Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 97 of 228
Found at i:28308784 original size:22 final size:22
Alignment explanation
Indices: 28308759--28308800 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
28308749 GAGTTACTAT
*
28308759 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTATGGG
*
28308781 TTTAAGGATTATGGTTTATG
1 TTTAAGGATTATGGATTATG
28308801 ATTTATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.48
Consensus pattern (22 bp):
TTTAAGGATTATGGATTATGGG
Found at i:28308798 original size:14 final size:14
Alignment explanation
Indices: 28308764--28308846 Score: 53
Period size: 14 Copynumber: 5.9 Consensus size: 14
28308754 ACTATTTTAA
*
28308764 GGTTTATGGATTAT
1 GGTTTAAGGATTAT
28308778 GGGTTTAAGGATTAT
1 -GGTTTAAGGATTAT
*
28308793 GGTTT-ATGATTTAT
1 GGTTTAAGGA-TTAT
* * *
28308807 TGTTTAAGGGTT-G
1 GGTTTAAGGATTAT
* *
28308820 GGATTTAAGGGTTAA
1 GG-TTTAAGGATTAT
*
28308835 GGGTTAAGGATT
1 GGTTTAAGGATT
28308847 TAGGGGTTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
13 4 0.07
14 33 0.61
15 17 0.31
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
GGTTTAAGGATTAT
Found at i:28308848 original size:22 final size:21
Alignment explanation
Indices: 28308810--28308855 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
28308800 GATTTATTGT
*
28308810 TTAAGGGTTGGGATTTAAGGG
1 TTAAGGGTTAGGATTTAAGGG
*
28308831 TTAAGGGTTAAGGATTTAGGGG
1 TTAAGGGTT-AGGATTTAAGGG
28308853 TTA
1 TTA
28308856 TGTTTTATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.26, C:0.00, G:0.39, T:0.35
Consensus pattern (21 bp):
TTAAGGGTTAGGATTTAAGGG
Found at i:28313124 original size:43 final size:43
Alignment explanation
Indices: 28313071--28313321 Score: 186
Period size: 43 Copynumber: 6.1 Consensus size: 43
28313061 TTTTTAGTGC
* * * * *
28313071 CGTTTTTGGGAGAAGCGTCGCTAAAGGTCTTGATCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
* * * * *
28313114 CGTTTGTGGGAAAAGCGCCGTTAAAGATCAAGACCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
* ** * *
28313157 CGCTTTTTTCGAAAA--GCCGCTAAAGGTCCTGATTTATAGCGG
1 CG-TTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
*** * **
28313199 CGTTTGTAAAAAAAGCGTC-CT--A-G-C-----CTATAATGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
* *
28313232 CGTTTGT-GGAAAAGCGCCGCTAAAGGTCCTGACCTATAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
*
28313274 CGTTTGTGGGGAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
28313317 CGTTT
1 CGTTT
28313322 ATTTTTAAAA
Statistics
Matches: 160, Mismatches: 34, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
32 8 0.05
33 15 0.09
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 1 0.01
40 1 0.01
41 8 0.05
42 38 0.24
43 76 0.47
44 9 0.06
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (43 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGG
Found at i:28314376 original size:71 final size:71
Alignment explanation
Indices: 28314257--28314606 Score: 428
Period size: 71 Copynumber: 5.0 Consensus size: 71
28314247 TGATGTATTG
* * * * ** * *
28314257 TGTATATGCTGCCCATTTG-T-TATATATATACTGTTCAATTTTGGTGTAAAAATATTGCTCAAT
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
28314320 TTGGTA
66 TTGGTA
* * *
28314326 TGTATATGCTGCCTAGTTGTTGTATATCTATGCTGTTAAATTTTGGTGT-AAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
28314390 TTGGTA
66 TTGGTA
* **
28314396 TATATATGCTAACTATTTGCTG--TATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
*
28314459 GTGGTA
66 TTGGTA
* *
28314465 TATATATGCTGCCTATTTGCTGTATATATATGCTGTTAAGTTTTGGTGTAAAAGTGCTGTTAAAT
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
28314530 TTGGTA
66 TTGGTA
* * * * *
28314536 TGTATATGCTGCCCATTTGTTGTATATA-A-GCTGTCCAAATTTTAGTGTATAAA-TGCTGTTTA
1 TGTATATGCTGCCTATTTGCTGTATATATATGCTGT-TAAATTTTGGTGTA-AAAGTGCTGTTAA
28314598 ATTTGGTA
64 ATTTGGTA
28314606 T
1 T
28314607 ATAATTGCTG
Statistics
Matches: 246, Mismatches: 28, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
68 24 0.10
69 62 0.25
70 63 0.26
71 97 0.39
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (71 bp):
TGTATATGCTGCCTATTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
TTGGTA
Found at i:28314405 original size:139 final size:140
Alignment explanation
Indices: 28314259--28314609 Score: 436
Period size: 139 Copynumber: 2.5 Consensus size: 140
28314249 ATGTATTGTG
* * * *
28314259 TATATGCTGCCCATTTGTTATATATATACTGTTCAATTTTGGTGTAAAAATATTGCTCAATTTGG
1 TATATGCTGCCCATTTGTTGTATATATACTGTTCAATTTTGGTGTAAAAATACTGCTAAATGTGG
* * *
28314324 TATGTATATGCTGCCTAGTTGTTGTATATCTATGCTGTTAAATTTTGGTGT-AAAGTGCTGTTAA
66 TATATATATGCTGCCTAGTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
28314388 ATTTGGTATA
131 ATTTGGTATA
** * * * * * * *
28314398 TATATGCTAACTATTTGCTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATGTGG
1 TATATGCTGCCCATTTGTTGTATATATACTGTTCAATTTTGGTGTAAAAATACTGCTAAATGTGG
* *
28314463 TATATATATGCTGCCTATTTGCTGTATATATATGCTGTTAAGTTTTGGTGTAAAAGTGCTGTTAA
66 TATATATATGCTGCCTAGTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
*
28314528 ATTTGGTATG
131 ATTTGGTATA
* * * * * * *
28314538 TATATGCTGCCCATTTGTTGTATATA-AGCTGTCCAAATTTTAGTGTATAAATGCTGTTTAATTT
1 TATATGCTGCCCATTTGTTGTATATATA-CTGTTC-AATTTTGGTGTAAAAATACTGCTAAATGT
28314602 GGTATATA
64 GGTATATA
28314610 ATTGCTGTTC
Statistics
Matches: 178, Mismatches: 31, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
139 98 0.55
140 48 0.27
141 32 0.18
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.45
Consensus pattern (140 bp):
TATATGCTGCCCATTTGTTGTATATATACTGTTCAATTTTGGTGTAAAAATACTGCTAAATGTGG
TATATATATGCTGCCTAGTTGCTGTATATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAA
ATTTGGTATA
Found at i:28314438 original size:24 final size:24
Alignment explanation
Indices: 28314354--28314624 Score: 135
Period size: 23 Copynumber: 11.6 Consensus size: 24
28314344 GTTGTATATC
28314354 TATGCTGTTAAATTTTGGTGTA-A
1 TATGCTGTTAAATTTTGGTGTATA
*
28314377 -AGTGCTGTTAAA-TTTGGTATATA
1 TA-TGCTGTTAAATTTTGGTGTATA
* *
28314400 TATGC---TAACTATTTGCTGTATA
1 TATGCTGTTAAAT-TTTGGTGTATA
28314422 TATGCTGTTAAATTTTGGTGTA-A
1 TATGCTGTTAAATTTTGGTGTATA
* * *
28314445 AAGTGCTGTTAAA-TGTGGTATATA
1 TA-TGCTGTTAAATTTTGGTGTATA
* *
28314469 TATGCTGCCT--A-TTTGCTGTATATA
1 TATGCTG-TTAAATTTTG--GTGTATA
*
28314493 TATGCTGTTAAGTTTTGGTGTA-A
1 TATGCTGTTAAATTTTGGTGTATA
* * *
28314516 AAGTGCTGTTAAA-TTTGGTATGTA
1 TA-TGCTGTTAAATTTTGGTGTATA
*** *
28314540 TATGCTG-CCCA-TTTGTTGTATA
1 TATGCTGTTAAATTTTGGTGTATA
* * *
28314562 TAAGCTGTCCAAATTTTAGTGTATA
1 TATGCTGT-TAAATTTTGGTGTATA
* * *
28314587 AATGCTGTTTAA-TTTGGTATATA
1 TATGCTGTTAAATTTTGGTGTATA
28314610 -ATTGCTGTTCAAATT
1 TA-TGCTGTT-AAATT
28314625 GATGTATAAG
Statistics
Matches: 186, Mismatches: 38, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
20 3 0.02
22 43 0.23
23 59 0.32
24 57 0.31
25 20 0.11
26 4 0.02
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.45
Consensus pattern (24 bp):
TATGCTGTTAAATTTTGGTGTATA
Found at i:28314632 original size:23 final size:23
Alignment explanation
Indices: 28314581--28314633 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
28314571 CAAATTTTAG
* * *
28314581 TGTATAAATGCTGTTTAATTTGG
1 TGTATAAATGCTGTTCAAATTGA
* *
28314604 TATATAATTGCTGTTCAAATTGA
1 TGTATAAATGCTGTTCAAATTGA
28314627 TGTATAA
1 TGTATAA
28314634 GAGCTGTCCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (23 bp):
TGTATAAATGCTGTTCAAATTGA
Found at i:28319015 original size:45 final size:44
Alignment explanation
Indices: 28318765--28319877 Score: 530
Period size: 45 Copynumber: 25.0 Consensus size: 44
28318755 GTGTCTTCGA
* *
28318765 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAG
1 TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * * *
28318810 TCTAC-TCTACTG-CAA-ACCTAGAGAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTC-GCTGTCAATA-C-AG-GAGGCAAGATCTGCTATCTTCAG
* * *
28318853 ATTTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAG
1 -TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * *
28318899 TCTGC-TCTGCTG-CAA-ACCTAGGGAGGCAAGGT-TGGT-GCATTC-G
1 TCTGCTTC-GCTGTCAATA-C-A-GGAGGCAAGATCTGCTATC-TTCAG
* *
28318942 ATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * ** * * *
28318988 CCTGCTCCGCTGTCAACCCAGAGAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAATACAG-GAGGCAAGATCTGCTATCTTCAG
* * * * * *
28319031 ATCTGCTTTGCTATTAGTACAGGAAGGCAATATCTACTATCTTCAG
1 -TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * * * *
28319077 TCTACTCCGCTG-CAA-ACCCAATGAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAATA--C-AGGAGGCAAGATCTGCTATCTTCAG
* * *
28319120 ATCTGCTTTGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAATAC-AGGAGGCAAGATCTGCTATCTTCAG
* * * * *
28319166 TTTGCTCCGCTGTCAATACAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * * *
28319209 ATCTACTTTGCTGTCAGTACTGAAAGGCAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAATACAG-GAGGCAAGATCTGCTATCTTCAG
* * * * * *
28319255 TCTGCTCCGCTGTCAGTACAAGAAGGCAAGATCTGGTGTCTTCAA
1 TCTGCTTCGCTGTCAATAC-AGGAGGCAAGATCTGCTATCTTCAG
* * * * * *
28319300 TCTACTTTGCTGTCAGTATAGGAAGGCAAGATATGTTATCTTCAG
1 TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * *
28319345 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* *
28319388 ATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAG
1 -TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* ** * * *
28319434 TCTGCTCCGCTGTCAACCCAGGGAGGCAAGGT-TGGTGTCTTC-G
1 TCTGCTTCGCTGTCAATACA-GGAGGCAAGATCTGCTATCTTCAG
* * ** * *
28319477 ATCTAG-TTCGCTGTTAGTATTGGAAGGCAAGATCTGCTATCTTTAA
1 -TCT-GCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * *
28319523 TCTGCTCCGCTG-CAA-ACCCAGGGAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAATA--CA-GGAGGCAAGATCTGCTATCTTCAG
* * ** * *
28319566 ATCTGCTTCGCTGTCAGTATAGGAAGATAATATCTGCTATCTTTAG
1 -TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * * * *
28319612 TCTGCTCCGCTATCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-G
1 TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * * *
28319655 ATCTACTTCGCTGTCAGTACAGGAAGGGAAGATCTGTTATCTTTAG
1 -TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * *
28319701 TCTGC-TCTGCTGTCAGTACAGGAAGGCAAGGT-TGGTGTCTTC-G
1 TCTGCTTC-GCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * * *
28319744 ATATGCTTCGCTATCAGTACAGGAAGGCAAGATTTGCTCTCTTCAG
1 -TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* * * * *
28319790 TCTGCTTCGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTCAA
1 TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCAG
* *
28319834 TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCA
1 TCTGCTTCGCTGTCAATACAGG-AGGCAAGATCTGCTATCTTCA
28319878 ACCTACTCCA
Statistics
Matches: 803, Mismatches: 193, Indels: 144
0.70 0.17 0.13
Matches are distributed among these distances:
43 22 0.03
44 345 0.43
45 411 0.51
46 25 0.03
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (44 bp):
TCTGCTTCGCTGTCAATACAGGAGGCAAGATCTGCTATCTTCAG
Found at i:28319876 original size:89 final size:89
Alignment explanation
Indices: 28318573--28319877 Score: 1415
Period size: 89 Copynumber: 14.7 Consensus size: 89
28318563 AGGTTACTCC
* * * * * * * *
28318573 GCTGGTGT-TGTCGATCTGCTTCGCTGCCAGTACAGAAAGACAAGATCTGCTGTTTTTAGTTTAC
1 GCTGGTGTCT-TCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
* * * *
28318637 TCTGCTGTAAACT-CAGGGAGGCAAG
65 TCCGCTGT-CAGTACAGGAAGGCAAG
* * * * * ** * *
28318662 GCTAGTATCTTTGAT-TGCTTCGCTGCCAATACAGGAAAACAATGATAC-GTTATCTTTAGTCTG
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAA-GAT-CTGCTATCTTCAGTCTG
* * *
28318725 CTCTGCTG-CA-AACTCAGGGAGGCAAG
64 CTCCGCTGTCAGTA--CAGGAAGGCAAG
* * *
28318751 GCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTACT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
** *
28318816 CTACTG-CA-AACCTA-GAGAGGCAAG
66 CCGCTGTCAGTA-C-AGGA-AGGCAAG
* *
28318840 GCTGGTGTCTTCGATTTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
* * *
28318905 CTGCTG-CA-AACCTAGGGAGGCAAG
66 CCGCTGTCAGTA-C-AGGAAGGCAAG
* * *
28318929 GTTGGTG-CATTCGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTATCTTCAGCCTGC
1 GCTGGTGTC-TTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
***
28318993 TCCGCTGTCAACCCA-GAGAGGCAAG
65 TCCGCTGTCAGTACAGGA-AGGCAAG
* * * * * *
