTGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
*
653857 TGGCCTTAGCCCAATACAGTA
1 GGGCCTTAGCCCAATACAGTA
653878 ACATTACAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 66 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGTATCAGTGT
Found at i:654170 original size:27 final size:27
Alignment explanation
Indices: 654140--654690 Score: 654
Period size: 27 Copynumber: 20.2 Consensus size: 27
654130 ATATACAAAG
*
654140 CATTTTACCCTAT-GGGGGTATTTCAGT
1 CATTTTACCCT-TCGAGGGTATTTCAGT
*
654167 CATTTTACCTTTCGAGGGTCAGGGGTATTTCAGT
1 CATTTTACCCTTC----G--A-GGGTATTTCAGT
* *
654201 CATTTTACCCTTTGAGGGTATTTCAAT
1 CATTTTACCCTTCGAGGGTATTTCAGT
*
654228 CATTTTACCCTTCGAGGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
654255 CATTTTACCCTTCGAGGGTATTTCAGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
* *
654282 CATTTTACCCTTCGAGGGAATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
654309 CATTTTACCCTTCG-GCGGTATTTCAGT
1 CATTTTACCCTTCGAG-GGTATTTCAGT
654336 CATTTTACCCTTCGAGGGTATTTC-GAT
1 CATTTTACCCTTCGAGGGTATTTCAG-T
654363 CATTTTACCCTTCG-GGCGTATTTC-GAT
1 CATTTTACCCTTCGAGG-GTATTTCAG-T
*
654390 CATTTTACCCTTCGAGGGTATTTTAGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
654417 CATTTTTACCCTTCGAGGGTATTTC-GAT
1 CA-TTTTACCCTTCGAGGGTATTTCAG-T
*
654445 CATTTTACCCTTCGAAGGTATTTCAGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
* * *
654472 TATTTTACCCTTCGGGGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
* * *
654499 TATTTTACCCTT-TAGGGGTATTTTAGT
1 CATTTTACCCTTCGA-GGGTATTTCAGT
* *
654526 TATTTTACCCTTCGAGGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
* *
654553 CATTTTACCCTTAG-GGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
* *
654579 TATTTTACCCTTCGGGGGTATTTCAGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
*
654606 AATTTTACCCTTCGAGGGTATTTC-GAT
1 CATTTTACCCTTCGAGGGTATTTCAG-T
* *
654633 CATTTTACCCTTAG-GGGTATTTCGGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
**
654659 CATTTTACCCTTCGAGGGTATTTTGGT
1 CATTTTACCCTTCGAGGGTATTTCAGT
654686 CATTT
1 CATTT
654691 GCCCACAACT
Statistics
Matches: 463, Mismatches: 38, Indels: 46
0.85 0.07 0.08
Matches are distributed among these distances:
26 53 0.11
27 354 0.76
28 31 0.07
30 1 0.00
31 1 0.00
34 23 0.05
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTTCGAGGGTATTTCAGT
Found at i:654197 original size:34 final size:34
Alignment explanation
Indices: 654154--654219 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 34
654144 TTACCCTATG
654154 GGGGTATTTCAGTCATTTTA-CCTTTCGAGGGTCA
1 GGGGTATTTCAGTCATTTTACCCTTT-GAGGGTCA
654188 GGGGTATTTCAGTCATTTTACCCTTTGAGGGT
1 GGGGTATTTCAGTCATTTTACCCTTTGAGGGT
654220 ATTTCAATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (34 bp):
GGGGTATTTCAGTCATTTTACCCTTTGAGGGTCA
Found at i:657286 original size:16 final size:16
Alignment explanation
Indices: 657265--657296 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
657255 AAGGAAGGTC
657265 ATTACCTAATGGGGTT
1 ATTACCTAATGGGGTT
*
657281 ATTACCTAATGTGGTT
1 ATTACCTAATGGGGTT
657297 CATATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (16 bp):
