Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 60 of 91
Found at i:21556208 original size:111 final size:111
Alignment explanation
Indices: 21555993--21556497 Score: 426
Period size: 111 Copynumber: 4.4 Consensus size: 111
21555983 GCTGCATGAC
* *
21555993 TGACTTGTGCAATTCATGTGTTGCTTT-GAGGCTATTG-TCAAGTAGTTTTTTAGGCAGTGCGTG
1 TGACTTGTGCAATTCATGTGTTG-TTTAGAGGCTTTTGTTC-AGTAGTTTTTTAGGC-TTGCGTG
* * * *
21556056 ACTAGTTTTTATATATTACGTTACCTGTTGTAGCT-AGAGTGGTGGCACA
63 ACTGGTTTTTATATATTACATGACCTGTTGTAG-TGAGAGTGGTGGCACG
* * * *
21556105 TAACTTGTGCAATTCATTTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAAGCTTGCGTGACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* * * * *
21556170 GGTTTTTATATATTGCATTACTTGTTGTAGTGTGAGTGGTGGCGCG
66 GGTTTTTATATATTACATGACCTGTTGTAGTGAGAGTGGTGGCACG
* * * * *
21556216 TGACTTGTGAAATCCATGTGTTGTTTAGGGGCTTTTGTTCAGTAG-ATTTTAGGGTTGCGTGAC-
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* ** * * * * *
21556279 CGAATTTAGAATATTGCGTGACGTGTTGTTATGTATTGCGAGAGTGGTTGCACG
66 GGTTTTTA-TATATTACATGACCTGTTG-TA-G---T--GAGAGTGGTGGCACG
* * * *
21556333 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTTAGGATTGCATTACT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
* *
21556398 GGTTTTTATGTATTACATGACCTGTTGTTATATATTGTGAGAGTGGTGGCGCG
66 GGTTTTTATATATTACATGACCTGTTG-----TA--GTGAGAGTGGTGGCACG
* *** * * * *
21556451 TGAGTTGTGCAATTCGCCTCTTGTTTAGGGGCGTTTGTTCACTAGTT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTT
21556498 ATTAGGCATT
Statistics
Matches: 316, Mismatches: 59, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
109 5 0.02
110 31 0.10
111 90 0.28
112 45 0.14
113 2 0.01
115 1 0.00
117 53 0.17
118 79 0.25
119 5 0.02
120 1 0.00
122 2 0.01
123 2 0.01
ACGTcount: A:0.18, C:0.12, G:0.27, T:0.43
Consensus pattern (111 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACT
GGTTTTTATATATTACATGACCTGTTGTAGTGAGAGTGGTGGCACG
Found at i:21556355 original size:117 final size:118
Alignment explanation
Indices: 21556091--21556511 Score: 333
Period size: 118 Copynumber: 3.6 Consensus size: 118
21556081 TGTTGTAGCT
* * * * * * *
21556091 AGAGTGGTGGCACATAACTTGTGCAATTCATTTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTT
1 AGAGTGGTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTATTTT
* * * * ** * * * * *
21556156 AAGCTTGCGTGACTGGTTTTTATATATTGCATTA-C--TTG-T-TGTA--GTG
66 AGGATTGCATGACTCGAATTTATGTATTACATGACCTGTTGTTATATATTGCG
* * *
21556202 TGAGTGGTGGCGCGTGACTTGTGAAATCCATGTGTTGTTTAGGGGCTTTTGTTCAGTAG-ATTTT
1 AGAGTGGTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTATTTT
* * * * * *
21556266 AGGGTTGCGTGAC-CGAATTTA-GAATATTGCGTGACGTGTTGTTATGTATTGCG
66 AGGATTGCATGACTCGAATTTATG--TATTACATGACCTGTTGTTATATATTGCG
* * * * *
21556319 AGAGTGGTTGCACGTGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTTAGTAGTTTTTT
1 AGAGTGGTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTATTTT
* * ** *
21556384 AGGATTGCATTACTGGTTTTTATGTATTACATGACCTGTTGTTATATATTGTG
66 AGGATTGCATGACTCGAATTTATGTATTACATGACCTGTTGTTATATATTGCG
* *** * * * *
21556437 AGAGTGGTGGCGCGTGAGTTGTGCAATTCGCCTCTTGTTTAGGGGCGTTTGTTCACTAGT-TATT
1 AGAGTGGTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTATTTT
21556501 AGGCATTGCAT
66 AGG-ATTGCAT
21556512 TAATGTGTAT
Statistics
Matches: 246, Mismatches: 51, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
109 5 0.02
110 23 0.09
111 50 0.20
113 3 0.01
114 1 0.00
115 4 0.02
117 60 0.24
118 94 0.38
119 5 0.02
120 1 0.00
ACGTcount: A:0.18, C:0.11, G:0.28, T:0.42
Consensus pattern (118 bp):
AGAGTGGTGGCGCGTGACTTGTGCAATTCATGTGTTGTTTAGGGGCTTTTGTTCAGTAGTATTTT
AGGATTGCATGACTCGAATTTATGTATTACATGACCTGTTGTTATATATTGCG
Found at i:21560961 original size:26 final size:26
Alignment explanation
Indices: 21560925--21560985 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
21560915 AATGCCTACC
* * *
21560925 AACTACTCACGCAATGCCTTAAT-AGA
1 AACTAGTCACGCAATGACTT-ATGAAA
21560951 AACTAGTCACGCAATGACTTATGAAA
1 AACTAGTCACGCAATGACTTATGAAA
21560977 AACTAGTCA
1 AACTAGTCA
21560986 TGTAATGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (26 bp):
AACTAGTCACGCAATGACTTATGAAA
Found at i:21561013 original size:21 final size:21
Alignment explanation
Indices: 21560989--21561034 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
21560979 CTAGTCATGT
*
21560989 AATGTCCAAAGTAAGTCTCGC
1 AATGTCCAAAGTAAGTCACGC
*
21561010 AATGTCCAAGGTAAGTCACGC
1 AATGTCCAAAGTAAGTCACGC
21561031 AATG
1 AATG
21561035 GCTCATGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (21 bp):
AATGTCCAAAGTAAGTCACGC
Found at i:21564956 original size:22 final size:23
Alignment explanation
Indices: 21564926--21564968 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21564916 CAAGTGCAAC
*
21564926 TAGTCACGCGATTCAATAATAAT
1 TAGTCACGCAATTCAATAATAAT
*
21564949 TAGT-ACGCAATTCTATAATA
1 TAGTCACGCAATTCAATAATA
21564969 TCCAGTCACG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (23 bp):
TAGTCACGCAATTCAATAATAAT
Found at i:21565608 original size:23 final size:23
Alignment explanation
Indices: 21565576--21565641 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
21565566 TTATCACATG
*
21565576 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
21565600 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
21565626 AATGATAC--AGAATAAT
1 AATGATACAAAGAATAAT
21565642 GTTAATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 8 0.21
23 4 0.11
24 4 0.11
26 22 0.58
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.23
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:21565614 original size:26 final size:26
Alignment explanation
Indices: 21565583--21565634 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21565573 ATGAATGAAT
*
21565583 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
21565609 ACAAAGAATAATATGGAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
21565635 GAATAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:21573784 original size:24 final size:24
Alignment explanation
Indices: 21573750--21573819 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
21573740 TCACCTGTTG
* *
21573750 GATCTCCAACTACATTAACTGCTA
1 GATCTCCAACTGCATTGACTGCTA
* *
21573774 GATCTCTAACTGCATTGACTGCTG
1 GATCTCCAACTGCATTGACTGCTA
21573798 GATCTCCAACTGCATTGACTGC
1 GATCTCCAACTGCATTGACTGC
21573820 ATCTGTATCT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (24 bp):
GATCTCCAACTGCATTGACTGCTA
Found at i:21574043 original size:24 final size:24
Alignment explanation
Indices: 21573999--21574049 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
21573989 TAGGAGGATC
* *
21573999 AGCAGCAAGAGTAGCAGCATGATG
1 AGCAGCAAGAGTAGCACCATGAAG
21574023 AGCAGCAAGAG-ATGCACCATGAAG
1 AGCAGCAAGAGTA-GCACCATGAAG
21574047 AGC
1 AGC
21574050 TGAATAAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.39, C:0.20, G:0.31, T:0.10
Consensus pattern (24 bp):
AGCAGCAAGAGTAGCACCATGAAG
Found at i:21581630 original size:58 final size:57
Alignment explanation
Indices: 21581540--21581659 Score: 170
Period size: 58 Copynumber: 2.1 Consensus size: 57
21581530 CATAATCATC
* *
21581540 CAAAGTAGTTGGCATGTGATAGATTTATTTTATGCAATTTAATAAATGTTATGCAATG
1 CAAAGTAGTTGGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATAC-ATG
* * *
21581598 CAAAGTAGTAT-GCATGTGATTGGTTTATTTTATGCGATTTAATAAATGCTATACATG
1 CAAAGTAGT-TGGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATACATG
21581655 CAAAG
1 CAAAG
21581660 ATGAGACCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
57 8 0.14
58 47 0.84
59 1 0.02
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (57 bp):
CAAAGTAGTTGGCATGTGATAGATTTATTTTATGCAATTTAATAAATGCTATACATG
Found at i:21600898 original size:25 final size:26
Alignment explanation
Indices: 21600869--21600921 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
21600859 GTATTCTCAT
21600869 ATTTACAAATTG-GAA-GACAAAAAGA
1 ATTTA-AAATTGAGAATGACAAAAAGA
* *
21600894 ATTTAACATTGAGAATGAGAAAAAGA
1 ATTTAAAATTGAGAATGACAAAAAGA
21600920 AT
1 AT
21600922 GAGTGGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 8 0.33
26 11 0.46
ACGTcount: A:0.55, C:0.06, G:0.17, T:0.23
Consensus pattern (26 bp):
ATTTAAAATTGAGAATGACAAAAAGA
Found at i:21610657 original size:13 final size:13
Alignment explanation
Indices: 21610624--21610664 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 13
21610614 AACTCGGACC
21610624 AAATTTTTCAACG
1 AAATTTTTCAACG
*
21610637 -GA-TTTTCAACG
1 AAATTTTTCAACG
21610648 AAATTTTTCAACAG
1 AAATTTTTCAAC-G
21610662 AAA
1 AAA
21610665 ATATTTCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 9 0.39
12 2 0.09
13 8 0.35
14 4 0.17
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (13 bp):
AAATTTTTCAACG
Found at i:21611705 original size:32 final size:33
Alignment explanation
Indices: 21611669--21611735 Score: 109
Period size: 32 Copynumber: 2.0 Consensus size: 33
21611659 ATACAACTTT
*
21611669 ATGTATATGAGTTAAT-ATATATGTTTATATAC
1 ATGTATATGAGTTAATAATATATGTTTACATAC
21611701 ATGTATATGAGTTAATACATATATGTTTACATAC
1 ATGTATATGAGTTAATA-ATATATGTTTACATAC
21611735 A
1 A
21611736 ACTTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 16 0.50
34 16 0.50
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (33 bp):
ATGTATATGAGTTAATAATATATGTTTACATAC
Found at i:21611788 original size:146 final size:146
Alignment explanation
Indices: 21611617--21611923 Score: 542
Period size: 146 Copynumber: 2.1 Consensus size: 146
