Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397284.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_115.0, whole genome shotgun sequence
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: 1289616
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.30
Warning! 135248 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:503235 original size:16 final size:16
Alignment explanation
Indices: 503195--503246 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
503185 TTATATATTT
*
503195 TATATAA-ATTTAAAA
1 TATATAATATATAAAA
*
503210 CATA-ATATATATAAAA
1 TATATA-ATATATAAAA
503226 TATATAATATATAAAA
1 TATATAATATATAAAA
*
503242 AATAT
1 TATAT
503247 TTGTTTAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.03
15 4 0.13
16 24 0.80
17 1 0.03
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TATATAATATATAAAA
Found at i:504625 original size:18 final size:18
Alignment explanation
Indices: 504604--504639 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
504594 GTACTTATTC
504604 GATCTAATAAGTATCTTG
1 GATCTAATAAGTATCTTG
504622 GATCTAATAAGTATCTTG
1 GATCTAATAAGTATCTTG
504640 TGTCAGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
GATCTAATAAGTATCTTG
Found at i:505181 original size:15 final size:15
Alignment explanation
Indices: 505161--505196 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
505151 CGATATATAA
505161 AAAATGACCAATTTG
1 AAAATGACCAATTTG
505176 AAAATGACCAATTTG
1 AAAATGACCAATTTG
505191 AAAATG
1 AAAATG
505197 CTATAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.50, C:0.11, G:0.14, T:0.25
Consensus pattern (15 bp):
AAAATGACCAATTTG
Found at i:510022 original size:19 final size:20
Alignment explanation
Indices: 509989--510030 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
509979 TATTTAGTCA
*
509989 AAATTAAAATAAAATTATAT
1 AAATTAAAATAAAATTAAAT
*
510009 AAATT-AAATTAAATTAAAT
1 AAATTAAAATAAAATTAAAT
510028 AAA
1 AAA
510031 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTAAAATAAAATTAAAT
Found at i:510390 original size:19 final size:19
Alignment explanation
Indices: 510354--510428 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
510344 ACGATAAATC
510354 TAATTATATTGGAAAAAAGGA
1 TAATTATATT--AAAAAAGGA
***
510375 TAATTATATTAAAAAAACT
1 TAATTATATTAAAAAAGGA
*
510394 TAATTATGTTAAAAAAGGA
1 TAATTATATTAAAAAAGGA
510413 TAATTATATTAAAAAA
1 TAATTATATTAAAAAA
510429 AACTTAATTA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 36 0.78
21 10 0.22
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.33
Consensus pattern (19 bp):
TAATTATATTAAAAAAGGA
Found at i:510411 original size:38 final size:39
Alignment explanation
Indices: 510366--510443 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
510356 ATTATATTGG
510366 AAAAAAGGATAATTATATT-AAAAAAACTTAATTATGTT
1 AAAAAAGGATAATTATATTAAAAAAAACTTAATTATGTT
510404 AAAAAAGGATAATTATATTAAAAAAAACTTAATTATGTT
1 AAAAAAGGATAATTATATTAAAAAAAACTTAATTATGTT
510443 A
1 A
510444 GCCTAAACCT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 19 0.49
39 20 0.51
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (39 bp):
AAAAAAGGATAATTATATTAAAAAAAACTTAATTATGTT
Found at i:510580 original size:18 final size:18
Alignment explanation
Indices: 510557--510616 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
510547 GAAGAAAAGA
*
510557 AAAAAACTTAAATATATT
1 AAAAAACTTAAATATACT
** * **
510575 AAAAAAGATAAGA-AAAGA
1 AAAAAACTTAA-ATATACT
510593 AAAAAACTTAAATATACT
1 AAAAAACTTAAATATACT
510611 AAAAAA
1 AAAAAA
510617 GATAATTATT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 1 0.03
18 28 0.93
19 1 0.03
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAAAACTTAAATATACT
Found at i:510588 original size:36 final size:36
Alignment explanation
Indices: 510548--510769 Score: 254
Period size: 36 Copynumber: 6.0 Consensus size: 36
510538 TTATTTTAGG
510548 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
1 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
*
510584 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGAT
1 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
* * **** *
510620 AATTATTTTAGAA-AAAAAAAC-TAACCTAATAATTATTTTAG-G
1 AA-GA----A-AAGAAAAAAACTTAA-AT-AT-ATTAAAAAAGAT
510662 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
1 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
510698 AAGAAAAGAAAAAAACTTAAATATATT-AAAAAGAT
1 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
*
510733 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGAT
1 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
510769 A
1 A
510770 TTATTTTAGA
Statistics
Matches: 156, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
35 40 0.26
36 77 0.49
37 11 0.07
38 3 0.02
40 3 0.02
41 11 0.07
42 6 0.04
43 5 0.03
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.22
Consensus pattern (36 bp):
AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
Found at i:510678 original size:114 final size:115
Alignment explanation
Indices: 510469--510734 Score: 509
Period size: 114 Copynumber: 2.3 Consensus size: 115
510459 TTATTTTAGG
510469 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGATAATTATTTTAGAAAAAAAAACCTAACCTA
1 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGATAATTATTTTAGAAAAAAAAACCTAACCTA
510534 ATAATTATTTTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
66 ATAATTATTTTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
510584 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGATAATTATTTTAGAAAAAAAAA-CTAACCTA
1 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGATAATTATTTTAGAAAAAAAAACCTAACCTA
510648 ATAATTATTTTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
66 ATAATTATTTTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
*
510698 AAGAAAAGAAAAAAACTTAAATATA-TTAAAAAGATAA
1 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGATAA
510735 GAAAAGAAAA
Statistics
Matches: 150, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
113 11 0.07
114 83 0.55
115 56 0.37
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (115 bp):
AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGATAATTATTTTAGAAAAAAAAACCTAACCTA
ATAATTATTTTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
Found at i:510694 original size:18 final size:18
Alignment explanation
Indices: 510671--510729 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
510661 GAAGAAAAGA
510671 AAAAAACTTAAATATATT
1 AAAAAACTTAAATATATT
** * **
510689 AAAAAAGATAAGA-AAAGA
1 AAAAAACTTAA-ATATATT
510707 AAAAAACTTAAATATATT
1 AAAAAACTTAAATATATT
510725 AAAAA
1 AAAAA
510730 GATAAGAAAA
Statistics
Matches: 29, Mismatches: 10, Indels: 4
0.67 0.23 0.09
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (18 bp):
AAAAAACTTAAATATATT
Found at i:510716 original size:150 final size:150
Alignment explanation
Indices: 510548--510854 Score: 573
Period size: 150 Copynumber: 2.0 Consensus size: 150
510538 TTATTTTAGG
510548 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGATAAGAAAAGAAAAAAACTTAAATATACTAA
1 AAGAAAAGAAAAAAACTTAAATATATT-AAAAAGATAAGAAAAGAAAAAAACTTAAATATACTAA
510613 AAAAGATAATTATTTTAG-AAAAAAAAA-CTAACCTAATAATTATTTTAGGAAGAAAAGAAAAAA
65 AAAAGAT-ATTATTTTAGAAAAAAAAAACCTAACCTAATAATTATTTTAGGAAGAAAAGAAAAAA
510676 ACTTAAATATATTAAAAAAGAT
129 ACTTAAATATATTAAAAAAGAT
510698 AAGAAAAGAAAAAAACTTAAATATATTAAAAAGATAAGAAAAGAAAAAAACTTAAATATACTAAA
1 AAGAAAAGAAAAAAACTTAAATATATTAAAAAGATAAGAAAAGAAAAAAACTTAAATATACTAAA
510763 AAAGATATTATTTTAGAAAAAAAAAACCTAACCTAATAATTATTTTAGGAAGAAAAGAAAAAAAC
66 AAAGATATTATTTTAGAAAAAAAAAACCTAACCTAATAATTATTTTAGGAAGAAAAGAAAAAAAC
510828 TTAAATATATTAAAAAAGAT
131 TTAAATATATTAAAAAAGAT
*
510848 AAAAAAA
1 AAGAAAA
510855 TCTTAAAAAC
Statistics
Matches: 154, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
148 10 0.06
149 53 0.34
150 91 0.59
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (150 bp):
AAGAAAAGAAAAAAACTTAAATATATTAAAAAGATAAGAAAAGAAAAAAACTTAAATATACTAAA
AAAGATATTATTTTAGAAAAAAAAAACCTAACCTAATAATTATTTTAGGAAGAAAAGAAAAAAAC
TTAAATATATTAAAAAAGAT
Found at i:510781 original size:114 final size:110
Alignment explanation
Indices: 510469--510854 Score: 321
Period size: 114 Copynumber: 3.4 Consensus size: 110
510459 TTATTTTAGG
* *** *
510469 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGATAATTATTTTAGAAAAAAAAACCTAACCTA
1 AAGAAAAGAAAAAAACTTAAATATA-TTAAAAAGATAA--A-AAAAGAAAAAAAAA-ATAACCTA
* ** *
510534 ATAATTATTTTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
61 AAAAAGATATTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
* *** *
510584 AAGAAAAGAAAAAAACTTAAATATACTAAAAAAGATAATTATTTTAGAAAAAAAAACTAACCTAA
1 AAGAAAAGAAAAAAACTTAAATATA-TTAAAAAGATAA--A-AAAAGAAAAAAAAAATAACCTAA
* ** *
510649 TAATTATTTTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
62 AAAAGATATTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
*
510698 AAGAAAAGAAAAAAACTTAAATATATTAAAAAGATAAGAAAAGAAAAAAACTTAAATATA-CTAA
1 AAGAAAAGAAAAAAACTTAAATATATTAAAAAGATAAAAAAAGAAAAAAA---AAATA-ACCTAA
*** * * **** *
510762 AAAAGATATTATTTTAG-AAA-AAAAAAACCTAACCTAATAATTATTTTAG-G
62 AAAAGATATTA-GGAAGAAAAGAAAAAAACTTAA-AT-AT-ATTAAAAAAGAT
510812 AAGAAAAGAAAAAAACTTAAATATATTAAAAAAGATAAAAAAA
1 AAGAAAAGAAAAAAACTTAAATATATT-AAAAAGATAAAAAAA
510855 TCTTAAAAAC
Statistics
Matches: 241, Mismatches: 21, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
110 9 0.04
112 11 0.05
113 30 0.12
114 115 0.48
115 76 0.32
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (110 bp):
AAGAAAAGAAAAAAACTTAAATATATTAAAAAGATAAAAAAAGAAAAAAAAAATAACCTAAAAAA
GATATTAGGAAGAAAAGAAAAAAACTTAAATATATTAAAAAAGAT
Found at i:512867 original size:35 final size:35
Alignment explanation
Indices: 512821--512889 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
512811 TTCATATTTT
*
512821 ATATGCAATTTTTCTTGATAAGTGAAGTCATCAAC
1 ATATGCAATTTTTCTTGATAAGTAAAGTCATCAAC
*
512856 ATATGCAATTTTTCTTGATGAGTAAAGTCATCAA
1 ATATGCAATTTTTCTTGATAAGTAAAGTCATCAA
512890 GATAGAACTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (35 bp):
ATATGCAATTTTTCTTGATAAGTAAAGTCATCAAC
Found at i:513067 original size:63 final size:62
Alignment explanation
Indices: 512987--513105 Score: 152
Period size: 62 Copynumber: 1.9 Consensus size: 62
512977 AAAAGGAAAT
* *
512987 GATGAGCTAAAG-TAAAAAAGGAAAAAAAAAAGAAAA-TAAAAATAATTTCAAAATTTGGGCCTA
1 GATGAGCTAAAGAAAAAAAAGG--AAAAAAAAGAAAAGT-AAAATAATTCCAAAATTTGGGCCTA
* * *
513050 GATGAGCTAAGGAAAAAAAAGGAAAATATAGAAAAGTAAAATAATTCCAAAATTTG
1 GATGAGCTAAAGAAAAAAAAGGAAAAAAAAGAAAAGTAAAATAATTCCAAAATTTG
513106 AGCAAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
62 29 0.59
63 12 0.24
64 8 0.16
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.19
Consensus pattern (62 bp):
GATGAGCTAAAGAAAAAAAAGGAAAAAAAAGAAAAGTAAAATAATTCCAAAATTTGGGCCTA
Found at i:513318 original size:58 final size:56
Alignment explanation
Indices: 513242--513418 Score: 182
Period size: 56 Copynumber: 3.2 Consensus size: 56
513232 AAAAAAAGGA
* * ** * *
513242 AAAAATAATTTCAAAATTTGGGCCTAGATGAGCTAAAAAA-AAGGGGAAAAAAGAAAAG
1 AAAAATAATTTCAAAATTTGAG-CTA-AAGA-AAAAAAAACAAAGAGAAAAAAGAAAAG
*
513300 AAAAATAATTTCAAAATTTGAGTTAAAGAAAAAAAAACAAAGAGAAAAAAGAAAAG