28319018 GCTGGTGTCTTCGATCTGCTTTGCTATTAGTACAGGAAGGCAATATCTACTATCTTCAGTCTACT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
* *
28319083 CCGCTG-CA-AACCCAATG-AGGCAAG
66 CCGCTGTCAGTA--C-AGGAAGGCAAG
* * *
28319107 GCTGGTGTCTTCGATCTGCTTTGCTGTCAGTACAAGAAGGCAAGATCTGCTATCTTCAGTTTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
*
28319172 CCGCTGTCAATACAGGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * * *
28319196 GCTGGTGTCTTCGATCTACTTTGCTGTCAGTACTGAAAGGCAAGATCTGCTATCTTCAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
*
28319261 CCGCTGTCAGTACAAGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * * * * * *
28319285 ATCTGGTGTCTTCAATCTACTTTGCTGTCAGTATAGGAAGGCAAGATATGTTATCTTCAGTCTGC
1 -GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
*
28319350 TTCGCTGTCAGTACAGGAAGGCAAG
65 TCCGCTGTCAGTACAGGAAGGCAAG
*
28319375 GCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
*** *
28319440 CCGCTGTCAACCCAGGGAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * ** * *
28319464 GTTGGTGTCTTCGATCTAG-TTCGCTGTTAGTATTGGAAGGCAAGATCTGCTATCTTTAATCTGC
1 GCTGGTGTCTTCGATCT-GCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
* *
28319528 TCCGCTG-CA-AACCCAGGGAGGCAAG
65 TCCGCTGTCAGTA--CAGGAAGGCAAG
* ** * *
28319553 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGATAATATCTGCTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
*
28319618 CCGCTATCAGTACAGGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * * *
28319642 GCTGGTGTCTTCGATCTACTTCGCTGTCAGTACAGGAAGGGAAGATCTGTTATCTTTAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
*
28319707 CTGCTGTCAGTACAGGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* * * * *
28319731 GTTGGTGTCTTCGATATGCTTCGCTATCAGTACAGGAAGGCAAGATTTGCTCTCTTCAGTCTGCT
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
*
28319796 TCGCTGTCAGTACAGGAAGGCAAG
66 CCGCTGTCAGTACAGGAAGGCAAG
* *
28319820 GCTGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCA
1 GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCA
28319878 ACCTACTCCA
Statistics
Matches: 1054, Mismatches: 132, Indels: 60
0.85 0.11 0.05
Matches are distributed among these distances:
87 1 0.00
88 36 0.03
89 898 0.85
90 116 0.11
91 3 0.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (89 bp):
GCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCT
CCGCTGTCAGTACAGGAAGGCAAG
Found at i:28323062 original size:51 final size:50
Alignment explanation
Indices: 28322900--28323083 Score: 178
Period size: 51 Copynumber: 3.6 Consensus size: 50
28322890 AAGTTGCTAG
*
28322900 GTCACATGTGTATTACTATGTGCAGGCTACTACGTGTACCAGAATG--ATA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGAAATA
** ** * * * * *
28322949 GGTTGCATGTGTAGTACTATGTGCAGGCTGTTATGCGTACCGAAT-AACTTC
1 -GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGAA-ATA
*
28323000 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGAAAATA
1 G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATG-AAATA
*
28323052 GTCACATGTGTAGTACTATGTGCATGCTACTA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTA
28323084 TGTGAACCGA
Statistics
Matches: 105, Mismatches: 22, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
49 5 0.05
50 32 0.30
51 62 0.59
52 4 0.04
53 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (50 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGAAATA
Found at i:28330186 original size:3 final size:3
Alignment explanation
Indices: 28330171--28330282 Score: 89
Period size: 3 Copynumber: 37.3 Consensus size: 3
28330161 AGGTAAATTG
* * * * * *
28330171 ATA ATA ATT ATA ATA ATA ATA CTA ATA ATA AAA ATA ATA GTA GTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
28330219 ATA ATA ATA ATA ATA ATA ATA ATG ATG ATG ATG ATG ATG ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
28330267 ATA GTA ATA ATG ATA A
1 ATA ATA ATA ATA ATA A
28330283 ATTAATATTA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 93 1.00
ACGTcount: A:0.55, C:0.01, G:0.11, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:28331331 original size:15 final size:15
Alignment explanation
Indices: 28331311--28331345 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
28331301 GGCCGTATGA
*
28331311 TAGTTGGGCTAGTTG
1 TAGTTGGGCTAGGTG
*
28331326 TAGTTGGTCTAGGTG
1 TAGTTGGGCTAGGTG
28331341 TAGTT
1 TAGTT
28331346 TGGGTTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.37, T:0.43
Consensus pattern (15 bp):
TAGTTGGGCTAGGTG
Found at i:28334494 original size:50 final size:49
Alignment explanation
Indices: 28334381--28334567 Score: 238
Period size: 50 Copynumber: 3.8 Consensus size: 49
28334371 TCATATATCG
*
28334381 GTGCTGATGCCATGTCCTAGACATGGTCTTACACTGGCAC-TCATC-T-C
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTTC-TCGTCC
* * * * *
28334428 GAGCTGATGCCATGTCCCAAACATGGTCTTTCACTGTCCCTTCTCTGTCC
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTTCTC-GTCC
* *
28334478 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCT
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTTCTC-GTCC
28334528 GTG-TCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
1 GTGCT-GATGCCATGTCCCAGACATGGTCTTACACTGGCAC
28334568 ACTTATTGCC
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
47 36 0.30
48 2 0.02
49 2 0.02
50 81 0.67
ACGTcount: A:0.18, C:0.32, G:0.22, T:0.29
Consensus pattern (49 bp):
GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTTCTCGTCC
Found at i:28334503 original size:97 final size:99
Alignment explanation
Indices: 28334381--28334563 Score: 282
Period size: 97 Copynumber: 1.9 Consensus size: 99
28334371 TCATATATCG
*
28334381 GTGCTGATGCCATGTCCTAGACATGGTCTTACACTGGCACTCATC-TC-GAG-CTGATGCCATGT
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCGTCTGAGTC-GATGCCATGT
*
28334443 CCCAAACATGGTCTTTCACTGTCCCTTCTCTGTCC
65 CCCAAACATGGTCTTACACTGTCCCTTCTCTGTCC
* *
28334478 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCCTCGGTCTGTGTCGATGCCATGT
1 GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATC-GTCTGAGTCGATGCCATGT
*
28334543 CCCAGACATGGTCTTACACTG
65 CCCAAACATGGTCTTACACTG
28334564 GCACACTTAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
97 43 0.56
99 2 0.03
100 31 0.40
101 1 0.01
ACGTcount: A:0.17, C:0.31, G:0.22, T:0.30
Consensus pattern (99 bp):
GTGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCGTCTGAGTCGATGCCATGTC
CCAAACATGGTCTTACACTGTCCCTTCTCTGTCC
Found at i:28334636 original size:44 final size:44
Alignment explanation
Indices: 28334588--28334682 Score: 127
Period size: 44 Copynumber: 2.2 Consensus size: 44
28334578 ATGGTCCAAC
* * *
28334588 CATGGTCTTTTCCGTCACTTCTTTCTTAATTGCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTACTTAATTGCCATGTTATAAA
** *
28334632 CATGGACTTTTCTTTCAATTCTTACTTAATTTCCATGTTATAAA
1 CATGGACTTTTCCGTCAATTCTTACTTAATTGCCATGTTATAAA
*
28334676 GATGGAC
1 CATGGAC
28334683 CTTGAGATAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.44
Consensus pattern (44 bp):
CATGGACTTTTCCGTCAATTCTTACTTAATTGCCATGTTATAAA
Found at i:28336543 original size:19 final size:19
Alignment explanation
Indices: 28336521--28336558 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
28336511 TCAAACATCC
28336521 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
28336540 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
28336559 ACCCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:28346445 original size:19 final size:19
Alignment explanation
Indices: 28346423--28346460 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
28346413 TCAATCATCC
28346423 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
28346442 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
28346461 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:28347938 original size:33 final size:33
Alignment explanation
Indices: 28347901--28347966 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
28347891 GGCGATCAAA
28347901 GAGTATAGAAGAAAACAAATCGAAAAAGATATT
1 GAGTATAGAAGAAAACAAATCGAAAAAGATATT
* * *
28347934 GAGTATTGAAGTAAACAACTCGAAAAAGATATT
1 GAGTATAGAAGAAAACAAATCGAAAAAGATATT
28347967 AACATAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (33 bp):
GAGTATAGAAGAAAACAAATCGAAAAAGATATT
Found at i:28354178 original size:16 final size:14
Alignment explanation
Indices: 28354140--28354179 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 14
28354130 AATTGAATAC
28354140 ATATTGACATGCTA
1 ATATTGACATGCTA
28354154 ATATATGACATGCATA
1 ATAT-TGACATGC-TA
28354170 TATATTGACA
1 -ATATTGACA
28354180 CCACCCTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.17
15 8 0.35
16 7 0.30
17 4 0.17
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (14 bp):
ATATTGACATGCTA
Found at i:28355622 original size:39 final size:39
Alignment explanation
Indices: 28355579--28355665 Score: 113
Period size: 39 Copynumber: 2.2 Consensus size: 39
28355569 TATTCACTTT
* * *
28355579 CAAGCATATATCATATTACAT-ATATAGTCACTTAACATA
1 CAAGCATATATCATAGTAC-TCATATAATCACATAACATA
*
28355618 CAAGCATATATCATAGTACTCATATAATCACATAACATT
1 CAAGCATATATCATAGTACTCATATAATCACATAACATA
*
28355657 TAAGCATAT
1 CAAGCATAT
28355666 GTCACAATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.02
39 41 0.98
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (39 bp):
CAAGCATATATCATAGTACTCATATAATCACATAACATA
Found at i:28355735 original size:15 final size:16
Alignment explanation
Indices: 28355711--28355748 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
28355701 GCATAATAGT
*
28355711 CACATGTCACA-TAAA
1 CACATATCACATTAAA
*
28355726 CACATATCACATTACA
1 CACATATCACATTAAA
28355742 CACATAT
1 CACATAT
28355749 TCATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.45, C:0.29, G:0.03, T:0.24
Consensus pattern (16 bp):
CACATATCACATTAAA
Found at i:28357547 original size:18 final size:19
Alignment explanation
Indices: 28357519--28357554 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
28357509 ATCGTTCATT
*
28357519 CTTTCTTTTTTTAGTTTTA
1 CTTTCTTTTTTTAATTTTA
28357538 CTTT-TTTTTTTAATTTT
1 CTTTCTTTTTTTAATTTT
28357555 TATTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.11, C:0.08, G:0.03, T:0.78
Consensus pattern (19 bp):
CTTTCTTTTTTTAATTTTA
Found at i:28357939 original size:21 final size:21
Alignment explanation
Indices: 28357898--28357939 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
28357888 ATTTCAAAAC
*
28357898 ATTTTATGATTTTTATTTAAT
1 ATTTTATGATTTTTATATAAT
28357919 ATTTTATGATTTTCTA-ATAAT
1 ATTTTATGATTTT-TATATAAT
28357940 CGTGTTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTTATGATTTTTATATAAT
Found at i:28362853 original size:50 final size:50
Alignment explanation
Indices: 28362773--28362905 Score: 137
Period size: 50 Copynumber: 2.7 Consensus size: 50
28362763 CAATGTCATA
* ** **
28362773 TCCCAGATATGGTCTTTCATGGGAGTTCTCATATAGGTG-C-ACGTGCCATG
1 TCCCAGACATGGTCTCACATGGGACCTCTCATATAGGTGCCAAC--GCCATG
* * *
28362823 TCTCAGACATGGTCTCACGA-GGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTCAC-ATGGGACCTCTCATATAGGTGCCAACGCCATG
*
28362873 TCCCAGACATGGTCTTACATGGGACCTCTCATA
1 TCCCAGACATGGTCTCACATGGGACCTCTCATA
28362906 ATCTCAATGA
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 63 0.93
51 2 0.03
52 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTCACATGGGACCTCTCATATAGGTGCCAACGCCATG
Found at i:28364389 original size:23 final size:23
Alignment explanation
Indices: 28364363--28364407 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
28364353 CCGATCTCCA
28364363 AATAATCATCACAACCAAAACAG
1 AATAATCATCACAACCAAAACAG
28364386 AATAATCATCACAACCAAAACA
1 AATAATCATCACAACCAAAACA
28364408 CACACATCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.58, C:0.27, G:0.02, T:0.13
Consensus pattern (23 bp):
AATAATCATCACAACCAAAACAG
Found at i:28368786 original size:4 final size:4
Alignment explanation
Indices: 28368767--28368846 Score: 60
Period size: 4 Copynumber: 19.5 Consensus size: 4
28368757 AGTTACCCCT
*
28368767 TTTA TTTTA TTTTA TTTA -TTA TTTT TTTA TATTA TTTA -TT- TTTA TTT-
1 TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
*
28368814 TCCTA TTTTA TTTA TTTA TTTTA TTTA TTTA TT
1 T-TTA -TTTA TTTA TTTA -TTTA TTTA TTTA TT
28368847 ATTCTTCTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
3 8 0.13
4 35 0.56
5 19 0.30
6 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:28368790 original size:17 final size:17
Alignment explanation