21611607 TAATATATAT
21611617 ATATATATATGTATGTATATGTTTACATACATATATATATGCATACAACTTTATGTATATGAGTT
1 ATATATATATGTATGTATATGTTTACATACATATATATATGCATACAACTTTATGTATATGAGTT
* * *
21611682 AATATATATGTTTATATACATGTATATGAGTTAATACATATATGTTTACATACAACTTTATATAA
66 AATATATATGTTTACATACATGTATATGAGTTAACACATATATGTTTACATAAAACTTTATATAA
21611747 CTTTATAACTAAGTTA
131 CTTTATAACTAAGTTA
*
21611763 ATATATATATGTATGTATATGTTTACATACATATATGTATGCATACAACTTTATGTATATGAGTT
1 ATATATATATGTATGTATATGTTTACATACATATATATATGCATACAACTTTATGTATATGAGTT
* *
21611828 AATATATATGTTTACATACATGTATATGAGTTAACACATTTATGTTTGCATAAAACTTTATATAA
66 AATATATATGTTTACATACATGTATATGAGTTAACACATATATGTTTACATAAAACTTTATATAA
*
21611893 CTTTATAATTAAGTTA
131 CTTTATAACTAAGTTA
*
21611909 ATATATATATCTATG
1 ATATATATATGTATG
21611924 CATTATTCAC
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 153 1.00
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.44
Consensus pattern (146 bp):
ATATATATATGTATGTATATGTTTACATACATATATATATGCATACAACTTTATGTATATGAGTT
AATATATATGTTTACATACATGTATATGAGTTAACACATATATGTTTACATAAAACTTTATATAA
CTTTATAACTAAGTTA
Found at i:21611878 original size:72 final size:72
Alignment explanation
Indices: 21611604--21611888 Score: 278
Period size: 72 Copynumber: 3.9 Consensus size: 72
21611594 TTTATAATTA
* ** * * *
21611604 AGTTAATATATATATATATATATGTATGTATATG-TTTACATACATATATATATGCATACAACTT
1 AGTTAATATATATGT-T-TATATACATGTATATGAGTTA-ATACATATATGTTTGCATACAACTT
21611668 TATGTATATG
63 TATGTATATG
*
21611678 AGTTAATATATATGTTTATATACATGTATATGAGTTAATACATATATGTTTACATACAACTTTA-
1 AGTTAATATATATGTTTATATACATGTATATGAGTTAATACATATATGTTTGCATACAACTTTAT
21611742 -TATA--
66 GTATATG
* * * * *
21611746 ACTTTATA-ACTAAGTTAATATATATATGTATGTAT-ATGTTTACATACATATATGTATGCATAC
1 AGTTAATATA-TATGTT--TATATACATGTA--TATGA-G-TTA-ATACATATATGTTTGCATAC
21611809 AACTTTATGTATATG
58 AACTTTATGTATATG
* * * *
21611824 AGTTAATATATATGTTTACATACATGTATATGAGTTAACACATTTATGTTTGCATAAAACTTTAT
1 AGTTAATATATATGTTTATATACATGTATATGAGTTAATACATATATGTTTGCATACAACTTTAT
21611889 ATAACTTTAT
Statistics
Matches: 174, Mismatches: 22, Indels: 32
0.76 0.10 0.14
Matches are distributed among these distances:
67 1 0.01
68 11 0.06
70 15 0.09
71 1 0.01
72 66 0.38
73 10 0.06
74 43 0.25
75 1 0.01
76 14 0.08
78 11 0.06
79 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (72 bp):
AGTTAATATATATGTTTATATACATGTATATGAGTTAATACATATATGTTTGCATACAACTTTAT
GTATATG
Found at i:21614166 original size:28 final size:28
Alignment explanation
Indices: 21614088--21614197 Score: 104
Period size: 28 Copynumber: 4.0 Consensus size: 28
21614078 TGGAAATTTC
* *
21614088 ATTTTCTTTTTGTAGTGTTTTCCAATGG
1 ATTTTCTTTCTATAGTGTTTTCCAATGG
* *
21614116 AATTTTCATTT-GA-A--ATTTT-CAATGG
1 -ATTTTC-TTTCTATAGTGTTTTCCAATGG
*
21614141 ATTTTCTTTCTATAGTGTTTTCCAATAG
1 ATTTTCTTTCTATAGTGTTTTCCAATGG
* *
21614169 ATTTTCTTTCTACAATGTTTTCCAATGG
1 ATTTTCTTTCTATAGTGTTTTCCAATGG
21614197 A
1 A
21614198 ATGTTAATGG
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.05
24 7 0.11
25 7 0.11
26 4 0.06
27 4 0.06
28 32 0.48
29 6 0.09
30 3 0.05
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.52
Consensus pattern (28 bp):
ATTTTCTTTCTATAGTGTTTTCCAATGG
Found at i:21618842 original size:21 final size:21
Alignment explanation
Indices: 21618816--21618857 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21618806 AAATAGAATG
* *
21618816 TTTCTCGTTGCAGCGAGATTC
1 TTTCTCGCTGCAGCGAAATTC
21618837 TTTCTCGCTGCAGCGAAATTC
1 TTTCTCGCTGCAGCGAAATTC
21618858 AACTGATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (21 bp):
TTTCTCGCTGCAGCGAAATTC
Found at i:21619242 original size:23 final size:23
Alignment explanation
Indices: 21619212--21619271 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
21619202 TATACGTATA
* * *
21619212 CCCATCATTATCATGCACATCAT
1 CCCATCATCATCATACACACCAT
*
21619235 CCCATCATCAACATACACACCAT
1 CCCATCATCATCATACACACCAT
*
21619258 CACATCATCATCAT
1 CCCATCATCATCAT
21619272 CACCAACTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.35, C:0.38, G:0.02, T:0.25
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:21621239 original size:72 final size:71
Alignment explanation
Indices: 21621074--21621257 Score: 169
Period size: 72 Copynumber: 2.6 Consensus size: 71
21621064 AAACATTCAG
* * * * *
21621074 GACAA-AAGGTTTCGATACCTCCCTTATAAGTATCAATAC-TTTTCAACATAATGCTTTTTAAGG
1 GACAACAA-GTTTCAATACCTTCCTTGTAAGTATCAATACTTTTTAAACATAATGCTTTTCAAGG
21621137 CATTCTA
65 CATTCTA
* * * *
21621144 GACAACAAGTATCAATGCATTCCTTGTAAGTATCAATACTTTTTAAATATATATG-TTTTCCAAG
1 GACAACAAGTTTCAATACCTTCCTTGTAAGTATCAATACTTTTTAAACATA-ATGCTTTT-CAAG
*
21621208 GCATT-TT
64 GCATTCTA
* * * * *
21621215 GAAGAACAAGTTTCAATACCTTCCTCGTAGGCATCGATACTTT
1 G-ACAACAAGTTTCAATACCTTCCTTGTAAGTATCAATACTTT
21621258 CTTCACAGAT
Statistics
Matches: 91, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
70 30 0.33
71 17 0.19
72 44 0.48
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (71 bp):
GACAACAAGTTTCAATACCTTCCTTGTAAGTATCAATACTTTTTAAACATAATGCTTTTCAAGGC
ATTCTA
Found at i:21630896 original size:5 final size:5
Alignment explanation
Indices: 21630888--21630945 Score: 75
Period size: 5 Copynumber: 11.8 Consensus size: 5
21630878 AATTTGCCTA
* *
21630888 AAAAT AAAAG AAAAT AAAAT AAAAT --AAT AAAAT AAAGT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
21630936 AAAAAT AAAA
1 -AAAAT AAAA
21630946 ACACATATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
3 3 0.07
5 38 0.83
6 5 0.11
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:21630919 original size:23 final size:23
Alignment explanation
Indices: 21630890--21630937 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
21630880 TTTGCCTAAA
21630890 AATAAAAGAAAATAAAATAAAAT
1 AATAAAAGAAAATAAAATAAAAT
* *
21630913 AATAAAATAAAGTAAAATAAAAT
1 AATAAAAGAAAATAAAATAAAAT
21630936 AA
1 AA
21630938 AAATAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (23 bp):
AATAAAAGAAAATAAAATAAAAT
Found at i:21633180 original size:16 final size:16
Alignment explanation
Indices: 21633161--21633278 Score: 53
Period size: 16 Copynumber: 7.4 Consensus size: 16
21633151 TTCAGCGATT
21633161 AGCTTTCTCAGTTTCA
1 AGCTTTCTCAGTTTCA
** **
21633177 AGCTTT-GAAGCTTTTT
1 AGCTTTCTCAG-TTTCA
* **
21633193 AGGTTTCTTGGTTTCA
1 AGCTTTCTCAGTTTCA
* **
21633209 AGCATTCTTGGTTTCA
1 AGCTTTCTCAGTTTCA
* *
21633225 AGGTTTCT-TGATTTCA
1 AGCTTTCTCAG-TTTCA
* *
21633241 AACTTTC-CTGCTTTCA
1 AGCTTTCTCAG-TTTCA
*
21633257 AACTTTCTCAGTTTCA
1 AGCTTTCTCAGTTTCA
21633273 AGCTTT
1 AGCTTT
21633279 TAAGCTTTTC
Statistics
Matches: 77, Mismatches: 20, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
15 3 0.04
16 71 0.92
17 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (16 bp):
AGCTTTCTCAGTTTCA
Found at i:21633229 original size:24 final size:24
Alignment explanation
Indices: 21633171--21633231 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
21633161 AGCTTTCTCA
* * *
21633171 GTTTCAAGCTTTGAAGCTTTTTAG
1 GTTTCAAGGTTTCAAGCTTCTTAG
**
21633195 GTTTCTTGGTTTCAAGCATTCTT-G
1 GTTTCAAGGTTTCAAGC-TTCTTAG
21633219 GTTTCAAGGTTTC
1 GTTTCAAGGTTTC
21633232 TTGATTTCAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
24 25 0.86
25 4 0.14
ACGTcount: A:0.16, C:0.15, G:0.21, T:0.48
Consensus pattern (24 bp):
GTTTCAAGGTTTCAAGCTTCTTAG
Found at i:21633256 original size:32 final size:32
Alignment explanation
Indices: 21633193--21633257 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
21633183 GAAGCTTTTT
* * * *
21633193 AGGTTTCTTGGTTTCAAGCATTCTTGGTTTCA
1 AGGTTTCTTGATTTCAAACATTCCTGCTTTCA
*
21633225 AGGTTTCTTGATTTCAAACTTTCCTGCTTTCA
1 AGGTTTCTTGATTTCAAACATTCCTGCTTTCA
21633257 A
1 A
21633258 ACTTTCTCAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (32 bp):
AGGTTTCTTGATTTCAAACATTCCTGCTTTCA
Found at i:21633264 original size:32 final size:32
Alignment explanation
Indices: 21633196--21633264 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 32
21633186 GCTTTTTAGG
* * * * **
21633196 TTTCTTGGTTTCAAGCATTCTTGGTTTCAAGG
1 TTTCTTGATTTCAAACATTCCTGCTTTCAAAC
*
21633228 TTTCTTGATTTCAAACTTTCCTGCTTTCAAAC
1 TTTCTTGATTTCAAACATTCCTGCTTTCAAAC
21633260 TTTCT
1 TTTCT
21633265 CAGTTTCAAG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.17, C:0.20, G:0.13, T:0.49
Consensus pattern (32 bp):
TTTCTTGATTTCAAACATTCCTGCTTTCAAAC
Found at i:21633622 original size:31 final size:31
Alignment explanation
Indices: 21633584--21633661 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
21633574 AACATGAAAA
21633584 TTTATTCAATTTAGTCCTCATGCA-C-TAAATT
1 TTTATTCAATTTAGTCC-C-TGCACCATAAATT
* * *
21633615 TTTATTCAATTTATTCCCTGTACCATACATT
1 TTTATTCAATTTAGTCCCTGCACCATAAATT
*
21633646 TTTCTTCAATTTAGTC
1 TTTATTCAATTTAGTC
21633662 TCTCTGATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.08
30 2 0.05
31 35 0.88
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.49
Consensus pattern (31 bp):
TTTATTCAATTTAGTCCCTGCACCATAAATT
Found at i:21646968 original size:24 final size:24
Alignment explanation
Indices: 21646941--21646999 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
21646931 GACTGTTCGT
21646941 GTAGGCTT-GAATGAGCT-AATGAAA
1 GTAGGCTTAG-ATGAG-TAAATGAAA
21646965 GTAGGCTTAGATGAGTAAATGAAA
1 GTAGGCTTAGATGAGTAAATGAAA
21646989 GTATGG-TTAGA
1 GTA-GGCTTAGA
21647000 GACTTTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.03
24 28 0.88
25 3 0.09
ACGTcount: A:0.37, C:0.05, G:0.31, T:0.27