1 AAAAATAATTTCAAAATTTGAGCTAAAGAAAAAAAAACAAAGAGAAAAAAGAAAAG
* * * * * *
513356 AAAAATAATTCCAAGATTTGAGCT-AAGGAAAAAAGAGAAA-A-AAAGAAGAAAAG
1 AAAAATAATTTCAAAATTTGAGCTAAAGAAAAAAAAACAAAGAGAAAAAAGAAAAG
513409 AAAAATAATT
1 AAAAATAATT
513419 AAATTTGGGC
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 21 0.20
54 1 0.01
55 19 0.18
56 40 0.38
57 2 0.02
58 21 0.20
ACGTcount: A:0.62, C:0.05, G:0.16, T:0.16
Consensus pattern (56 bp):
AAAAATAATTTCAAAATTTGAGCTAAAGAAAAAAAAACAAAGAGAAAAAAGAAAAG
Found at i:520498 original size:29 final size:30
Alignment explanation
Indices: 520447--520520 Score: 105
Period size: 29 Copynumber: 2.5 Consensus size: 30
520437 CATTAAAGTG
* *
520447 TAACAAAATGTTTTTGAATATGACGTGTAA
1 TAACAATATATTTTTGAATATGACGTGTAA
*
520477 TAACAATATATTTTT-AATATGACGTGTAG
1 TAACAATATATTTTTGAATATGACGTGTAA
*
520506 TAACAATATTTTTTT
1 TAACAATATATTTTT
520521 TCAACGTGGC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 27 0.68
30 13 0.32
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (30 bp):
TAACAATATATTTTTGAATATGACGTGTAA
Found at i:521476 original size:4 final size:4
Alignment explanation
Indices: 521467--521493 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
521457 TCCCATTATA
521467 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
521494 TATTCTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:532005 original size:85 final size:85
Alignment explanation
Indices: 531859--532029 Score: 225
Period size: 85 Copynumber: 2.0 Consensus size: 85
531849 ATGCTGACAT
* * * * * *
531859 TTTGCATTTGATGCTCAAGTAAAATGCTTCCTCACAATTCTCAGTTTCATCACAGTCATGAAAGA
1 TTTGCATTTAATGCACAAGTAAAACGCTTCCTCACAATTCTCAATTACATCACAGTCATGAAAAA
531924 TAGATTCTATATATTCTAAA
66 TAGATTCTATATATTCTAAA
* * * * * *
531944 TTTGCATTTAATGCACAAGTAAAACGCTTGCTGATAATTCTCAATTACATTATAGTTATGAAAAA
1 TTTGCATTTAATGCACAAGTAAAACGCTTCCTCACAATTCTCAATTACATCACAGTCATGAAAAA
*
532009 TAGGTTCTATATATTCTAAA
66 TAGATTCTATATATTCTAAA
532029 T
1 T
532030 ACTTTGTGAT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (85 bp):
TTTGCATTTAATGCACAAGTAAAACGCTTCCTCACAATTCTCAATTACATCACAGTCATGAAAAA
TAGATTCTATATATTCTAAA
Found at i:538733 original size:56 final size:55
Alignment explanation
Indices: 538612--538733 Score: 138
Period size: 56 Copynumber: 2.2 Consensus size: 55
538602 GTTTATAACA
* * *
538612 ATGAGAAATTGGTTTCCCGTCCATTATTTACTTTACAAAGGCAAGGACGAAAGTTC
1 ATGAG-AATTGATTTCCCGTCCATTATTTACTTTACAAAGCCAAGGACGAAACTTC
* * * * *
538668 TTGACAATTGATTT-CCGTCCATTGTTTTACTTTTGCAAAGCCAAGGACGGAACTTC
1 ATGAGAATTGATTTCCCGTCCATT-ATTTAC-TTTACAAAGCCAAGGACGAAACTTC
538724 ATGAGAATTG
1 ATGAGAATTG
538734 CCAACGAGGC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
54 9 0.17
55 13 0.24
56 32 0.59
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (55 bp):
ATGAGAATTGATTTCCCGTCCATTATTTACTTTACAAAGCCAAGGACGAAACTTC
Found at i:543108 original size:2 final size:2
Alignment explanation
Indices: 543101--543140 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
543091 TGATAGTGTC
543101 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
543141 AAATTTAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:544928 original size:26 final size:26
Alignment explanation
Indices: 544898--544949 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
544888 CATGAATCAA
544898 AGCAAATTGCAGCATCAGTCATTGAT
1 AGCAAATTGCAGCATCAGTCATTGAT
544924 AGCAAATTGCAGCATCAGTCATTGAT
1 AGCAAATTGCAGCATCAGTCATTGAT
544950 GTCTACGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (26 bp):
AGCAAATTGCAGCATCAGTCATTGAT
Found at i:545855 original size:30 final size:30
Alignment explanation
Indices: 545819--545881 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
545809 TTGTCCCCAT
545819 CTTGACAATGGTATCCCTATAACTATCGAG
1 CTTGACAATGGTATCCCTATAACTATCGAG
545849 CTTGACAATGGTATCCCTATAACTATCGAG
1 CTTGACAATGGTATCCCTATAACTATCGAG
545879 CTT
1 CTT
545882 TTGTCTTGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (30 bp):
CTTGACAATGGTATCCCTATAACTATCGAG
Found at i:546929 original size:23 final size:23
Alignment explanation
Indices: 546872--546930 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
546862 TGTCACAATC
* **
546872 GTGTCACATATACTTACCATGTT
1 GTGTCACATATTCTTACCATGGA
*
546895 GTGTCACATATTCTTATCATGGA
1 GTGTCACATATTCTTACCATGGA
546918 GTGTCACATATTC
1 GTGTCACATATTC
546931 ACACTATGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (23 bp):
GTGTCACATATTCTTACCATGGA
Found at i:546961 original size:21 final size:22
Alignment explanation
Indices: 546896--546974 Score: 74
Period size: 23 Copynumber: 3.5 Consensus size: 22
546886 TACCATGTTG
**
546896 TGTCACATATTCTTATCATGG-A
1 TGTCACATATTCACA-CATGGCA
546918 GTGTCACATATTCACACTATGGCA
1 -TGTCACATATTCACAC-ATGGCA
546942 TGTCACAT-TCTCACAC-TGGCA
1 TGTCACATAT-TCACACATGGCA
*
546963 TGTCAAATATTC
1 TGTCACATATTC
546975 TTACCAAGTC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
21 14 0.29
22 3 0.06
23 31 0.63
24 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (22 bp):
TGTCACATATTCACACATGGCA
Found at i:546974 original size:23 final size:22
Alignment explanation
Indices: 546919--546975 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 22
546909 TATCATGGAG
*
546919 TGTCACATATTCACACTATGGCA
1 TGTCA-ATATTCTCACTATGGCA
*
546942 TGTC-ACATTCTCAC-ACTGGCA
1 TGTCAATATTCTCACTA-TGGCA
546963 TGTCAAATATTCT
1 TGTC-AATATTCT
546976 TACCAAGTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.04
21 17 0.61
23 10 0.36
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.33
Consensus pattern (22 bp):
TGTCAATATTCTCACTATGGCA
Found at i:547018 original size:23 final size:24
Alignment explanation
Indices: 546988--547046 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
546978 CCAAGTCATC
546988 TCACATATTCCCT-CCAAACCGTG
1 TCACATATTCCCTACCAAACCGTG
* * **
547011 TCATATATT-CTTACCTTACCGTG
1 TCACATATTCCCTACCAAACCGTG
547034 TCACATATTCCCT
1 TCACATATTCCCT
547047 TTATGCCGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 2 0.07
23 24 0.86
24 2 0.07
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.36
Consensus pattern (24 bp):
TCACATATTCCCTACCAAACCGTG
Found at i:548327 original size:21 final size:22
Alignment explanation
Indices: 548301--548343 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
548291 ACTAATTTCC
548301 AAATTCTAAAATATTAT-CTAA
1 AAATTCTAAAATATTATGCTAA
* *
548322 AAATTCTAGAGTATTATGCTAA
1 AAATTCTAAAATATTATGCTAA
548344 GATTTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (22 bp):
AAATTCTAAAATATTATGCTAA
Found at i:550814 original size:18 final size:18
Alignment explanation
Indices: 550783--550817 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
550773 TTTCTCTACA
550783 TTTCTTTCTCTTTTTCTT
1 TTTCTTTCTCTTTTTCTT
550801 TTTCTCTTCT-TTTTTCT
1 TTTCT-TTCTCTTTTTCT
550818 ATCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCTTTCTCTTTTTCTT
Found at i:550837 original size:27 final size:28
Alignment explanation
Indices: 550791--550845 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
550781 CATTTCTTTC
* * *
550791 TCTTTTTCTTTTTCTCTTCTTTTTTCTA
1 TCTTTTTATTTTTATCTTCTCTTTTCTA
550819 TCTTTTTATTTTTAT-TTCTCTTTTCTA
1 TCTTTTTATTTTTATCTTCTCTTTTCTA
550846 GTAACTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (28 bp):
TCTTTTTATTTTTATCTTCTCTTTTCTA
Found at i:553808 original size:29 final size:29
Alignment explanation
Indices: 553766--553824 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
553756 TTTGATTGTC
553766 TATTTGGTTGTTCTCTTCCCTCTAAACTT
1 TATTTGGTTGTTCTCTTCCCTCTAAACTT
553795 TATTTGGTTGTTCTCTTCCCTCTAAACTT
1 TATTTGGTTGTTCTCTTCCCTCTAAACTT
553824 T
1 T
553825 TTGTGAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.14, C:0.24, G:0.10, T:0.53
Consensus pattern (29 bp):
TATTTGGTTGTTCTCTTCCCTCTAAACTT
Found at i:573185 original size:23 final size:23
Alignment explanation
Indices: 573146--573197 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
573136 CTATCTATAA
573146 ATAGAT-A-GGCCCAATCTATCG
1 ATAGATGATGGCCCAATCTATCG
* *
573167 ATGGATGATGGCCCTATCTATCG
1 ATAGATGATGGCCCAATCTATCG
573190 ATAGATGA
1 ATAGATGA
573198 ACAACATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 5 0.19
22 1 0.04
23 20 0.77
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (23 bp):
ATAGATGATGGCCCAATCTATCG
Found at i:582273 original size:23 final size:24
Alignment explanation
Indices: 582223--582274 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
582213 AACAATATTC
582223 ACGCAAAGACCTATCAATCAATCT
1 ACGCAAAGACCTATCAATCAATCT
*
582247 -CGCAAAGACCTATCAATCAGT-T
1 ACGCAAAGACCTATCAATCAATCT
582269 ACGCAA
1 ACGCAA
582275 TGTTAAACCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.40, C:0.29, G:0.12, T:0.19
Consensus pattern (24 bp):
ACGCAAAGACCTATCAATCAATCT
Found at i:584610 original size:13 final size:13
Alignment explanation
Indices: 584578--584611 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
584568 CCGACGGAAA
584578 AAATTT-CGTTGG
1 AAATTTCCGTTGG
584590 AAATTTTCCGTTGG
1 AAA-TTTCCGTTGG
584604 AAATTTCC
1 AAATTTCC
584612 AACGGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.15
13 8 0.40
14 9 0.45
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (13 bp):
AAATTTCCGTTGG
Found at i:591519 original size:23 final size:22
Alignment explanation
Indices: 591489--591545 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
591479 TAGGGATTAA
* *
591489 CATTGCATGACTGGTTGATAAGT
1 CATTGCATGACT-ATTGATAAAT
*
591512 CATTGCATTACCTATTGATAAAT
1 CATTGCATGA-CTATTGATAAAT
*
591535 CATTGCGTGAC
1 CATTGCATGAC
591546 AGCATGATTG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 1 0.04
23 25 0.89
24 2 0.07
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (22 bp):
CATTGCATGACTATTGATAAAT
Found at i:592936 original size:30 final size:30
Alignment explanation
Indices: 592902--592961 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
592892 GTTTATCATT
**
592902 ATTCTTTTCGCATAAGATTTTATGAGGTGA
1 ATTCTTTTCAAATAAGATTTTATGAGGTGA
592932 ATTCTTTTCAAATAAGATTTTATGAGGTGA
1 ATTCTTTTCAAATAAGATTTTATGAGGTGA
592962 GTAAANNNNN
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.43
Consensus pattern (30 bp):
ATTCTTTTCAAATAAGATTTTATGAGGTGA
Found at i:601952 original size:13 final size:13
Alignment explanation
Indices: 601934--601960 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
601924 GCAGTAAACT
601934 AACGAGTCAAGCA
1 AACGAGTCAAGCA
601947 AACGAGTCAAGCA
1 AACGAGTCAAGCA
601960 A
1 A
601961 GTTGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.07
Consensus pattern (13 bp):
AACGAGTCAAGCA
Found at i:602225 original size:197 final size:197
Alignment explanation
Indices: 601617--602896 Score: 729
Period size: 187 Copynumber: 6.6 Consensus size: 197
601607 TCATTTAAGT
* * * * *
601617 TATTACTCTAACATTGCAATTTTTTTTAAAGTATCAAAATTTCTTCTAAGATATTACATCGAATG
1 TATTACTCTAACATTGCAACTTCTTTTAAA-AATCAAAATTTCTTCTAAGATATTACATCAAAAG
* * * ** * *
601682 ACTATCATGCTTGTTGACTATAAAGTAATGAAATTGAAGTAAGGTACATAACTAAAATAATCTAA
65 ACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGT-A---ACCTAA-TAAGTTAAGCAAA
* * * ** **