ATTACCTAATGGGGTT
Found at i:657574 original size:61 final size:61
Alignment explanation
Indices: 657470--657672 Score: 253
Period size: 61 Copynumber: 3.3 Consensus size: 61
657460 AAACACCAGT
* * * * * *
657470 TAAAGGACAACCTTTATGGAAAAACTTTGGACATGAAAACCTTTGTTGCGAGTACTAGATG
1 TAAAGGACAACCTTTGTGGCAAAACTCTGGATAGGAAAACCTTTGTGGCGAGTACTAGATG
** * *
657531 TAAAGGACAACCTTTGTGGCAAAACTCTGGATAGGAATCCCTTTGTGGCGAGTATTGGATG
1 TAAAGGACAACCTTTGTGGCAAAACTCTGGATAGGAAAACCTTTGTGGCGAGTACTAGATG
* * * * * *
657592 TAAAGGACAACTTTTGTGGCAAAAATCTGGATAGTAAAGCCTTTGTGGGGAGTACTAGATA
1 TAAAGGACAACCTTTGTGGCAAAACTCTGGATAGGAAAACCTTTGTGGCGAGTACTAGATG
*
657653 TAAATGACAACCTTTGTGGC
1 TAAAGGACAACCTTTGTGGC
657673 TGTTTAAGAA
Statistics
Matches: 121, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 121 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (61 bp):
TAAAGGACAACCTTTGTGGCAAAACTCTGGATAGGAAAACCTTTGTGGCGAGTACTAGATG
Found at i:666476 original size:24 final size:26
Alignment explanation
Indices: 666443--666498 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 26
666433 GAGAGAAAAT
*
666443 GAAAAAGAAAATAAA-AT-GAGA-AA
1 GAAAAAGAAAAGAAAGATCGAGAGAA
666466 GAAAGAAGAAAAGAAAGATCGAGAGAA
1 GAAA-AAGAAAAGAAAGATCGAGAGAA
666493 GAAAAA
1 GAAAAA
666499 TTGAGCAGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 4 0.14
24 10 0.36
25 2 0.07
26 6 0.21
27 6 0.21
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (26 bp):
GAAAAAGAAAAGAAAGATCGAGAGAA
Found at i:669671 original size:17 final size:16
Alignment explanation
Indices: 669629--669676 Score: 64
Period size: 14 Copynumber: 3.1 Consensus size: 16
669619 ATATAAAAAA
669629 ATTATAAAAATAATAAT
1 ATTATAAAAA-AATAAT
669646 ATTAT--AAAAATAAT
1 ATTATAAAAAAATAAT
*
669660 GTTATAAAAAAATAAT
1 ATTATAAAAAAATAAT
669676 A
1 A
669677 GCATATTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 10 0.37
15 3 0.11
16 9 0.33
17 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTATAAAAAAATAAT
Found at i:690280 original size:94 final size:94
Alignment explanation
Indices: 690116--690294 Score: 277
Period size: 94 Copynumber: 1.9 Consensus size: 94
690106 CCATGGCGCT
* * * * *
690116 GAAGATCATATTGTGTAATATCGCAATTGGTGGGTTATGACATCATATGAGAAAATTTAAGGAAG
1 GAAGACCATATCGTGTAAAACCGCAATTGGTCGGTTATGACATCATATGAGAAAATTTAAGGAAG
* *
690181 GTTATTACCTAATGTGGTTCATATGGAAA
66 CTTATTACCTAATGGGGTTCATATGGAAA
* *
690210 GAAGACCATATCGTGTAAAACCGTAATTGGTCGGTTATGACATCATATGAGAAAGTTTAAGGAAG
1 GAAGACCATATCGTGTAAAACCGCAATTGGTCGGTTATGACATCATATGAGAAAATTTAAGGAAG
690275 CTTATTACCTAATGGGGTTC
66 CTTATTACCTAATGGGGTTC
690295 TCTGGTGTCC
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (94 bp):
GAAGACCATATCGTGTAAAACCGCAATTGGTCGGTTATGACATCATATGAGAAAATTTAAGGAAG
CTTATTACCTAATGGGGTTCATATGGAAA
Found at i:690477 original size:61 final size:61
Alignment explanation
Indices: 690373--690577 Score: 239
Period size: 61 Copynumber: 3.4 Consensus size: 61
690363 AAAGACCAGT
* * * * *
690373 TAAAGGACAACCTTTATGGAAAAACTCTGGACATGAAAACCTTTGTTACGAGAACTGGATG
1 TAAAGGACAACCTTTGTGGCAAAACTCTGGACAGGAAAACCTTTGTGACGAGAACTAGATG