Consensus pattern (24 bp):
GTAGGCTTAGATGAGTAAATGAAA
Found at i:21648070 original size:72 final size:71
Alignment explanation
Indices: 21647990--21648125 Score: 263
Period size: 72 Copynumber: 1.9 Consensus size: 71
21647980 TAAAAATTTC
21647990 ATCAACGTATCATTTTTTTATTAATCCTGATTATGTAAGAGGAAATTAACTTGAGTATTTTTTTT
1 ATCAACGTATCATTTTTTTATTAATCCTGATTATGTAAGAGGAAATTAACTTGAGTATTTTTTTT
21648055 TATATG
66 TATATG
21648061 NATCAACGTATCATTTTTTTATTAATCCTGATTATGTAAGAGGAAATTAACTTGAGTATTTTTTT
1 -ATCAACGTATCATTTTTTTATTAATCCTGATTATGTAAGAGGAAATTAACTTGAGTATTTTTTT
21648126 ATATGCTTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (71 bp):
ATCAACGTATCATTTTTTTATTAATCCTGATTATGTAAGAGGAAATTAACTTGAGTATTTTTTTT
TATATG
Found at i:21658103 original size:31 final size:31
Alignment explanation
Indices: 21658068--21658130 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
21658058 TTTTAAATTT
21658068 TCTTCCTATAGGCTATACCCAAAAATATATA
1 TCTTCCTATAGGCTATACCCAAAAATATATA
21658099 TCTTCCTATAGGCTATACCCAAAAATATATA
1 TCTTCCTATAGGCTATACCCAAAAATATATA
21658130 T
1 T
21658131 ATATGCAAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.33
Consensus pattern (31 bp):
TCTTCCTATAGGCTATACCCAAAAATATATA
Found at i:21658944 original size:20 final size:20
Alignment explanation
Indices: 21658919--21658957 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21658909 CATTTTTTCA
21658919 ATTTGAAATATAAAATTTAT
1 ATTTGAAATATAAAATTTAT
* *
21658939 ATTTGAAATTTTAAATTTA
1 ATTTGAAATATAAAATTTA
21658958 AACCCTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTTGAAATATAAAATTTAT
Found at i:21667106 original size:30 final size:29
Alignment explanation
Indices: 21667066--21667222 Score: 115
Period size: 28 Copynumber: 5.4 Consensus size: 29
21667056 TTTTGTCTTT
21667066 AATTAAGACAAAATA-ATTTTATCTTGTCTA
1 AATTAAGACAAAATATA-TTT-TCTTGTCTA
* * *
21667096 AATTGAGAC-AAATATGTTTTCTTATCTA
1 AATTAAGACAAAATATATTTTCTTGTCTA
* * * *
21667124 GATTAAGATAAAAAATATTTTTCTCGTCTTA
1 AATTAAGACAAAATATA-TTTTCTTGTC-TA
* *
21667155 AATTAAGAC-AAACATATTTTCTTATCT-
1 AATTAAGACAAAATATATTTTCTTGTCTA
* * * * *
21667182 AATTAAAACCAAACATGTTTTCTTATCTA
1 AATTAAGACAAAATATATTTTCTTGTCTA
*
21667211 AATTATGACAAA
1 AATTAAGACAAA
21667223 CATGTTAAAG
Statistics
Matches: 101, Mismatches: 20, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
27 8 0.08
28 32 0.32
29 30 0.30
30 22 0.22
31 9 0.09
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (29 bp):
AATTAAGACAAAATATATTTTCTTGTCTA
Found at i:21667123 original size:28 final size:28
Alignment explanation
Indices: 21667087--21667228 Score: 133
Period size: 28 Copynumber: 5.0 Consensus size: 28
21667077 AATAATTTTA
* * *
21667087 TCTTGTCTAAATTGAGACAAATATGTTT
1 TCTTATCTAAATTAAGACAAACATGTTT
* * * *
21667115 TCTTATCTAGATTAAGATAAAAAATATTTT
1 TCTTATCTAAATTAAGA-CAAACAT-GTTT
** *
21667145 TCTCGTCTTAAATTAAGACAAACATATTT
1 TCTTATC-TAAATTAAGACAAACATGTTT
*
21667174 TCTTATCT-AATTAAAACCAAACATGTTT
1 TCTTATCTAAATTAAGA-CAAACATGTTT
*
21667202 TCTTATCTAAATTATGACAAACATGTT
1 TCTTATCTAAATTAAGACAAACATGTT
21667229 AAAGCTGCCA
Statistics
Matches: 91, Mismatches: 18, Indels: 10
0.76 0.15 0.08
Matches are distributed among these distances:
27 7 0.08
28 43 0.47
29 19 0.21
30 13 0.14
31 9 0.10
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (28 bp):
TCTTATCTAAATTAAGACAAACATGTTT
Found at i:21667158 original size:59 final size:57
Alignment explanation
Indices: 21667065--21667187 Score: 158
Period size: 59 Copynumber: 2.1 Consensus size: 57
21667055 CTTTTGTCTT
* * * *
21667065 TAATTAAGACAAAATAATTTTATCTTGTCTAAATTGAGACAAATATGTTTTCTTATC
1 TAATTAAGACAAAATAATTTTATCTCGTCTAAATTAAGACAAACATATTTTCTTATC
* *
21667122 TAGATTAAGATAAAA-AATATTTTTCTCGTCTTAAATTAAGACAAACATATTTTCTTATC
1 TA-ATTAAGACAAAATAAT-TTTATCTCGTC-TAAATTAAGACAAACATATTTTCTTATC
21667181 TAATTAA
1 TAATTAA
21667188 AACCAAACAT
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 5 0.09
58 25 0.44
59 27 0.47
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (57 bp):
TAATTAAGACAAAATAATTTTATCTCGTCTAAATTAAGACAAACATATTTTCTTATC
Found at i:21680143 original size:27 final size:28
Alignment explanation
Indices: 21680113--21680175 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 28
21680103 TAGCATTCGC
21680113 ACTAAT-GAAAACTTTCTTATCTTAAGG
1 ACTAATAGAAAACTTTCTTATCTTAAGG
21680140 ACT-ATAGAAAACTTTCTTATCTTAAGG
1 ACTAATAGAAAACTTTCTTATCTTAAGG
21680167 ACT-ATAGAA
1 ACTAATAGAA
21680176 GTAATAACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 2 0.06
27 33 0.94
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (28 bp):
ACTAATAGAAAACTTTCTTATCTTAAGG
Found at i:21686146 original size:21 final size:21
Alignment explanation
Indices: 21686121--21686160 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
21686111 AATATAAAAA
21686121 TATTATGTTATT-TTTTAATGT
1 TATTA-GTTATTATTTTAATGT
21686142 TATTAGTTATTATTTTAAT
1 TATTAGTTATTATTTTAAT
21686161 TGCTTAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (21 bp):
TATTAGTTATTATTTTAATGT
Found at i:21690910 original size:116 final size:119
Alignment explanation
Indices: 21690709--21690945 Score: 403
Period size: 118 Copynumber: 2.0 Consensus size: 119
21690699 GATATGATCT
21690709 CTCTCTCCTTTACCTCTCTCTCTACAAAGATTATATAAAAAAAAAACATAACACTCGGCAGCAAA
1 CTCTCTCCTTTACCTCTCTCTCTACAAAGATTATAT-AAAAAAAAACATAACACTCGGCAGCAAA
21690774 ATAGCAAAATTTAAATTTTTTTTA-TTTTTACAAAGA-TTAAG-AAAAAAGAAGG
65 ATAGCAAAATTTAAATTTTTTTTATTTTTTACAAAGATTTAAGAAAAAAAGAAGG
21690826 NCTCTCTCCTTTACCTCTCTCTCTAACAAAGATT-TAT-AAAAAAAACATAACACTCGGCAGCTA
1 -CTCTCTCCTTTACCTCTCTCTCT-ACAAAGATTATATAAAAAAAAACATAACACTCGGCAGC-A
21690889 AAATAGCAAAATTTAAATTTTTTTTATTTTTTACAAAGATTTAAGAAAAAAAGAAGG
63 AAATAGCAAAATTTAAATTTTTTTTATTTTTTACAAAGATTTAAGAAAAAAAGAAGG
21690946 TTCTAAATTT
Statistics
Matches: 114, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
116 24 0.21
117 27 0.24
118 38 0.33
119 14 0.12
120 11 0.10
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (119 bp):
CTCTCTCCTTTACCTCTCTCTCTACAAAGATTATATAAAAAAAAACATAACACTCGGCAGCAAAA
TAGCAAAATTTAAATTTTTTTTATTTTTTACAAAGATTTAAGAAAAAAAGAAGG
Found at i:21695150 original size:13 final size:13
Alignment explanation
Indices: 21695132--21695156 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21695122 AGAGAAATTG
21695132 TGATTTTATAAAA
1 TGATTTTATAAAA
21695145 TGATTTTATAAA
1 TGATTTTATAAA
21695157 TTTTTTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:21696922 original size:73 final size:72
Alignment explanation
Indices: 21696796--21697004 Score: 242
Period size: 73 Copynumber: 2.9 Consensus size: 72
21696786 GAGTATTGAG
* * ** *
21696796 AAACAGAAA-AGACTTAGTCGACCAAGAAATGGGTTAGTCGACTAAGAGTCTACTGCCAAAAATC
1 AAACAGAAACA-ACTTAATCGACCAAGAAGTAAGTTAGTCGACTAAGAG-CTACTGCCAGAAATC
21696860 T-AGACTTCA
64 TGA-ACTTCA
* * * *
21696869 AGACAGAACCAACTTAATCGACCAAGAAGTAAGTTAGTCGACTAAGAGCCTACTACTAGAAATCT
1 AAACAGAAACAACTTAATCGACCAAGAAGTAAGTTAGTCGACTAAGAG-CTACTGCCAGAAATCT
21696934 GAACTTCA
65 GAACTTCA
* * * *
21696942 AAATAGAAACAACTTAATCGACTAAGAAGGAAGTTAGTCGACTAAGTGCTCACTGCCAGAAAT
1 AAACAGAAACAACTTAATCGACCAAGAAGTAAGTTAGTCGACTAAGAGCT-ACTGCCAGAAAT
21697005 TGGGATCAGA
Statistics
Matches: 115, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
72 2 0.02
73 111 0.97
74 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.21
Consensus pattern (72 bp):
AAACAGAAACAACTTAATCGACCAAGAAGTAAGTTAGTCGACTAAGAGCTACTGCCAGAAATCTG
AACTTCA
Found at i:21697514 original size:35 final size:35
Alignment explanation
Indices: 21697474--21697542 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
21697464 TTAGTTTGGA
* * *
21697474 TTTTGGTTGATCTTGGTAAAAACCATTGTGAAAGT
1 TTTTGGCTGAGCTTGGTAAAAACCATTGTAAAAGT
*
21697509 TTTTGGCTGAGCTTGGTAAAAGCCATTGTAAAAG
1 TTTTGGCTGAGCTTGGTAAAAACCATTGTAAAAG
21697543 CTTGGTGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (35 bp):
TTTTGGCTGAGCTTGGTAAAAACCATTGTAAAAGT
Found at i:21709035 original size:2 final size:2
Alignment explanation
Indices: 21709030--21709066 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
21709020 TGTATATATA
* *
21709030 TG TG TG TG TG TG TG TG TG TG TA TG TT TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
21709067 ATATATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.43, T:0.54
Consensus pattern (2 bp):
TG
Found at i:21709092 original size:2 final size:2
Alignment explanation
Indices: 21709087--21709114 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21709077 ATATATATAT
21709087 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21709115 TATAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21709200 original size:155 final size:154
Alignment explanation
Indices: 21709035--21709343 Score: 609
Period size: 155 Copynumber: 2.0 Consensus size: 154
21709025 ATATATGTGT
21709035 GTGTGTGTGTGTGTGTATGTTTGTGTGTGTGTATATATATATATATATATATAGAGAGAGAGAGA
1 GTGTGTGTGTGTGTGTATGTTTGTGTGTGTGTATATATATATATATATATATAGAGAGAGAGAGA
21709100 GAGAGAGAGAGAGAGTATAATACATATATTTAGCTGAGGAAGGAGCTAGCTGCTGGAGGACACCT
66 GAGAGAGAGAGAGAGTATAATACATATATTTAGCTGAGGAAGGAGCTAGCTGCTGGAGGACACCT
21709165 TTGCCACTTTTCAAGTTTCAAGTA
131 TTGCCACTTTTCAAGTTTCAAGTA
21709189 NGTGTGTGTGTGTGTGTATGTTTGTGTGTGTGTATATATATATATATATATATAGAGAGAGAGAG
1 -GTGTGTGTGTGTGTGTATGTTTGTGTGTGTGTATATATATATATATATATATAGAGAGAGAGAG
21709254 AGAGAGAGAGAGAGAGTATAATACATATATTTAGCTGAGGAAGGAGCTAGCTGCTGGAGGACACC