601747 CGGGGTCAAGCAAGTTAAAATTAT-AAAAGAATTTCTTATCAATATTAAAAAAAAAACTGGCCAA
125 C-GAGTCAAGCAAGTTGAAATT-TCAAAAGAATTTCATATCAAGGTT-AGGAAAAAACT-GCCAA
*
601811 CATTGTTAAAGA
186 CATTGTCAAAGA
** * * * *
601823 TATTACTCTAACATTTTAACTT-TTCTAAAAGATCAAAAATTTCTTTTAAAAAATTACATCAAAA
1 TATTACTCTAACATTGCAACTTCTTTTAAAA-ATC-AAAATTTCTTCTAAGATATTACATCAAAA
* * * * ** *
601887 TGACTATCATGTTTGCTGACTATAAAGTAATGATAATGCAGTAAACTAACGAGTCAAGCAAACGA
64 -GACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTTAAGCAAACGA
* * **
601952 GTCAAGCAAGTTGAAATTTCATAAGAAATTCATATCAAGGTT-GGAAACAAACTGACCAACATCA
128 GTCAAGCAAGTTGAAATTTCAAAAGAATTTCATATCAAGGTTAGGAAA-AAACTG-CCAACATTG
602016 TCAAAGA
191 TCAAAGA
* * * *
602023 TATTACTTTAATATTGCAACTTCTTTTAAGAAATCAAAA-TTCGTCTAAGGTATTACATCAAAAG
1 TATTACTCTAACATTGCAACTTCTTTTAA-AAATCAAAATTTCTTCTAAGATATTACATCAAAAG
* *
602087 ACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTTGAGCAAATGAGT
65 ACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTTAAGCAAACGAGT
* *
602152 CAAGC-AGTTGAACTTTCAAAAGAATTTCATATCAAGGTTAGGAAAAAGCTAGCCAACATTGTCA
130 CAAGCAAGTTGAAATTTCAAAAGAATTTCATATCAAGGTTAGGAAAAAACT-GCCAACATTGTCA
602216 AAGA
194 AAGA
* * * * * *
602220 TATTACTTTAATATTGCAACTTCTTTTAAGGGAA-CAAAATTTCTCCTAAGATATTCCATAAAAA
1 TATTACTCTAACATTGCAACTTCTTTTAA--AAATCAAAATTTCTTCTAAGATATTACAT-CAAA
* ** * * *
602284 AAACTATCATGTTTGTCAACTATAAAATAATGAAAGTGAAGTAA-CT--T--G----G----CGG
63 AGACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTTAAGCAAACGA
* * * * * * *
602336 GTCAATCAAATTGAAAGTTCATAAGAACTTCATATCAAGGTT-GTAAAAAAGCTGGCGAACA-TG
128 GTCAAGCAAGTTGAAATTTCAAAAGAATTTCATATCAAGGTTAGGAAAAAA-CT-GCCAACATTG
*
602399 CATCATTAAAAA
191 --TC---AAAGA
* * ** * * *
602411 CATTACTCTAACATTCCAACTTCTTTTAAGGGATCATAA-TTCTTCTAAGATATTATATAAAAAA
1 TATTACTCTAACATTGCAACTTCTTTTAA-AAATCAAAATTTCTTCTAAGATATTACAT-CAAAA
* **********
602475 GACTATCATGTTTGTAGNNNNNNNNNNAATGAAAATGAAGTAACCTAATAAG-T-----------
64 GACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTTAAGCAAACGAG
* * * * * **
602528 T-AAGCAAGTTGAAAGTTCACAAGAACTTCATATCATGGTT-GAAAAATAACTAGCCAACATCAT
129 TCAAGCAAGTTGAAATTTCAAAAGAATTTCATATCAAGGTTAGGAAAA-AACT-GCCAACATTGT
* *
602591 TAAAAA
192 CAAAGA
* * * *
602597 CATTACTCTAACATTCCAACTTCTTTTAAAGGATCAAAATTTCTTCTAAGATATTATATCAAAAA
1 TATTACTCTAACATTGCAACTTCTTTTAAA-AATCAAAATTTCTTCTAAGATATTACATC-AAAA
* ** * * **
602662 GACTATCATATTTGTAAACTATAAAATAATGAAAATGAAATAACC---T-AGCTT--G----TTA
64 GACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAATAAG-TTAAGCAAACGA
** * * * * **
602717 G---A-CAAGTTGAAAGCTCACAAGAACTTCGTATCAAGGTT-GGAAAAAAGGTGGCCAACATCA
128 GTCAAGCAAGTTGAAATTTCAAAAGAATTTCATATCAAGGTTAGGAAAAAA-CT-GCCAACATTG
* *
602777 TTAAAGG
191 TCAAAGA
* * * * **
602784 CATCACTTTAACATTTCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATCAAAAA
1 TATTACTCTAACATTGCAACTTCTTTTAA-AAATCAAAATTTCTTCTAAGATATTACATC-AAAA
* * * * *
602849 GATTATTATGTTTGTT-ACTCACAGAGTAATGAAAATGAACTAACCTAA
64 GACTATCATGTTTGTTGACT-ATAAAGTAATGAAAATGAAGTAACCTAA
602897 CGAGTCAAGT
Statistics
Matches: 874, Mismatches: 155, Indels: 106
0.77 0.14 0.09
Matches are distributed among these distances:
183 2 0.00
184 1 0.00
185 1 0.00
186 61 0.07
187 238 0.27
188 3 0.00
189 1 0.00
190 103 0.12
191 38 0.04
193 1 0.00
194 1 0.00
195 1 0.00
196 1 0.00
197 83 0.09
198 88 0.10
199 65 0.07
200 41 0.05
201 43 0.05
202 9 0.01
203 4 0.00
205 9 0.01
206 44 0.05
207 36 0.04
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (197 bp):
TATTACTCTAACATTGCAACTTCTTTTAAAAATCAAAATTTCTTCTAAGATATTACATCAAAAGA
CTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTTAAGCAAACGAGTC
AAGCAAGTTGAAATTTCAAAAGAATTTCATATCAAGGTTAGGAAAAAACTGCCAACATTGTCAAA
GA
Found at i:602697 original size:187 final size:187
Alignment explanation
Indices: 601955--603077 Score: 929
Period size: 187 Copynumber: 5.9 Consensus size: 187
601945 CAAACGAGTC
* * * *
601955 AAGCAAGTTGAAATTTCATAAGAAATTCATATCAAGGTTGGAAACAAA-CT-GACCAACATCATC
1 AAGCAAGTTGAAAGTTCACAAGAACTTCATATCAAGGTTGGAAA-AAAGCTAG-CCAACATCATT
* * * ** * *
602018 AAAGATATTACTTTAATATTGCAACTTCTTTTAAGAAATCAAAA-TTCGTCTAAGGTATTACATC
64 AAAGACATTACTCTAACATTGCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATC
**
602082 -AAAAGACTATCATGTTTGTTGACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTT
129 AAAAAGACTATCATGTTTGTAAACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTT
** * *
602140 GAGCAAATGAGTCAAGCAGTTGAACTTTCAAAAGAATTTCATATCAAGGTTAGG-AAAAAGCTAG
1 ------A--AG-C-A--AGTTGAAAGTTCACAAGAACTTCATATCAAGGTT-GGAAAAAAGCTAG
** * * * * * *
602204 CCAACATTGTCAAAGATATTACTTTAATATTGCAACTTCTTTTAAGGGAACAAAATTTCTCCTAA
53 CCAACATCATTAAAGACATTACTCTAACATTGCAACTTCTTTTAAGGGATCAAAATTTCTTCTAA
* * * * * * * ***
602269 GATATTCCATAAAAAAAACTATCATGTTTGTCAACTATAAAATAATGAAAGTGAAGTAACTTGGC
118 GATATTACATCAAAAAGACTATCATGTTTGTAAACTATAAAGTAATGAAAATGAAGTAACCTAAT
** *
602334 GGGTC
183 AAGTT
* * * * * *
602339 AATCAAATTGAAAGTTCATAAGAACTTCATATCAAGGTTGTAAAAAAGCTGGCGAACATGCATCA
1 AAGCAAGTTGAAAGTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTAGC---CA-ACATCA
* * * *
602404 TTAAAAACATTACTCTAACATTCCAACTTCTTTTAAGGGATCATAA-TTCTTCTAAGATATTATA
62 TTAAAGACATTACTCTAACATTGCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACA
* ***********
602468 TAAAAAAGACTATCATGTTTGTAGNNNNNNNNNNAATGAAAATGAAGTAACCTAATAAGTT
127 TCAAAAAGACTATCATGTTTGTAAACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTT
* *
602529 AAGCAAGTTGAAAGTTCACAAGAACTTCATATCATGGTT-GAAAAATAACTAGCCAACATCATTA
1 AAGCAAGTTGAAAGTTCACAAGAACTTCATATCAAGGTTGGAAAAA-AGCTAGCCAACATCATTA
* * * *
602593 AAAACATTACTCTAACATTCCAACTTCTTTTAAAGGATCAAAATTTCTTCTAAGATATTATATCA
65 AAGACATTACTCTAACATTGCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATCA
* * * * *
602658 AAAAGACTATCATATTTGTAAACTATAAAATAATGAAAATGAAATAACCTAGCT-TGTT
130 AAAAGACTATCATGTTTGTAAACTATAAAGTAATGAAAATGAAGTAACCTA-ATAAGTT
* * * *
602716 -AGACAAGTTGAAAGCTCACAAGAACTTCGTATCAAGGTTGGAAAAAAGGTGGCCAACATCATTA
1 AAG-CAAGTTGAAAGTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTAGCCAACATCATTA
* * * *
602780 AAGGCATCACTTTAACATTTCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATCA
65 AAGACATTACTCTAACATTGCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATCA
* * * * * * ** *
602845 AAAAGATTATTATGTTTGT-TACTCACAGAGTAATGAAAATGAACTAACCTAACGAGTC
130 AAAAGACTATCATGTTTGTAAACT-ATAAAGTAATGAAAATGAAGTAACCTAATAAGTT
* * * * * * * ******
602903 AAGTAAGTTGAAATTTCACAAAAACTTTATATGAAGATTGGAAAAAAGCTAGCCAATATNNNNNN
1 AAGCAAGTTGAAAGTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTAGCCAACATCATTAA
**** * *
602968 NNNNATTACTCTAACAATGCAACTTCTTTTAAGGGATCAAAATTTATTCTAAGATATTACATCGA
66 AGACATTACTCTAACATTGCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATC-A
* * * * *
603033 AATA-ACTATCTTATTTGTTAACTATAAAGTAA-CAAAATTGAAGTA
130 AAAAGACTATCATGTTTGTAAACTATAAAGTAATGAAAA-TGAAGTA
603078 GCCTTACAAG
Statistics
Matches: 750, Mismatches: 155, Indels: 58
0.78 0.16 0.06
Matches are distributed among these distances:
186 59 0.08
187 371 0.49
188 16 0.02
189 6 0.01
190 98 0.13
191 43 0.06
193 3 0.00
194 1 0.00
195 1 0.00
196 3 0.00
197 85 0.11
198 18 0.02
199 46 0.06
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.30
Consensus pattern (187 bp):
AAGCAAGTTGAAAGTTCACAAGAACTTCATATCAAGGTTGGAAAAAAGCTAGCCAACATCATTAA
AGACATTACTCTAACATTGCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATCAA
AAAGACTATCATGTTTGTAAACTATAAAGTAATGAAAATGAAGTAACCTAATAAGTT
Found at i:602993 original size:374 final size:374
Alignment explanation
Indices: 601974--603060 Score: 929
Period size: 377 Copynumber: 2.9 Consensus size: 374
601964 GAAATTTCAT
* * * * * * * *
601974 AAGAAATTCATATCAAGGTTGGAAACAAA-CTGAC-CA-ACATCATCAAAGATATTACTTTAATA
1 AAGAACTTCATATCAAGGTTGGAAA-AAAGCTGGCACATACATCATTAAAAACATCACTCTAACA
* ** * * *
602036 TTGCAACTTCTTTTAAGAAATCAAAATTCGTCTAAGGTATTACAT-CAAAAGACTATCATGTTTG
65 TTCCAACTTCTTTTAAGGGATCAAAATTCTTCTAAGATATTACATAAAAAAGACTATCATGTTTG
* * * * *
602100 TTGACT-ATAAAGTAATGAAAATGAAGTAACCTAATAAGTTGAGCAAATGAGTCAAGCAGTTGAA
130 TAG-CTCACAGAGTAATGAAAATGAACTAACCTAACAAG-T---C--A--AG-C-A--AGTTGAA
** * * * * ** * * *
602164 CTTTCA-AAAGAATTTCATATCAAGGTTAGGAAAA-AGCTAGCCAACATTGTCAAAGATATTACT
182 AGTTCACAAA-AACTTCATATCAAGATT-GAAAAATAACTAGCCAACATCATTAAAAACATTACT
* * * * * * *
602227 TTAATATTGCAACTTCTTTTAAGGGAACAAAATTTCTCCTAAGATATTCCATAAAAAAAACTATC
245 CTAACAATGCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACAT-CAAAAAACTATC
* * * * * * *
602292 ATGTTTGTCAACTATAAAATAATGAAAGTGAAGTAACTTGGCGGGTCAATCAAATTGAAAGTTCA
309 ATATTTGTAAACTATAAAATAATGAAAATGAAATAACCTAGCGGGTCAATCAAATTGAAAGCTCA
*
602357 T
374 C
* * *
602358 AAGAACTTCATATCAAGGTTGTAAAAAAGCTGGCGAACATGCATCATTAAAAACATTACTCTAAC
1 AAGAACTTCATATCAAGGTTGGAAAAAAGCTGGC--ACATACATCATTAAAAACATCACTCTAAC
* *
602423 ATTCCAACTTCTTTTAAGGGATCATAATTCTTCTAAGATATTATATAAAAAAGACTATCATGTTT
64 ATTCCAACTTCTTTTAAGGGATCAAAATTCTTCTAAGATATTACATAAAAAAGACTATCATGTTT
********** * * * *
602488 GTAGNNNNNNNNNNAATGAAAATGAAGTAACCTAATAAGTTAAGCAAGTTGAAAGTTCACAAGAA
129 GTAGCTCACAGAGTAATGAAAATGAACTAACCTAACAAGTCAAGCAAGTTGAAAGTTCACAAAAA
* * * *
602553 CTTCATATCATGGTTGAAAAATAACTAGCCAACATCATTAAAAACATTACTCTAACATTCCAACT
194 CTTCATATCAAGATTGAAAAATAACTAGCCAACATCATTAAAAACATTACTCTAACAATGCAACT
* *
602618 TCTTTTAAAGGATCAAAATTTCTTCTAAGATATTATATCAAAAAGACTATCATATTTGTAAACTA
259 TCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATCAAAAA-ACTATCATATTTGTAAACTA
** * *
602683 TAAAATAATGAAAATGAAATAACCTAGCTTGTTAGA-CAAGTTGAAAGCTCAC
323 TAAAATAATGAAAATGAAATAACCTAGCGGGTCA-ATCAAATTGAAAGCTCAC
* * ** *
602735 AAGAACTTCGTATCAAGGTTGGAAAAAAGGTGGC-CA-ACATCATTAAAGGCATCACTTTAACAT
1 AAGAACTTCATATCAAGGTTGGAAAAAAGCTGGCACATACATCATTAAAAACATCACTCTAACAT
* * * *
602798 TTCAACTTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATCAAAAAGATTATTATGTTTG
66 TCCAACTTCTTTTAAGGGATCAAAA-TTCTTCTAAGATATTACATAAAAAAGACTATCATGTTTG
* * *
602863 TTA-CTCACAGAGTAATGAAAATGAACTAACCTAACGAGTCAAGTAAGTTGAAATTTCACAAAAA
130 -TAGCTCACAGAGTAATGAAAATGAACTAACCTAACAAGTCAAGCAAGTTGAAAGTTCACAAAAA
* * * * **********
602927 CTTTATATGAAGATTGGAAAAA-AGCTAGCCAATATNNNNNNNNNNATTACTCTAACAATGCAAC
194 CTTCATATCAAGATT-GAAAAATAACTAGCCAACATCATTAAAAACATTACTCTAACAATGCAAC
* * * *
602991 TTCTTTTAAGGGATCAAAATTTATTCTAAGATATTACATCGAAATAACTATCTTATTTGTTAACT
258 TTCTTTTAAGGGATCAAAATTTCTTCTAAGATATTACATC-AAAAAACTATCATATTTGTAAACT
603056 ATAAA
322 ATAAA
603061 GTAACAAAAT
Statistics
Matches: 572, Mismatches: 116, Indels: 40
0.79 0.16 0.05
Matches are distributed among these distances:
373 45 0.08
374 179 0.31
375 12 0.02
376 10 0.02
377 182 0.32
378 3 0.01
379 1 0.00
380 1 0.00
381 2 0.00
383 4 0.01
384 27 0.05
387 2 0.00
388 59 0.10
389 45 0.08
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.30
Consensus pattern (374 bp):
AAGAACTTCATATCAAGGTTGGAAAAAAGCTGGCACATACATCATTAAAAACATCACTCTAACAT
TCCAACTTCTTTTAAGGGATCAAAATTCTTCTAAGATATTACATAAAAAAGACTATCATGTTTGT
AGCTCACAGAGTAATGAAAATGAACTAACCTAACAAGTCAAGCAAGTTGAAAGTTCACAAAAACT
TCATATCAAGATTGAAAAATAACTAGCCAACATCATTAAAAACATTACTCTAACAATGCAACTTC
TTTTAAGGGATCAAAATTTCTTCTAAGATATTACATCAAAAAACTATCATATTTGTAAACTATAA