* * * * * *
690434 TAAAGGACAACCTTTGTTGCAAAACTCTGGATAGGAAACCCTTTGTGGCGAGTACTAGATT
1 TAAAGGACAACCTTTGTGGCAAAACTCTGGACAGGAAAACCTTTGTGACGAGAACTAGATG
* * ** * *
690495 TAAAGGACAACCTTTGTGGCAAAACTCTGGACAGTAAAGCCTTTGTGGGGAGTACTAAATG
1 TAAAGGACAACCTTTGTGGCAAAACTCTGGACAGGAAAACCTTTGTGACGAGAACTAGATG
* *
690556 AAAATGACAACCTTTGTGGCAA
1 TAAAGGACAACCTTTGTGGCAA
690578 CTTCTGTTTA
Statistics
Matches: 124, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 124 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (61 bp):
TAAAGGACAACCTTTGTGGCAAAACTCTGGACAGGAAAACCTTTGTGACGAGAACTAGATG
Found at i:694289 original size:51 final size:50
Alignment explanation
Indices: 694207--694328 Score: 138
Period size: 51 Copynumber: 2.4 Consensus size: 50
694197 NNNNNNNNNN
* * * *
694207 GTACCATGTGCGGGCTACTATGCGTACCGGATAGCT-TCGATCACGTGTGTA
1 GTACTATGTGCAGGCTACTACGCGTACCGGATAG-TAT-GATCACATGTGTA
* * *
694258 GTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTA
1 GTACTATGTGCAGGCTACTACGCGTACCGGATAGT-ATGATCACATGTGTA
*
694309 GTACTATGTGTAGGCTACTA
1 GTACTATGTGCAGGCTACTA
694329 TGTGAACCGG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.02
51 59 0.97
52 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (50 bp):
GTACTATGTGCAGGCTACTACGCGTACCGGATAGTATGATCACATGTGTA
Found at i:699123 original size:50 final size:50
Alignment explanation
Indices: 699015--699351 Score: 347
Period size: 50 Copynumber: 6.6 Consensus size: 50
699005 ATTTGGGTAA
* *
699015 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCTTTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--T-AG---ATG
*
699071 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCT-AGATG
* *
699121 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCTAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGATG
* * * *
699171 AGAGGTCCCGA-GTAAGACCATGTCTGGGACATGGCGTCGGCACCGAGATG
1 AGAGGTCCC-ATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGATG
** * * *
699221 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGATG
** * * * * * *
699271 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGATG
* ** *
699320 AAACATCCCATGTAAGACTATGTCTGGGACAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACAT
699352 AGCTTTGGAA
Statistics
Matches: 247, Mismatches: 31, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
49 29 0.12
50 171 0.69
51 3 0.01
53 4 0.02
55 1 0.00
56 39 0.16
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTAGATG
Found at i:700643 original size:83 final size:83
Alignment explanation
Indices: 700514--700669 Score: 312
Period size: 83 Copynumber: 1.9 Consensus size: 83
700504 GACTGCTGTA
700514 CAGGTGGACAACCTTATTATGAACAGTGAAATAACTTTTAAAAGTAAATTTTTATGCCCCGAACT
1 CAGGTGGACAACCTTATTATGAACAGTGAAATAACTTTTAAAAGTAAATTTTTATGCCCCGAACT
700579 TTTAAGTTTTTAGTGACT
66 TTTAAGTTTTTAGTGACT
700597 CAGGTGGACAACCTTATTATGAACAGTGAAATAACTTTTAAAAGTAAATTTTTATGCCCCGAACT
1 CAGGTGGACAACCTTATTATGAACAGTGAAATAACTTTTAAAAGTAAATTTTTATGCCCCGAACT
700662 TTTAAGTT
66 TTTAAGTT
700670 AAGTCAAGTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (83 bp):