65 AGAGAGAGAGAGAGAGTATAATACATATATTTAGCTGAGGAAGGAGCTAGCTGCTGGAGGACACC
21709319 TTTGCCACTTTTCAAGTTTCAAGTA
130 TTTGCCACTTTTCAAGTTTCAAGTA
21709344 TCCTAGTGTA
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 154 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.32
Consensus pattern (154 bp):
GTGTGTGTGTGTGTGTATGTTTGTGTGTGTGTATATATATATATATATATATAGAGAGAGAGAGA
GAGAGAGAGAGAGAGTATAATACATATATTTAGCTGAGGAAGGAGCTAGCTGCTGGAGGACACCT
TTGCCACTTTTCAAGTTTCAAGTA
Found at i:21709247 original size:2 final size:2
Alignment explanation
Indices: 21709242--21709269 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21709232 ATATATATAT
21709242 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21709270 TATAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21712710 original size:2 final size:2
Alignment explanation
Indices: 21712703--21712771 Score: 104
Period size: 2 Copynumber: 34.5 Consensus size: 2
21712693 AATTAGCAAC
* *
21712703 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AA AT ACN AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
21712745 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21712772 AAATACCCAG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.97
3 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:21713817 original size:2 final size:2
Alignment explanation
Indices: 21713810--21713835 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21713800 TCCAAGAAAA
21713810 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
21713836 CTTAAGGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21738397 original size:12 final size:12
Alignment explanation
Indices: 21738382--21738407 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21738372 CCTCATCCTA
21738382 CTCCTTATGCTG
1 CTCCTTATGCTG
21738394 CTCCTTATGCTG
1 CTCCTTATGCTG
21738406 CT
1 CT
21738408 TCTGATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.35, G:0.15, T:0.42
Consensus pattern (12 bp):
CTCCTTATGCTG
Found at i:21740381 original size:2 final size:2
Alignment explanation
Indices: 21740374--21740407 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21740364 ATGATGATAA
21740374 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21740408 GTATGTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21740437 original size:19 final size:19
Alignment explanation
Indices: 21740413--21740465 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
21740403 TATATGTATG
21740413 TGTTGTGCATGATGATCAA
1 TGTTGTGCATGATGATCAA
*
21740432 TGTTGTGCATGATGATCGA
1 TGTTGTGCATGATGATCAA
* *
21740451 TATTGTGTATGATGA
1 TGTTGTGCATGATGA
21740466 CTGTAACCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.08, G:0.28, T:0.40
Consensus pattern (19 bp):
TGTTGTGCATGATGATCAA
Found at i:21741229 original size:22 final size:22
Alignment explanation
Indices: 21741182--21741229 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
21741172 AATCCCAATG
*
21741182 TCGTTGCAGCAAAAATTCATTC
1 TCGTTGCAGCAAAAATTCATTA
* * *
21741204 TCGTTGCAGCGAAGATTCGTTA
1 TCGTTGCAGCAAAAATTCATTA
21741226 TCGT
1 TCGT
21741230 ATTGGACTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (22 bp):
TCGTTGCAGCAAAAATTCATTA
Found at i:21743075 original size:9 final size:9
Alignment explanation
Indices: 21743061--21743090 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
21743051 GCGTGACTTG
*
21743061 TTAATTTTT
1 TTAATTTGT
21743070 TTAATTTGT
1 TTAATTTGT
21743079 TTAATTTGT
1 TTAATTTGT
21743088 TTA
1 TTA
21743091 TTCTTTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (9 bp):
TTAATTTGT
Found at i:21743156 original size:26 final size:26
Alignment explanation
Indices: 21743124--21743173 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
21743114 AACATTGTTG
*
21743124 TGTATCATCTCCAAATTATTCTTTGT
1 TGTATCATCTACAAATTATTCTTTGT
*
21743150 TGTATCATTTACAAATTATTCTTT
1 TGTATCATCTACAAATTATTCTTT
21743174 TTTATGTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.16, G:0.06, T:0.52
Consensus pattern (26 bp):
TGTATCATCTACAAATTATTCTTTGT
Found at i:21743183 original size:26 final size:27
Alignment explanation
Indices: 21743135--21743191 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
21743125 GTATCATCTC
*
21743135 CAAATTATTCTTTGTTGTATCATTT-A
1 CAAATTATTCTTTGTTATATCATTTAA
* *
21743161 CAAATTATTCTTTTTTATGTCATTTAA
1 CAAATTATTCTTTGTTATATCATTTAA
21743188 CAAA
1 CAAA
21743192 AAGAAGGGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (27 bp):
CAAATTATTCTTTGTTATATCATTTAA
Found at i:21743519 original size:23 final size:23
Alignment explanation
Indices: 21743489--21743849 Score: 294
Period size: 23 Copynumber: 15.7 Consensus size: 23
21743479 GAATGGTGTG
21743489 TATGGAATCGCGTGACTAGTTGA
1 TATGGAATCGCGTGACTAGTTGA
* * * *
21743512 TATTGAATAGCGTAACTAGTTAA
1 TATGGAATCGCGTGACTAGTTGA
* *
21743535 TATGCAATCGCGCGACTAGTTGA
1 TATGGAATCGCGTGACTAGTTGA
* * * **
21743558 TATGGAATTGCATGATTAGTAAA
1 TATGGAATCGCGTGACTAGTTGA
* *
21743581 TATGGAATTGCGTGACTAGTTGG
1 TATGGAATCGCGTGACTAGTTGA
** * *
21743604 TATAAAATCGCATGACTAGTTAA
1 TATGGAATCGCGTGACTAGTTGA
* * *
21743627 TATGGAATTGCATGACTATTTGA
1 TATGGAATCGCGTGACTAGTTGA
* *
21743650 TTTGGAATCGCATGACTAGTTGA
1 TATGGAATCGCGTGACTAGTTGA
* * **
21743673 TATGGAATCACGTGACTTGTAAA
1 TATGGAATCGCGTGACTAGTTGA
** *
21743696 TATGGAATCATGTGAACCA-TTGA
1 TATGGAATCGCGTG-ACTAGTTGA
* * *
21743719 TATGGAATCGCATGTCTAGTTAA
1 TATGGAATCGCGTGACTAGTTGA
* * *
21743742 TATGGAGTCGGGTGACTATTTGA
1 TATGGAATCGCGTGACTAGTTGA
* *
21743765 TTTGAAATCGCGTGACTAGTTGA
1 TATGGAATCGCGTGACTAGTTGA
* * *
21743788 TATTGAATCGC-TGATTAGTTAA
1 TATGGAATCGCGTGACTAGTTGA
* * *
21743810 TATGGAATTGGGTGACTATTTGA
1 TATGGAATCGCGTGACTAGTTGA
* *
21743833 TATGGTATTGCGTGACT
1 TATGGAATCGCGTGACT
21743850 CACTTATTAT
Statistics
Matches: 258, Mismatches: 77, Indels: 6
0.76 0.23 0.02
Matches are distributed among these distances:
22 19 0.07
23 237 0.92
24 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (23 bp):
TATGGAATCGCGTGACTAGTTGA
Found at i:21748959 original size:37 final size:37
Alignment explanation
Indices: 21748918--21749019 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 37
21748908 CATCATGCGT
* *
21748918 GCACTCCCTACTCGCAGACTTCAACATCATCTTGTAC
1 GCACTCCCTACTCGCACACTTCAACATCATCATGTAC
* * **
21748955 GCACTCCTTACTCACACAC-TCTAACATCATCATGTGT
1 GCACTCCCTACTCGCACACTTC-AACATCATCATGTAC
21748992 GCACTCCCTACTCGCACACTTCAACATC
1 GCACTCCCTACTCGCACACTTCAACATC
21749020 GTCACACAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
36 2 0.04
37 51 0.93
38 2 0.04
ACGTcount: A:0.25, C:0.39, G:0.09, T:0.26
Consensus pattern (37 bp):
GCACTCCCTACTCGCACACTTCAACATCATCATGTAC
Found at i:21749738 original size:20 final size:20
Alignment explanation
Indices: 21749710--21749749 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21749700 AGAAGAACAA
21749710 GAAGCTGCTAGAAAAATGAG
1 GAAGCTGCTAGAAAAATGAG
* * *
21749730 GAAGTTGCTGGAGAAATGAG
1 GAAGCTGCTAGAAAAATGAG
21749750 ATATTTGTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.35, T:0.17
Consensus pattern (20 bp):
GAAGCTGCTAGAAAAATGAG
Found at i:21751436 original size:20 final size:21
Alignment explanation
Indices: 21751406--21751444 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
21751396 GATCTTCCTA
*
21751406 AGGGTGTTAGACTTTAATAAT
1 AGGGTGTTAGACTCTAATAAT
21751427 AGGG-GTTAGACTCTAATA
1 AGGGTGTTAGACTCTAATA
21751445 CCACTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (21 bp):
AGGGTGTTAGACTCTAATAAT
Found at i:21754211 original size:24 final size:23
Alignment explanation
Indices: 21754167--21754211 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
21754157 AGAATAAAAT
*
21754167 AAAAAAAACAAACAAATGAACAA
1 AAAAAAAACAAACAAAAGAACAA
21754190 AAAAAGAAACAAA-AAACAGAAC
1 AAAAA-AAACAAACAAA-AGAAC
21754212 GCACCTCGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.78, C:0.13, G:0.07, T:0.02
Consensus pattern (23 bp):
AAAAAAAACAAACAAAAGAACAA
Found at i:21755750 original size:2 final size:2
Alignment explanation
Indices: 21755700--21755737 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
21755690 TTTATATAGG
* *
21755700 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21755738 AATGAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:21762241 original size:211 final size:210
Alignment explanation
Indices: 21761955--21762402 Score: 610
Period size: 211 Copynumber: 2.1 Consensus size: 210
21761945 AACGTTACGC
* * * *
21761955 AATACATAACAACCAGTTACGCAATGTCTAAAAAGTAGTCAGAAATGTCTCAAAACAATATATGC
1 AATACATAAAAACTAGTCACGCAATGTCTAAAAAGTAGTCAGAAATGTCTCAAAACAAGATATGC
* ** * * *
21762020 ATTGCACAATTCACGCAGTGCCTATAAGCTAGTCTCGCAATACCTAATAATAAGTCACTCAATGC
66 ATTACACAATTCACGCAGAACATATAAGCCAGTCTCACAATACCTAATAATAAGTCACTCAATGC
* * * * ** * *
21762085 CTAATATCCACTCACGTTATGCCAACATAACCAATCACGTTTTGGCCCAATGTCACGTAGTACAT
131 CTAATATCCACTCACGTTATGCCAACACAACCAATAACGTATCGGCCCAACATCACGCAATACAT
* *
21762150 AACAACAAGTCACGG
196 AACAACAAGACACGA
* *
21762165 AATACAAAAAAACTAGTCACGCAATG-CTTAAAAAGTAGTCAAGAAATGTCTCAAAGCAAGATAT
1 AATACATAAAAACTAGTCACGCAATGTC-TAAAAAGTAGTC-AGAAATGTCTCAAAACAAGATAT
* *
21762229 GCATTACACAATTCATGCAGAACATATAAGCCAGTCTCACAATACCTAATAATAAGTCATTCAAT
64 GCATTACACAATTCACGCAGAACATATAAGCCAGTCTCACAATACCTAATAATAAGTCACTCAAT
* * *
21762294 GCCTAATATCCACTCACGTTATGCCAACACAACTAGTAACGTATCGGCCCAACATCATGCAATAC
129 GCCTAATATCCACTCACGTTATGCCAACACAACCAATAACGTATCGGCCCAACATCACGCAATAC
21762359 ATAACAACAAGACACGA
194 ATAACAACAAGACACGA