AATAATGAAAATGAAATAACCTAGCGGGTCAATCAAATTGAAAGCTCAC
Found at i:621949 original size:113 final size:113
Alignment explanation
Indices: 621804--622018 Score: 254
Period size: 113 Copynumber: 1.9 Consensus size: 113
621794 GCCATGCCTC
** ** * * *
621804 AATCCAATCAAGCTATCATGCAATGATTTATCAATAGGTAACGCAATGATC-TATCAACCAGTCA
1 AATCCAATCAAGCTATCACACAATGACCTATCAATAGGTAACGCAATCA-CATATCAAACACTCA
* * * *
621868 CGCAATGTT-AATCCTTAATGTAATCGTGCACACCCTAACCCTACGCCAA
65 CACAATGTTAAACCCTT-ATGCAATCATGCACACCCTAACCCTACGCCAA
* * * * *
621917 AATCCAGTCATGCTATCACACAATGACCTATCAATATGTCACGTAATCACATATCAAACACTCAC
1 AATCCAATCAAGCTATCACACAATGACCTATCAATAGGTAACGCAATCACATATCAAACACTCAC
621982 ACAATGTTAAACCCTTATGCAATCATGCACACCCTAA
66 ACAATGTTAAACCCTTATGCAATCATGCACACCCTAA
622019 GTGACCTCAT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
112 1 0.01
113 77 0.92
114 6 0.07
ACGTcount: A:0.37, C:0.28, G:0.10, T:0.25
Consensus pattern (113 bp):
AATCCAATCAAGCTATCACACAATGACCTATCAATAGGTAACGCAATCACATATCAAACACTCAC
ACAATGTTAAACCCTTATGCAATCATGCACACCCTAACCCTACGCCAA
Found at i:627719 original size:191 final size:188
Alignment explanation
Indices: 626965--628303 Score: 1252
Period size: 190 Copynumber: 7.0 Consensus size: 188
626955 NNNNNNNNNN
* * * * * * * * * *
626965 TTTTTTCCAACCTTCATATAAAGTTTTTGTGAAATTTCAACTTACATGACTCGTTAGGTTAGTTC
1 TTTTTTACAACCTTGATATGAAGTTCTTGTGAACTTTCAACTTGCTTGACCCGCTAGGTTACTTC
* * * * ** *
627030 ATTGTCATTACTTTATAAT-TAACAAACATAATAGGCTTTTTGATGTAATATCTTAGAAGAAATT
66 ATTTTCATTATTTTATAGTCT-ACAAACATGATAGTTTTTTTGATGTAATATCTTAGAAAAAATT
* * *
627094 TTGATCTCTTAAAAGAAGTTGGAATGTCA-AAGTAATGTCTTTAAT-GATGTTGGCCAAC
130 TTGATCCCTTAAAAGAAGTTGGAATGTTAGAA-TAATGTCTTTAATGGATGTTGGCCAGC
* * * * ****
627152 TTTTTTCCAATCTAGATATGAAGTTCTTGTGAACTTTCCACTTGCTTGACAAATTAGGTTACTTC
1 TTTTTTACAACCTTGATATGAAGTTCTTGTGAACTTTCAACTTGCTTGACCCGCTAGGTTACTTC
* * * * * *
627217 ATTTTCATTATTTTATAGTTTACAAATATCATAG-TCTTTTGATGTAAAATCTTAGAAGAAATTT
66 ATTTTCATTATTTTATAGTCTACAAACATGATAGTTTTTTTGATGTAATATCTTAGAAAAAATTT
* *
627281 TGATCCCTTAAAAGAAGTTGGAATGTTAGAGTAATG-CTTTTAATGATGCATGTTGGCCAAC
131 TGATCCCTTAAAAGAAGTTGGAATGTTAGAATAATGTC-TTTAATG--G-ATGTTGGCCAGC
** * * *
627342 TTTTTTACAATGTTGATATGAAGTTCTTGTGAACTTTCAATTTGCTTGAACCGCTAGGTTACTTA
1 TTTTTTACAACCTTGATATGAAGTTCTTGTGAACTTTCAACTTGCTTGACCCGCTAGGTTACTTC
* *
627407 ATTTTCATTATTTTATAGTTTAC-AACATGATAGTTTTTTTGATGGAATATCTTAGAAAAAATTT
66 ATTTTCATTATTTTATAGTCTACAAACATGATAGTTTTTTTGATGTAATATCTTAGAAAAAATTT
* * * * *
627471 TGATCCCTTGAAAGAAGTTGAAATGGTAGAGTAATGTTTTTAATGATGCATGTTGGCCAGC
131 TGATCCCTTAAAAGAAGTTGGAATGTTAGAATAATGTCTTTAATG--G-ATGTTGGCCAGC
*
627532 TTTTTTACAACCTTGATATGAAGTTCTTGTGAACTTTCAATTTGCTTGACCCGCTAGGTTACTTC
1 TTTTTTACAACCTTGATATGAAGTTCTTGTGAACTTTCAACTTGCTTGACCCGCTAGGTTACTTC
* * *
627597 ATTTTTATTATTTCATAGTCTATAAACA-GAATAGTTTTTTTGATGTAATATCTTAGAAAAAATT
66 ATTTTCATTATTTTATAGTCTACAAACATG-ATAGTTTTTTTGATGTAATATCTTAGAAAAAATT
*
627661 TTGATCCCTTAAAAGAAGTTGGAATGTTAGAATAATGTTTTTAATGGTTCATGTTGGCCAGC
130 TTGATCCCTTAAAAGAAGTTGGAATGTTAGAATAATGTCTTTAATGG---ATGTTGGCCAGC
* * * * *
627723 TTTTTTACAACCTTGATGTGAAGTTCTTGTGAACTTTCAATTTTCTTGACCCGCTAGGTTTCTTT
1 TTTTTTACAACCTTGATATGAAGTTCTTGTGAACTTTCAACTTGCTTGACCCGCTAGGTTACTTC
* * *
627788 ATCTTT-ATTATTTTATAGTCTACAAACATGATAGTTTTTTTTTATGTAATATCTTTGAAGAAAT
66 AT-TTTCATTATTTTATAGTCTACAAACATGATAG-TTTTTTTGATGTAATATCTTAGAAAAAAT
* * * * * * * **
627852 TTTAATCCCTCAAAAGAAGTTGCAATGTTAAAATAATATCTTTGA-CGATGTTGGTTAGC
129 TTTGATCCCTTAAAAGAAGTTGGAATGTTAGAATAATGTCTTTAATGGATGTTGGCCAGC
* * * * **** *
627911 CTTTTT-CTAACCTTGATATGAAGTTCTTTTGAAATTTCAACTTGCTTTACTTATTAGGTTATTT
1 TTTTTTAC-AACCTTGATATGAAGTTCTTGTGAACTTTCAACTTGCTTGACCCGCTAGGTTACTT
* * * * *
627975 CATTTTCATTACTTTATAGCCAACAAACATGATAGTCTTTTTGATGTAATACCTTA-AAAGAAAT
65 CATTTTCATTATTTTATAGTCTACAAACATGATAGTTTTTTTGATGTAATATCTTAGAAA-AAAT
* ** * * * * * *
628039 TTCGATTTCTTAAAAGAAGTTGCAATGATA-AAGTAATATCTTTGAT-GATGTTGGTCAGT
129 TTTGATCCCTTAAAAGAAGTTGGAATGTTAGAA-TAATGTCTTTAATGGATGTTGGCCAGC
* * *
628098 TTTTTTCCAACCTTGATATGAATTTCTTGTGAAATTTCAACTTGCTTGACCTGTTTGATTGACTC
1 TTTTTTACAACCTTGATATGAAGTTCTTGTGAACTTTCAACTTGCTTGA-C-----------C-C
* ** * * *
628163 GTTAGGTTACTTCATTGCCATTACTTTATAGT-TAACAAACATGATAGTTATTTTGATGAAATAT
53 GCTAGGTTACTTCATTTTCATTATTTTATAGTCT-ACAAACATGATAGTTTTTTTGATGTAATAT
* * * * * ** * * **
628227 TTTAGAAGAAATTTTTGCTTCGTTAAAA-AAGTTAAAATGTTAGAGTAATATCTTTAACAG-TGT
117 CTTAGAA-AAAATTTTGATCCCTTAAAAGAAGTTGGAATGTTAGAATAATGTCTTTAATGGATGT
628290 TGGCCAGC
181 TGGCCAGC
628298 TTTTTT
1 TTTTTT
628304 TTAATATTGA
Statistics
Matches: 974, Mismatches: 138, Indels: 67
0.83 0.12 0.06
Matches are distributed among these distances:
185 1 0.00
186 68 0.07
187 195 0.20
188 89 0.09
189 10 0.01
190 251 0.26
191 180 0.18
192 68 0.07
200 93 0.10
201 18 0.02
202 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (188 bp):
TTTTTTACAACCTTGATATGAAGTTCTTGTGAACTTTCAACTTGCTTGACCCGCTAGGTTACTTC
ATTTTCATTATTTTATAGTCTACAAACATGATAGTTTTTTTGATGTAATATCTTAGAAAAAATTT
TGATCCCTTAAAAGAAGTTGGAATGTTAGAATAATGTCTTTAATGGATGTTGGCCAGC
Found at i:628316 original size:200 final size:200
Alignment explanation
Indices: 627964--628505 Score: 463
Period size: 200 Copynumber: 2.7 Consensus size: 200
627954 GCTTTACTTA
* ** *
627964 TTAGGTTATTTCATTTTCATTACTTTATAGCCAACAAACATGATAGTCTTTTTGATGTAATACCT
1 TTAGGTTACTTCATTGCCATTACTTTATAGCCAACAAACATGATAGTCTTTTTGATGAAATACCT
* ** * * *
628029 TAAAAGAAATTTCGATTTCTTAAAAGAAGTTGCAATGATAAAGTAATATCTTTGATGATGTTGGT
66 TAAAAGAAATTTCGACTTCTTAAAAGAAGTTAAAATGATAAAGTAATATCTTTAAAGATGTTGGC
* *
628094 CAGTTTTTTTCCAACCTTGATATGAATTTCTTGTGA-AATTTCAACTTGCTTGACCTGTTTGATT
131 CAGTTTTTTTCCAACATTGATATGAAATTCTT-TGATAATTTCAACTTGCTTGACCTGTTTGATT
628158 GACTCG
195 GACTCG
** **
628164 TTAGGTTACTTCATTGCCATTACTTTATAGTTAACAAACATGATAGT-TATTTTGATGAAATATT
1 TTAGGTTACTTCATTGCCATTACTTTATAGCCAACAAACATGATAGTCT-TTTTGATGAAATACC
* * * *
628228 TTAGAAGAAATTTTTG-CTTCGTTAAAA-AAGTTAAAATGTTAGAGTAATATCTTTAACAG-TGT
65 TTAAAAGAAA-TTTCGACTTC-TTAAAAGAAGTTAAAATGATAAAGTAATATCTTTAA-AGATGT
* * * * *
628290 TGGCCAGCTTTTTTT-TAATATTGATATTAAATTCTTTTATAATTTTAACTTGCTTGACCTTGTT
127 TGGCCAG-TTTTTTTCCAACATTGATATGAAATTCTTTGATAATTTCAACTTGCTTGACC-TGTT
* * * **
628354 AGCTTATTTTAGTAA
190 ---TGA-TTGACTCG
* * * * * * * *
628369 TGTAGCTTACTTCAATT-TCATTACTTTATAGTCAACGAGCATGATAGTC-ATTTGATGTAATAT
1 T-TAGGTTACTTC-ATTGCCATTACTTTATAGCCAACAAACATGATAGTCTTTTTGATGAAATAC
* * * * ** * * *
628432 CTTACAAGAAATTTTGA-TACTTTAAAAGAAATTGCAATGTTAAAGTAATATCTTCAATGATGTT
64 CTTAAAAGAAATTTCGACTTC-TTAAAAGAAGTTAAAATGATAAAGTAATATCTTTAAAGATGTT
*
628496 GACCAGTTTT
128 GGCCAGTTTT
628506 GGCCCAAAAT
Statistics
Matches: 277, Mismatches: 48, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
199 3 0.01
200 133 0.48
201 22 0.08
204 20 0.07
205 59 0.21
206 37 0.13
207 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (200 bp):
TTAGGTTACTTCATTGCCATTACTTTATAGCCAACAAACATGATAGTCTTTTTGATGAAATACCT
TAAAAGAAATTTCGACTTCTTAAAAGAAGTTAAAATGATAAAGTAATATCTTTAAAGATGTTGGC
CAGTTTTTTTCCAACATTGATATGAAATTCTTTGATAATTTCAACTTGCTTGACCTGTTTGATTG
ACTCG
Found at i:635196 original size:2 final size:2
Alignment explanation
Indices: 635156--635188 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
635146 CATTTTTTCC
*
635156 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
635189 TCTATATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:636542 original size:26 final size:26
Alignment explanation
Indices: 636511--636579 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 26
636501 CTTGACTATA
*
636511 AAATAAAGT-AATGAAAGAAGAAAGAT
1 AAATAAA-TAAATAAAAGAAGAAAGAT
636537 AAATAAATAAATAAAAGAAGAAAGAT
1 AAATAAATAAATAAAAGAAGAAAGAT
636563 AAAGTCAAAT-AATAAAA
1 AAA-T-AAATAAATAAAA
636580 ATAAAATAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 1 0.03
26 26 0.67
27 8 0.21
28 4 0.10
ACGTcount: A:0.70, C:0.01, G:0.13, T:0.16
Consensus pattern (26 bp):
AAATAAATAAATAAAAGAAGAAAGAT
Found at i:639189 original size:22 final size:22
Alignment explanation
Indices: 639164--639227 Score: 119
Period size: 22 Copynumber: 2.9 Consensus size: 22
639154 AAAATCATGA
*
639164 AATGCTTACAAACAAGTCACGT
1 AATGCCTACAAACAAGTCACGT
639186 AATGCCTACAAACAAGTCACGT
1 AATGCCTACAAACAAGTCACGT
639208 AATGCCTACAAACAAGTCAC
1 AATGCCTACAAACAAGTCAC
639228 ACACCTTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.19
Consensus pattern (22 bp):
AATGCCTACAAACAAGTCACGT
Found at i:644077 original size:113 final size:115
Alignment explanation
Indices: 643868--644107 Score: 277
Period size: 113 Copynumber: 2.1 Consensus size: 115
643858 ATGTTATGCG
* * * **
643868 TGATTGGATTTTGGCATGAGGTCTCTTAAGGTGTGCATGATTGCATTAGGGTTTAACATTATGTG
1 TGATTGGATTTTGGCACGAGG--TCTTAAGGTGTGCACGATTGCATTAGGGATTAACATTACATG
* * * * * ** *
643933 AGTGTTTGATATGTGATTACGTAACATATTGATAGGTCATTACATGACAGCA
64 ACTGGTTGATAGGTCATTACGTAACACATTGATAAATCATTACATGACAGAA
* *
643985 TGATTGGATTTTGGCACG-GG-CTTAGGGTGTGCACGATTGCATTAGGGATTAACATTGCATGAC
1 TGATTGGATTTTGGCACGAGGTCTTAAGGTGTGCACGATTGCATTAGGGATTAACATTACATGAC
* * * *
644048 TGGTTGATAGGTCATTGCGTTACCCATTGATAAATCATTGCATGACAGAA
66 TGGTTGATAGGTCATTACGTAACACATTGATAAATCATTACATGACAGAA
644098 TGATTGGATT
1 TGATTGGATT
644108 AAGGGATGGC
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
113 85 0.82
116 2 0.02
117 17 0.16
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (115 bp):
TGATTGGATTTTGGCACGAGGTCTTAAGGTGTGCACGATTGCATTAGGGATTAACATTACATGAC
TGGTTGATAGGTCATTACGTAACACATTGATAAATCATTACATGACAGAA
Found at i:649684 original size:21 final size:22
Alignment explanation
Indices: 649654--649694 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
649644 TTAATTTTAA
649654 ATAATTGTATCGACACATTTCG
1 ATAATTGTATCGACACATTTCG
*
649676 ATAA-TGTATCGATACATTT
1 ATAATTGTATCGACACATTT
649695 TGGGCAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (22 bp):
ATAATTGTATCGACACATTTCG
Found at i:651902 original size:21 final size:22
Alignment explanation
Indices: 651873--651916 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
651863 AAGTGATTAA
651873 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
* *
651894 TTTAGGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
651916 T
1 T
651917 ACTTTAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:652584 original size:12 final size:12
Alignment explanation
Indices: 652569--652616 Score: 80
Period size: 12 Copynumber: 4.0 Consensus size: 12
652559 GAGATTTTTG
652569 GAGGCAGCAAGA
1 GAGGCAGCAAGA
652581 GAGGCAGCAAGA
1 GAGGCAGCAAGA
652593 GAGGCAGCAA-A
1 GAGGCAGCAAGA
652604 GGAGGCAGCAAGA
1 -GAGGCAGCAAGA
652617 AACTATTCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 1 0.03
12 32 0.94
13 1 0.03
ACGTcount: A:0.42, C:0.17, G:0.42, T:0.00
Consensus pattern (12 bp):
GAGGCAGCAAGA
Found at i:663671 original size:6 final size:6
Alignment explanation
Indices: 663632--663667 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
663622 TAATAGGAAC
* *
663632 AGGGTT AGCGTT AGGGTT AGGGTT AGGGTT TGGGTT
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
663668 TGGGGAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.47, T:0.36