Indices: 28368768--28368849 Score: 67
Period size: 17 Copynumber: 5.3 Consensus size: 17
28368758 GTTACCCCTT
28368768 TTATTTTATTTTATTTA
1 TTATTTTATTTTATTTA
28368785 TTA-TTT-TTTTA--TA
1 TTATTTTATTTTATTTA
28368798 TTA-TTTA--TT-TTTA
1 TTATTTTATTTTATTTA
*
28368811 TT-TTCCTATTTTATTTA
1 TTATT-TTATTTTATTTA
28368828 TTTATTTTA-TTTATTTA
1 -TTATTTTATTTTATTTA
28368845 TTATT
1 TTATT
28368850 CTTCTATTTA
Statistics
Matches: 53, Mismatches: 2, Indels: 21
0.70 0.03 0.28
Matches are distributed among these distances:
12 2 0.04
13 13 0.25
14 2 0.04
15 5 0.09
16 10 0.19
17 15 0.28
18 4 0.08
19 2 0.04
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTATTTTATTTA
Found at i:28368799 original size:13 final size:14
Alignment explanation
Indices: 28368772--28368846 Score: 79
Period size: 13 Copynumber: 5.4 Consensus size: 14
28368762 CCCCTTTTAT
28368772 TTTATTTTATTTATTA
1 TTTATTTTA--TATTA
28368788 TTT-TTTTATATTA
1 TTTATTTTATATTA
28368801 TTTATTTT-TATT-
1 TTTATTTTATATTA
28368813 TTCCTATTTTAT-TTA
1 TT--TATTTTATATTA
28368828 TTTATTTTAT-TTA
1 TTTATTTTATATTA
28368841 TTTATT
1 TTTATT
28368847 ATTCTTCTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.04
13 29 0.54
14 12 0.22
15 8 0.15
16 3 0.06
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTTTATATTA
Found at i:28368832 original size:36 final size:37
Alignment explanation
Indices: 28368785--28368858 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 37
28368775 ATTTTATTTA
*
28368785 TTATTTTTTTATATTATTTATTT-TTATT-TTCCTATT
1 TTATTTATTTATATTATTTATTTATTATTCTT-CTATT
*
28368821 TTATTTATTTATTTTATTTATTTATTATTCTTCTATT
1 TTATTTATTTATATTATTTATTTATTATTCTTCTATT
28368858 T
1 T
28368859 AGATTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 21 0.62
37 11 0.32
38 2 0.06
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.74
Consensus pattern (37 bp):
TTATTTATTTATATTATTTATTTATTATTCTTCTATT
Found at i:28368849 original size:43 final size:45
Alignment explanation
Indices: 28368774--28368858 Score: 124
Period size: 43 Copynumber: 1.9 Consensus size: 45
28368764 CCTTTTATTT
28368774 TATTTTATTTATTATTTTTTTATATTATTTATT-TT-TATTTTCC
1 TATTTTATTTATTATTTTTTTATATTATTTATTCTTCTATTTTCC
28368817 TATTTTATTTATTTATTTTATTTAT-TTA-TTATTCTTCTATTT
1 TATTTTATTTA-TTATTTT-TTTATATTATTTATTCTTCTATTT
28368859 AGATTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
43 16 0.42
44 12 0.32
45 10 0.26
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (45 bp):
TATTTTATTTATTATTTTTTTATATTATTTATTCTTCTATTTTCC
Found at i:28368866 original size:43 final size:44
Alignment explanation
Indices: 28368775--28368875 Score: 104
Period size: 43 Copynumber: 2.3 Consensus size: 44
28368765 CTTTTATTTT
**
28368775 ATTTTATTTA-TTATTTTTTTATATTATTTATTTTTATTTTCCT
1 ATTTTATTTATTTATTTTTTTATATTATTTATTTTTATTTTCAG
28368818 ATTTTATTTATTTATTTTATTTAT-TTA-TTATTCTTCTA-TTT-AG
1 ATTTTATTTATTTATTTT-TTTATATTATTTATT-TT-TATTTTCAG
28368861 ATTTTAAATTTATTT
1 ATTTT--ATTTATTT
28368876 TAATTTTTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
43 20 0.40
44 15 0.30
45 15 0.30
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (44 bp):
ATTTTATTTATTTATTTTTTTATATTATTTATTTTTATTTTCAG
Found at i:28368973 original size:11 final size:11
Alignment explanation
Indices: 28368957--28368999 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
28368947 TATCATTGAG
28368957 TTTATTATTTT
1 TTTATTATTTT
28368968 TTTATT-TTTT
1 TTTATTATTTT
*
28368978 GTT-TTA-TTT
1 TTTATTATTTT
28368987 TTTATTATTTT
1 TTTATTATTTT
28368998 TT
1 TT
28369000 AATTTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
9 7 0.26
10 9 0.33
11 11 0.41
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (11 bp):
TTTATTATTTT
Found at i:28368992 original size:30 final size:30
Alignment explanation
Indices: 28368957--28369032 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 30
28368947 TATCATTGAG
*
28368957 TTTATTATTTTTTTATTTTTTGTTTTATTT
1 TTTATTATTTTTTTATTTTTTGTTTTAGTT
*
28368987 TTTATTA-TTTTTTA-ATTTTGTTTTAGTT
1 TTTATTATTTTTTTATTTTTTGTTTTAGTT
**
28369015 GCT-TTATTTTTTTATTTT
1 TTTATTATTTTTTTATTTT
28369033 CTTAAACTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 3 0.08
28 20 0.51
29 9 0.23
30 7 0.18
ACGTcount: A:0.14, C:0.01, G:0.05, T:0.79
Consensus pattern (30 bp):
TTTATTATTTTTTTATTTTTTGTTTTAGTT
Found at i:28369005 original size:23 final size:22
Alignment explanation
Indices: 28368957--28369010 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
28368947 TATCATTGAG
* *
28368957 TTTATTATTTTTTTATTTTTTGT
1 TTTATT-TTTTATTATTTTTTAT
28368980 TTTATTTTTTATTATTTTTTAAT
1 TTTATTTTTTATTATTTTTT-AT
*
28369003 TTTGTTTT
1 TTTATTTT
28369011 AGTTGCTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (22 bp):
TTTATTTTTTATTATTTTTTAT
Found at i:28369010 original size:22 final size:21
Alignment explanation
Indices: 28368964--28369010 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
28368954 GAGTTTATTA
* *
28368964 TTTTTTTATTTTTTGTTTTAT
1 TTTTTTTATTTTTTATTTTAG
28368985 TTTTTATTATTTTTTAATTTT-G
1 TTTTT-TTATTTTTT-ATTTTAG
28369007 TTTT
1 TTTT
28369011 AGTTGCTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.04, T:0.83
Consensus pattern (21 bp):
TTTTTTTATTTTTTATTTTAG
Found at i:28369229 original size:80 final size:79
Alignment explanation
Indices: 28369049--28369263 Score: 394
Period size: 80 Copynumber: 2.7 Consensus size: 79
28369039 CTTGTTTTAA
28369049 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACACTTAATCTTCACTAT
1 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACACTTAATCTTCACTAT
28369114 TTGTGTTTATTTTC
66 TTGTGTTTATTTTC
28369128 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACAACTTAATCTTCACTA
1 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAAC-ACTTAATCTTCACTA
28369193 TTTGTGTTTATTTTC
65 TTTGTGTTTATTTTC
* *
28369208 TTATTATTTTGAAATAAATTTTTATGGTTGTTTCTAATCAAGTTATAACCACTTAA
1 TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAA-CACTTAA
28369264 AAATGTAGGC
Statistics
Matches: 132, Mismatches: 2, Indels: 3
0.96 0.01 0.02
Matches are distributed among these distances:
79 49 0.37
80 82 0.62
81 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (79 bp):
TTATTATTTTGAAATATATTTTTATGGTTGTTTCTAATCGAGTTATAACACTTAATCTTCACTAT
TTGTGTTTATTTTC
Found at i:28370519 original size:23 final size:23
Alignment explanation
Indices: 28370466--28370519 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
28370456 AAATACCAAT
* * *
28370466 TAGAAGAAGACCTAAGGAGGCAC
1 TAGAAGAAGACCGAAGAAAGCAC
*
28370489 TCAG-AGAAGATCGAAGAAAGCAC
1 T-AGAAGAAGACCGAAGAAAGCAC
28370512 TAGAAGAA
1 TAGAAGAA
28370520 CGTCGTCGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 2 0.08
23 21 0.84
24 2 0.08
ACGTcount: A:0.48, C:0.15, G:0.28, T:0.09
Consensus pattern (23 bp):
TAGAAGAAGACCGAAGAAAGCAC
Found at i:28375280 original size:22 final size:23
Alignment explanation
Indices: 28375237--28375282 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
28375227 CTCTCCCTCC
28375237 CACGTTCTCTCCTTCTTCCTTGTT
1 CACGTTCTCT-CTTCTTCCTTGTT
28375261 CACGTTCTCT-TTCCTT-CTTGTT
1 CACGTTCTCTCTT-CTTCCTTGTT
28375283 TCTTTCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.38
23 3 0.14
24 10 0.48
ACGTcount: A:0.04, C:0.35, G:0.09, T:0.52
Consensus pattern (23 bp):
CACGTTCTCTCTTCTTCCTTGTT
Found at i:28376056 original size:21 final size:21
Alignment explanation
Indices: 28376032--28376071 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
28376022 AGCGTGTGTG
28376032 GCCTCCACACGGGTGTGTATA
1 GCCTCCACACGGGTGTGTATA
* *
28376053 GCCTCTACATGGGTGTGTA
1 GCCTCCACACGGGTGTGTA
28376072 GACCCCCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.30, T:0.28
Consensus pattern (21 bp):
GCCTCCACACGGGTGTGTATA
Found at i:28382713 original size:16 final size:16
Alignment explanation
Indices: 28382692--28382722 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
28382682 AAAAACTTTT
28382692 GATTAGAGGTGTAATG
1 GATTAGAGGTGTAATG
28382708 GATTAGAGGTGTAAT
1 GATTAGAGGTGTAAT
28382723 AGCAAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (16 bp):
GATTAGAGGTGTAATG
Found at i:28382767 original size:45 final size:44
Alignment explanation
Indices: 28382701--28382791 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
28382691 TGATTAGAGG
* **
28382701 TGTAATGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGACGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
28382746 TGTAATGGAATAGAGACGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGACGTAATAGAAATCAACTGTTTGGTTGAA
28382790 TG
1 TG
28382792 GAATAGAGGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGACGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:28382974 original size:16 final size:16
Alignment explanation
Indices: 28382937--28382978 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
28382927 TTAATCATAT
*
28382937 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
28382953 TT-AAATATATTATAA
1 TTAAAATATATTATAA
28382968 TTAAAATATAT
1 TTAAAATATAT
28382979 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:28382985 original size:14 final size:15
Alignment explanation
Indices: 28382946--28382987 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
28382936 TTTAAACATA
*
28382946 ATTATTATTAAATAT
1 ATTATAATTAAATAT
28382961 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
28382975 A-TATAATTTAATA
1 ATTATAATTAAATA
28382988 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:28383084 original size:15 final size:15
Alignment explanation
Indices: 28383056--28383114 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
28383046 ATAAAATATA
28383056 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
28383071 TATTAAATATATTAT
1 AATTAAATATATTAT
28383086 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
28383099 AATTTAATAATATTAT
1 AATTAAAT-ATATTAT
28383115 TAATAATCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.24
14 6 0.16
15 19 0.51
16 3 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:28383085 original size:120 final size:120
Alignment explanation
Indices: 28382940--28383421 Score: 752
Period size: 120 Copynumber: 4.0 Consensus size: 120
28382930 ATCATATTTA
* *
28382940 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * *
28383004 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* * * *
28383060 AACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAATATTATTAATAATCA
1 AACATAATTATTATTAAATATAATT-TAATAAAAATATATAATTTAATAAAATTCTTAATAATAA
* * * *
28383124 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTT
65 ATATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
*
28383180 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
28383245 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAATTT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
* *
28383300 AAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
* *
28383365 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATATAATATAGATT
66 TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
28383420 AA
1 AA
28383422 TAATGTAGAT
Statistics
Matches: 346, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
120 343 0.99
121 3 0.01
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAA
TATTCTTATATGAATTTAATAAAATCATAATATATAATACTATAAAATATAAATT
Found at i:28383115 original size:44 final size:43
Alignment explanation
Indices: 28383033--28383117 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
28383023 CTCAAATCAT
* *
28383033 AATATATGATACTATAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
* *
28383076 AATATATTATAAT-TAAAATATATAATT-TAATAA-TATTATTA
1 AATATATGATAATATAAAATATA-AATTAAAATAATTATTATTA
28383117 A
1 A
28383118 TAATCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 9 0.24
42 13 0.35
43 15 0.41
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (43 bp):
AATATATGATAATATAAAATATAAATTAAAATAATTATTATTA
Found at i:28383261 original size:38 final size:37
Alignment explanation
Indices: 28383214--28383397 Score: 140
Period size: 37 Copynumber: 4.7 Consensus size: 37
28383204 TTAATAAAAA
*
28383214 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
28383251 TATATGAATTTAATAAAA-TCATAATA-TATAATACTATAT
1 TATAT-AATTTAATAAAATTCTTAATATTA-AATA-T-TAT
* * * * ** *
28383290 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAA
1 TATATAATTT--AATAA-AATTCTT--A-AT-ATTAAATATTAT
*