* *
21762376 AATACATAAAAACTAGTCGCGTAATGT
1 AATACATAAAAACTAGTCACGCAATGT
21762403 GTCAAACCCT
Statistics
Matches: 205, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
209 1 0.00
210 34 0.17
211 170 0.83
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.23
Consensus pattern (210 bp):
AATACATAAAAACTAGTCACGCAATGTCTAAAAAGTAGTCAGAAATGTCTCAAAACAAGATATGC
ATTACACAATTCACGCAGAACATATAAGCCAGTCTCACAATACCTAATAATAAGTCACTCAATGC
CTAATATCCACTCACGTTATGCCAACACAACCAATAACGTATCGGCCCAACATCACGCAATACAT
AACAACAAGACACGA
Found at i:21762827 original size:29 final size:28
Alignment explanation
Indices: 21762776--21762841 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
21762766 ATGCCTATGG
* **
21762776 ATAATTTTTCAGTTTTTGGGGTAAAAAT
1 ATAATTTTTCACTTTACGGGGTAAAAAT
*
21762804 ATAATTTTTCACTTTACGAGGGTAAAAGT
1 ATAATTTTTCACTTTACG-GGGTAAAAAT
*
21762833 GTAATTTTT
1 ATAATTTTT
21762842 AAGAATTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (28 bp):
ATAATTTTTCACTTTACGGGGTAAAAAT
Found at i:21762830 original size:28 final size:29
Alignment explanation
Indices: 21762776--21762841 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
21762766 ATGCCTATGG
* **
21762776 ATAATTTTTCAGTTTTTGGGGTAAAAA-T
1 ATAATTTTTCACTTTACGGGGTAAAAAGT
21762804 ATAATTTTTCACTTTACGAGGGT-AAAAGT
1 ATAATTTTTCACTTTACG-GGGTAAAAAGT
*
21762833 GTAATTTTT
1 ATAATTTTT
21762842 AAGAATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 19 0.59
29 13 0.41
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (29 bp):
ATAATTTTTCACTTTACGGGGTAAAAAGT
Found at i:21764023 original size:13 final size:13
Alignment explanation
Indices: 21764005--21764029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21763995 GGAAAATGGG
21764005 ATTTTATAAAATA
1 ATTTTATAAAATA
21764018 ATTTTATAAAAT
1 ATTTTATAAAAT
21764030 TTTTGAAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:21764934 original size:2 final size:2
Alignment explanation
Indices: 21764927--21764952 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21764917 GATGTTTCAA
21764927 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21764953 TGTTTTACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21765359 original size:22 final size:22
Alignment explanation
Indices: 21765317--21765359 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21765307 TACGTCACGT
*
21765317 AATACATAAAAACCAGTCATGG
1 AATACATAAAAACCAGACATGG
* *
21765339 AATACATAACAACTAGACATG
1 AATACATAAAAACCAGACATG
21765360 CAATGCCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.19, G:0.12, T:0.19
Consensus pattern (22 bp):
AATACATAAAAACCAGACATGG
Found at i:21765392 original size:22 final size:22
Alignment explanation
Indices: 21765360--21765424 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
21765350 ACTAGACATG
* * *
21765360 CAATGCCTAATATCTATTCATA
1 CAATGCATAATATCCATTCACA
21765382 CAATGCATAATATCCATTCACA
1 CAATGCATAATATCCATTCACA
21765404 CAATGCATAATATCCATTCAC
1 CAATGCATAATATCCATTCAC
21765425 TTAATGCCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (22 bp):
CAATGCATAATATCCATTCACA
Found at i:21768083 original size:28 final size:29
Alignment explanation
Indices: 21768042--21768101 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
21768032 GTCTATGGGC
*
21768042 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
21768070 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
21768100 AA
1 AA
21768102 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:21772897 original size:30 final size:30
Alignment explanation
Indices: 21772863--21772932 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
21772853 AACGTTGAAA
21772863 ATTTTCAACGAAATTTTCTGTTGGAAAAAC
1 ATTTTCAACGAAATTTTCTGTTGGAAAAAC
21772893 ATTTTCAACGAAATTTTCTGTTGGAAAAAC
1 ATTTTCAACGAAATTTTCTGTTGGAAAAAC
21772923 ATTTTCAACG
1 ATTTTCAACG
21772933 GAAAATATCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (30 bp):
ATTTTCAACGAAATTTTCTGTTGGAAAAAC
Found at i:21774914 original size:30 final size:30
Alignment explanation
Indices: 21774880--21774954 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
21774870 AAATGGATAA
21774880 GAGAAAAAGAAGAGCGACCTTGGCGGGAGG
1 GAGAAAAAGAAGAGCGACCTTGGCGGGAGG
21774910 GAGAAAAAGAAGAGCGACCTTGGCGGGAGG
1 GAGAAAAAGAAGAGCGACCTTGGCGGGAGG
21774940 GAGAAAAAGATAGAG
1 GAGAAAAAGA-AGAG
21774955 AAAAGAGACT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 40 0.91
31 4 0.09
ACGTcount: A:0.41, C:0.11, G:0.41, T:0.07
Consensus pattern (30 bp):
GAGAAAAAGAAGAGCGACCTTGGCGGGAGG
Found at i:21777262 original size:38 final size:38
Alignment explanation
Indices: 21777183--21777262 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
21777173 GTTGGATGGT
* * *
21777183 GATATAAACCTCGATGGCGTTAGAGAGTTGGACAGCGA
1 GATATAAACCTCGATGGCGTTAGAGAGCTAGACAGCAA
* *
21777221 GATATAGACCTCGATGGCGTTGGAGAGCTAGAC-GACAA
1 GATATAAACCTCGATGGCGTTAGAGAGCTAGACAG-CAA
21777259 GATA
1 GATA
21777263 GCTAAATCGA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 1 0.03
38 35 0.97
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.20
Consensus pattern (38 bp):
GATATAAACCTCGATGGCGTTAGAGAGCTAGACAGCAA
Found at i:21777870 original size:2 final size:2
Alignment explanation
Indices: 21777863--21777894 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21777853 CTGGACATAT
21777863 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21777895 CGTGTGTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21783888 original size:31 final size:31
Alignment explanation
Indices: 21783821--21783895 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
21783811 ACGAAACAAG
* * *
21783821 CAAAGAAACCAAACCCAGATCATATTTTAGA
1 CAAATAAACAAAACCCAAATCATATTTTAGA
* *
21783852 TAAATAAACAAAACCCAAATGATATTTT-GAA
1 CAAATAAACAAAACCCAAATCATATTTTAG-A
*
21783883 CAAATAAATAAAA
1 CAAATAAACAAAA
21783896 TCCATAGCTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.21
Consensus pattern (31 bp):
CAAATAAACAAAACCCAAATCATATTTTAGA
Found at i:21784302 original size:7 final size:7
Alignment explanation
Indices: 21784292--21784322 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
21784282 GGCTTGCTCT
21784292 TTTTTCC
1 TTTTTCC
21784299 TTTTT-C
1 TTTTTCC
21784305 TTTTTCC
1 TTTTTCC
21784312 TTTTTCC
1 TTTTTCC
21784319 TTTT
1 TTTT
21784323 GGGACTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCC
Found at i:21784310 original size:13 final size:14
Alignment explanation
Indices: 21784292--21784322 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21784282 GGCTTGCTCT
21784292 TTTTTCCTTTTT-C
1 TTTTTCCTTTTTCC
21784305 TTTTTCCTTTTTCC
1 TTTTTCCTTTTTCC
21784319 TTTT
1 TTTT
21784323 GGGACTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCCTTTTTCC
Found at i:21789523 original size:50 final size:50
Alignment explanation
Indices: 21789463--21789569 Score: 178
Period size: 50 Copynumber: 2.1 Consensus size: 50
21789453 GGGATAAAAA
* * *
21789463 AAAATTAATCACTTTTTAAATAAAATTATATTATAATATAAAATTTCATT
1 AAAATTAATCACTTTTGAAATAAAATTAAATTATAACATAAAATTTCATT
21789513 AAAATTAATCACTTTTGAAATAAAATTAAATTATAACATAAAATTTCATT
1 AAAATTAATCACTTTTGAAATAAAATTAAATTATAACATAAAATTTCATT
21789563 AATAATT
1 AA-AATT
21789570 TAAATATAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 49 0.92
51 4 0.08
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.41
Consensus pattern (50 bp):
AAAATTAATCACTTTTGAAATAAAATTAAATTATAACATAAAATTTCATT
Found at i:21790009 original size:33 final size:34
Alignment explanation
Indices: 21789972--21790052 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 34
21789962 CGTATGACAT
*
21789972 TGATATGACATATTAG-CATATTATAATTAATGA
1 TGATATGACATATTAGACATATCATAATTAATGA
* * *
21790005 TGATATGATATGTT-GACATATCATAATTGATGA
1 TGATATGACATATTAGACATATCATAATTAATGA
* * *
21790038 TTACATAACATATTA
1 TGATATGACATATTA
21790053 ATTTGTTATA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (34 bp):
TGATATGACATATTAGACATATCATAATTAATGA
Found at i:21790488 original size:14 final size:14
Alignment explanation
Indices: 21790469--21790495 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21790459 TTTTATACAC
21790469 ATAAAAATAAAAAA
1 ATAAAAATAAAAAA
21790483 ATAAAAATAAAAA
1 ATAAAAATAAAAA
21790496 TTGAGGGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
ATAAAAATAAAAAA
Found at i:21794742 original size:30 final size:30
Alignment explanation
Indices: 21794701--21794763 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21794691 ATCATTAGTC
21794701 ATAAAAACTTATTTGACTCAAAATAAAAAT
1 ATAAAAACTTATTTGACTCAAAATAAAAAT
* *
21794731 ATAAAAGCTTATTTGACTCAAAATAAAAGT
1 ATAAAAACTTATTTGACTCAAAATAAAAAT
21794761 ATA
1 ATA
21794764 GAGATTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (30 bp):
ATAAAAACTTATTTGACTCAAAATAAAAAT
Found at i:21795276 original size:15 final size:15
Alignment explanation
Indices: 21795231--21795278 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
21795221 TAAAGTTATT
21795231 AATTA-TAATATATA
1 AATTATTAATATATA
*
21795245 TATTATTAATTATATA
1 AATTATTAA-TATATA
21795261 AACTT-TTAATATATA
1 AA-TTATTAATATATA
21795276 AAT
1 AAT
21795279 ACTTCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 5 0.17
15 11 0.38
16 11 0.38
17 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTATTAATATATA
Found at i:21797594 original size:100 final size:100
Alignment explanation
Indices: 21797451--21797660 Score: 393
Period size: 100 Copynumber: 2.1 Consensus size: 100