Consensus pattern (6 bp):
AGGGTT
Found at i:664264 original size:15 final size:16
Alignment explanation
Indices: 664239--664298 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 16
664229 AATTAAAATC
*
664239 AATAATTATAAAA-AA
1 AATAATAATAAAATAA
664254 AAGT-ATAATAAAATAA
1 AA-TAATAATAAAATAA
* *
664270 AATAATAATAATATCA
1 AATAATAATAAAATAA
*
664286 AAT-ACAATAAAAT
1 AATAATAATAAAAT
664299 TTAACATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
15 19 0.51
16 18 0.49
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (16 bp):
AATAATAATAAAATAA
Found at i:664271 original size:16 final size:15
Alignment explanation
Indices: 664246--664298 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
664236 ATCAATAATT
664246 ATAAAA-AAAAGTATA
1 ATAAAATAAAA-TATA
664261 ATAAAATAAAATAATA
1 ATAAAATAAAAT-ATA
* * *
664277 ATAATATCAAATACA
1 ATAAAATAAAATATA
664292 ATAAAAT
1 ATAAAAT
664299 TTAACATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 15 0.47
16 17 0.53
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAAATAAAATATA
Found at i:665123 original size:17 final size:20
Alignment explanation
Indices: 665103--665143 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 20
665093 TGATTAACTA
665103 TTTTAT-TCTA-TTTTA-TT
1 TTTTATCTCTATTTTTAGTT
665120 TTTT-TCTCTATTTTTAGTT
1 TTTTATCTCTATTTTTAGTT
665139 TTTTA
1 TTTTA
665144 AATGCTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.05
17 8 0.40
18 5 0.25
19 6 0.30
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTATCTCTATTTTTAGTT
Found at i:665388 original size:19 final size:19
Alignment explanation
Indices: 665354--665401 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
665344 AAATATTAGT
*
665354 ATTTAATTAT-TTTTAATA
1 ATTTAATAATATTTTAATA
665372 ATTTAATAATATTTTAATA
1 ATTTAATAATATTTTAATA
*
665391 ATTTTATAATA
1 ATTTAATAATA
665402 AAAATATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTAATAATATTTTAATA
Found at i:665400 original size:11 final size:10
Alignment explanation
Indices: 665355--665402 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 10
665345 AATATTAGTA
*
665355 TTTAATTATT
1 TTTAATAATT
665365 TTTAATAA--
1 TTTAATAATT
665373 TTTAATAATAT
1 TTTAATAAT-T
665384 TTTAATAATT
1 TTTAATAATT
665394 TTATAATAA
1 TT-TAATAA
665403 AAATATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
8 8 0.24
10 10 0.30
11 15 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTAATAATT
Found at i:668271 original size:15 final size:16
Alignment explanation
Indices: 668251--668293 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
668241 ACATAAAATT
*
668251 AAAATAACTCACT-TA
1 AAAATAACTAACTATA
*
668266 AAAATAAACTAATTATA
1 AAAAT-AACTAACTATA
668283 AAAATAACTAA
1 AAAATAACTAA
668294 AAATAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 5 0.21
16 12 0.50
17 7 0.29
ACGTcount: A:0.63, C:0.12, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAACTAACTATA
Found at i:668291 original size:16 final size:15
Alignment explanation
Indices: 668251--668303 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
668241 ACATAAAATT
*
668251 AAAATAACTCACTTA
1 AAAATAACTAACTTA
668266 AAAATAAACTAA-TTA
1 AAAAT-AACTAACTTA
*
668281 TAAA-AA-TAAC-TA
1 AAAATAACTAACTTA
668293 AAAATAACTAA
1 AAAATAACTAA
668304 ATTATAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
12 8 0.26
13 4 0.13
14 3 0.10
15 11 0.35
16 5 0.16
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAACTAACTTA
Found at i:676590 original size:44 final size:44
Alignment explanation
Indices: 676332--676592 Score: 281
Period size: 44 Copynumber: 5.8 Consensus size: 44
676322 ACCATAATTG
* * *
676332 TAGTTGAGCTCAACTAGATGAACAAAATATATATAGAACCTAAATTAGTC
1 TAGTTGAGATCAACTAGAT-AAC-AAA-ATATAT---ACCTAAATGAGCC
* * *
676382 TAGTTGAGATGAACTAGATAACAAATTATAGACCTAAATGAGCC
1 TAGTTGAGATCAACTAGATAACAAAATATATACCTAAATGAGCC
** *
676426 TAGTTGAGATCAACTATAGATAACAAAATATATACCTAAACAAACC
1 TAGTTGAGATCAAC--TAGATAACAAAATATATACCTAAATGAGCC
* * * *
676472 TACTTGAGATCAACTAGATAACAGAATATAAACCCAAATGAGCC
1 TAGTTGAGATCAACTAGATAACAAAATATATACCTAAATGAGCC
* *
676516 TAGTTGAGATAAACTAGATAACAAAATATATACCTAAATGAGTC
1 TAGTTGAGATCAACTAGATAACAAAATATATACCTAAATGAGCC
* *
676560 TAGTTGTGTTCAACTA-AGTAACAAAATATATAC
1 TAGTTGAGATCAACTAGA-TAACAAAATATATAC
676593 TTCGTCTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.01
44 114 0.63
46 38 0.21
47 4 0.02
48 3 0.02
49 3 0.02
50 17 0.09
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (44 bp):
TAGTTGAGATCAACTAGATAACAAAATATATACCTAAATGAGCC
Found at i:676591 original size:90 final size:89
Alignment explanation
Indices: 676332--676591 Score: 283
Period size: 90 Copynumber: 2.8 Consensus size: 89
676322 ACCATAATTG
* * *
676332 TAGTTGAGCTCAACTAGATGAACAAAATATATATAGAACCTAAATTAGTCTAGTTGAGATGAACT
1 TAGTTGAGATCAACTAGAT-AAC-AAA-ATATAT---ACCTAAATAAGTCTAGTTGAGATCAACT
* *
676397 AGATAACAAAT-TATAGACCTAAATGAGCC
60 AGATAACAAATATATAAACCCAAATGAGCC
* ** *
676426 TAGTTGAGATCAACTATAGATAACAAAATATATACCTAAACAAACCTACTTGAGATCAACTAGAT
1 TAGTTGAGATCAAC--TAGATAACAAAATATATACCTAAATAAGTCTAGTTGAGATCAACTAGAT
*
676491 AACAGA-ATATAAACCCAAATGAGCC
64 AACAAATATATAAACCCAAATGAGCC
* * * *
676516 TAGTTGAGATAAACTAGATAACAAAATATATACCTAAATGAGTCTAGTTGTGTTCAACTA-AGTA
1 TAGTTGAGATCAACTAGATAACAAAATATATACCTAAATAAGTCTAGTTGAGATCAACTAGA-TA
676580 ACAAAATATATA
65 AC-AAATATATA
676592 CTTCGTCTCA
Statistics
Matches: 141, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
87 1 0.01
88 43 0.30
89 2 0.01
90 65 0.46
93 6 0.04
94 16 0.11
95 3 0.02
96 5 0.04
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (89 bp):
TAGTTGAGATCAACTAGATAACAAAATATATACCTAAATAAGTCTAGTTGAGATCAACTAGATAA
CAAATATATAAACCCAAATGAGCC
Found at i:680556 original size:2 final size:2
Alignment explanation
Indices: 680542--680575 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
680532 AGAAAGAAAT
680542 AG AG AG ATG -G AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG AG
680576 GGGTCTAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 28 0.93
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
AG
Found at i:682904 original size:76 final size:75
Alignment explanation
Indices: 682788--682952 Score: 224
Period size: 76 Copynumber: 2.2 Consensus size: 75
682778 TATCAATTTT
* * *
682788 CAAAATTAAAATACTATCCCTAATTTTTGAAATTTCTTTTAAAGTAGGAAATAATTTTCTATTTT
1 CAAAATTAAAATACTATCCCTAATTTTAGAAATTTCTTTTAAAGTAGGAAACAATTTCCTATTTT
682853 TATGAATCAC
66 TATGAATCAC
* * * *
682863 GCAAACTTAAAATTCTATCCTTAATTTTAGGAATTAT-TTTTAAAGTAGGAAACAATTTCCTATT
1 -CAAAATTAAAATACTATCCCTAATTTTAGAAATT-TCTTTTAAAGTAGGAAACAATTTCCTATT
*
682927 TTTATGGATCAC
64 TTTATGAATCAC
682939 CTAAAATTAAAATA
1 C-AAAATTAAAATA
682953 GATGATATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
75 1 0.01
76 75 0.97
77 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (75 bp):
CAAAATTAAAATACTATCCCTAATTTTAGAAATTTCTTTTAAAGTAGGAAACAATTTCCTATTTT
TATGAATCAC
Found at i:689231 original size:47 final size:45
Alignment explanation
Indices: 689179--689366 Score: 241
Period size: 47 Copynumber: 4.0 Consensus size: 45
689169 GATAAATTGA
*
689179 AATGAACAAATAAAAAGTCAAAGTAAAGATATTTTCTTAAGTCAAGT
1 AATGAACAAATAAAAA-TCAAAGTAAA-ATATTTTCCTAAGTCAAGT
* *
689226 AATGAACAAATAATAAATCAAAGCAAAAATAATTTCCTAAGTCAAGT
1 AATGAACAAATAA-AAATCAAAG-TAAAATATTTTCCTAAGTCAAGT
* *
689273 AATGAACAAATAAAAAATCAAAGTGAAAATATTTTTCTAAGTCCAGT
1 AATGAACAAAT-AAAAATCAAAGT-AAAATATTTTCCTAAGTCAAGT
* *
689320 AATGAACAAATAATAACTCAAAGTAAAAGTATTTTCCAAAGTCAAGT
1 AATGAACAAATAA-AAATCAAAGTAAAA-TATTTTCCTAAGTCAAGT
689367 GTAAGCAAAC
Statistics
Matches: 124, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
46 6 0.05
47 110 0.89
48 8 0.06
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (45 bp):
AATGAACAAATAAAAATCAAAGTAAAATATTTTCCTAAGTCAAGT
Found at i:689278 original size:94 final size:94
Alignment explanation
Indices: 689179--689366 Score: 281
Period size: 94 Copynumber: 2.0 Consensus size: 94
689169 GATAAATTGA
*
689179 AATGAACAAATAAAAAGTCAAAGT-AAAGATA-TTTTCTTAAGTCAAGTAATGAACAAATAATAA
1 AATGAACAAATAAAAAATCAAAGTGAAA-ATATTTTTC-TAAGTCAAGTAATGAACAAATAATAA
*
689242 ATCAAAGCAAAAATAATTTCCTAAGTCAAGT
64 ATCAAAGCAAAAATAATTTCCAAAGTCAAGT
* *
689273 AATGAACAAATAAAAAATCAAAGTGAAAATATTTTTCTAAGTCCAGTAATGAACAAATAATAACT
1 AATGAACAAATAAAAAATCAAAGTGAAAATATTTTTCTAAGTCAAGTAATGAACAAATAATAAAT
* * *
689338 CAAAGTAAAAGTATTTTCCAAAGTCAAGT
66 CAAAGCAAAAATAATTTCCAAAGTCAAGT
689367 GTAAGCAAAC
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
94 77 0.91
95 8 0.09
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (94 bp):
AATGAACAAATAAAAAATCAAAGTGAAAATATTTTTCTAAGTCAAGTAATGAACAAATAATAAAT
CAAAGCAAAAATAATTTCCAAAGTCAAGT
Found at i:689396 original size:94 final size:94
Alignment explanation
Indices: 689179--689402 Score: 269
Period size: 94 Copynumber: 2.4 Consensus size: 94
689169 GATAAATTGA
* *
689179 AATGAACAAATAAAAAGTCAAAGTAAAGATA-TTTTCTTAAGTCAAGTAATGAACAAATAATAAA
1 AATGAACAAACAAAAAATCAAAGTAAA-ATATTTTTCTTAAGTCAAGTAATGAACAAATAATAAA
*
689243 TCAAAGCAAAAATAATTTCCTAAGTCAAGT
65 TCAAAGCAAAAATAATTTCCAAAGTCAAGT
* * *
689273 AATGAACAAATAAAAAATCAAAGTGAAAATATTTTTC-TAAGTCCAGTAATGAACAAATAATAAC
1 AATGAACAAACAAAAAATCAAAGT-AAAATATTTTTCTTAAGTCAAGTAATGAACAAATAATAAA
* * *
689337 TCAAAGTAAAAGTATTTTCCAAAGTCAAGT
65 TCAAAGCAAAAATAATTTCCAAAGTCAAGT
*
689367 -GT-AAGCAAACAAAATGAATC-AAGATAAAATATTTTT
1 AATGAA-CAAACAAAA--AATCAAAG-TAAAATATTTTT
689403 TGAAGCTAAA
Statistics
Matches: 115, Mismatches: 9, Indels: 12
0.85 0.07 0.09
Matches are distributed among these distances:
92 2 0.02
93 9 0.08
94 91 0.79
95 13 0.11
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.26
Consensus pattern (94 bp):
AATGAACAAACAAAAAATCAAAGTAAAATATTTTTCTTAAGTCAAGTAATGAACAAATAATAAAT
CAAAGCAAAAATAATTTCCAAAGTCAAGT
Found at i:689617 original size:33 final size:32
Alignment explanation
Indices: 689580--689668 Score: 88
Period size: 33 Copynumber: 2.7 Consensus size: 32
689570 TTATAATGCT
*
689580 TTTTATGAGATCAAGCGAAACCCTCACAATTCA
1 TTTTATGAGATCAAGCGAAACCCTCACAA-GCA
* ** * *
689613 TTTTATAAGATCAAGTTAAACCCTTACAAGCT
1 TTTTATGAGATCAAGCGAAACCCTCACAAGCA
* *
689645 TTTTCATGGGATAAAGCGAAACCC
1 TTTT-ATGAGATCAAGCGAAACCC
689669 ACCATCAATG
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
32 5 0.11
33 39 0.89
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.29
Consensus pattern (32 bp):
TTTTATGAGATCAAGCGAAACCCTCACAAGCA
Found at i:691630 original size:19 final size:18
Alignment explanation
Indices: 691600--691639 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
691590 CAAGTGAAAA
691600 ATTTTATAATAAAATAAT
1 ATTTTATAATAAAATAAT
691618 ATTTTATTAATAAAATAAT
1 ATTTTA-TAATAAAATAAT
691637 ATT
1 ATT
691640 AAAATAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTTTATAATAAAATAAT
Found at i:691647 original size:19 final size:19
Alignment explanation
Indices: 691605--691648 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
691595 GAAAAATTTT
**
691605 ATAATAAAATAATATTTTA
1 ATAATAAAATAATATTAAA
*
691624 TTAATAAAATAATATTAAA
1 ATAATAAAATAATATTAAA
691643 ATAATA
1 ATAATA
691649 CTGATGTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAATAAAATAATATTAAA
Found at i:697697 original size:24 final size:23
Alignment explanation
Indices: 697660--697714 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
697650 TTGAAATTCA
697660 TATTTTCT-CTTTTAAGTTATT-TT
1 TATTTTCTAC-TTTAA-TTATTATT
*
697683 TATATTTCTACTTTAATTTTTATT
1 TAT-TTTCTACTTTAATTATTATT
697707 TATTTTCT
1 TATTTTCT
697715 TTTTGCAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 12 0.43
24 15 0.54
25 1 0.04
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTTCTACTTTAATTATTATT
Found at i:699211 original size:18 final size:18
Alignment explanation
Indices: 699178--699212 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
699168 GTTTGTTTGT
*
699178 TTATTTAAGTTGCTTTCC
1 TTATTTAAATTGCTTTCC
*
699196 TTATTTAAATTTCTTTC
1 TTATTTAAATTGCTTTC
699213 GCTTTTGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.14, G:0.06, T:0.60
Consensus pattern (18 bp):
TTATTTAAATTGCTTTCC
Found at i:699815 original size:21 final size:22
Alignment explanation
Indices: 699784--699835 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
699774 TGTTTGAAAT
* *
699784 AGAAATGAA-TTGAGTACTTAA
1 AGAAGTGAATTTGAGGACTTAA
* *
699805 AGGAGTGAATTTGGGGACTTAA
1 AGAAGTGAATTTGAGGACTTAA
699827 AGAAGTGAA
1 AGAAGTGAA
699836 AAATTGGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 7 0.28
22 18 0.72
ACGTcount: A:0.42, C:0.04, G:0.29, T:0.25
Consensus pattern (22 bp):
AGAAGTGAATTTGAGGACTTAA
Found at i:714049 original size:18 final size:19
Alignment explanation
Indices: 714026--714065 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
714016 CCAATGGAAA
*
714026 ATTTTA-CAGTAAAATAAT
1 ATTTTATCAATAAAATAAT
*
714044 ATTTTATTAATAAAATAAT
1 ATTTTATCAATAAAATAAT
714063 ATT
1 ATT
714066 GATGTCAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (19 bp):
ATTTTATCAATAAAATAAT
Found at i:721855 original size:23 final size:23
Alignment explanation
Indices: 721788--721855 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
721778 AACATGTTCA
* *
721788 AATAATTAAAATAA-AAATTATAT
1 AATAATT-TAATAATAAATTATTT
721811 AACTAATTTAAT-ATAAATTATTT
1 AA-TAATTTAATAATAAATTATTT
*
721834 AATAATTTAATAATAACTTATT
1 AATAATTTAATAATAAATTATT
721856 GATATTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 10 0.26
23 24 0.62
24 5 0.13
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (23 bp):
AATAATTTAATAATAAATTATTT
Found at i:731550 original size:63 final size:63
Alignment explanation
Indices: 731483--731607 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
731473 GCTCATCTTT
*
731483 CTCTCTTAGCTCTCTAAACTATATCAACTTTGTCAACTCTCTATT-AAGCACCATTATCATCAG
1 CTCTCTCAGCTCTCTAAACTATATCAACTTTGTCAACTCTCTATTGAA-CACCATTATCATCAG
* * * * * * * *
731546 CTCTCTCAGCTTTCTAAACTGTATGAGCTTTGTTAACTTTCTATTGAACACTATTGTCATCA
1 CTCTCTCAGCTCTCTAAACTATATCAACTTTGTCAACTCTCTATTGAACACCATTATCATCA
731608 TGCGGTGGTC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 50 0.96
64 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.39
Consensus pattern (63 bp):
CTCTCTCAGCTCTCTAAACTATATCAACTTTGTCAACTCTCTATTGAACACCATTATCATCAG
Found at i:731894 original size:22 final size:22
Alignment explanation
Indices: 731866--731946 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
731856 TAACATGGCT
731866 TGTAACAATTTTTGAACTTGCA
1 TGTAACAATTTTTGAACTTGCA
* **
731888 TGTAACAA-TTTTGAACATGGTG
1 TGTAACAATTTTTGAAC-TTGCA
731910 TGTAAC-ATTTTCTGAACTTGCA
1 TGTAACAATTTT-TGAACTTGCA
*
731932 TGTAA-TATTTTTGAA
1 TGTAACAATTTTTGAA
731947 TATGGTGTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
21 13 0.27
22 31 0.63
23 5 0.10
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (22 bp):
TGTAACAATTTTTGAACTTGCA
Found at i:731914 original size:44 final size:44
Alignment explanation
Indices: 731857--731969 Score: 158
Period size: 44 Copynumber: 2.6 Consensus size: 44
731847 ATTTTTATTT
731857 AACATGGCT-TGTAACAATTTTTGAACTTGCATGTAACAATTTTG
1 AACATGG-TGTGTAACAATTTTTGAACTTGCATGTAACAATTTTG
* *
731901 AACATGGTGTGTAAC-ATTTTCTGAACTTGCATGTAATATTTTTG
1 AACATGGTGTGTAACAATTTT-TGAACTTGCATGTAACAATTTTG
* *
731945 AATATGGTGTGTAACATTTTTTGAA
1 AACATGGTGTGTAACAATTTTTGAA
731970 AATGGTGTGT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
43 6 0.10
44 52 0.84
45 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.42
Consensus pattern (44 bp):
AACATGGTGTGTAACAATTTTTGAACTTGCATGTAACAATTTTG
Found at i:731965 original size:23 final size:23
Alignment explanation
Indices: 731888--731984 Score: 94
Period size: 23 Copynumber: 4.3 Consensus size: 23
731878 TGAACTTGCA
* *
731888 TGTAACA-ATTTTGAACATGGTG
1 TGTAACATTTTTTGAATATGGTG
* **
731910 TGTAACATTTTCTGAACT-T-GCA
1 TGTAACATTTTTTGAA-TATGGTG
*
731932 TGTAATA-TTTTTGAATATGGTG
1 TGTAACATTTTTTGAATATGGTG
*
731954 TGTAACATTTTTTGAAAATGGTG
1 TGTAACATTTTTTGAATATGGTG
731977 TGTAACAT
1 TGTAACAT
731985 AATGATTGAC
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
20 1 0.02
21 8 0.14
22 21 0.36
23 29 0.49
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (23 bp):
TGTAACATTTTTTGAATATGGTG
Found at i:731993 original size:25 final size:23
Alignment explanation
Indices: 731942--731998 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
731932 TGTAATATTT
* **
731942 TTGAATATGGTGTGTAACATTTT
1 TTGAAAATGGTGTGTAACATTGA
731965 TTGAAAATGGTGTGTAACATAATGA
1 TTGAAAATGGTGTGTAACAT--TGA
731990 TTGACAAAT
1 TTGA-AAAT
731999 TTTAGAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 19 0.68
25 5 0.18
26 4 0.14
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (23 bp):
TTGAAAATGGTGTGTAACATTGA
Found at i:738506 original size:24 final size:24
Alignment explanation
Indices: 738447--738509 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
738437 TAGTAGAGTG
* *
738447 AGTGAAGCTGCTACTAATGCACCA
1 AGTGAAGCTGTTGCTAATGCACCA
* * *
738471 AGTGAAGTTGTTGCTAGTGTACCA
1 AGTGAAGCTGTTGCTAATGCACCA
738495 AGTGAAGCTGTTGCT
1 AGTGAAGCTGTTGCT
738510 GGTGCATGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (24 bp):
AGTGAAGCTGTTGCTAATGCACCA
Found at i:739674 original size:107 final size:108
Alignment explanation
Indices: 739542--739786 Score: 280
Period size: 107 Copynumber: 2.3 Consensus size: 108
739532 AGATTTATGA
* ** *
739542 GGTGACACGTTAAGT-GAAAGCAGATTTATGTTGTGACACGCTGATTTGTTGGAGTATTATGGGG
1 GGTGACACGCTAAGTGGAAAGCAGATTTATGTTGTGACACGCTGATTTGTTACAGTATTATGAGG
* * * *
739606 TGACACACTACGCCCTAATTGTCAGATGTCGATGACATCTTGT
66 TGACACACCACGCCCCAATTGTCAGATGTCAATGACATCTTGG
* * *
739649 GGTGACACGCTAAGTGGAAAG-AGATTTATGATGTGACATGCTGATTTGTTACAGTATTGTGAGG
1 GGTGACACGCTAAGTGGAAAGCAGATTTATGTTGTGACACGCTGATTTGTTACAGTATTATGAGG
** * * *
739713 TGACATGCCATGCCCCAATTGTTAGGTGTCAATGACATCTTGG
66 TGACACACCACGCCCCAATTGTCAGATGTCAATGACATCTTGG
* * * * *
739756 GGTGGCACTCTGAGTGG-TAGTAGATTTATGT
1 GGTGACACGCTAAGTGGAAAGCAGATTTATGT
739787 GTTGATACGT
Statistics
Matches: 115, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
106 2 0.02
107 108 0.94
108 5 0.04
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.32
Consensus pattern (108 bp):
GGTGACACGCTAAGTGGAAAGCAGATTTATGTTGTGACACGCTGATTTGTTACAGTATTATGAGG
TGACACACCACGCCCCAATTGTCAGATGTCAATGACATCTTGG
Found at i:743830 original size:31 final size:30
Alignment explanation
Indices: 743792--743995 Score: 237
Period size: 31 Copynumber: 6.6 Consensus size: 30
743782 AGAAAGATAT
*
743792 AAATGTTGTTACACGCCATGAATATCACGTA
1 AAATGTTGTTACACGCCATGCATATCA-GTA
*
743823 AAATGTTGTTACATGCCATGCATATCGAGTA
1 AAATGTTGTTACACGCCATGCATATC-AGTA
* * *
743854 AAATGTTGTTGCATGCCATACATATCAAGTA
1 AAATGTTGTTACACGCCATGCATATC-AGTA
* *
743885 AAATGTTGTTACAAGCCATGCATATCGAGTC
1 AAATGTTGTTACACGCCATGCATATC-AGTA
*
743916 AAATGTTGTTACACGACATGCATATCATGTA
1 AAATGTTGTTACACGCCATGCATATCA-GTA
* * * * *
743947 AAATGTTGTTACACACTAAGCATACCAAGTC
1 AAATGTTGTTACACGCCATGCATATC-AGTA
743978 AAATGTTGTTACACGCCA
1 AAATGTTGTTACACGCCA
743996 ACGCTGAGCA
Statistics
Matches: 149, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
30 1 0.01
31 146 0.98
32 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (30 bp):
AAATGTTGTTACACGCCATGCATATCAGTA
Found at i:743976 original size:93 final size:93
Alignment explanation
Indices: 743792--743995 Score: 261
Period size: 93 Copynumber: 2.2 Consensus size: 93
743782 AGAAAGATAT
* *
743792 AAATGTTGTTACACGCCATGAATATCACGTAAAATGTTGTTACATGCCATGCATATCGAGTAAAA
1 AAATGTTGTTACACGCCATGAATATCACGTAAAATGTTGTTACACGACATGCATATCGAGTAAAA
* ** *
743857 TGTTGTTGCATGCCATACATATCAAGTA
66 TGTTGTTACACACCATACATACCAAGTA
* * *
743885 AAATGTTGTTACAAGCCATGCATATCGA-GTCAAATGTTGTTACACGACATGCATATC-ATGTAA
1 AAATGTTGTTACACGCCATGAATATC-ACGTAAAATGTTGTTACACGACATGCATATCGA-GTAA
* *
743948 AATGTTGTTACACACTA-AGCATACCAAGTC
64 AATGTTGTTACACACCATA-CATACCAAGTA
743978 AAATGTTGTTACACGCCA
1 AAATGTTGTTACACGCCA
743996 ACGCTGAGCA
Statistics
Matches: 96, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
92 2 0.02
93 93 0.97
94 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (93 bp):
AAATGTTGTTACACGCCATGAATATCACGTAAAATGTTGTTACACGACATGCATATCGAGTAAAA
TGTTGTTACACACCATACATACCAAGTA
Found at i:744643 original size:23 final size:23
Alignment explanation
Indices: 744617--744702 Score: 66
Period size: 23 Copynumber: 3.7 Consensus size: 23
744607 TATGTTCAAG
*
744617 CCATGCCATGTCACACATTCTCA
1 CCATGCCATGTCACAAATTCTCA
*** ** *
744640 CCATGGTGTGTCACATGTTC-AA
1 CCATGCCATGTCACAAATTCTCA
*
744662 GCCATGCCGTGTCACAAATTCTCA
1 -CCATGCCATGTCACAAATTCTCA
* *
744686 CCACGGCATGTCACAAA
1 CCATGCCATGTCACAAA
744703 CTCTGAACCC
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
22 1 0.02
23 45 0.96
24 1 0.02
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (23 bp):
CCATGCCATGTCACAAATTCTCA
Found at i:744660 original size:46 final size:46
Alignment explanation
Indices: 744566--744700 Score: 164
Period size: 46 Copynumber: 3.0 Consensus size: 46
744556 TTTTTTCCAC
* * * * * *
744566 TTCAAACCATGGCATGTCACATATTC-AAGCATGGCGTGTCATATG
1 TTCAAGCCATGCCATGTCACAAATTCTCACCATGGCGTGTCACATG
* *
744611 TTCAAGCCATGCCATGTCACACATTCTCACCATGGTGTGTCACATG
1 TTCAAGCCATGCCATGTCACAAATTCTCACCATGGCGTGTCACATG
* * *
744657 TTCAAGCCATGCCGTGTCACAAATTCTCACCACGGCATGTCACA
1 TTCAAGCCATGCCATGTCACAAATTCTCACCATGGCGTGTCACA
744701 AACTCTGAAC
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
45 23 0.30
46 54 0.70
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
TTCAAGCCATGCCATGTCACAAATTCTCACCATGGCGTGTCACATG
Found at i:744884 original size:23 final size:23
Alignment explanation
Indices: 744835--744885 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
744825 GACAACCGTA
**
744835 TCACATATGTTCACCATGTTGTC
1 TCACATATGTTCACCATGGCGTC
*
744858 TCACATAT-TCTCACCATGGCGTG
1 TCACATATGT-TCACCATGGCGTC
744881 TCACA
1 TCACA
744886 AACTTTAAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 1 0.04
23 23 0.96
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (23 bp):
TCACATATGTTCACCATGGCGTC
Found at i:745020 original size:47 final size:47
Alignment explanation
Indices: 744966--745061 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
744956 CCTATATCAT
*
744966 AGATTCCCTCTATGGTGTGTCACAAACTCTAAAACCTACCGTGTCAC
1 AGATTCCCTCTATAGTGTGTCACAAACTCTAAAACCTACCGTGTCAC