28383334 TATATAATTTAATAAAATTCTTAATATTAAATATTCT
1 TATATAATTTAATAAAATTCTTAATATTAAATATTAT
*
28383371 TATATGAATTTAATAAAA-TCATAATAT
1 TATAT-AATTTAATAAAATTCTTAATAT
28383398 ATAATACTAT
Statistics
Matches: 114, Mismatches: 19, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
36 2 0.02
37 36 0.32
38 32 0.28
39 7 0.06
40 5 0.04
41 6 0.05
42 7 0.06
44 11 0.10
45 2 0.02
46 5 0.04
47 1 0.01
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCTTAATATTAAATATTAT
Found at i:28383363 original size:18 final size:18
Alignment explanation
Indices: 28383197--28383350 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
28383187 TTATTATTAA
28383197 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
28383215 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
28383233 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
28383252 ATATGAATTTAAT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * * *
28383270 -CATAATAT-ATAATACT
1 ATATAATTTAATAAAAAT
* *
28383286 ATATAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
28383305 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
28383317 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
28383335 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
28383351 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 23, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 5 0.05
16 8 0.08
17 16 0.16
18 41 0.41
19 15 0.15
20 3 0.03
21 3 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:28388555 original size:47 final size:47
Alignment explanation
Indices: 28388477--28388796 Score: 482
Period size: 47 Copynumber: 6.7 Consensus size: 47
28388467 CCCTTCGGGA
* * * * * *
28388477 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28388524 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28388571 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28388618 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28388667 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28388716 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28388762 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
28388797 AGAATCCTAA
Statistics
Matches: 257, Mismatches: 13, Indels: 7
0.93 0.05 0.03
Matches are distributed among these distances:
45 1 0.00
46 32 0.12
47 128 0.50
49 96 0.37
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28388674 original size:96 final size:94
Alignment explanation
Indices: 28388477--28388796 Score: 482
Period size: 96 Copynumber: 3.4 Consensus size: 94
28388467 CCCTTCGGGA
* * * * * * *
28388477 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACAC
28388542 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
28388571 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
28388636 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
28388667 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATAC
28388732 ACTTTCACATTCATCACATCGGCCATTA-GC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
28388762 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
28388797 AGAATCCTAA
Statistics
Matches: 210, Mismatches: 11, Indels: 11
0.91 0.05 0.05
Matches are distributed among these distances:
92 1 0.00
93 23 0.11
94 47 0.22
95 9 0.04
96 83 0.40
98 47 0.22
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:28393850 original size:126 final size:125
Alignment explanation
Indices: 28393625--28393978 Score: 548
Period size: 126 Copynumber: 2.8 Consensus size: 125
28393615 TAATTTCGAG
* * *
28393625 TTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGCAGGATGCTACTTGGGAAGAATTTTTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA-TTGAGAAGAATTTGTG
* * * *
28393690 AAATCGCACCCTCGTGGATGCACTTTTGCTACAGTAGGTCAC-GAAAGAAATAATTGTTTTT
65 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAG-AAGAAATAATTATTTTT
* * *
28393751 TTGACGTTTCTGAGCAAAAAGTATAAAATCGCTTCTAGCAGGATGCTATGTAAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTAT-TGAGAAGAATTTGTG
28393816 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTTT
65 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTTT
28393877 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTA-TTGAGAAGAATTTGTG
* * *
28393942 AAATCGAGCCCTCGTAGACGAGCTTTTGCTACAGTAG
65 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
28393979 CATGTTTGGG
Statistics
Matches: 209, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
125 1 0.00
126 206 0.99
127 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTGAGAAGAATTTGTGA
AATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACAGAAGAAATAATTATTTTT
Found at i:28397198 original size:116 final size:116
Alignment explanation
Indices: 28396994--28397233 Score: 453
Period size: 116 Copynumber: 2.1 Consensus size: 116
28396984 TGATAAATTG
28396994 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
28397059 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
*
28397110 TATTAACTCTAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
28397175 TAGTAGCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
28397226 TATTAACT
1 TATTAACT
28397234 TTGTTTAGGG
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 121 1.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (116 bp):
TATTAACTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTACGTGAATGTAAAAT
Found at i:28397264 original size:23 final size:23
Alignment explanation
Indices: 28397238--28398100 Score: 365
Period size: 23 Copynumber: 35.5 Consensus size: 23
28397228 TTAACTTTGT
28397238 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
* * *
28397261 TTAGGATTTTAAAGTT-AA--GGG
1 TTAGGGTTTTTAA-TTAAATTAGG
* **
28397282 TTAGAGTTTTTAAGTT-AA-GGGG
1 TTAGGGTTTTTAA-TTAAATTAGG
*
28397304 TTATGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
28397327 TTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGAG
1 TTA--G----GGTTTTTAATT-AA--A--TTAG-G
28397362 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATT-AA--A--TTA-GG
*
28397391 TTAGGGTTTTTAATTAAAATAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
28397414 GTAGGGTTTTGT-ATTAAATTAGG
1 TTAGGGTTTT-TAATTAAATTAGG
28397437 TTAGGGTTTTGT-ATTAAATTAGG
1 TTAGGGTTTT-TAATTAAATTAGG
*
28397460 TTAGGGTTTTT-A--AAGTTAAGG
1 TTAGGGTTTTTAATTAAATT-AGG
28397481 TTTAGGGTTTTTAAGTT--A--AGG
1 -TTAGGGTTTTTAA-TTAAATTAGG
28397502 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
*
28397526 TTAGGGTTAGGGCTTTTCATTAAATTAGG
1 TTAGGG-T-----TTTTAATTAAATTAGG
*
28397555 GTAGGGTTTTGT-ATTAAATTAGG
1 TTAGGGTTTT-TAATTAAATTAGG
*
28397578 TTAGGGTTTTT-A--AAGTTAAGG
1 TTAGGGTTTTTAATTAAATT-AGG
28397599 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
28397623 TTAGGGTTAGGATTTTTAATTAAATTAGG
1 TTA--G---GG-TTTTTAATTAAATTAGG
*
28397652 TTAGGGTTAGGGTTTTGTATTAAATTAGG
1 TTAGGG-T----TTTT-AATTAAATTAGG
*
28397681 TTAGGGTTTTT-A--AAGTTAAGG
1 TTAGGGTTTTTAATTAAATT-AGG
28397702 TTTAGGGTTTTTAAGTT--A--AGG
1 -TTAGGGTTTTTAA-TTAAATTAGG
*
28397723 TTTAGGGTTTTTATTTAAATTAGGTTAGGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GG
28397753 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
28397776 TTAGGGTTAGGGCTTTAATTAAATTAGG
1 TTAGGGTT-----TTTAATTAAATTAGG
** *
28397804 TTAGGGTTAAGGTTTGGGTTTTTAATTAAATTAGG
1 TTAGGGTT----TTT---AATTAAATTA-----GG
28397839 TTAGGG--TTTAAGGTTAAATTAGG
1 TTAGGGTTTTTAA--TTAAATTAGG
*
28397862 TTAGGGTTTTT-A--AAGTTAAGG
1 TTAGGGTTTTTAATTAAATT-AGG
*
28397883 TTTAGGG-TTTTAGTT--A--AGG
1 -TTAGGGTTTTTAATTAAATTAGG
28397902 TTTAGGG-TTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATTAAATTAGG
28397925 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
*
28397948 GTAGGGTTTTGT-ATTAAATTAGG
1 TTAGGGTTTT-TAATTAAATTAGG
*
28397971 TTAGGGTTTTT-A--AAGTTAAGG
1 TTAGGGTTTTTAATTAAATT-AGG
28397992 TTTAGGGTTTTTAAGTT--A--AGG
1 -TTAGGGTTTTTAA-TTAAATTAGG
28398013 TTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 -TTAGGGTTTTTAATT-AA--A--TTA-GG
28398043 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
****
28398066 TTAGGGTTTAGGGTTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
28398089 TTAGGGTTTTTA
1 TTAGGGTTTTTA
28398101 TTACATCAAA
Statistics
Matches: 677, Mismatches: 52, Indels: 222
0.71 0.05 0.23
Matches are distributed among these distances:
19 17 0.03
20 26 0.04
21 89 0.13
22 80 0.12
23 203 0.30
24 28 0.04
25 10 0.01
26 3 0.00
27 5 0.01
28 44 0.06
29 140 0.21
30 14 0.02
32 1 0.00
33 1 0.00
34 4 0.01
35 12 0.02
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (23 bp):
TTAGGGTTTTTAATTAAATTAGG
Found at i:28397292 original size:22 final size:22
Alignment explanation
Indices: 28397259--28397316 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
28397249 AATTAAATTA
*
28397259 GGTTAGGATTTTAAAGTTAA-G
1 GGTTAGGTTTTTAAAGTTAAGG
28397280 GGTTAGAGTTTTT-AAGTTAAGG
1 GGTTAG-GTTTTTAAAGTTAAGG
28397302 GGTTATGGTTTTTAA
1 GGTTA-GGTTTTTAA
28397317 TTAAATTAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 13 0.41
22 17 0.53
23 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.29, T:0.43
Consensus pattern (22 bp):
GGTTAGGTTTTTAAAGTTAAGG
Found at i:28397320 original size:21 final size:21
Alignment explanation
Indices: 28397259--28397320 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
28397249 AATTAAATTA
*
28397259 GGTTAG-GATTTTAAAGTTAAG
1 GGTTAGAG-TTTTTAAGTTAAG
28397280 GGTTAGAGTTTTTAAGTTAAGG
1 GGTTAGAGTTTTTAAGTTAA-G
28397302 GGTTATG-GTTTTTAA-TTAA
1 GGTTA-GAGTTTTTAAGTTAA
28397321 ATTAGGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 21 0.57
22 15 0.41
23 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (21 bp):
GGTTAGAGTTTTTAAGTTAAG
Found at i:28397333 original size:29 final size:29
Alignment explanation
Indices: 28397301--28397562 Score: 203
Period size: 29 Copynumber: 9.2 Consensus size: 29
28397291 TTAAGTTAAG
*
28397301 GGGTTATGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
*
28397330 GGGTTAAGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
*
28397359 GAGTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
28397388 GGGTTAGGGTTTTTAATTAAA--A---TA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
28397412 GGG-TAGGGTTTTGT-ATTAAATTAGGTTA
1 GGGTTAGGGTTTT-TAATTAAATTAGGTTA
*
28397440 GGG-T----TTTGT-ATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
** * * *
28397463 GGGTTTTTAAAGTTAAGGTTTAGGGTT--TTTAAGTTAA
1 GGG---TTAGGGTT----TTTA--ATTAAATTAGGTT-A
*
28397500 GGTTTAGGGTTTTTAATTAAATTAGGTTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
* * *
28397529 GGGTTAGGGCTTTTCATTAAATTAGGGTA
1 GGGTTAGGGTTTTTAATTAAATTAGGTTA
28397558 GGGTT
1 GGGTT
28397563 TTGTATTAAA
Statistics
Matches: 190, Mismatches: 19, Indels: 48
0.74 0.07 0.19
Matches are distributed among these distances:
23 33 0.17
24 9 0.05
25 1 0.01
27 2 0.01
28 8 0.04
29 106 0.56
30 10 0.05
31 2 0.01
34 6 0.03
35 2 0.01
36 6 0.03
37 3 0.02
38 2 0.01
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (29 bp):
GGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:28397513 original size:21 final size:21
Alignment explanation
Indices: 28397460--28397519 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
28397450 TTAAATTAGG
28397460 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTT-AAGTTAAGGT
28397482 TTAGGGTTTTTAAGTTAAGGT
1 TTAGGGTTTTTAAGTTAAGGT
28397503 TTAGGGTTTTTAA-TTAA
1 TTAGGGTTTTTAAGTTAA
28397520 ATTAGGTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.11
21 23 0.61
22 11 0.29
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGT
Found at i:28397600 original size:21 final size:20
Alignment explanation
Indices: 28397568--28397612 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
28397558 GGGTTTTGTA
28397568 TTAAATTAGG-TTAGGGTTT
1 TTAAATTAGGTTTAGGGTTT
28397587 TTAAAGTTAAGGTTTAGGGTTT
1 TTAAA-TT-AGGTTTAGGGTTT
28397609 TTAA
1 TTAA
28397613 TTAAATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 2 0.09
21 3 0.13
22 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (20 bp):
TTAAATTAGGTTTAGGGTTT
Found at i:28397666 original size:221 final size:218
Alignment explanation
Indices: 28397435--28398080 Score: 766
Period size: 221 Copynumber: 3.0 Consensus size: 218
28397425 TATTAAATTA
28397435 GGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAA
1 GGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAA
*
28397500 GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGCTTTTCATTAAATTAGGGTAGGGTTTT