21797441 CTTCCATGTA
*
21797451 TTTTATGATTTATTATTATGCTACATATTTTTTACTAGGTATCTTGCATCTGCTTTCATCAATAA
1 TTTTATGATTTATTATTATGCTACATATTTTTTACTAGATATCTTGCATCTGCTTTCATCAATAA
21797516 AGATACATTTTTGCTTAATTTGTCTCTTTCGTGTG
66 AGATACATTTTTGCTTAATTTGTCTCTTTCGTGTG
* *
21797551 TTTTATGATTTATTATTATGCTACGTATTTTTTACTAGATATCTTGCATCTGCTTTCATTAATAA
1 TTTTATGATTTATTATTATGCTACATATTTTTTACTAGATATCTTGCATCTGCTTTCATCAATAA
21797616 AGATACATTTTTGCTTAATTTGTCTCTTTCGTGTG
66 AGATACATTTTTGCTTAATTTGTCTCTTTCGTGTG
21797651 TTTTATGATT
1 TTTTATGATT
21797661 GACTGTTATA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 107 1.00
ACGTcount: A:0.23, C:0.13, G:0.12, T:0.52
Consensus pattern (100 bp):
TTTTATGATTTATTATTATGCTACATATTTTTTACTAGATATCTTGCATCTGCTTTCATCAATAA
AGATACATTTTTGCTTAATTTGTCTCTTTCGTGTG
Found at i:21798194 original size:28 final size:28
Alignment explanation
Indices: 21798163--21798220 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
21798153 ATTTTGTTGC
21798163 TTAGTTCATATCGTTGTTTGATTTGTAA
1 TTAGTTCATATCGTTGTTTGATTTGTAA
21798191 TTAGTTCATATCGTTGTTTGATTTGTAA
1 TTAGTTCATATCGTTGTTTGATTTGTAA
21798219 TT
1 TT
21798221 TAAACTTCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (28 bp):
TTAGTTCATATCGTTGTTTGATTTGTAA
Found at i:21799109 original size:26 final size:26
Alignment explanation
Indices: 21799073--21799127 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
21799063 GCATGATTTT
21799073 CTTTATTGTTTTATCTATTTTGTCTA
1 CTTTATTGTTTTATCTATTTTGTCTA
21799099 CTTTATTGTTTTATCTATTTTGTCTA
1 CTTTATTGTTTTATCTATTTTGTCTA
21799125 CTT
1 CTT
21799128 ATCTTTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.15, C:0.13, G:0.07, T:0.65
Consensus pattern (26 bp):
CTTTATTGTTTTATCTATTTTGTCTA
Found at i:21803752 original size:2 final size:2
Alignment explanation
Indices: 21803714--21803738 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21803704 ATTAATTATC
21803714 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21803739 CCTTTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21803888 original size:361 final size:349
Alignment explanation
Indices: 21803080--21804081 Score: 1309
Period size: 361 Copynumber: 2.8 Consensus size: 349
21803070 AACTTTTGAT
* * *
21803080 ATTAGAATAATTTTGAAACTTAATTATTTTTTTAAAATTTTATGTAATTAAGGACAAA-CTCATA
1 ATTAGAATAGTTTTGAAACTTAGTTATTTTTTT--AATTTCATGTAATTAAGGACAAATC-CATA
* ** * * *
21803144 CAACTAGTTAAATTAATTTATGAAATCATGATTATTAATTAACTTGTAATGACTTTTAATATA-T
63 TAGTTAATTAAATTAATTAATGAAAT-ATGATTATTAATTAACTTGTAATGTCTTTTAATATATT
* * * * *
21803208 A-GTTTGTATATTGTGTTAATTTATAAGAAATAT-ATTACTATTATATTTATACCAAAATACTTT
127 ACTTTTATATATTGGGTTAATTTATAAGGAATATAATTACTATTATATTTATACTAAAATACTTT
21803271 TACG-ATATATATACTTTAAATATAAACATATTTACTTTATATTTTGTGTTAATATTACAAAATT
192 TA-GTATATATATACTTTAAATATAAACATATTTACTTTATATTTTGTGTTAATATTACAAAATT
* * * *
21803335 ATAACTTATAAATTATT-ATTA-ATAAATATAATTAATATATATATTTTGTTTATATAAATTTAT
256 ATAACTTAAAAATTATTAATTATATATATATAATTAATATATATACTTTGTTTATATAAACTTAT
21803398 AATATATAAACCTAAAGAGAAGTTGTGAA
321 AATATATAAACCTAAAGAGAAGTTGTGAA
* * ** *
21803427 ATTAGAATAGGTTTGAAACTTAGTGTTTTTTTTTAATTTCATGTAATTAATAACAAATTCATATA
1 ATTAGAATAGTTTTGAAACTTAGT-TATTTTTTTAATTTCATGTAATTAAGGACAAATCCATATA
* *
21803492 GTTAATTAAATTAATTCATGAAAATATGATTATTAATTAACTTATAATGTCTTTTAATATATGTA
65 GTTAATTAAATTAATTAATG-AAATATGATTATTAATTAACTTGTAATGTCTTTTAATATAT-TA
* *
21803557 CTTTATATATATTGGGTTCATTTATAAGGAATATAATTACTATTATATTTATATTAAAATACTTT
128 CTTT-TATATATTGGGTTAATTTATAAGGAATATAATTACTATTATATTTATACTAAAATACTTT
* * *
21803622 TAGTATATACATATACTTTAAATATAAATATATTTACATTCTATTTTGTGTTAATATTACAGAAA
192 TAGTATAT--ATATACTTTAAATATAAACATATTTACTTTATATTTTGTGTTAATATTACA-AAA
* *
21803687 CTATAATTTACAAAATTATTAATTATCATATATATATATATATATATATATACCTTTGTTTATAT
254 TTATAACTTA-AAAATTATTAATTAT-ATATATATA-AT-TA-ATATATATA-CTTTGTTTATAT
**
21803752 AAACTTATAATATATAAATTTAAAGAGAAGTTGT-AGA
313 AAACTTATAATATATAAACCTAAAGAGAAGTTGTGA-A
* * *
21803789 ATTAGAATAGTTTTAAAACCTAGTTATTTTTTTAATTTCATGTAATTAAGGACAAATCCATATTG
1 ATTAGAATAGTTTTGAAACTTAGTTATTTTTTTAATTTCATGTAATTAAGGACAAATCCATATAG
*
21803854 TTAATTAAATTAATTAATGAAACTATGATTATTAATTAACTTGTAATATCTTTTAATATATATAC
66 TTAATTAAATTAATTAATGAAA-TATGATTATTAATTAACTTGTAATGTCTTTTAATATAT-TAC
* * * *
21803919 TTTGTATAAATTGGGTTGATTTATAAGGATTATAATTACTATTATATATATACTAAAATACTTTT
129 TTT-TATATATTGGGTTAATTTATAAGGAATATAATTACTATTATATTTATACTAAAATACTTTT
* * * *
21803984 AGTATATATATACTTTAAATATAAACATATTTACTTTTTATTTTTTATTAACATTACAAAAATTA
193 AGTATATATATACTTTAAATATAAACATATTTACTTTATATTTTGTGTTAATATTAC-AAAATTA
21804049 TAACTTATAAAATTATTAATTATAATATATATA
257 TAACTTA-AAAATTATTAATTAT-ATATATATA
21804082 CACACATTAT
Statistics
Matches: 571, Mismatches: 61, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
346 75 0.13
347 25 0.04
348 10 0.02
349 2 0.00
350 26 0.05
351 34 0.06
353 48 0.08
354 11 0.02
355 8 0.01
356 4 0.01
358 8 0.01
359 81 0.14
360 6 0.01
361 169 0.30
362 64 0.11
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (349 bp):
ATTAGAATAGTTTTGAAACTTAGTTATTTTTTTAATTTCATGTAATTAAGGACAAATCCATATAG
TTAATTAAATTAATTAATGAAATATGATTATTAATTAACTTGTAATGTCTTTTAATATATTACTT
TTATATATTGGGTTAATTTATAAGGAATATAATTACTATTATATTTATACTAAAATACTTTTAGT
ATATATATACTTTAAATATAAACATATTTACTTTATATTTTGTGTTAATATTACAAAATTATAAC
TTAAAAATTATTAATTATATATATATAATTAATATATATACTTTGTTTATATAAACTTATAATAT
ATAAACCTAAAGAGAAGTTGTGAA
Found at i:21804192 original size:3 final size:3
Alignment explanation
Indices: 21804186--21804214 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21804176 ATTATTAATT
21804186 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21804215 GTATATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:21804709 original size:40 final size:40
Alignment explanation
Indices: 21804665--21804784 Score: 204
Period size: 40 Copynumber: 3.0 Consensus size: 40
21804655 TGTTTAAGAA
21804665 GTTGTTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTT
1 GTTGTTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTT
*
21804705 GTTGTTTGAATATTTGGTTTTAGTTATTTAAGTTTATGTT
1 GTTGTTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTT
* * *
21804745 ATTATTTGAGTATTTGTTTTTAGTTATTTAAGTTTATGTT
1 GTTGTTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTT
21804785 TGAGATATTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (40 bp):
GTTGTTTGAATATTTGTTTTTAGTTATTTAAGTTTATGTT
Found at i:21804751 original size:18 final size:19
Alignment explanation
Indices: 21804684--21804784 Score: 73
Period size: 18 Copynumber: 5.1 Consensus size: 19
21804674 ATATTTGTTT
21804684 TTAGTTATTTAAGTTTATG
1 TTAGTTATTTAAGTTTATG
* * * *
21804703 TT-GTTGTTTGAATATTTGGTT
1 TTAGTTATTT-AA-GTTT-ATG
21804724 TTAGTTATTTAAGTTTATG
1 TTAGTTATTTAAGTTTATG
*
21804743 TTA-TTATTTGAGTATT-TG
1 TTAGTTATTTAAGT-TTATG
21804761 TTTTTAGTTATTTAAGTTTATG
1 ---TTAGTTATTTAAGTTTATG
21804783 TT
1 TT
21804785 TGAGATATTT
Statistics
Matches: 62, Mismatches: 10, Indels: 20
0.67 0.11 0.22
Matches are distributed among these distances:
18 17 0.27
19 12 0.19
20 6 0.10
21 10 0.16
22 17 0.27
ACGTcount: A:0.22, C:0.00, G:0.17, T:0.61
Consensus pattern (19 bp):
TTAGTTATTTAAGTTTATG
Found at i:21810661 original size:15 final size:15
Alignment explanation
Indices: 21810641--21810672 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21810631 ATTAACAGTA
*
21810641 ATGACAGTTTTATAT
1 ATGACAGTTATATAT
21810656 ATGACAGTTATATAT
1 ATGACAGTTATATAT
21810671 AT
1 AT
21810673 ATATAACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (15 bp):
ATGACAGTTATATAT
Found at i:21817996 original size:2 final size:2
Alignment explanation
Indices: 21817989--21818016 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21817979 AGTATCCAAA
21817989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21818017 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21819929 original size:15 final size:16
Alignment explanation
Indices: 21819892--21819934 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
21819882 GGCATGAAAG
21819892 AGAAAATTAAAACCAAT
1 AGAAAA-TAAAACCAAT
*
21819909 AGAAAATAAAACTAA-
1 AGAAAATAAAACCAAT
21819924 AGAAAATAAAA
1 AGAAAATAAAA
21819935 TATAGAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.44
16 8 0.32
17 6 0.24
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (16 bp):
AGAAAATAAAACCAAT
Found at i:21840336 original size:31 final size:31
Alignment explanation
Indices: 21840286--21840397 Score: 181
Period size: 31 Copynumber: 3.6 Consensus size: 31
21840276 AAACACTACA
* *
21840286 GAAAGAATTCTGTTGGAAAAGAGCATTCAAAC
1 GAAA-AATTCCGTTAGAAAAGAGCATTCAAAC
*
21840318 GGAAAATTCCGTTAGAAAAGAGCATTCAAAC
1 GAAAAATTCCGTTAGAAAAGAGCATTCAAAC
21840349 GAAAAATTCCGTTAGAAAAGAGCATTCAAAC
1 GAAAAATTCCGTTAGAAAAGAGCATTCAAAC
21840380 GAAAAATTCCGTT-GAAAA
1 GAAAAATTCCGTTAGAAAA
21840398 CGGTTTTCCA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.07
31 68 0.89
32 3 0.04
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (31 bp):
GAAAAATTCCGTTAGAAAAGAGCATTCAAAC
Found at i:21840439 original size:46 final size:44
Alignment explanation
Indices: 21840380--21840473 Score: 116
Period size: 46 Copynumber: 2.1 Consensus size: 44
21840370 GCATTCAAAC
* *
21840380 GAAAAATTCCGTTGAAAACGGTTTTCCAACATGAAAATTCCGTTG
1 GAAAAATTCCGTTGAAAACGGTTTTCCAAC-GGAAAATTCCATTG
* * * *
21840425 GAAACAATTTCGTTGGAAATGTTTTTCCAACGGAAAATTCCATTG
1 GAAA-AATTCCGTTGAAAACGGTTTTCCAACGGAAAATTCCATTG
21840470 GAAA