CAGGTGGACAACCTTATTATGAACAGTGAAATAACTTTTAAAAGTAAATTTTTATGCCCCGAACT
TTTAAGTTTTTAGTGACT
Found at i:705470 original size:45 final size:45
Alignment explanation
Indices: 705406--705620 Score: 324
Period size: 45 Copynumber: 4.8 Consensus size: 45
705396 AATTTGATTT
*
705406 GTGATGCCATAACGTCTTTTAG-CTATGGTCTTACTCGATAGAATC
1 GTGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATC
* *
705451 GTGATGCCATAACGTCTTTTAGTCATGGTCTTACTTGATAGAATC
1 GTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATC
* * * *
705496 GTGATGCCATAATGTCTTTCAGTAATGGTATTACTCGATACAATC
1 GTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATC
* * *
705541 GTGATGCCATAATGTCTTTCAGTCATGGTCTTACTCAATATAATC
1 GTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATC
705586 GTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
1 GTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
705621 AGTTTTTGGT
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 156 0.99
46 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (45 bp):
GTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATC
Found at i:706920 original size:16 final size:16
Alignment explanation
Indices: 706899--706931 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
706889 ACTTACCTAA
706899 CTTGGGGCCCCGAAAC
1 CTTGGGGCCCCGAAAC
706915 CTTGGGGCCCCGAAAC
1 CTTGGGGCCCCGAAAC
706931 C
1 C
706932 ATTATTGTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.39, G:0.30, T:0.12
Consensus pattern (16 bp):
CTTGGGGCCCCGAAAC
Found at i:720207 original size:24 final size:24
Alignment explanation
Indices: 720173--720263 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 24
720163 AAGCTGTACA
* *
720173 TTGTGGTCAAGCCAGTCAATAACG
1 TTGTGGCCAAGCCACTCAATAACG
* * * *
720197 CTGTGGCCAAGGCACTCAATATCA
1 TTGTGGCCAAGCCACTCAATAACG
** * *
720221 TTGTGGTGAAGCCATTCAATAATG
1 TTGTGGCCAAGCCACTCAATAACG
*
720245 TTGTGTCCAAGCCACTCAA
1 TTGTGGCCAAGCCACTCAA
720264 AATGCAGACA
Statistics
Matches: 49, Mismatches: 18, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (24 bp):
TTGTGGCCAAGCCACTCAATAACG
Found at i:720242 original size:48 final size:48
Alignment explanation
Indices: 720171--720263 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
720161 ACAAGCTGTA
*
720171 CATTGTGGTCAAGCCAGTCAATAACGCTGTGGCCAAGGCACTCAATAT
1 CATTGTGGTCAAGCCAGTCAATAACGCTGTGGCCAAGCCACTCAATAT
* * * * *
720219 CATTGTGGTGAAGCCATTCAATAATGTTGTGTCCAAGCCACTCAA
1 CATTGTGGTCAAGCCAGTCAATAACGCTGTGGCCAAGCCACTCAA
720264 AATGCAGACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.26
Consensus pattern (48 bp):
CATTGTGGTCAAGCCAGTCAATAACGCTGTGGCCAAGCCACTCAATAT
Found at i:720312 original size:24 final size:24
Alignment explanation
Indices: 720280--720375 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
720270 GACAAGTTGC
*
720280 ATGTTGTGGTCAAGTCACTCAATA
1 ATGTTGTGGTCAAGCCACTCAATA
720304 ATGTTGTGGTCAAGCCACTCAATA
1 ATGTTGTGGTCAAGCCACTCAATA
*
720328 ACT-TTGTGGCCAAGCCAC-CTAATA
1 A-TGTTGTGGTCAAGCCACTC-AATA
* * *
720352 ACGTTGTGGACAAACCACTCAATA
1 ATGTTGTGGTCAAGCCACTCAATA
720376 TTGCAGTAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