66 GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTT-ATTAAATTAGGTTAGGGTTTT
28397565 GTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGT
129 GTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGT
28397630 TAGGATTTTTAATTAAATTAGGTTAG
194 TAGG-TTTTTAATTAAATTAGGTTAG
28397656 GGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAA
1 GGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAA
* **
28397721 GGTTTAGGGTTTTTATTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
66 GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTT-ATTAAATTAGGTTAGGGTTTT
** * ** **
28397786 GGCTTTAATTAAATTA-GG---TTAGGGTTAAGGTTT-GGGTTTTTAATTAAATTAGGTTA--G-
129 GTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGT
28397843 --GG--TTTAAGGTT-AA--A--TTA-
194 TAGGTTTTTAA--TTAAATTAGGTTAG
*
28397860 GGTTAGGGTTTT-TA--AAGTTAAGGTTTAGGG-TTTT--AGTTAAGGTTTAGGGTTTTAATTAA
1 GGTTAGGGTTTTGTATTAAATT-AGG-TTAGGGTTTTTAAAGTTAAGGTTTAGGG-TTT--TTAA
* * *
28397919 ATT-AGG-TTAGGGTTTTTAATTAAATTAGGGTAGGGTT----TTGTATTAAATTAGGTTAGGGT
61 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTATTAAATTAGGTTAGGGT
*
28397978 TTT-TA--AAGTTAAGGTTTAGGGTTTTT-AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTT
126 TTTGTATTAAATT-AGG-TTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTT
28398039 AGGGTTAGGGTTTTTAATTAAATTAGGTTAG
189 AGGGTTA-GGTTTTTAATTAAATTAGGTTAG
28398070 GGTTTAGGGTT
1 GG-TTAGGGTT
28398081 AAATTAGGTT
Statistics
Matches: 368, Mismatches: 28, Indels: 68
0.79 0.06 0.15
Matches are distributed among these distances:
192 3 0.01
193 1 0.00
194 3 0.01
195 21 0.06
196 3 0.01
197 10 0.03
198 25 0.07
200 16 0.04
201 36 0.10
202 10 0.03
203 14 0.04
204 16 0.04
205 5 0.01
206 5 0.01
207 2 0.01
208 5 0.01
209 5 0.01
210 4 0.01
211 10 0.03
214 1 0.00
216 23 0.06
217 13 0.04
220 2 0.01
221 135 0.37
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (218 bp):
GGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAA
GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTATTAAATTAGGTTAGGGTTTTGT
ATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA
GGTTTTTAATTAAATTAGGTTAG
Found at i:28397734 original size:21 final size:21
Alignment explanation
Indices: 28397681--28397735 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
28397671 TTAAATTAGG
28397681 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTT-AAGTTAAGGT
28397703 TTAGGGTTTTTAAGTTAAGGT
1 TTAGGGTTTTTAAGTTAAGGT
28397724 TTAGGGTTTTTA
1 TTAGGGTTTTTA
28397736 TTTAAATTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 22 0.67
22 11 0.33
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAGGT
Found at i:28397784 original size:35 final size:35
Alignment explanation
Indices: 28397745--28397846 Score: 128
Period size: 35 Copynumber: 3.1 Consensus size: 35
28397735 ATTTAAATTA
28397745 GGTTAGGGTTAGGGTTTTTAATT-AA--A--TTA-
1 GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
*
28397774 GGTTAGGGTTAGGG-CTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
* *
28397808 GGTTAAGGTTTGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
28397843 GGTT
1 GGTT
28397847 TAAGGTTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
28 7 0.11
29 16 0.26
31 1 0.02
33 3 0.05
34 12 0.19
35 23 0.37
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.43
Consensus pattern (35 bp):
GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
Found at i:28397807 original size:181 final size:176
Alignment explanation
Indices: 28397608--28397932 Score: 485
Period size: 181 Copynumber: 1.8 Consensus size: 176
28397598 GTTTAGGGTT
** *
28397608 TTTAATTAAATTAGGTTAGGGTT-AGGATTT-TTAATTAAATTAGGTTAGGGTTAGGGTTT-TGT
1 TTTAATTAAATTAGGTTAGGGTTAAGG-TTTGTT--TTAAATTAAATTA-GGTTAGGGTTTAAG-
28397670 ATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTT
61 ATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGG-TTTT-AGTTAAGGTTTAGGG-TTTT
*
28397735 ATTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGC
123 AATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGC
* *
28397789 TTTAATTAAATTAGGTTAGGGTTAAGGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTTAAGGTT
1 TTTAATTAAATTAGGTTAGGGTTAAGGTTT--GTTTTAAATTAAATTAGGTTAGGGTTTAAGATT
28397854 AAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTAGTTAAGGTTTAGGGTTTTAATTAA
64 AAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTAGTTAAGGTTTAGGGTTTTAATTAA
28397919 ATTAGGTTAGGGTT
129 ATTAGGTTAGGGTT
28397933 TTTAATTAAA
Statistics
Matches: 133, Mismatches: 6, Indels: 13
0.88 0.04 0.09
Matches are distributed among these distances:
178 23 0.17
179 15 0.11
180 4 0.03
181 75 0.56
182 14 0.11
184 2 0.02
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (176 bp):
TTTAATTAAATTAGGTTAGGGTTAAGGTTTGTTTTAAATTAAATTAGGTTAGGGTTTAAGATTAA
ATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTAGTTAAGGTTTAGGGTTTTAATTAAAT
TAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGC
Found at i:28397847 original size:29 final size:29
Alignment explanation
Indices: 28397592--28397847 Score: 174
Period size: 29 Copynumber: 8.3 Consensus size: 29
28397582 GGTTTTTAAA
*
28397592 GTTAAGGTTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTT-GGGTTTTTAATTAAATTAG
* *
28397622 GTTAGGGTTAGGATTTTTAATTAAATTAG
1 GTTAGGGTTTGGGTTTTTAATTAAATTAG
*
28397651 GTTAGGGTTAGGGTTTTGT-ATTAAATTAG
1 GTTAGGGTTTGGGTTTT-TAATTAAATTAG
** ****** *
28397680 GTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAA
1 GTTAGGG--TTT-GGGTT----TTTAATTAAATTAG
* * * *
28397716 GTTAAGGTTTAGGGTTTTTATTTAAATTAG
1 GTTAGGGTTTGGGTTTTT-AATTAAATTAG
*
28397746 GTTAGGGTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTGGGTTTTTAATTAAATTAG
* *
28397775 GTTAGGGTTAGGG-CTTTAATTAAATTAG
1 GTTAGGGTTTGGGTTTTTAATTAAATTAG
28397803 GTTAGGGTTAAGGTTTGGGTTTTTAATTAAATTAG
1 GTTA--G----GGTTTGGGTTTTTAATTAAATTAG
28397838 GTTAGGGTTT
1 GTTAGGGTTT
28397848 AAGGTTAAAT
Statistics
Matches: 177, Mismatches: 32, Indels: 35
0.73 0.13 0.14
Matches are distributed among these distances:
28 18 0.10
29 82 0.46
30 28 0.16
31 2 0.01
32 3 0.02
33 4 0.02
34 10 0.06
35 19 0.11
36 11 0.06
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (29 bp):
GTTAGGGTTTGGGTTTTTAATTAAATTAG
Found at i:28397862 original size:86 final size:86
Alignment explanation
Indices: 28397715--28398069 Score: 288
Period size: 86 Copynumber: 4.0 Consensus size: 86
28397705 AGGGTTTTTA
*
28397715 AGTTAAGGTTTAGGGTTTTTATTTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 AGTTAAGGTTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGG-TTTTAATTAAATTAGGTTAG
28397780 GGTTAGGGCTTTAATTAAATTA-GGTTAG
59 GGTTAGGG-TTTAATTAAATTAGGGTTAG
*
28397808 GGTTAAGGTTT-GGGTTTTTAATTAAATTAGGTTAGGG-TTTAAGGTTAAATTAGGTTAGGGTT-
1 AGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAA--TTAAATTAGGTTAGGGTTA
* **
28397870 ---TTTAAAGTTAAGGTTTAGGGTTTT
64 GGGTTT-AA-TTAA--ATTAGGGTTAG
* *
28397894 AGTTAAGGTTTAGGG-TTTTAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTT-T
1 AGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAG
* ** *
28397957 TGTATTAAATTAGGTTAGGGTTTTTAA
65 GGT-TT-AATTAAATTAGGG---TTAG
28397984 AGTTAAGGTTTAGGGTTTTTAAGTT--A--AGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
1 AGTTAAGGTTTAGGGTTTTTAA-TTAAATTAGG-TTAGGG-TTTTAATTAAATTAGGTTAGGGTT
28398045 AGGGTTTTTAATTAAATTA-GGTTAG
63 AGGG--TTTAATTAAATTAGGGTTAG
28398070 GGTTTAGGGT
Statistics
Matches: 222, Mismatches: 17, Indels: 53
0.76 0.06 0.18
Matches are distributed among these distances:
81 3 0.01
82 2 0.01
83 4 0.02
84 5 0.02
85 3 0.01
86 82 0.37
87 12 0.05
88 8 0.04
89 37 0.17
90 32 0.14
91 10 0.05
92 14 0.06
93 10 0.05
ACGTcount: A:0.28, C:0.00, G:0.27, T:0.45
Consensus pattern (86 bp):
AGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGG
GTTTAATTAAATTAGGGTTAG
Found at i:28397899 original size:19 final size:19
Alignment explanation
Indices: 28397875--28397918 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
28397865 GGGTTTTTAA
28397875 AGTTAAGGTTTAGGGTTTT
1 AGTTAAGGTTTAGGGTTTT
28397894 AGTTAAGGTTTAGGGTTTT
1 AGTTAAGGTTTAGGGTTTT
*
28397913 AATTAA
1 AGTTAA
28397919 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (19 bp):
AGTTAAGGTTTAGGGTTTT
Found at i:28397939 original size:109 final size:115
Alignment explanation
Indices: 28397813--28398100 Score: 446
Period size: 109 Copynumber: 2.5 Consensus size: 115
28397803 GTTAGGGTTA
*
28397813 AGGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTTAAGGTTAAATTAGGTTAGGGTTTTTAAAGT
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAAGGTTAAATTAGGTTAGGGTTTTTAAAGT
28397878 TAAGGTTTAGGG-TTTT-AGTTAAGGTTTAGGG-TTTTAATT-AA-A-TT
66 TAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATAGTT
* * *
28397922 AGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTT-TGTATTAAATTAGGTTAGGGTTTTTAAAG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAAG-GTTAAATTAGGTTAGGGTTTTTAAAG
28397986 TTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTT
65 TTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAA-TA-GTT
*
28398039 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTAAATTAGGTTAGGGTTTTTA
1 A-GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAAGGTTAAATTAGGTTAGGGTTTTTA
28398101 TTACATCAAA
Statistics
Matches: 161, Mismatches: 7, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
108 1 0.01
109 71 0.44
110 4 0.02
111 15 0.09
112 8 0.05
113 2 0.01
115 1 0.01
117 3 0.02
118 55 0.34
119 1 0.01
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (115 bp):
AGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTAAGGTTAAATTAGGTTAGGGTTTTTAAAGT
TAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATAGTT
Found at i:28398009 original size:290 final size:301
Alignment explanation
Indices: 28397495--28398086 Score: 881
Period size: 290 Copynumber: 2.0 Consensus size: 301
28397485 GGGTTTTTAA
*
28397495 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGCTTTTCATTAAATTAGGGTAGG
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGG----T--TTAAATTAGGGTAGG
28397560 GTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTT
60 GTTTTGTA-TAAATTAGGTTAGGGTTTTT-AAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTT
28397625 AGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTT
123 A-GG-T-GGATTTTTAATTAAA-TA-GTTAGGGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTT
*
28397690 TTAAAGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTATTTAAATTAGGTTAGGGTT
183 TTAAAGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
*
28397755 AGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGCTTTAATTAAATTAGGTTAGG
248 AGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGG-TTAAATTAAATTAGGTTAGG
*
28397809 GTTAAGGTTT-GGGTTTTTAATTAAATTAGGTTAGGGTTTAAGG-TTAAATTAGGTTAGGGTTTT
1 GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAAGGTTTAAATTAGGGTAGGGTTTT
*
28397872 -TA-AAGTTAAGGTTTAGGG-TTTT-AGTTAAGGTTTAGGG-TTTTAATTAAATTAGGTTA-G-G
65 GTATAAATT-AGG-TTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGTG
28397930 G-TTTTTAATT-AA-A-TTAGGG-TAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAA
128 GATTTTTAATTAAATAGTTAGGGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAA
28397990 GGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
193 GGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTA
28398055 ATTAAATTAGGTTAGGGTTTAGGGTTAAATTA
258 ATTAAATTAGGTTAGGGTTTAGGGTTAAATTA
28398087 GGTTAGGGTT
Statistics
Matches: 269, Mismatches: 5, Indels: 32
0.88 0.02 0.10
Matches are distributed among these distances:
290 129 0.48
291 12 0.04
293 1 0.00
295 2 0.01
296 9 0.03
297 2 0.01
300 1 0.00
302 19 0.07
303 15 0.06
304 4 0.01
305 7 0.03
306 8 0.03
307 19 0.07
313 26 0.10
314 15 0.06
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (301 bp):
GTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTAAATTAGGGTAGGGTTTTG
TATAAATTAGGTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGTGGAT
TTTTAATTAAATAGTTAGGGTTAGGGTTTTGTATTAAATTAGGTTAGGGTTTTTAAAGTTAAGGT
TTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
AAATTAGGTTAGGGTTTAGGGTTAAATTAAATTAGGTTAGG
Found at i:28398079 original size:30 final size:30
Alignment explanation
Indices: 28398006--28398080 Score: 134
Period size: 29 Copynumber: 2.5 Consensus size: 30
28397996 GGGTTTTTAA
*