* * * *
745013 AGATTCCCTCTATAGTGTGTCACAAATTCTGAACCCTACCTTGTCAC
1 AGATTCCCTCTATAGTGTGTCACAAACTCTAAAACCTACCGTGTCAC
745060 AG
1 AG
745062 CCGTGTCACA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (47 bp):
AGATTCCCTCTATAGTGTGTCACAAACTCTAAAACCTACCGTGTCAC
Found at i:745116 original size:23 final size:23
Alignment explanation
Indices: 745063--745131 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
745053 TTGTCACAGC
* *
745063 CGTGTCACATATGCTCACCATGC
1 CGTGTCACATATTCTCACCATGG
* *
745086 CATCTCACATATTCTCACCATGG
1 CGTGTCACATATTCTCACCATGG
* *
745109 CGTGTCACACATTCACACCATGG
1 CGTGTCACATATTCTCACCATGG
745132 TGTGCCGCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.25, C:0.35, G:0.14, T:0.26
Consensus pattern (23 bp):
CGTGTCACATATTCTCACCATGG
Found at i:745209 original size:23 final size:23
Alignment explanation
Indices: 745183--745320 Score: 58
Period size: 23 Copynumber: 6.0 Consensus size: 23
745173 TGTCATCTCT
745183 CATATTCCTTCCTAGTCGTGTCA
1 CATATTCCTTCCTAGTCGTGTCA
745206 CATATT--TTCACCTTA-T-GATGTCA
1 CATATTCCTT--CC-TAGTCG-TGTCA
* *
745229 CATATTCCTTTCATGGT-GTGTCA
1 CATATTCC-TTCCTAGTCGTGTCA
* * * *
745252 CACATTCCTACC-ATGCCATGTCA
1 CATATTCCTTCCTA-GTCGTGTCA
* ** *
745275 TATATTCCCACCCT-GCCGTGTCA
1 CATATT-CCTTCCTAGTCGTGTCA
745298 CATATTCCTTCC-ATGTCGTGTCA
1 CATATTCCTTCCTA-GTCGTGTCA
745321 TAAACTTTAA
Statistics
Matches: 84, Mismatches: 17, Indels: 28
0.65 0.13 0.22
Matches are distributed among these distances:
21 2 0.02
22 8 0.10
23 63 0.75
24 9 0.11
26 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.37
Consensus pattern (23 bp):
CATATTCCTTCCTAGTCGTGTCA
Found at i:745390 original size:23 final size:23
Alignment explanation
Indices: 745364--745416 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
745354 CACTTATTTT
745364 CACCATGACATGTCACACATTCC
1 CACCATGACATGTCACACATTCC
**
745387 CACCATGTTATGTCACACATTCC
1 CACCATGACATGTCACACATTCC
745410 CACCATG
1 CACCATG
745417 CCGTTTCACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.28, C:0.38, G:0.09, T:0.25
Consensus pattern (23 bp):
CACCATGACATGTCACACATTCC
Found at i:752050 original size:27 final size:27
Alignment explanation
Indices: 752005--752060 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
751995 ACAAATAATG
*
752005 AAAAAAACAAATATCATATATAATTAA
1 AAAAAAACAAAAATCATATATAATTAA
752032 AAAAAAACAAAAAAT-ATATATAATTAA
1 AAAAAAAC-AAAAATCATATATAATTAA
752059 AA
1 AA
752061 GAAATAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.23
Consensus pattern (27 bp):
AAAAAAACAAAAATCATATATAATTAA
Found at i:753778 original size:2 final size:2
Alignment explanation
Indices: 753771--753803 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
753761 TAGAACATTA
*
753771 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
753804 TTCTTTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:754877 original size:38 final size:38
Alignment explanation
Indices: 754816--754888 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
754806 AATCTAGTTT
754816 TTAAGTATTACGAGACTAGTTTTTAGACATTATGTAAC
1 TTAAGTATTACGAGACTAGTTTTTAGACATTATGTAAC
* *
754854 TTAATTATTACGTGACT-GATTTTTAGACATTATGT
1 TTAAGTATTACGAGACTAG-TTTTTAGACATTATGT
754889 GATTGGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (38 bp):
TTAAGTATTACGAGACTAGTTTTTAGACATTATGTAAC
Found at i:754943 original size:22 final size:22
Alignment explanation
Indices: 754860--754935 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 22
754850 TAACTTAATT
* *
754860 ATTACGTGACTGATTTTTAGAC
1 ATTACGTGACTGAGTTTTAGGC
* *
754882 ATTATGTGATTG-GTTTTAGGC
1 ATTACGTGACTGAGTTTTAGGC
* *
754903 ATTGCGTGACTGAGTTTTAGGT
1 ATTACGTGACTGAGTTTTAGGC
*
754925 ATTATGTGACT
1 ATTACGTGACT
754936 AATTTTTAAG
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 16 0.37
22 27 0.63
ACGTcount: A:0.22, C:0.09, G:0.25, T:0.43
Consensus pattern (22 bp):
ATTACGTGACTGAGTTTTAGGC
Found at i:754998 original size:22 final size:23
Alignment explanation
Indices: 754955--755014 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
754945 GCAATGCCTA
754955 AGTCACACAATGCCTTACTAACT
1 AGTCACACAATGCCTTACTAACT
*
754978 AGTCACACAATG-CTTATTAACT
1 AGTCACACAATGCCTTACTAACT
**
755000 AGTCATGCAATGCCT
1 AGTCACACAATGCCT
755015 AAAAATTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.33, C:0.27, G:0.12, T:0.28
Consensus pattern (23 bp):
AGTCACACAATGCCTTACTAACT
Found at i:755024 original size:22 final size:22
Alignment explanation
Indices: 754996--755054 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
754986 AATGCTTATT
754996 AACTAGTCATGCAATGCCTAAA
1 AACTAGTCATGCAATGCCTAAA
* * * * *
755018 AATTAGTCACGTAGTGCTTAAA
1 AACTAGTCATGCAATGCCTAAA
755040 AACTAGTCATGCAAT
1 AACTAGTCATGCAAT
755055 ACCCAAAGTC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (22 bp):
AACTAGTCATGCAATGCCTAAA
Found at i:755070 original size:21 final size:21
Alignment explanation
Indices: 755044--755096 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
755034 CTTAAAAACT
755044 AGTCATGCAATACCCAAAGTC
1 AGTCATGCAATACCCAAAGTC
* ** *
755065 AGTCATGTAATGTCCAAAGTT
1 AGTCATGCAATACCCAAAGTC
*
755086 AGTCACGCAAT
1 AGTCATGCAAT
755097 CCTATAAACC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (21 bp):
AGTCATGCAATACCCAAAGTC
Found at i:764013 original size:24 final size:23
Alignment explanation
Indices: 763964--764014 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
763954 AATAAAATTG
*
763964 AAAAGAATAAACAAATATAAATA
1 AAAAGAATAAACAAATATAAAGA
*
763987 AAAATAATAATACAAAT-TGAAAGA
1 AAAAGAATAA-ACAAATAT-AAAGA
764011 AAAA
1 AAAA
764015 ACAAAACAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.18
Consensus pattern (23 bp):
AAAAGAATAAACAAATATAAAGA
Found at i:774621 original size:21 final size:20
Alignment explanation
Indices: 774579--774624 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
774569 NNNNAAAATT
* **
774579 AATTATTAATTAATTACTAG
1 AATTATTAATTAATCAAAAG
774599 AATTATTAATCTAATCAAAAG
1 AATTATTAAT-TAATCAAAAG
774620 AATTA
1 AATTA
774625 GTCACATTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (20 bp):
AATTATTAATTAATCAAAAG
Found at i:774780 original size:16 final size:14
Alignment explanation
Indices: 774744--774775 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
774734 AATGCTCAAT
774744 TATTATTACATATA
1 TATTATTACATATA
*
774758 TAATATTACATATA
1 TATTATTACATATA
774772 TATT
1 TATT
774776 TTATTTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTATTACATATA
Found at i:782954 original size:29 final size:31
Alignment explanation
Indices: 782910--782998 Score: 101
Period size: 32 Copynumber: 2.9 Consensus size: 31
782900 AGTGTAACAA
* * *
782910 ATGTTTTTGAATATGGCGTGTAACAATA-AT
1 ATGTTTTTCAACATGGCGTGTAACAACAGAT
* *
782940 AT-TTTTTCAACATGGCATGTAATAACAGTAT
1 ATGTTTTTCAACATGGCGTGTAACAACAG-AT
*
782971 TTGTTTTTCAACATGGCGTGTAACAACA
1 ATGTTTTTCAACATGGCGTGTAACAACA
782999 TTTTTTAACC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 20 0.42
30 2 0.04
31 3 0.06
32 23 0.48
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (31 bp):
ATGTTTTTCAACATGGCGTGTAACAACAGAT
Found at i:783086 original size:21 final size:21
Alignment explanation
Indices: 783062--783152 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
783052 NNTTTTTTAA
783062 CATGGCGTGTAACAACCTAAC
1 CATGGCGTGTAACAACCTAAC
* ** *
783083 CATGGTGTGTAACATATTTTTGTA-
1 CATGGCGTGTAACA-A--CCT-AAC
* **
783107 CATGACGTGTAACAATTTAAC
1 CATGGCGTGTAACAACCTAAC
*
783128 CATGGCGTATAACAACCTAAC
1 CATGGCGTGTAACAACCTAAC
783149 CATG
1 CATG
783153 AAGTGTCATG
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
20 1 0.02
21 37 0.69
22 1 0.02
23 1 0.02
24 13 0.24
25 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (21 bp):
CATGGCGTGTAACAACCTAAC
Found at i:783192 original size:64 final size:65
Alignment explanation
Indices: 783062--783205 Score: 209
Period size: 64 Copynumber: 2.2 Consensus size: 65
783052 NNTTTTTTAA
** **
783062 CATGGCGTGTAACAACCTAACCATGGTGTGTAACATATTTTTGTACATGACGTGTAACAATTTAA
1 CATGGCGTGTAACAACCTAACCATGAAGTGT-ACATATTTTTGTACATGACGTGTAACAACCTAA
783127 C
65 C
* *
783128 CATGGCGTATAACAACCTAACCATGAAGTGT-CATGTTTTTGTACATGACGTGTAACAACCTAAC
1 CATGGCGTGTAACAACCTAACCATGAAGTGTACATATTTTTGTACATGACGTGTAACAACCTAAC
*
783192 CATGGTGTGTAACA
1 CATGGCGTGTAACA
783206 TATTTCTGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
64 42 0.60
66 28 0.40
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (65 bp):
CATGGCGTGTAACAACCTAACCATGAAGTGTACATATTTTTGTACATGACGTGTAACAACCTAAC
Found at i:783229 original size:45 final size:43
Alignment explanation
Indices: 783128--783229 Score: 123
Period size: 43 Copynumber: 2.3 Consensus size: 43
783118 ACAATTTAAC
* * *
783128 CATGGCGTATAACAACCTAACCATGAAGTGTCATGTTTTTGTA
1 CATGGCGTGTAACAACCTAACCATGAAGTGTCATATTTCTGTA
* **
783171 CATGACGTGTAACAACCTAACCATGGTGTGTAACATATTTCTGTA
1 CATGGCGTGTAACAACCTAACCATGAAGTGT--CATATTTCTGTA
*
783216 CATGGTGTGTAACA
1 CATGGCGTGTAACA
783230 TCATAACGTG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 27 0.55
45 22 0.45
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (43 bp):
CATGGCGTGTAACAACCTAACCATGAAGTGTCATATTTCTGTA
Found at i:788874 original size:25 final size:25
Alignment explanation
Indices: 788824--788878 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
788814 GGTCTGTGAT
*
788824 ATATATGTGGCAAAGCCACAGGTTG
1 ATATATGTGGCAAAGCCACAGATTG
* *
788849 ATATATGTGGCTAGGCCACCA-ATTG
1 ATATATGTGGCAAAGCCA-CAGATTG
788874 ATATA
1 ATATA
788879 CATGGTTGCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (25 bp):
ATATATGTGGCAAAGCCACAGATTG
Found at i:801766 original size:76 final size:76
Alignment explanation
Indices: 801640--801802 Score: 247
Period size: 76 Copynumber: 2.1 Consensus size: 76
801630 TGAATTTTTC
*
801640 AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAAAAGGAAACAATTTTCTATTTTTA
1 AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAAAAGGAAACAATTTCCTATTTTTA
* **
801705 TGAATTACCCA
66 TGAATCAAACA
**
801716 AAATTAAAACT-CTATCCTTAATTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTATTTTT
1 AAATTAAAA-TACTATCCTTAATTTTAGGAATTTCTTTTAAAAAAGGAAACAATTTCCTATTTTT
*
801780 ATGGATCAAACA
65 ATGAATCAAACA
801792 AAATTAAAATA
1 AAATTAAAATA
801803 GATGGTATTT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
75 1 0.01
76 76 0.97
77 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (76 bp):
AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAAAAGGAAACAATTTCCTATTTTTA
TGAATCAAACA
Found at i:801780 original size:39 final size:39
Alignment explanation
Indices: 801661--801780 Score: 95
Period size: 39 Copynumber: 3.1 Consensus size: 39
801651 CTATCCTTAA
* *
801661 TTTTAGGAATTTCTTTTAAAAAAGGAAACAATTTTCTAT
1 TTTTAGGAATTTCTTTTAAAATAGGAAACAATTTCCTAT
* * ** ** * *
801700 TTTTATGAATTAC--CCAAAATTA--AAACTCTATCCTTAA
1 TTTTAGGAATTTCTTTTAAAA-TAGGAAACAATTTCC-TAT
*
801737 TTTTAGGAATTTCTTTTAAAGTAGGAAACAATTTCCTAT
1 TTTTAGGAATTTCTTTTAAAATAGGAAACAATTTCCTAT
801776 TTTTA
1 TTTTA
801781 TGGATCAAAC
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
36 7 0.12
37 17 0.30
38 3 0.05
39 21 0.38
40 8 0.14