23 1 0.02
24 60 0.95
25 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (24 bp):
ATGTTGTGGTCAAGCCACTCAATA
Found at i:720352 original size:110 final size:110
Alignment explanation
Indices: 720173--720373 Score: 251
Period size: 110 Copynumber: 1.8 Consensus size: 110
720163 AAGCTGTACA
* * * ** *
720173 TTGTGGTCAAGCCAGTCAATAACGCTGTGGCCAAGGCACTCAATATCATTGTGGTGAAGCCATTC
1 TTGTGGTCAAGCCACTCAATAACGCTGTGGCCAAGCCACTCAATAACATTGTGGCCAAGCCACTC
* ** *
720238 AATAATGTTGTGTCCAAGCCACTCAAAATGCAGACAAGTTGCATG
66 AATAACGTTGTGGACAAACCACTCAAAATGCAGACAAGTTGCATG
* * * * *
720283 TTGTGGTCAAGTCACTCAATAATGTTGTGGTCAAGCCACTCAATAACTTTGTGGCCAAGCCAC-C
1 TTGTGGTCAAGCCACTCAATAACGCTGTGGCCAAGCCACTCAATAACATTGTGGCCAAGCCACTC
720347 TAATAACGTTGTGGACAAACCACTCAA
66 -AATAACGTTGTGGACAAACCACTCAA
720374 TATTGCAGTA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
109 1 0.01
110 74 0.99
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (110 bp):
TTGTGGTCAAGCCACTCAATAACGCTGTGGCCAAGCCACTCAATAACATTGTGGCCAAGCCACTC
AATAACGTTGTGGACAAACCACTCAAAATGCAGACAAGTTGCATG
Found at i:720763 original size:24 final size:24
Alignment explanation
Indices: 720736--720787 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
720726 TTAGTAAGTC
*
720736 AAATAGACAATACTAATAAATGCT
1 AAATAGACAATACTAATAAATACT
* **
720760 AAATATATTATACTAATAAATACT
1 AAATAGACAATACTAATAAATACT
720784 AAAT
1 AAAT
720788 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAGACAATACTAATAAATACT
Found at i:747930 original size:22 final size:21
Alignment explanation
Indices: 747905--747948 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
747895 TGATAAACTT
747905 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
747927 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
747948 T
1 T
747949 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:748275 original size:110 final size:111
Alignment explanation
Indices: 748081--748300 Score: 354
Period size: 110 Copynumber: 2.0 Consensus size: 111
748071 CACGTCTAGG
*
748081 ATTGGATCTAGGAAGAGCTTGGTACTTAAGAAGTCAAATTGACTCACCTCTTCTTTTCTGGAATC
1 ATTGGATCTAGGAAGAGCTTGGTACTTAAGAAGTCAAATTGACTCACCTCCTCTTTTCTGGAATC
* *
748146 CTACCTGGTGTATGTTATCTATTCACTTTAAACAATGAGGACATTA
66 CTACCTGGTGTATGTTATCTATTCACTTTAAAAAACGAGGACATTA
* * *
748192 ATTGGATCTAGGAATAGCTT-GTACTTAGGCAGTCAAATTGACTCACCTCCTCTTTTCTGGAATC
1 ATTGGATCTAGGAAGAGCTTGGTACTTAAGAAGTCAAATTGACTCACCTCCTCTTTTCTGGAATC
*
748256 CTACTTGGTGTATAG-TATCTATTCACTTTAAAAAACGAGGACATT
66 CTACCTGGTGTAT-GTTATCTATTCACTTTAAAAAACGAGGACATT
748301 GTTCATTTTA
Statistics
Matches: 101, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
110 81 0.80
111 20 0.20
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (111 bp):
ATTGGATCTAGGAAGAGCTTGGTACTTAAGAAGTCAAATTGACTCACCTCCTCTTTTCTGGAATC
CTACCTGGTGTATGTTATCTATTCACTTTAAAAAACGAGGACATTA
Found at i:768203 original size:20 final size:19
Alignment explanation
Indices: 768174--768251 Score: 86
Period size: 20 Copynumber: 4.0 Consensus size: 19
768164 ATTTTAAATT
*
768174 CAAGTGAAAATGATTTTAA
1 CAAGTCAAAATGATTTTAA
*
768193 CCAAGTCAAAATGATTTCAA