28398006 GTTAAGGTTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTAGGGTTTTTAATTAAATTAG
28398036 GTTAGGG-TTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTAGGGTTTTTAATTAAATTAG
28398065 GTTAGGGTTTAGGGTT
1 GTTAGGGTTTAGGGTT
28398081 AAATTAGGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
29 29 0.67
30 14 0.33
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.45
Consensus pattern (30 bp):
GTTAGGGTTTAGGGTTTTTAATTAAATTAG
Found at i:28398124 original size:25 final size:25
Alignment explanation
Indices: 28398096--28398188 Score: 177
Period size: 25 Copynumber: 3.7 Consensus size: 25
28398086 AGGTTAGGGT
28398096 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
28398121 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
28398146 TTTTAATACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
28398171 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
28398189 TATAAAAATA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:28398224 original size:44 final size:45
Alignment explanation
Indices: 28398106--28398242 Score: 127
Period size: 44 Copynumber: 3.0 Consensus size: 45
28398096 TTTTATTACA
* ***
28398106 TCAAATAAACTTCTATTTTATTACATCAAATAAACTTCTATTTTAAT-AC
1 TCAAATAAACTTCTATTTTATTACATAAAAT-AA----TATAAAAATAAC
*
28398155 ATCAAATAAACTTCTATTTTATTACATCAAATAATATAAAAATAAC
1 -TCAAATAAACTTCTATTTTATTACATAAAATAATATAAAAATAAC
* *
28398201 TCAAA-AAATTTCTATTCTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATT-TTATTACATAAAATAATATAAAAATA
28398243 TTCAAAATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
44 31 0.39
45 13 0.16
46 2 0.03
49 2 0.03
50 31 0.39
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATAAAAATAAC
Found at i:28399361 original size:7 final size:7
Alignment explanation
Indices: 28399342--28399375 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
28399332 AAATATTAGT
28399342 TAAATAC
1 TAAATAC
28399349 -ATAATAC
1 TA-AATAC
28399356 TAAATAC
1 TAAATAC
28399363 TAAATAC
1 TAAATAC
28399370 TAAATA
1 TAAATA
28399376 TCAATCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 1 0.04
7 23 0.92
8 1 0.04
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAATAC
Found at i:28400502 original size:13 final size:13
Alignment explanation
Indices: 28400484--28400508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
28400474 GGTTTAAAAA
28400484 AATTTTAAAATTT
1 AATTTTAAAATTT
28400497 AATTTTAAAATT
1 AATTTTAAAATT
28400509 ATTTAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTTAAAATTT
Found at i:28400540 original size:11 final size:11
Alignment explanation
Indices: 28400524--28400565 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
28400514 AAAAATGTAG
28400524 TTAAGAGAAAC
1 TTAAGAGAAAC
*
28400535 TTAAGAGGAAC
1 TTAAGAGAAAC
*
28400546 TTAAGAAAAAC
1 TTAAGAGAAAC
28400557 TTAAGAGAA
1 TTAAGAGAA
28400566 TTTTTGAAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.19, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:28400612 original size:14 final size:11
Alignment explanation
Indices: 28400569--28400602 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
28400559 AAGAGAATTT
28400569 TTGA-AGGAAA
1 TTGAGAGGAAA
28400579 TTGAGAGGAAA
1 TTGAGAGGAAA
28400590 TTGAGAGGAAA
1 TTGAGAGGAAA
28400601 TT
1 TT
28400603 TGAAAGAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:28401074 original size:42 final size:42
Alignment explanation
Indices: 28401027--28401253 Score: 205
Period size: 43 Copynumber: 5.4 Consensus size: 42
28401017 TTCCCCGAGG
* * * *
28401027 GGTTGCTCAGTGCTGATTCCTCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
*
28401069 GGTTGCTAAGTGCTGATTCCACCGTA-TATATGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTAT-TGATTAT-AAAGGT
* * * * *
28401112 GGTTACTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
*
28401154 GGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTAT-AAAGGT
* * * *
28401197 GGTTGCTATGTGGTGATTCCCCGTATCACTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTG-ATTATAAAGGT
*
28401238 GGTTGCTAAGTACTGA
1 GGTTGCTAAGTGCTGA
28401254 ATCCATCGAG
Statistics
Matches: 151, Mismatches: 23, Indels: 23
0.77 0.12 0.12
Matches are distributed among these distances:
40 4 0.03
41 18 0.12
42 59 0.39
43 60 0.40
44 10 0.07
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
Found at i:28401167 original size:85 final size:84
Alignment explanation
Indices: 28401062--28401258 Score: 322
Period size: 85 Copynumber: 2.3 Consensus size: 84
28401052 TTATTGATTC
28401062 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATATGATTGTGAAAGGGGTTACTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATATGATTGTGAAAGGGGTTACTATGTGCTG
28401127 ATTCCCCGTATCACTGAAT
66 ATTCCCCGTATCACTGAAT
* * * *
28401146 ATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGGT
1 -TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATATGATTGTGAAAGGGGTTACTATGTGCT
28401211 GATTCCCCGTATCACTGAAT
65 GATTCCCCGTATCACTGAAT
* * *
28401231 TTAAGGTGGTTGCTAAGTACTGAATCCA
1 TAAAGGTGGTTGCTAAGTGCTGATTCCA
28401259 TCGAGTAACG
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
84 25 0.24
85 80 0.76
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (84 bp):
TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATATGATTGTGAAAGGGGTTACTATGTGCTG
ATTCCCCGTATCACTGAAT
Found at i:28406739 original size:79 final size:79
Alignment explanation
Indices: 28406649--28406832 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 79
28406639 AGTAACTCAT
* *
28406649 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGA-CTTAACCCG
1 ACAA-GCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
28406712 GA-ATTAGT-A-TCTCGC
64 GATA-TAGTCACT-TAGC
**
28406727 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 AC-AA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
28406792 GATATAGTCACTTAGC
64 GATATAGTCACTTAGC
*
28406808 ACAAGCCTTCGGGACTTAGCCCGGA
1 ACAAGCCTTCGGGACTTAACCCGGA
28406833 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
78 6 0.06
79 64 0.69
80 15 0.16
81 7 0.08
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
ACAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTCACTTAGC
Found at i:28406793 original size:40 final size:40
Alignment explanation
Indices: 28406651--28406780 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
28406641 TAACTCATAC
* *
28406651 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
28406691 AATGCCTTC-GGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
28406730 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
28406770 AATGCCTTCGG
1 AATGCCTTCGG
28406781 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
38 3 0.04
39 30 0.38
40 47 0.59
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:28414627 original size:80 final size:80
Alignment explanation
Indices: 28414511--28414696 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
28414501 AGTAACTCAT
* * * *
28414511 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCACACAAATGCCTTC-GGATCTTAACCCG
*
28414575 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
28414590 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCACACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCACACAAATGCCTTCGGATCTTAACCC
28414654 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
28414671 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
28414697 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 71 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCACACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:28414656 original size:40 final size:40
Alignment explanation
Indices: 28414476--28414696 Score: 195
Period size: 40 Copynumber: 5.5 Consensus size: 40
28414466 CTCGTTCAAG
* * *
28414476 TGCCTTCGGGACATAGCCCGG--TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGAATTA-A-TAACTCACACAAA
* * *
28414515 TGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAATAACTCACACAAA
* * *
28414555 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
*
28414595 GGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
** * * *
28414635 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAACCCGGAAT-TAATAACTCA-CACAAA
*
28414676 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
28414697 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 19, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.22
40 106 0.69
41 10 0.07
42 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAATTAATAACTCACACAAA
Found at i:28427754 original size:26 final size:29
Alignment explanation
Indices: 28427686--28427760 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 29
28427676 TTTCTAGTAT
28427686 CAGTGTGGGCCTTAGCCCAATACATTATCAA
1 CAGTGTGGGCCTTAGCCCAATA-A-TATCAA
*
28427717 AAGTGTGGGCCTTAGCCCAAT-A-AT-AA
1 CAGTGTGGGCCTTAGCCCAATAATATCAA
*
28427743 CAGTGTGGGCCTAAGCCC
1 CAGTGTGGGCCTTAGCCC
28427761 GTACAGTATC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
26 18 0.44
27 2 0.05
29 1 0.02
31 20 0.49
ACGTcount: A:0.28, C:0.25, G:0.24, T:0.23
Consensus pattern (29 bp):
CAGTGTGGGCCTTAGCCCAATAATATCAA
Found at i:28427955 original size:27 final size:27
Alignment explanation
Indices: 28427918--28427981 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
28427908 AGCCGAGCTG
*
28427918 CCAGT-ACAGT-ATATGTGGCATAGCCA
1 CCAGTAACAGTAAT-TGTGGCAGAGCCA
28427944 CCAGTAACAGTAATTGTGGCAGAGCCA
1 CCAGTAACAGTAATTGTGGCAGAGCCA
*
28427971 CCA-AAACAGTA
1 CCAGTAACAGTA
28427982 CTTCCTCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 12 0.35
27 20 0.59
28 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (27 bp):
CCAGTAACAGTAATTGTGGCAGAGCCA
Found at i:28428236 original size:25 final size:26
Alignment explanation
Indices: 28428135--28428244 Score: 145
Period size: 26 Copynumber: 4.3 Consensus size: 26
28428125 ACCCTTCTAG
* * *
28428135 GGGTA-TTTAGTAATTTTTCCCATAGA
1 GGGTATTTTGGTAA-TTTACCCATCGA
*
28428161 -GGTATTTTCAGTAATTTACCCATCGA
1 GGGTATTTT-GGTAATTTACCCATCGA
28428187 GGGTATTTTGGTAATTTACCCATCGA
1 GGGTATTTTGGTAATTTACCCATCGA
28428213 GGGTATTTTGGTAA-TTACCCATCGA
1 GGGTATTTTGGTAATTTACCCATCGA
28428238 GGGTATT
1 GGGTATT
28428245 GGTCAACACC
Statistics
Matches: 78, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
25 22 0.28
26 43 0.55
27 13 0.17
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTACCCATCGA
Found at i:28430768 original size:39 final size:39
Alignment explanation
Indices: 28430688--28430880 Score: 205
Period size: 39 Copynumber: 4.9 Consensus size: 39
28430678 TAGCCGGTTA
* * * *
28430688 TAGTAACT-GTACAATTG-CTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT
28430726 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
* *
28430765 TAGTATCTCGCACAAATGCCTTCGGGCTTAGCTCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
* ** *
28430804 TAGTATCTCGCACAAATGCCTTCGATCTTAGTCCGG-AT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
* * *
28430842 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
28430881 CATCATTCAA
Statistics
Matches: 132, Mismatches: 17, Indels: 9
0.84 0.11 0.06
Matches are distributed among these distances:
38 10 0.08
39 98 0.74
40 24 0.18
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAAT
Found at i:28435592 original size:35 final size:35
Alignment explanation
Indices: 28435552--28435619 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
28435542 TTTTTATATT
28435552 CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
1 CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
*
28435587 CTTTAAATGTTTATGTAAGTTATGATTATCATT
1 CTTTAAATGTTTATGTAAGTTATGATAATCATT
28435620 TTTTTATCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.49
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTTATGATAATCATTAA
Found at i:28435818 original size:59 final size:59
Alignment explanation
Indices: 28435740--28436365 Score: 776
Period size: 59 Copynumber: 10.8 Consensus size: 59
28435730 TAAATGAATG
* * * * *
28435740 ATTAATCG-AAATTAATTAATAATTCATAGAATTATTATGAAACATAATCATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
28435798 ATTAATTGAAAATTGATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
28435857 ATTAATC-AAAATTTAATTAATTA-TCAT-AAATTATTATGAAATATGATTA-TTATTTA
1 ATTAATCGAAAA-TTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
** * *
28435913 ATTAATTAAAAATTAATTAATTATTCGT--AA-TATTATG-AATATGATT-GTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