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (39 bp):
TTTTAGGAATTTCTTTTAAAATAGGAAACAATTTCCTAT
Found at i:811753 original size:112 final size:112
Alignment explanation
Indices: 811548--811762 Score: 304
Period size: 112 Copynumber: 1.9 Consensus size: 112
811538 TTAAAATTTA
* * * * *
811548 TCATTATATATAGTTTATAACCTTATATATATCATCCATGTTCTTCTAACTTATTAAAAATTATG
1 TCATTATATATAATTTATAACCCTATATATATAATCCATGTTCTTCTAAATCATTAAAAATTATG
* *
811613 CATATATAGTGCATCAAACTTACCATTAATATTTTTTTGGAAAAGTT
66 CATATATAGTACATCAAACTTACCATTAATATCTTTTTGGAAAAGTT
* *
811660 TCATTATATATAATTTGTAACCCTATATATATAATCCATGTTCTTCTAAATCATTAAATATTATG
1 TCATTATATATAATTTATAACCCTATATATATAATCCATGTTCTTCTAAATCATTAAAAATTATG
* * ***
811725 CATATATCGTACATCAAATTTTTTATTAATATCTTTTT
66 CATATATAGTACATCAAACTTACCATTAATATCTTTTT
811763 CCATTTATAA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
112 89 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (112 bp):
TCATTATATATAATTTATAACCCTATATATATAATCCATGTTCTTCTAAATCATTAAAAATTATG
CATATATAGTACATCAAACTTACCATTAATATCTTTTTGGAAAAGTT
Found at i:811953 original size:88 final size:90
Alignment explanation
Indices: 811852--812046 Score: 227
Period size: 91 Copynumber: 2.2 Consensus size: 90
811842 TGTACAAGTT
811852 TCAAATTTATCATTATATAAGT--TATATAC-ATACA-TGTATATATAATTTTTTTATTGTAAAT
1 TCAAATTTATCATTATATAAGTACTAT-TACAATACATTGTATATATAA-TTTTTTATTGTAAAT
* *
811913 CATTATAAATTACGCATAAATAGCACA
64 CAATAAAAATTACGCATAAATAGCACA
* * * * *
811940 TCAAATTTATCATTATATATGTACTATTACATATATATTTTATTTATAATTTTTTATTGTACATC
1 TCAAATTTATCATTATATAAGTACTATTACA-ATACATTGTATATATAATTTTTTATTGTAAATC
** * * *
812005 AATAAAAATTTTGCATATATAGTACT
65 AATAAAAATTACGCATAAATAGCACA
812031 TCAAATTTATCATTAT
1 TCAAATTTATCATTAT
812047 TATTATTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
88 21 0.23
89 3 0.03
90 3 0.03
91 54 0.60
92 9 0.10
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (90 bp):
TCAAATTTATCATTATATAAGTACTATTACAATACATTGTATATATAATTTTTTATTGTAAATCA
ATAAAAATTACGCATAAATAGCACA
Found at i:812306 original size:204 final size:204
Alignment explanation
Indices: 811765--812306 Score: 511
Period size: 204 Copynumber: 2.6 Consensus size: 204
811755 ATCTTTTTCC
* * *
811765 ATTTATAATTATTGTTATTGTACAACAATAAAAAATTTTGTATATATAGTGCATCAAATTTATCA
1 ATTTATAATT-TTTTTATTGTACATCAAT-AAAAATTTTGTATATATAGTACATCAAATTTATCA
* * * ***
811830 TTATTAATT-TTTTGTACAAGTTTCAAATTTATCATTATATAAGTTATATACATACATGTATATA
64 TTATT-ATTATTTTG-A-AATTTTCAAATTTATAATTATAT---TTA-ATGCAT--ATACCTATA
* * *
811894 TAATTTTTTTATTGTAAATCATTATAAATTACGCATAAATAGCACATCAAATTTATCATTATATA
120 T-A-TTTGTTATTGTAAATCATTATAAATTACGAAGAAATAGCACATCAAATTTATCATTATATA
*
811959 TGTACTATTACATATATATTTT
183 TGTACTATTACATATATATTTA
* *
811981 ATTTATAA-TTTTTTATTGTACATCAATAAAAATTTTGCATATATAGTACTTCAAATTTATCATT
1 ATTTATAATTTTTTTATTGTACATCAATAAAAATTTTGTATATATAGTACATCAAATTTATCATT
* ********** *
812045 ATTATTATTTTTAAATTTTCAAATTTNNNNNNNNNNTT-ATGTATATACCTATATATATTTGTTA
66 ATTATTATTTTGAAATTTTCAAATTTATAATTATATTTAATGCATATACC--TATATATTTGTTA
* * *
812109 TTGTAAATCATTATAAATTATC-AAGAAATAGTACATCAAATTTATTATTATATATGTACTATTN
129 TTGTAAATCATTATAAATTA-CGAAGAAATAGCACATCAAATTTATCATTATATATGTACTATTA
*********
812173 NNNNNNNNNTTA
193 CATATATATTTA
*
812185 ATTTATAATTTTTTTATTGTACATCAATAAAAATTTAGTATATATAGTACATCAAATTTAT-ATT
1 ATTTATAATTTTTTTATTGTACATCAATAAAAATTTTGTATATATAGTACATCAAATTTATCATT
*
812249 ATTATTTTATTTTGAAATTTTGAAATTT-TAATTATATTTAATGCATATACCTATATAT
66 ATTA--TTATTTTGAAATTTTCAAATTTATAATTATATTTAATGCATATACCTATATAT
812307 ATATAACTTT
Statistics
Matches: 265, Mismatches: 53, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
204 89 0.34
205 53 0.20
206 39 0.15
208 2 0.01
211 12 0.05
212 4 0.02
213 41 0.15
214 16 0.06
215 1 0.00
216 8 0.03
ACGTcount: A:0.37, C:0.07, G:0.05, T:0.46
Consensus pattern (204 bp):
ATTTATAATTTTTTTATTGTACATCAATAAAAATTTTGTATATATAGTACATCAAATTTATCATT
ATTATTATTTTGAAATTTTCAAATTTATAATTATATTTAATGCATATACCTATATATTTGTTATT
GTAAATCATTATAAATTACGAAGAAATAGCACATCAAATTTATCATTATATATGTACTATTACAT
ATATATTTA
Found at i:814465 original size:28 final size:28
Alignment explanation
Indices: 814322--814467 Score: 127
Period size: 28 Copynumber: 5.1 Consensus size: 28
814312 CTTTAACATG
*
814322 TTTGTCTTAATTTAAACAA-AAAAAATA
1 TTTGTCTTAATTTAGACAAGAAAAAATA
* * *
814349 TGTTTGGTATTAATTTAGATAAGAAATAATA
1 --TTT-GTCTTAATTTAGACAAGAAAAAATA
* *
814380 TTTGTCTTAATTTAAGACAAG-AATAATT
1 TTTGTCTTAATTT-AGACAAGAAAAAATA
** *
814408 TTATGTCTTAACATAGACAAGAAAATATA
1 TT-TGTCTTAATTTAGACAAGAAAAAATA
*
814437 TTTGTCTCAATTTAGACAA-AATAAAATA
1 TTTGTCTTAATTTAGACAAGAA-AAAATA
814465 TTT
1 TTT
814468 TTGTCTAATT
Statistics
Matches: 95, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
27 2 0.02
28 46 0.48
29 27 0.28
30 13 0.14
31 7 0.07
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.39
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAAAATA
Found at i:814484 original size:30 final size:30
Alignment explanation
Indices: 814429--814485 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
814419 CATAGACAAG
*
814429 AAAATATATTTGTCTCAATTTAGACAAAAT
1 AAAATATATTTGTCTCAATTAAGACAAAAT
*
814459 AAAATATTTTTGTCT-AATTAAAGACAA
1 AAAATATATTTGTCTCAATT-AAGACAA
814486 GAGTTGCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (30 bp):
AAAATATATTTGTCTCAATTAAGACAAAAT
Found at i:814487 original size:58 final size:59
Alignment explanation
Indices: 814322--814487 Score: 159
Period size: 57 Copynumber: 2.9 Consensus size: 59
814312 CTTTAACATG
* * * *
814322 TTTGTCTTAATTTAAACAAAA-AAAATATGTTTGGTATTAATT-TAGATAAG-AAATAATA
1 TTTGTCTTAATTTAGACAAAATAAAATAT-TTTTGT-CTAATTATAGACAAGAAAATAATA
* *
814380 TTTGTCTTAATTTAAGACAAGAAT--AAT-TTTATGTCTTAA-CATAGACAAGAAAAT-ATA
1 TTTGTCTTAATTT-AGACAA-AATAAAATATTTTTGTC-TAATTATAGACAAGAAAATAATA
* *
814437 TTTGTCTCAATTTAGACAAAATAAAATATTTTTGTCTAATTAAAGACAAGA
1 TTTGTCTTAATTTAGACAAAATAAAATATTTTTGTCTAATTATAGACAAGA
814488 GTTGCCTTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
55 3 0.03
56 6 0.07
57 35 0.40
58 34 0.39
59 8 0.09
60 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (59 bp):
TTTGTCTTAATTTAGACAAAATAAAATATTTTTGTCTAATTATAGACAAGAAAATAATA
Found at i:824618 original size:81 final size:79
Alignment explanation
Indices: 824470--824621 Score: 225
Period size: 81 Copynumber: 1.9 Consensus size: 79
824460 AATTTGGGTG
* * *
824470 AAGAGAAGGGGAGAATAAGAAATGCCTAAAAAAAACATGAAACATTTTTAATTAGAATTACCGAC
1 AAGAGAAGGGGAGAAGAAGAAATGCCCAAAAAAAACATGAAACATTTTTAATTAGAATTACCAAC
824535 CAAATTTTTGGGCA
66 CAAATTTTTGGGCA
* *
824549 AAGAGAAGGGGAGAAGGAGAAATGCCCACAAAGAAAAC-TCGAAACATTTTTAATTAGAATTACT
1 AAGAGAAGGGGAGAAGAAGAAATGCCCA-AAA-AAAACAT-GAAACATTTTTAATTAGAATTACC
824613 AACCAAATT
63 AACCAAATT
824622 ATTGAAAAAA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
79 25 0.38
80 4 0.06
81 36 0.55
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (79 bp):
AAGAGAAGGGGAGAAGAAGAAATGCCCAAAAAAAACATGAAACATTTTTAATTAGAATTACCAAC
CAAATTTTTGGGCA
Found at i:830215 original size:26 final size:26
Alignment explanation
Indices: 830134--830216 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 26
830124 AGGGTGTGCG
* * *
830134 TGACTGCAATAGGGTTTAACATTACT
1 TGACTGCAGTAGGGTTTAACATTGCA
** **
830160 TGACTGCAGTAGGGTTTAATGTTGTG
1 TGACTGCAGTAGGGTTTAACATTGCA
*
830186 TGACTGTAGTAGGGTTTAACATTGCA
1 TGACTGCAGTAGGGTTTAACATTGCA
830212 TGACT
1 TGACT
830217 AGTTGATATG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.36
Consensus pattern (26 bp):
TGACTGCAGTAGGGTTTAACATTGCA
Found at i:833671 original size:23 final size:23
Alignment explanation
Indices: 833645--833703 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
833635 TATCAAACAC
833645 TCACGCGATTCCATAGTTACTAG
1 TCACGCGATTCCATAGTTACTAG
***
833668 TCACATTATTCCATAGTTACTAG
1 TCACGCGATTCCATAGTTACTAG
833691 TCACGCGATTCCA
1 TCACGCGATTCCA
833704 ATTCTATTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (23 bp):
TCACGCGATTCCATAGTTACTAG
Found at i:833818 original size:23 final size:23
Alignment explanation
Indices: 833784--833860 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
833774 NNNNNNNNNN
* *
833784 CGCGATTTCATATATACTAGTCA
1 CGCGATTCCATATTTACTAGTCA
* *
833807 CGTGATTCCATATTTACTACTCA
1 CGCGATTCCATATTTACTAGTCA
833830 CGCGATTCCATATTTACTAGTCA
1 CGCGATTCCATATTTACTAGTCA
*
833853 CGCAATTC
1 CGCGATTC
833861 TAATTATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (23 bp):
CGCGATTCCATATTTACTAGTCA
Found at i:834289 original size:29 final size:30
Alignment explanation
Indices: 834225--834296 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
834215 TTTTGTTAAA
* *
834225 AAATGATACAAAAAAGATAAAAAAATTTGT
1 AAATGATACAAAAAAGATAAAAAAATATGG
* *
834255 AAATGATACAACAAAGAT-TAAAAATATGG
1 AAATGATACAAAAAAGATAAAAAAATATGG
*
834284 ACATGATACAAAA
1 AAATGATACAAAA
834297 CAATATTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 19 0.53
30 17 0.47
ACGTcount: A:0.61, C:0.07, G:0.11, T:0.21
Consensus pattern (30 bp):
AAATGATACAAAAAAGATAAAAAAATATGG
Found at i:835289 original size:8 final size:8
Alignment explanation
Indices: 835276--835305 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
835266 TAGCATACCA
835276 TTTTTAAT
1 TTTTTAAT
835284 TTTTTAAT
1 TTTTTAAT
835292 TTTTTAAT
1 TTTTTAAT
835300 TCTTTT
1 T-TTTT
835306 TTCTTTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTAAT
Found at i:835740 original size:23 final size:23
Alignment explanation
Indices: 835714--835787 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
835704 TGATTCTCGT
*
835714 GAGTATTTGATATAGAATCACAC
1 GAGTATTTGATATAGAATCACGC
* ** * *
835737 GAGTACTAAAT-TTGAAATCACGT
1 GAGTATTTGATATAG-AATCACGC
*
835760 GAGTATTTGATATGGAATCACGC
1 GAGTATTTGATATAGAATCACGC
835783 GAGTA
1 GAGTA
835788 CAAAATTTTG
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
22 2 0.05
23 34 0.89
24 2 0.05
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (23 bp):
GAGTATTTGATATAGAATCACGC
Found at i:835819 original size:46 final size:46
Alignment explanation
Indices: 835711--835819 Score: 157
Period size: 46 Copynumber: 2.4 Consensus size: 46
835701 TATTGATTCT
* *
835711 CGTGAGTATTTGATATAGAATCACACGAGTACTAAATTTGAAATCA
1 CGTGAGTATTTGATATGGAATCACACGAGTACAAAATTTGAAATCA
*
835757 CGTGAGTATTTGATATGGAATCACGCGAGTACAAAATTTTG-AATCA
1 CGTGAGTATTTGATATGGAATCACACGAGTACAAAA-TTTGAAATCA
* *
835803 CGTGAGTAGTTAATATG
1 CGTGAGTATTTGATATG
835820 CAATTGCGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 53 0.93
47 4 0.07
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (46 bp):
CGTGAGTATTTGATATGGAATCACACGAGTACAAAATTTGAAATCA
Found at i:835867 original size:23 final size:23
Alignment explanation
Indices: 835803--835869 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
835793 TTTTGAATCA
* * *
835803 CGTGAGTAGTTAATATGCAATTG
1 CGTGACTAGTAAATATGGAATTG
* *
835826 CGTGAGTAATAGAAT-TGGAATTG
1 CGTGACTAGTA-AATATGGAATTG
*
835849 CGTTACTAGTAAATATGGAAT
1 CGTGACTAGTAAATATGGAAT
835870 CACACGAGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 3 0.08
23 30 0.83
24 3 0.08
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.33
Consensus pattern (23 bp):
CGTGACTAGTAAATATGGAATTG
Done.