1 GAAA
21840474 TTATATGGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 20 0.48
46 22 0.52
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (44 bp):
GAAAAATTCCGTTGAAAACGGTTTTCCAACGGAAAATTCCATTG
Found at i:21842445 original size:17 final size:19
Alignment explanation
Indices: 21842412--21842446 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
21842402 GAAGTATTAG
21842412 TATTAATATACATATTATA
1 TATTAATATACATATTATA
21842431 TATTAAT-TA-ATATTAT
1 TATTAATATACATATTAT
21842447 CAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTAATATACATATTATA
Found at i:21850108 original size:23 final size:22
Alignment explanation
Indices: 21850065--21850108 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
21850055 AAATACAAAC
* **
21850065 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAAAAGATAATA
21850087 ATATTTTGTATTAAAAGATAAT
1 ATATTTT-TATTAAAAGATAAT
21850109 TAAACCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAAAAGATAATA
Found at i:21850216 original size:45 final size:49
Alignment explanation
Indices: 21850162--21850265 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 49
21850152 AAGATATTNN
*
21850162 AATAATATTCTTTATTACATTTATTATA-TT-AA-AATAATAAT-ATTA
1 AATAATATTCTTTATAACATTTATTATAGTTAAATAATAATAATAATTA
* * *
21850207 AATAATATTCTTTGTAATATTTATTATAGTTAAATAATATTAATACATTA
1 AATAATATTCTTTATAACATTTATTATAGTTAAATAATAATAATA-ATTA
21850257 AATAATATT
1 AATAATATT
21850266 TAAATATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
45 25 0.50
46 2 0.04
47 2 0.04
48 8 0.16
50 13 0.26
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (49 bp):
AATAATATTCTTTATAACATTTATTATAGTTAAATAATAATAATAATTA
Found at i:21851770 original size:27 final size:27
Alignment explanation
Indices: 21851708--21851771 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
21851698 TAAAGTTTTT
* **
21851708 AATTTTTCCATAATTTTTTCATAATTTT
1 AATTTTT-AATAATTTTTTCATAATTAA
* * *
21851736 GATATTTAATAATTTTTTTATAATTAA
1 AATTTTTAATAATTTTTTCATAATTAA
21851763 AATTTTTAA
1 AATTTTTAA
21851772 AAATCACCTA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (27 bp):
AATTTTTAATAATTTTTTCATAATTAA
Found at i:21866253 original size:20 final size:20
Alignment explanation
Indices: 21866228--21866273 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
21866218 TTTTGACCCC
21866228 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
21866248 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
21866268 ATTTGA
1 ATTTGA
21866274 GGTTTAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:21878022 original size:29 final size:28
Alignment explanation
Indices: 21877974--21878037 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 28
21877964 GTCTATGGGC
* *
21877974 AATTTTTCAGTTTTTGGGGTAAAAATGT
1 AATTTTTCACTTTTAGGGGTAAAAATGT
*
21878002 AATTTTTCACTTTATAGGGGTAAAAGTGT
1 AATTTTTCACTTT-TAGGGGTAAAAATGT
21878031 AATTTTT
1 AATTTTT
21878038 AAAAATTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 12 0.38
29 20 0.62
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (28 bp):
AATTTTTCACTTTTAGGGGTAAAAATGT
Found at i:21878026 original size:28 final size:29
Alignment explanation
Indices: 21877974--21878037 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 29
21877964 GTCTATGGGC
* *
21877974 AATTTTTCAGTTTTTGGGGTAAAAA-TGT
1 AATTTTTCACTTTTAGGGGTAAAAAGTGT
21878002 AATTTTTCACTTTATAGGGGT-AAAAGTGT
1 AATTTTTCACTTT-TAGGGGTAAAAAGTGT
21878031 AATTTTT
1 AATTTTT
21878038 AAAAATTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 16 0.50
29 16 0.50
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.47
Consensus pattern (29 bp):
AATTTTTCACTTTTAGGGGTAAAAAGTGT
Found at i:21896184 original size:13 final size:13
Alignment explanation
Indices: 21896166--21896190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21896156 ATTTTCAAAA
21896166 ATTTTATAAAATT
1 ATTTTATAAAATT
21896179 ATTTTATAAAAT
1 ATTTTATAAAAT
21896191 CTCATTTTCC
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):
ATTTTATAAAATT
Found at i:21897458 original size:19 final size:20
Alignment explanation
Indices: 21897429--21897468 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
21897419 TCACTTCTTA
21897429 ACTTCAAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
21897449 ACTT-AAATCATACTCCAAT
1 ACTTCAAATCATACTCCAAT
21897468 A
1 A
21897469 AGGTCAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (20 bp):
ACTTCAAATCATACTCCAAT
Found at i:21902361 original size:2 final size:2
Alignment explanation
Indices: 21902354--21902394 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21902344 NNNNNNNNNN
21902354 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21902395 GGTTTGAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21903721 original size:17 final size:17
Alignment explanation
Indices: 21903699--21903731 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21903689 TAAAATTCAC
21903699 TTTAATATTTAACAAAA
1 TTTAATATTTAACAAAA
*
21903716 TTTAATATTTGACAAA
1 TTTAATATTTAACAAA
21903732 GAAGAAAAAA
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:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
TTTAATATTTAACAAAA
Found at i:21920686 original size:58 final size:57
Alignment explanation
Indices: 21920596--21920715 Score: 186
Period size: 58 Copynumber: 2.1 Consensus size: 57
21920586 CATAATCATC
* * *
21920596 CAAAGTAGTTTGCATGTAATAGATTTATTTTATGCAATTTAATAAATGCTATGCAATG
1 CAAAGTAATATGCATGTAATAGATTTATTTTATGCAATTTAATAAATGCCATGC-ATG
* *
21920654 CAAAGTAATATGCATGTGATAGATTTATTTTATGCGATTTAATAAATGCCATGCATG
1 CAAAGTAATATGCATGTAATAGATTTATTTTATGCAATTTAATAAATGCCATGCATG
21920711 CAAAG
1 CAAAG
21920716 ATGAGACCCT
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
57 8 0.14
58 49 0.86
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (57 bp):
CAAAGTAATATGCATGTAATAGATTTATTTTATGCAATTTAATAAATGCCATGCATG
Found at i:21925809 original size:26 final size:26
Alignment explanation
Indices: 21925779--21925832 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
21925769 TATAATTTTT
21925779 TATTGTAAACTTGAATAATAGAATCA
1 TATTGTAAACTTGAATAATAGAATCA
21925805 TATTGTAAACTTGAATAATAGAATCA
1 TATTGTAAACTTGAATAATAGAATCA
21925831 TA
1 TA
21925833 CTTTACTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.35
Consensus pattern (26 bp):
TATTGTAAACTTGAATAATAGAATCA
Found at i:21934734 original size:283 final size:283
Alignment explanation
Indices: 21934222--21935046 Score: 1366
Period size: 283 Copynumber: 2.9 Consensus size: 283
21934212 ACACCGAAAC
*
21934222 AAACAAAATGGCATTTATATGCTACTTCTGCAATAAAACATTTGAGATAAAAACAACCAAGTGT-
1 AAACAAAATGGCATTTATATGCTACTTCTGCAATAAAACATTTGAGATAAAAACAACCATGTGTC
*
21934286 TTGCTGGTAGGCCATGAGACTCAACGTTATTTTCAAGCAGAAATTTATCTTCATAAAGTTGAATA
66 TT-CTGGTAGGCCATGAGACTCAAGGTTATTTTCAAGCAGAAATTTATCTTCATAAAGTTGAATA
* *
21934351 TCGCAGCAGACTAAAGGGAATTGAATTTGAAGGTATATGTCCATAATAGTCTCACCGATGAGGTA
130 TCCCAGCAGACTAATGGGAATTGAATTTGAAGGTATATGTCCATAATAGTCTCACCGATGAGGTA
* *
21934416 GAAAGCTTGGTTCATTTTGCAATAACATCTGTTGATTGTCATTGTTTGAAAGCCATGTAACAGGT
195 GAAAGCTTGGTTCATTATGCAATAACATGTGTTGATTGTCATTGTTTGAAAGCCATGTAACAGGT
* *
21934481 TGTACAATAAAACATTTGAGATAA
260 AGTACAATAAAACATTTGAAATAA
* *
21934505 AAACAAAATGGCATTTATATGCTACTTCTACAATAAATCATTTGAGATAAAAACAACCATGTGTC
1 AAACAAAATGGCATTTATATGCTACTTCTGCAATAAAACATTTGAGATAAAAACAACCATGTGTC
* *
21934570 TTCTGGTAGGTCATGAGACTCAAGGTTATTTTCAAGCAGAAATTTATCTTTGA-AAAGTTGAATA
66 TTCTGGTAGGCCATGAGACTCAAGGTTATTTTCAAGCAGAAATTTATC-TTCATAAAGTTGAATA
*
21934634 TCCCAGCAGACTAATGGGAATTGAATTTGAAGGTATATGTCCATAATAGTCTGACCGATGAGGTA
130 TCCCAGCAGACTAATGGGAATTGAATTTGAAGGTATATGTCCATAATAGTCTCACCGATGAGGTA
* * *
21934699 GAAAGCTTGGTTCATTATGCAATAACATGTGTTGATTGTCACTGTTTGTAAGCCATGTAAAAGGT
195 GAAAGCTTGGTTCATTATGCAATAACATGTGTTGATTGTCATTGTTTGAAAGCCATGTAACAGGT
*
21934764 AGTGCAATAAAACATTTGAAATAA
260 AGTACAATAAAACATTTGAAATAA
* * *
21934788 AAAAAAAATGGCATTCAATTTGCTACTTCTGCAATAAAACATTTGAGATAAAAACAACCATGTGT
1 AAACAAAATGGCATT-TATATGCTACTTCTGCAATAAAACATTTGAGATAAAAACAACCATGTGT
* * *
21934853 CTGCTGGTAGGCCATGAGACTCAAGGTTATTTTCAAGAAAAAATTTATCTTCATAAAGTTGAATA
65 CTTCTGGTAGGCCATGAGACTCAAGGTTATTTTCAAGCAGAAATTTATCTTCATAAAGTTGAATA
* *
21934918 TCCCAGCAGACTAATGGGAATTGAATTTGAAGGTATATGTCCATCATAGTCTCACCGATGAGATA
130 TCCCAGCAGACTAATGGGAATTGAATTTGAAGGTATATGTCCATAATAGTCTCACCGATGAGGTA
* *
21934983 GAAAGCTTGGTTCATTATGCAATAACATGTGTTGATTGTCATTGTTTGGAAGCCACGTAACAGG
195 GAAAGCTTGGTTCATTATGCAATAACATGTGTTGATTGTCATTGTTTGAAAGCCATGTAACAGG
21935047 CTGTGCTTCT
Statistics
Matches: 504, Mismatches: 34, Indels: 7
0.92 0.06 0.01
Matches are distributed among these distances:
283 276 0.55
284 228 0.45
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (283 bp):
AAACAAAATGGCATTTATATGCTACTTCTGCAATAAAACATTTGAGATAAAAACAACCATGTGTC
TTCTGGTAGGCCATGAGACTCAAGGTTATTTTCAAGCAGAAATTTATCTTCATAAAGTTGAATAT
CCCAGCAGACTAATGGGAATTGAATTTGAAGGTATATGTCCATAATAGTCTCACCGATGAGGTAG
AAAGCTTGGTTCATTATGCAATAACATGTGTTGATTGTCATTGTTTGAAAGCCATGTAACAGGTA
GTACAATAAAACATTTGAAATAA
Found at i:21937828 original size:23 final size:23
Alignment explanation
Indices: 21937798--21937851 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
21937788 ATTAAAAAAA
21937798 GAATCTGTGGCAAAATGAAGAAT
1 GAATCTGTGGCAAAATGAAGAAT
21937821 GAATCTGTGGCAAAATGAAGAAT
1 GAATCTGTGGCAAAATGAAGAAT
*
21937844 AAATCTGT
1 GAATCTGT
21937852 TGTGAAGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (23 bp):