28435967 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATCAAATATGATTATCTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * * * *
28436026 ATTAATCGGAAATTAATTAATTATTCGTAAAATTATTATCAAATATGGTTGTCTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * *
28436085 ATTAATCG-AAATTAATTAATTAGTCGTAAAATTATTATGAAATATAATTCTTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* ** * *
28436143 TTTCTTTGAAAATTAATTAATTAATCATAAAATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * **
28436202 TTTAATCAAAAATTAATTAATTATTCATAGCATTATTATGAAATATGATTATTTATTTA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * *
28436261 ATTAATC-AAAATTAATTAATTATTCATAGAATTGTTATGAAATATGATTATTTATATA
1 ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* **
28436319 ATTAATC-ATAAATTACTTAATTATTTGT-AAATTATTATGAAATATGA
1 ATTAATCGA-AAATTAATTAATTATTCATAAAATTATTATGAAATATGA
28436366 CCCAGCTTTT
Statistics
Matches: 505, Mismatches: 51, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
54 42 0.08
55 7 0.01
56 28 0.06
57 34 0.07
58 145 0.29
59 249 0.49
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (59 bp):
ATTAATCGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
Found at i:28435876 original size:19 final size:19
Alignment explanation
Indices: 28435848--28435888 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
28435838 AAATATGATT
*
28435848 ATTTATTTAATTAATCA-AA
1 ATTTAATTAATT-ATCATAA
28435867 ATTTAATTAATTATCATAA
1 ATTTAATTAATTATCATAA
28435886 ATT
1 ATT
28435889 ATTATGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTAATTAATTATCATAA
Found at i:28435884 original size:117 final size:116
Alignment explanation
Indices: 28435740--28436365 Score: 791
Period size: 117 Copynumber: 5.4 Consensus size: 116
28435730 TAAATGAATG
* * * * *
28435740 ATTAATCGAAATTAATTAATAATTCATAGAATTATTATGAAACATAATCATTTATTTAATTAATT
1 ATTAATCAAAATTAATTAATTATTCATA-AATTATTATGAAATATGATTATTTATTTAATTAATT
* *
28435805 GAAAATTGATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTA
65 GAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
28435857 ATTAATCAAAATTTAATTAATTA-TCATAAATTATTATGAAATATGATTA-TTATTTAATTAATT
1 ATTAATCAAAA-TTAATTAATTATTCATAAATTATTATGAAATATGATTATTTATTTAATTAATT
* * *
28435920 AAAAATTAATTAATTATTCGT--AA-TATTATG-AATATGATT-GTTATTTA
65 GAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* *
28435967 ATTAATCAAAAATTAATTAATTATTCATAAAATTATTATCAAATATGATTATCTATTTAATTAAT
1 ATTAATC-AAAATTAATTAATTATTCAT-AAATTATTATGAAATATGATTATTTATTTAATTAAT
* * * * * * *
28436032 CGGAAATTAATTAATTATTCGTAAAATTATTATCAAATATGGTTGTCTATTTA
64 TGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* * * * * * **
28436085 ATTAATCGAAATTAATTAATTAGTCGTAAAATTATTATGAAATATAATTCTTTATTTATTTCTTT
1 ATTAATCAAAATTAATTAATTATTCAT-AAATTATTATGAAATATGATTATTTATTTAATTAATT
*
28436150 GAAAATTAATTAATTAATCATAAAATTATTATGAAATATGATTATTTATTTA
65 GAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* *
28436202 TTTAATCAAAAATTAATTAATTATTCATAGCATTATTATGAAATATGATTATTTATTTAATTAA-
1 ATTAATC-AAAATTAATTAATTATTCATA-AATTATTATGAAATATGATTATTTATTTAATTAAT
* * * *
28436266 TCAAAATTAATTAATTATTCATAGAATTGTTATGAAATATGATTATTTATATA
64 TGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
* **
28436319 ATTAATCATAAATTACTTAATTATTTGTAAATTATTATGAAATATGA
1 ATTAATCA-AAATTAATTAATTATTCATAAATTATTATGAAATATGA
28436366 CCCAGCTTTT
Statistics
Matches: 440, Mismatches: 56, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
110 25 0.06
111 17 0.04
112 28 0.06
113 33 0.08
115 34 0.08
116 42 0.10
117 193 0.44
118 68 0.15
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (116 bp):
ATTAATCAAAATTAATTAATTATTCATAAATTATTATGAAATATGATTATTTATTTAATTAATTG
AAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTA
Found at i:28435988 original size:19 final size:20
Alignment explanation
Indices: 28435964--28436001 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
28435954 TGATTGTTAT
28435964 TTAATTAATCA-AAAATTAA
1 TTAATTAATCATAAAATTAA
*
28435983 TTAATTATTCATAAAATTA
1 TTAATTAATCATAAAATTA
28436002 TTATCAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAATCATAAAATTAA
Found at i:28436181 original size:176 final size:174
Alignment explanation
Indices: 28435740--28436365 Score: 777
Period size: 176 Copynumber: 3.6 Consensus size: 174
28435730 TAAATGAATG
* * *
28435740 ATTAATCGAAATTAATTAATAATTCATAGAATTATTATGAAACATAA-TCATTTATTTAATTAAT
1 ATTAATCAAAATTAATTAATTATTCATAGAATTATTATGAAATATAATTC-TTTATTTAATTAAT
* *
28435804 TGAAAATTGATTAATTATTCATAGAATTATTATGAAATATGATTATTTATTTAATTAATCAAAAT
65 TGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTAATTAATCAAAA-
28435869 TTAATTAATTA-TCAT-AAATTATTATGAAATATGATTATTATTTA
129 TTAATTAATTATTCATAAAATTATTATGAAATATGATTATTATTTA
* * * *
28435913 ATTAATTAAAAATTAATTAATTATTCGT--AA-TATTATG-AATATGATT-GTTATTTAATTAAT
1 ATTAA-TCAAAATTAATTAATTATTCATAGAATTATTATGAAATATAATTCTTTATTTAATTAAT
** * * *
28435973 CAAAAATTAATTAATTATTCATAAAATTATTATCAAATATGATTATCTATTTAATTAATCGGAAA
65 TGAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTAATTAATC-AAAA
* * * *
28436038 TTAATTAATTATTCGTAAAATTATTATCAAATATGGTTGTCTATTTA
129 TTAATTAATTATTCATAAAATTATTATGAAATATGATTAT-TATTTA
* * * * * **
28436085 ATTAATCGAAATTAATTAATTAGTCGTAAAATTATTATGAAATATAATTCTTTATTTATTTCTTT
1 ATTAATCAAAATTAATTAATTATTCATAGAATTATTATGAAATATAATTCTTTATTTAATTAATT
* *
28436150 GAAAATTAATTAATTAATCATAAAATTATTATGAAATATGATTATTTATTTATTTAATCAAAAAT
66 GAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTAATTAATC-AAAAT
**
28436215 TAATTAATTATTCATAGCATTATTATGAAATATGATTATTTATTTA
130 TAATTAATTATTCATAAAATTATTATGAAATATGATTA-TTATTTA
* * * *
28436261 ATTAATCAAAATTAATTAATTATTCATAGAATTGTTATGAAATATGATTATTTATATAATTAA-T
1 ATTAATCAAAATTAATTAATTATTCATAGAATTATTATGAAATATAATTCTTTATTTAATTAATT
* * **
28436325 CATAAATTACTTAATTATTTGT-AAATTATTATGAAATATGA
66 GA-AAATTAATTAATTATTCATAAAATTATTATGAAATATGA
28436366 CCCAGCTTTT
Statistics
Matches: 384, Mismatches: 56, Indels: 24
0.83 0.12 0.05
Matches are distributed among these distances:
169 78 0.20
170 11 0.03
171 47 0.12
172 13 0.03
173 7 0.02
174 25 0.07
175 29 0.08
176 173 0.45
177 1 0.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (174 bp):
ATTAATCAAAATTAATTAATTATTCATAGAATTATTATGAAATATAATTCTTTATTTAATTAATT
GAAAATTAATTAATTATTCATAAAATTATTATGAAATATGATTATTTATTTAATTAATCAAAATT
AATTAATTATTCATAAAATTATTATGAAATATGATTATTATTTA
Found at i:28438609 original size:25 final size:22
Alignment explanation
Indices: 28438581--28438632 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
28438571 CAGTTGTTTG
28438581 TCTTGCATGGGTTGCTGTTTTTTTC
1 TCTTGC-TGGGTTG-T-TTTTTTTC
*
28438606 TCTTTTCTGGGTTGTTTTTTTTC
1 TC-TTGCTGGGTTGTTTTTTTTC
28438629 TCTT
1 TCTT
28438633 TTTCTGGGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 2 0.08
23 10 0.40
24 1 0.04
25 9 0.36
26 3 0.12
ACGTcount: A:0.02, C:0.15, G:0.19, T:0.63
Consensus pattern (22 bp):
TCTTGCTGGGTTGTTTTTTTTC
Found at i:28438628 original size:23 final size:24
Alignment explanation
Indices: 28438588--28438645 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
28438578 TTGTCTTGCA
28438588 TGGGTTGCTGTTTTTTTCTC-TTTTC
1 TGGGTTG-T-TTTTTTTCTCTTTTTC
28438613 TGGGTTGTTTTTTTTCTCTTTTTC
1 TGGGTTGTTTTTTTTCTCTTTTTC
28438637 TGGGTTGTT
1 TGGGTTGTT
28438646 GTTTCTGGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.31
24 15 0.47
25 7 0.22
ACGTcount: A:0.00, C:0.12, G:0.22, T:0.66
Consensus pattern (24 bp):
TGGGTTGTTTTTTTTCTCTTTTTC
Found at i:28438797 original size:25 final size:25
Alignment explanation
Indices: 28438761--28438888 Score: 150
Period size: 25 Copynumber: 5.1 Consensus size: 25
28438751 AAACTTACAC
*
28438761 GGCGATGCAGCAGAGGACTGTCGAT
1 GGCGATGCAGCAGAGGACTATCGAT
*
28438786 GGCGATGTAGCAGAGGACTATCGAT
1 GGCGATGCAGCAGAGGACTATCGAT
* *
28438811 GGCAATGC-GACAGAGGACTTTCGAT
1 GGCGATGCAG-CAGAGGACTATCGAT
** * *
28438836 GATGATGCGGCAGAGGACTATTGAT
1 GGCGATGCAGCAGAGGACTATCGAT
* *
28438861 GGTGATGCAACAGAGGACTATCGAT
1 GGCGATGCAGCAGAGGACTATCGAT
28438886 GGC
1 GGC
28438889 ATTGAAGCAG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 1 0.01
25 84 0.98
26 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.36, T:0.20
Consensus pattern (25 bp):
GGCGATGCAGCAGAGGACTATCGAT
Found at i:28439419 original size:7 final size:7
Alignment explanation
Indices: 28439407--28439433 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
28439397 ACTCTCAAAG
28439407 TTTGCTA
1 TTTGCTA
28439414 TTTGCTA
1 TTTGCTA
28439421 TTTGCTA
1 TTTGCTA
28439428 TTTGCT
1 TTTGCT
28439434 TGGGGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.11, C:0.15, G:0.15, T:0.59
Consensus pattern (7 bp):
TTTGCTA
Found at i:28443760 original size:24 final size:24
Alignment explanation
Indices: 28443732--28443777 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
28443722 AAAATCAACC
28443732 ATATA-CAAAACAATTTAAAATATT
1 ATATATCAAAA-AATTTAAAATATT
* *
28443756 ATATATGAAAAATTTTAAAATA
1 ATATATCAAAAAATTTAAAATA
28443778 AATAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
ATATATCAAAAAATTTAAAATATT
Found at i:28460489 original size:40 final size:40
Alignment explanation
Indices: 28460345--28460476 Score: 185
Period size: 40 Copynumber: 3.3 Consensus size: 40
28460335 TAACTCATAC
* *
28460345 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
28460385 AATGCCTTCAGGACTTAACCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAA-CCCGGAATTAATAACTCGCACA
*
28460426 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
28460466 AATGCCTTCGG
1 AATGCCTTCGG
28460477 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
40 50 0.62
41 30 0.38
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:28460506 original size:81 final size:80
Alignment explanation
Indices: 28460343--28460529 Score: 213
Period size: 81 Copynumber: 2.3 Consensus size: 80
28460333 AGTAACTCAT
* * *
28460343 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCAGGACTTAACCCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCAGGACTTAACCCCG
*
28460408 GAATTAGTATCTCGC
66 GAATTAGTATCTAGC
**
28460423 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTT-AGT
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCAGGA-CTTAACC
28460485 CCGG-ATATAGTCA-CTTAGC
63 CCGGAAT-TAGT-ATC-TAGC
* *
28460504 ACAGAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
28460530 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
79 2 0.02
80 41 0.44
81 50 0.54
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCAGGACTTAACCCCG
GAATTAGTATCTAGC
Found at i:28468343 original size:80 final size:80
Alignment explanation
Indices: 28468241--28468426 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
28468231 AGTAACTCAT
* * *
28468241 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCAGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
28468304 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
28468320 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
28468385 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
* *
28468401 ACAGAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
28468427 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 9 0.10
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:28468386 original size:40 final size:40
Alignment explanation
Indices: 28468243--28468373 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
28468233 TAACTCATAC
* *
28468243 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
28468283 AATGCCTTCAGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
28468323 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
28468363 AATGCCTTCGG
1 AATGCCTTCGG
28468374 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:28471896 original size:26 final size:26
Alignment explanation
Indices: 28471860--28471909 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
28471850 TTGGATAAAA
28471860 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* **
28471886 AGGGGTTGCTAAGTGTTGATTCCC
1 AGGGGTCGCTAAGTGCAGATTCCC
28471910 TGAATTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:28472020 original size:42 final size:42
Alignment explanation
Indices: 28471924--28472115 Score: 142
Period size: 43 Copynumber: 4.5 Consensus size: 42
28471914 TTATTGATTT
* * * *
28471924 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTAT-ATTTAATTG