1 -CAAGTCAAAATGATTTTAA
* *
768213 TCAAGTTAAAATCATTTTAA
1 -CAAGTCAAAATGATTTTAA
768233 CACA-TCAAAATGATTTTAA
1 CA-AGTCAAAATGATTTTAA
768252 AAAAGTTAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.31
20 34 0.69
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (19 bp):
CAAGTCAAAATGATTTTAA
Found at i:768224 original size:40 final size:39
Alignment explanation
Indices: 768173--768248 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 39
768163 AATTTTAAAT
*
768173 TCAAGTGAAAATGATTTTAAC-CAAGTCAAAATGATTTCAA
1 TCAAGTGAAAATCATTTTAACAC-A-TCAAAATGATTTCAA
*
768213 TCAAGTTAAAATCATTTTAACACATCAAAATGATTT
1 TCAAGTGAAAATCATTTTAACACATCAAAATGATTT
768249 TAAAAAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 12 0.36
40 20 0.61
41 1 0.03
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (39 bp):
TCAAGTGAAAATCATTTTAACACATCAAAATGATTTCAA
Found at i:768258 original size:39 final size:40
Alignment explanation
Indices: 768175--768259 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 40
768165 TTTTAAATTC
* * **
768175 AAGTGAAAATGATTTTAACCAAGTCAAAATGATTTCAATC
1 AAGTTAAAATCATTTTAACCAAGTCAAAATGATTTCAAAA
*
768215 AAGTTAAAATCATTTTAA-CACA-TCAAAATGATTTTAAAA
1 AAGTTAAAATCATTTTAACCA-AGTCAAAATGATTTCAAAA
768254 AAGTTA
1 AAGTTA
768260 GAATTTCTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 22 0.56
40 17 0.44
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (40 bp):
AAGTTAAAATCATTTTAACCAAGTCAAAATGATTTCAAAA
Found at i:780248 original size:42 final size:42
Alignment explanation
Indices: 780162--780324 Score: 166
Period size: 42 Copynumber: 3.9 Consensus size: 42
780152 AAACAGTTTT
** * * * * *
780162 ATAAGTTGTGTATCAACGAAGCTCCCCACATAAGCTGAAGTG
1 ATAAGTTGTGTATCAGTGAAACTCCCCATATGAGCTTAAATG
* *
780204 ATAAGTTGTGTATTAGTGAAACTCCTCATATGAGCTTAAATG
1 ATAAGTTGTGTATCAGTGAAACTCCCCATATGAGCTTAAATG
* ** * *
780246 ATAAGTTGTGTATCAGCGATGCTCCCCAAATGAGCTTAAGTG
1 ATAAGTTGTGTATCAGTGAAACTCCCCATATGAGCTTAAATG
* *
780288 ACAAGTTGTGTATCAGT-AAAGCTCCCCATGTGAGCTT
1 ATAAGTTGTGTATCAGTGAAA-CTCCCCATATGAGCTT
780325 GAGTGGTTGT
Statistics
Matches: 98, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 1 0.01
42 97 0.99
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (42 bp):
ATAAGTTGTGTATCAGTGAAACTCCCCATATGAGCTTAAATG
Found at i:780322 original size:84 final size:84
Alignment explanation
Indices: 780162--780324 Score: 229
Period size: 84 Copynumber: 1.9 Consensus size: 84
780152 AAACAGTTTT
* * *
780162 ATAAGTTGTGTATCAACGAAGCTCCCCACATAAGCTGAAGTGATAAGTTGTGTATTAGTGAAACT
1 ATAAGTTGTGTATCAACGAAGCTCCCCAAATAAGCTGAAGTGACAAGTTGTGTATCAGTGAAACT
*
780227 CCTCATATGAGCTTAAATG
66 CCCCATATGAGCTTAAATG
* * * *
780246 ATAAGTTGTGTATCAGCGATGCTCCCCAAATGAGCTTAAGTGACAAGTTGTGTATCAGT-AAAGC
1 ATAAGTTGTGTATCAACGAAGCTCCCCAAATAAGCTGAAGTGACAAGTTGTGTATCAGTGAAA-C
*
780310 TCCCCATGTGAGCTT
65 TCCCCATATGAGCTT
780325 GAGTGGTTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 3 0.04
84 66 0.96
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (84 bp):
ATAAGTTGTGTATCAACGAAGCTCCCCAAATAAGCTGAAGTGACAAGTTGTGTATCAGTGAAACT
CCCCATATGAGCTTAAATG
Done.