GAATCTGTGGCAAAATGAAGAAT
Found at i:21943113 original size:78 final size:78
Alignment explanation
Indices: 21943024--21943235 Score: 291
Period size: 78 Copynumber: 2.7 Consensus size: 78
21943014 AAGATGATAA
* * * * * * *
21943024 ATTTACATATTGGCACCATTATACCTTTATGTATAATAGGAAGGCCACATGCCCACCTATCACAT
1 ATTTATATATTGACATCATTATACCTTAATGTATAATAGGAATGTCACATGTCCACCTATCACAT
21943089 -GTACCATGATGGT
66 AG-ACCATGATGGT
* * * * *
21943102 ATTTATTTATTGACATCATTATACCCTAATGTAAAATAGAAATGTCACATGTCCACCTATCATAT
1 ATTTATATATTGACATCATTATACCTTAATGTATAATAGGAATGTCACATGTCCACCTATCACAT
21943167 AGACCATGATGGT
66 AGACCATGATGGT
*
21943180 ATTTATATATTGACATCATTATACCTTAATGTATAATAAGAATGTCACATGTCCAC
1 ATTTATATATTGACATCATTATACCTTAATGTATAATAGGAATGTCACATGTCCAC
21943236 ACATTGTGTC
Statistics
Matches: 116, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
78 115 0.99
79 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (78 bp):
ATTTATATATTGACATCATTATACCTTAATGTATAATAGGAATGTCACATGTCCACCTATCACAT
AGACCATGATGGT
Found at i:21948438 original size:19 final size:19
Alignment explanation
Indices: 21948414--21948458 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
21948404 TAATTTTTTG
*
21948414 TATATATTATATATATTAA
1 TATATATAATATATATTAA
* * *
21948433 TATATATAATATTTTTTTA
1 TATATATAATATATATTAA
21948452 TATATAT
1 TATATAT
21948459 GTTAAGAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATATAATATATATTAA
Found at i:21950637 original size:26 final size:26
Alignment explanation
Indices: 21950577--21950638 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
21950567 ACCATATACC
*
21950577 CATCATCAACATGCACACCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
*
21950603 CATCATCATCATGCACATCATCCCAT
1 CATCATCATCATGCACACCATCCCAT
21950629 CATCATCATC
1 CATCATCATC
21950639 TCATATGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.32, C:0.40, G:0.03, T:0.24
Consensus pattern (26 bp):
CATCATCATCATGCACACCATCCCAT
Found at i:21962669 original size:147 final size:147
Alignment explanation
Indices: 21962449--21962739 Score: 467
Period size: 147 Copynumber: 2.0 Consensus size: 147
21962439 ATACTACTTG
* * * * * *
21962449 TCATTTTATAATAATTGACGTTGATGTGACATACTAATATGTTACAATGAATGATAGCTTGATAT
1 TCATTTTATAACAATTAACATTGATGTGACATACTAATATGTTACAATGAATAATAACGTGATAT
* *
21962514 ATGATGTGACATGATAACATGATTATATGGTATTTTTTATCTTTCATGTTAATGCCACATCAATG
66 ATGATGTGACATGATAACATGATTATATGATATTTTTTATCTTTCATGTTAATACCACATCAATG
21962579 TCGTGTGAATATAATTA
131 TCGTGTGAATATAATTA
* * *
21962596 TCATTTTATGACAATTAACATTGATGTGACATGCTCATATGTTA-AATGAATAATAACGTGATAT
1 TCATTTTATAACAATTAACATTGATGTGACATACTAATATGTTACAATGAATAATAACGTGATAT
21962660 ATTGATGTGACATGATAACATGATTATATGATATTTTTTATCTTTCATGTTAATACCACATCAAT
66 A-TGATGTGACATGATAACATGATTATATGATATTTTTTATCTTTCATGTTAATACCACATCAAT
21962725 GTCGTGTGAATATAA
130 GTCGTGTGAATATAA
21962740 ATAACAAATG
Statistics
Matches: 132, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
146 18 0.14
147 114 0.86
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (147 bp):
TCATTTTATAACAATTAACATTGATGTGACATACTAATATGTTACAATGAATAATAACGTGATAT
ATGATGTGACATGATAACATGATTATATGATATTTTTTATCTTTCATGTTAATACCACATCAATG
TCGTGTGAATATAATTA
Found at i:21964622 original size:2 final size:2
Alignment explanation
Indices: 21964610--21964663 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
21964600 TATTGGGCAA
*
21964610 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21964652 AT AT AT AT AT AT
1 AT AT AT AT AT AT
21964664 TTGATGTCTG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21969335 original size:17 final size:17
Alignment explanation
Indices: 21969309--21969342 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21969299 TTATATCAAG
*
21969309 GAATAGCTATTCTTTAA
1 GAATAACTATTCTTTAA
21969326 GAATAACTATTCTTTAA
1 GAATAACTATTCTTTAA
21969343 AATCAGTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (17 bp):
GAATAACTATTCTTTAA
Found at i:21969578 original size:42 final size:43
Alignment explanation
Indices: 21969478--21969581 Score: 115
Period size: 42 Copynumber: 2.4 Consensus size: 43
21969468 ATCCTACTTA
*
21969478 TATTAATATTTGTAAATAAAATATTAATATATGAAAATATTAAT
1 TATTAATATTT-TAAATAAAATATTAATATATGAAAATATCAAT
* * * * *
21969522 AATTAA-ATTATAAATAAAATGTTAATAT-T-TAAGTAATCAAT
1 TATTAATATTTTAAATAAAATATTAATATATGAAAAT-ATCAAT
21969563 TATTAATATTTTAAATAAA
1 TATTAATATTTTAAATAAA
21969582 TTATAAATCT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
40 3 0.06
41 11 0.22
42 28 0.56
43 3 0.06
44 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (43 bp):
TATTAATATTTTAAATAAAATATTAATATATGAAAATATCAAT
Found at i:21969727 original size:41 final size:41
Alignment explanation
Indices: 21969632--21969731 Score: 123
Period size: 41 Copynumber: 2.4 Consensus size: 41
21969622 GTAATAATAT
*
21969632 TTAAATTATAAATAAAATATTAATATTTTAAAATATTAATGA
1 TTAAATTATAAAT-AAATATTAATATTTTAAAATATCAATGA
* *
21969674 TTAAATTATAAATAAATATTAATA-TTT-AAGTAATCAATTA
1 TTAAATTATAAATAAATATTAATATTTTAAAAT-ATCAATGA
*
21969714 TTAATATTTTAAATAAAT
1 TTAA-ATTATAAATAAAT
21969732 TATAAATCTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
39 3 0.06
40 13 0.25
41 23 0.44
42 13 0.25
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (41 bp):
TTAAATTATAAATAAATATTAATATTTTAAAATATCAATGA
Found at i:21969751 original size:20 final size:20
Alignment explanation
Indices: 21969640--21969743 Score: 59
Period size: 20 Copynumber: 5.0 Consensus size: 20
21969630 ATTTAAATTA
* *
21969640 TAAATAAAATATTAATATTT
1 TAAATAAATTATAAATATTT
* * *
21969660 TAAAATATTAATGATTAA-ATTA
1 T-AAATA--AATTATAAATATTT
*
21969682 TAAATAAA-TATTAATATTT
1 TAAATAAATTATAAATATTT
* * *
21969701 AAGTAATCAATTATTAATATTT
1 TA--AATAAATTATAAATATTT
*
21969723 TAAATAAATTATAAATCTTT
1 TAAATAAATTATAAATATTT
21969743 T
1 T
21969744 GAAAAAATAA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
18 5 0.08
19 6 0.09
20 17 0.26
21 15 0.23
22 16 0.24
23 7 0.11
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAATAAATTATAAATATTT
Found at i:21971059 original size:26 final size:25
Alignment explanation
Indices: 21971013--21971121 Score: 91
Period size: 26 Copynumber: 4.3 Consensus size: 25
21971003 ATTAATATTT
*
21971013 TAAAATATTAATGATTAAATTATAAA
1 TAAAATATTAAT-ATTTAATTATAAA
21971039 TAAAATATTAATATTTTAATT-T-AA
1 TAAAATATTAATA-TTTAATTATAAA
**
21971063 T-AGTTATTAATATTTTAATTA-AAA
1 TAAAATATTAATA-TTTAATTATAAA
**
21971087 TATAAATTATTAATATTTAAAAATAAAA
1 TA-AAA-TATTAATATTTAATTAT-AAA
21971115 TAAAATA
1 TAAAATA
21971122 AATAATCATA
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
23 17 0.25
24 6 0.09
25 2 0.03
26 27 0.40
27 11 0.16
28 5 0.07
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
TAAAATATTAATATTTAATTATAAA
Found at i:21971072 original size:42 final size:43
Alignment explanation
Indices: 21970994--21971089 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
21970984 ATATTTAAAT
*
21970994 TAAAT-AAATATTAATATTTTAAAATATTAATGATTAA-ATTA
1 TAAATAAAATATTAATATTTTAAAATAATAATGATTAATATTA
** * * *
21971035 TAAATAAAATATTAATATTTTAATTTAATAGTTATTAATATTT
1 TAAATAAAATATTAATATTTTAAAATAATAATGATTAATATTA
*
21971078 TAATTAAAATAT
1 TAAATAAAATAT
21971090 AAATTATTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
41 5 0.11
42 27 0.59
43 14 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (43 bp):
TAAATAAAATATTAATATTTTAAAATAATAATGATTAATATTA
Found at i:21971096 original size:27 final size:27
Alignment explanation
Indices: 21971013--21971104 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 27
21971003 ATTAATATTT
* *
21971013 TAAAATATTAATGA-TTAAATTATAAATA
1 TAAATTATTAAT-ATTTTAATTA-AAATA
*
21971041 -AAA-TATTAATATTTTAATT--TA-A
1 TAAATTATTAATATTTTAATTAAAATA
*
21971063 T-AGTTATTAATATTTTAATTAAAATA
1 TAAATTATTAATATTTTAATTAAAATA
21971089 TAAATTATTAATATTT
1 TAAATTATTAATATTT
21971105 AAAAATAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
22 2 0.04
23 17 0.33
25 2 0.04
26 15 0.29
27 16 0.31
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
TAAATTATTAATATTTTAATTAAAATA
Found at i:21971111 original size:23 final size:23
Alignment explanation
Indices: 21970982--21971115 Score: 79
Period size: 23 Copynumber: 5.9 Consensus size: 23
21970972 TTAGTCATAA
21970982 TAATATTTAAATTAA-ATAAA-TAT
1 TAATATTTAAA--AATATAAATTAT
* * *
21971005 TAATATTTTAAAATATTAATGAT
1 TAATATTTAAAAATATAAATTAT
*
21971028 TAA-A-TTATAAATA-AAA-TAT
1 TAATATTTAAAAATATAAATTAT
* *
21971047 TAATATTT--TAATTTAATAGTTAT
1 TAATATTTAAAAATATAA-A-TTAT
21971070 TAATATTTTAATTAAAATATAAATTAT
1 TAATA-TTT-A--AAAATATAAATTAT
21971097 TAATATTTAAAAATA-AAAT
1 TAATATTTAAAAATATAAAT
21971116 AAAATAAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 29
0.68 0.09 0.23
Matches are distributed among these distances:
19 8 0.09
20 5 0.06
21 12 0.14
22 9 0.10
23 29 0.34
24 3 0.03
25 1 0.01
26 3 0.03
27 9 0.10
28 1 0.01
29 6 0.07
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (23 bp):
TAATATTTAAAAATATAAATTAT
Found at i:21971120 original size:27 final size:27
Alignment explanation
Indices: 21971066--21971120 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
21971056 AATTTAATAG
* *
21971066 TTATTAATATTTTAATTAAAATATAAA
1 TTATTAATATTTAAAATAAAATATAAA
21971093 TTATTAATATTTAAAAATAAAATA-AAA
1 TTATTAATATTT-AAAATAAAATATAAA
21971120 T
1 T
21971121 AAATAATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TTATTAATATTTAAAATAAAATATAAA
Done.