1 TAAAGGTGGTTGCTAAGTGCTGATTTC-CCGTATCA-CTAAATG
* *
28471967 TGAAAGG-GGTTGCTACGTGCTGATTTCCCGTATCACTAAATA
1 T-AAAGGTGGTTGCTAAGTGCTGATTTCCCGTATCACTAAATG
** * *
28472009 TAAAGGTGGTTGCTAAGTGCTGA-TTCCATCGTATCTTTGATTG
1 TAAAGGTGGTTGCTAAGTGCTGATTTCC--CGTATCACTAAATG
* * * *
28472052 TGAAAGG-GGTTGCTATGTGGTGATTTCTCGTATCACTGAAT-
1 T-AAAGGTGGTTGCTAAGTGCTGATTTCCCGTATCACTAAATG
* * *
28472093 TTAAGTTGGTTGCTAAATGCTGA
1 TAAAGGTGGTTGCTAAGTGCTGA
28472116 ATCCACCGAG
Statistics
Matches: 118, Mismatches: 23, Indels: 18
0.74 0.14 0.11
Matches are distributed among these distances:
40 3 0.03
41 23 0.19
42 36 0.31
43 43 0.36
44 13 0.11
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.37
Consensus pattern (42 bp):
TAAAGGTGGTTGCTAAGTGCTGATTTCCCGTATCACTAAATG
Found at i:28472033 original size:85 final size:84
Alignment explanation
Indices: 28471923--28472123 Score: 285
Period size: 85 Copynumber: 2.4 Consensus size: 84
28471913 ATTATTGATT
*
28471923 TTAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTAATTGTGAAAGGGGTTGCTACGTGCT
1 TTAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTAATTGTGAAAGGGGTTGCTACGTGCT
28471988 GATTTCCCGTATCACTAAA
66 GATTTCCCGTATCACTAAA
* * * * *
28472007 TATAAAGGTGGTTGCTAAGTGCTGATTCCATCGTATCTTTGATTGTGAAAGGGGTTGCTATGTGG
1 T-TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTAATTGTGAAAGGGGTTGCTACGTGC
* *
28472072 TGATTTCTCGTATCACTGAA
65 TGATTTCCCGTATCACTAAA
* * * *
28472092 TTTAAGTTGGTTGCTAAATGCTGAATCCACCG
1 TTAAAGGTGGTTGCTAAGTGCTGATTCCACCG
28472124 AGTAACGGAT
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
84 27 0.26
85 76 0.74
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (84 bp):
TTAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATATTTAATTGTGAAAGGGGTTGCTACGTGCT
GATTTCCCGTATCACTAAA
Found at i:28472063 original size:43 final size:42
Alignment explanation
Indices: 28471886--28472085 Score: 158
Period size: 42 Copynumber: 4.7 Consensus size: 42
28471876 AGATTCCCCG
* * * *
28471886 AGGGGTTGCTAAGTGTTGATTCC-CTGAAT-TATTGATT-TTAA
1 AGGGGTTGCTAAGTGCTGATTCCTC-GTATCT-TTAATTGTGAA
* * *
28471927 AGGTGGTTGCTAAGTGTTGATTCCACCGTATATTTAATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-TCGTATCTTTAATTGTGAA
* ** * *
28471971 AGGGGTTGCTACGTGCTGATTTCC-CGTATCACTAAATAT-AA
1 AGGGGTTGCTAAGTGCTGA-TTCCTCGTATCTTTAATTGTGAA
*
28472012 AGGTGGTTGCTAAGTGCTGATTCCATCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-TCGTATCTTTAATTGTGAA
* * *
28472056 AGGGGTTGCTATGTGGTGATTTCTCGTATC
1 AGGGGTTGCTAAGTGCTGATTCCTCGTATC
28472086 ACTGAATTTA
Statistics
Matches: 130, Mismatches: 19, Indels: 19
0.77 0.11 0.11
Matches are distributed among these distances:
41 12 0.09
42 52 0.40
43 49 0.38
44 17 0.13
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.38
Consensus pattern (42 bp):
AGGGGTTGCTAAGTGCTGATTCCTCGTATCTTTAATTGTGAA
Found at i:28475763 original size:21 final size:21
Alignment explanation
Indices: 28475739--28475778 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
28475729 AATGGAAAAA
28475739 TAAAGAAAAGA-AAAAGAAAGT
1 TAAA-AAAAGATAAAAGAAAGT
*
28475760 TAAAAAAATATAAAAGAAA
1 TAAAAAAAGATAAAAGAAA
28475779 AAAATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (21 bp):
TAAAAAAAGATAAAAGAAAGT
Found at i:28481076 original size:8 final size:7
Alignment explanation
Indices: 28481040--28481079 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
28481030 ACAGATGTGA
28481040 TTTTAG-
1 TTTTAGT
28481046 TTTTAG-
1 TTTTAGT
*
28481052 TTTTGGT
1 TTTTAGT
28481059 TTTTAGT
1 TTTTAGT
28481066 TTTTAGT
1 TTTTAGT
28481073 TTTTAGT
1 TTTTAGT
28481080 AATGTTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 11 0.35
7 20 0.65
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.70
Consensus pattern (7 bp):
TTTTAGT
Found at i:28484737 original size:21 final size:21
Alignment explanation
Indices: 28484702--28484751 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
28484692 AAATTAAATT
*
28484702 TAATATTTTTCATAA-AGATAAA
1 TAATA-TTATCATAAGA-ATAAA
28484724 TAATATTATCATAAGAATAAA
1 TAATATTATCATAAGAATAAA
*
28484745 TATTATT
1 TAATATT
28484752 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
TAATATTATCATAAGAATAAA
Found at i:28485201 original size:25 final size:27
Alignment explanation
Indices: 28485173--28485234 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
28485163 ATATGTATAA
28485173 ATTATATAAATAA-GTAATA-AATTTT
1 ATTATATAAATAATGTAATATAATTTT
* * *
28485198 ATTAT-GAAATAATTTAATATATTTTT
1 ATTATATAAATAATGTAATATAATTTT
28485224 ATATATATAAA
1 AT-TATATAAA
28485235 GAAAAGGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 6 0.21
25 10 0.34
26 7 0.24
27 3 0.10
28 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
ATTATATAAATAATGTAATATAATTTT
Found at i:28488319 original size:16 final size:16
Alignment explanation
Indices: 28488298--28488331 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28488288 CCAATATCCA
* *
28488298 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
28488314 ATTATCACATTTACAC
1 ATTATCACATTTACAC
28488330 AT
1 AT
28488332 ATATATTCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:28492553 original size:174 final size:176
Alignment explanation
Indices: 28492059--28492722 Score: 1158
Period size: 174 Copynumber: 3.8 Consensus size: 176
28492049 TCTACAATCG
* * *
28492059 CTATTTAAATATTGTTTCTCAAAACTAATAAATTCAT-ATAACTAATGTAAAAGCCTCTTCAACG
1 CTATTTACATATTGTTTCTCAAAACTAATAAATTCATAAAAAATAATGTAAAAGCCTCTTCAACG
* *
28492123 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACGCTGAAGGTCTCCGGTTCGAATCCG
66 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
* * * * *
28492188 GGGGAAACCATTCATACAGAATATATTTCTGATTTTGTACATTTAA
131 GGCGAAGCCATTCATATAGAATATATCTCTGGTTTTGTACATTTAA
28492234 CTATTTACATATTGTTTCTCAAAACTAATAAATTCATAAAAAATAATGTAAAAGCCTCTTCAACG
1 CTATTTACATATTGTTTCTCAAAACTAATAAATTCATAAAAAATAATGTAAAAGCCTCTTCAACG
28492299 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
66 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
28492364 GGCGAAGCCATTCATATAGAATATATCTCTGGTTTTGTACATTTAA
131 GGCGAAGCCATTCATATAGAATATATCTCTGGTTTTGTACATTTAA
28492410 CTATTTACATATTGTTTCTCAAAACTAATAAATTCATAAAAAATAATGTAAAAG-C-CTTCAACG
1 CTATTTACATATTGTTTCTCAAAACTAATAAATTCATAAAAAATAATGTAAAAGCCTCTTCAACG
28492473 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
66 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
28492538 GGCGAAGCCATTCATATAGAATATATCTCTGGTTTTGTACATTTAA
131 GGCGAAGCCATTCATATAGAATATATCTCTGGTTTTGTACATTTAA
* * * **
28492584 CTATTTACATATTGTTTCTCAAAACTAATAAATTCATAAAAAAT-ATGTTAAAGACT-GTCGTCG
1 CTATTTACATATTGTTTCTCAAAACTAATAAATTCATAAAAAATAATGTAAAAGCCTCTTCAACG
28492647 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
66 TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
28492712 GGCGAAGCCAT
131 GGCGAAGCCAT
28492723 GTACTCAGAA
Statistics
Matches: 472, Mismatches: 14, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
173 8 0.02
174 244 0.52
175 37 0.08
176 183 0.39
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (176 bp):
CTATTTACATATTGTTTCTCAAAACTAATAAATTCATAAAAAATAATGTAAAAGCCTCTTCAACG
TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGTCCG
GGCGAAGCCATTCATATAGAATATATCTCTGGTTTTGTACATTTAA
Found at i:28493234 original size:20 final size:20
Alignment explanation
Indices: 28493209--28493248 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
28493199 CGAGAATCAG
28493209 TTTAAAGTTTGGGTAAGCAA
1 TTTAAAGTTTGGGTAAGCAA
28493229 TTTAAAGTTTGGGTAAGCAA
1 TTTAAAGTTTGGGTAAGCAA
28493249 AACCTAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (20 bp):
TTTAAAGTTTGGGTAAGCAA
Found at i:28494384 original size:11 final size:11
Alignment explanation
Indices: 28494370--28494401 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
28494360 GAGTATTTTA
28494370 TTATATTTATT
1 TTATATTTATT
28494381 TTATATTTATT
1 TTATATTTATT
28494392 TTATATTTAT
1 TTATATTTAT
28494402 ACTATTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATATTTATT
Found at i:28494389 original size:6 final size:6
Alignment explanation
Indices: 28494370--28494402 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
28494360 GAGTATTTTA
28494370 TTATAT TTAT-T TTATAT TTAT-T TTATAT TTATA
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATA
28494403 CTATTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTATAT
Found at i:28501133 original size:23 final size:24
Alignment explanation
Indices: 28501099--28501151 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
28501089 ATAGAAAAAA
*
28501099 TAAAAATGAAAAA-TATATATTTTT
1 TAAAAATGAAAAATTATA-AGTTTT
28501123 TAAAAAT-AAAAATTATAAGTTTT
1 TAAAAATGAAAAATTATAAGTTTT
28501146 TAAAAA
1 TAAAAA
28501152 ATATAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (24 bp):
TAAAAATGAAAAATTATAAGTTTT
Found at i:28501152 original size:24 final size:24
Alignment explanation
Indices: 28501100--28501159 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
28501090 TAGAAAAAAT
*
28501100 AAAAATGAAAAA-TATATATTTTTT
1 AAAAAT-AAAAATTATATATTTTTA
28501124 AAAAATAAAAATTATA-AGTTTTTA
1 AAAAATAAAAATTATATA-TTTTTA
*
28501148 AAAAATATAAAT
1 AAAAATAAAAAT
28501160 GATTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 6 0.19
24 26 0.81
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (24 bp):
AAAAATAAAAATTATATATTTTTA
Found at i:28501928 original size:31 final size:31
Alignment explanation
Indices: 28501893--28501954 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
28501883 AAGTAGTAAA
28501893 CACATGTAATAAATAACAGAATACTAAAGAT
1 CACATGTAATAAATAACAGAATACTAAAGAT
*
28501924 CACATGTAATAAATAATAGAATACTAAAGAT
1 CACATGTAATAAATAACAGAATACTAAAGAT
28501955 TTGAGCCATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.55, C:0.11, G:0.10, T:0.24
Consensus pattern (31 bp):
CACATGTAATAAATAACAGAATACTAAAGAT
Found at i:28502187 original size:8 final size:8
Alignment explanation
Indices: 28502174--28502198 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
28502164 AATGAAATGG
28502174 TTGAATAA
1 TTGAATAA
28502182 TTGAATAA
1 TTGAATAA
28502190 TTGAATAA
1 TTGAATAA
28502198 T
1 T
28502199 GAGATTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (8 bp):
TTGAATAA
Found at i:28503563 original size:17 final size:17
Alignment explanation
Indices: 28503541--28503573 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
28503531 TATAACGATT
*
28503541 ATACTAATTATATCTAA
1 ATACTAAGTATATCTAA
28503558 ATACTAAGTATATCTA
1 ATACTAAGTATATCTA
28503574 TGCGAGTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.39
Consensus pattern (17 bp):
ATACTAAGTATATCTAA
Found at i:28508551 original size:17 final size:16
Alignment explanation
Indices: 28508518--28508549 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28508508 AACTTTAGGG
28508518 GCAAAAATGTAATTTT
1 GCAAAAATGTAATTTT
*
28508534 GCAAAAATGTGATTTT
1 GCAAAAATGTAATTTT
28508550 TGGACTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (16 bp):
GCAAAAATGTAATTTT
Found at i:28508835 original size:51 final size:51
Alignment explanation
Indices: 28508709--28509045 Score: 172
Period size: 51 Copynumber: 6.6 Consensus size: 51
28508699 AGTTGCTAGG
* * * * *
28508709 TCACGTTTGTAGTACTATGCGCAGGCTACTACGTGTA-CTGGAAT-G-ATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCT-GAATAGCATA-A
* * * *
28508759 TCGCATGTATAGTACTATGTGCAGGCTACTATGCGTA-CTGAATAGCTTCAA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCTGAATAGCAT-AA
** * ** **
28508810 TCACGTGTGTAGTACTATGTGCAGGCTACTA--CGTATATCGGATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCT-GAAT-AGCATAA
* * * * * * *
28508861 TCATGTGTGTAGTATTATGTGTAGGCTACTACGTGTACCGGAAT-G-ATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCTGAATAGCATA-A
* * * * * * *
28508911 TCGCATGTGCAGTACTATGTGTAGGCTACTATGCGTA-CTGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCTGAATAGCAT-AA
* * * * ** **
28508962 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGAAAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCTGAAT-AGCATAA
* *
28509013 TTACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
28509046 TGAACCGAGT
Statistics
Matches: 218, Mismatches: 55, Indels: 27
0.73 0.18 0.09
Matches are distributed among these distances:
49 14 0.06
50 66 0.30
51 125 0.57
52 10 0.05
53 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCTGAATAGCATAA
Done.