Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 40 of 126
Found at i:11633574 original size:13 final size:13
Alignment explanation
Indices: 11633552--11633586 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
11633542 AAATTAATAA
11633552 CAAC-TTGAACTT
1 CAACATTGAACTT
11633564 CAACATTGAACTT
1 CAACATTGAACTT
11633577 CAACATTGAA
1 CAACATTGAA
11633587 AGAAAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (13 bp):
CAACATTGAACTT
Found at i:11638413 original size:36 final size:35
Alignment explanation
Indices: 11638343--11638414 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
11638333 AGTAAGGATG
*
11638343 ACTTATCTATCATTTTTTCGGTATCACCCTAAAAA
1 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
*
11638378 ACTTATCTATCATTTTTTTGCTATCACCCTAAAAA
1 ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
11638413 AC
1 AC
11638415 CAAACTCTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (35 bp):
ACTTATCTATCATTTTTTCGCTATCACCCTAAAAA
Found at i:11643652 original size:44 final size:45
Alignment explanation
Indices: 11643587--11643954 Score: 345
Period size: 44 Copynumber: 8.3 Consensus size: 45
11643577 NNNNNNNNNN
* * * *
11643587 TCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
1 TCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
* *
11643632 TCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGA
1 TCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
* * ** * *
11643676 TCTGCTATCTTCGATCTACTTC-ACGTCAATACATGAAGACAAGA
1 TCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
* * *
11643720 TCTGCTTTCTTCGATCTACACTCCGCCACCAATATTGGAAGACAAGA
1 TCTGCTATCTTCGATC--CACTTCGCCACCAATATAGGAAGACAAGA
* *
11643767 TCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACATGA
1 TCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
* * * * * * * *
11643810 CCTGCTATCTTCAATCTACTTC-ACGCCAATACATGAAGACAAGG
1 TCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
* * * *
11643854 TCTACTTTCTTCGATCTAC-TCAGCCACCAATATGGGAAGACAAGA
1 TCTGCTATCTTCGATCCACTTC-GCCACCAATATAGGAAGACAAGA
* * * **
11643899 TCTGC-ATCTTCGATTCACTTCGCTACCAATATAGAAAGACTGGA
1 TCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
*
11643943 CCTGCTATCTTC
1 TCTGCTATCTTC
11643955 ATTGATATGC
Statistics
Matches: 256, Mismatches: 58, Indels: 18
0.77 0.17 0.05
Matches are distributed among these distances:
43 25 0.10
44 149 0.58
45 48 0.19
46 13 0.05
47 21 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (45 bp):
TCTGCTATCTTCGATCCACTTCGCCACCAATATAGGAAGACAAGA
Found at i:11643804 original size:90 final size:90
Alignment explanation
Indices: 11643587--11643954 Score: 328
Period size: 89 Copynumber: 4.1 Consensus size: 90
11643577 NNNNNNNNNN
* * *
11643587 TCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATC--CA
1 TCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACA
* * *
11643649 CTTCGCTACCAATATAGGAAGACAGGA
64 CTCCGCCACCAATATAGGAAGACAAGA
* * *
11643676 TCTGCTATCTTCGATCTACTT-CACGTCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACA
1 TCTGCTATCTTCGATCTACTTCCAC--CAATATAGGAAGACAAGATCTGCTATCTTCGATCTACA
*
11643740 CTCCGCCACCAATATTGGAAGACAAGA
64 CTCCGCCACCAATATAGGAAGACAAGA
* * * * *
11643767 TCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACATGACCTGCTATCTTCAATCTAC-T
1 TCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACAC
* * *
11643830 TCACG---CCAATACATGAAGACAAGG
65 TC-CGCCACCAATATAGGAAGACAAGA
* * * *
11643854 TCTACTTTCTTCGATCTACTCAGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGAT-T-CA
1 TCTGCTATCTTCGATCTACT--TCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACA
* * * **
11643916 CTTCGCTACCAATATAGAAAGACTGGA
64 CTCCGCCACCAATATAGGAAGACAAGA
*
11643943 CCTGCTATCTTC
1 TCTGCTATCTTC
11643955 ATTGATATGC
Statistics
Matches: 223, Mismatches: 41, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
86 6 0.03
87 21 0.09
88 39 0.17
89 75 0.34
90 49 0.22
91 31 0.14
92 2 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (90 bp):
TCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACACT
CCGCCACCAATATAGGAAGACAAGA
Found at i:11643832 original size:134 final size:133
Alignment explanation
Indices: 11643587--11643955 Score: 589
Period size: 134 Copynumber: 2.8 Consensus size: 133
11643577 NNNNNNNNNN
* *
11643587 TCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTT
1 TCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
* * * *
11643652 CGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGTCAATACATGAAGACA
66 CGCTACCAATATAGGAAGACATGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGACA
11643717 AGA
131 AGA
*
11643720 TCTGCTTTCTTCGATCTACACTCCGCCACCAATATTGGAAGACAAGATCTGCATCTTCGATCCAC
1 TCTGCTTTCTTCGATCT--ACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
11643785 TTC-CTACCAATATAGGAAGACATGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGA
64 TTCGCTACCAATATAGGAAGACATGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGA
*
11643849 CAAGG
129 CAAGA
* * *
11643854 TCTACTTTCTTCGATCTACTCAGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATTCACTT
1 TCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
*
11643919 CGCTACCAATATAGAAAGAC-TGGACCTGCTATCTTCA
66 CGCTACCAATATAGGAAGACAT-GACCTGCTATCTTCA
11643956 TTGATATGCT
Statistics
Matches: 219, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
132 47 0.21
133 49 0.22
134 77 0.35
135 46 0.21
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (133 bp):
TCTGCTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTT
CGCTACCAATATAGGAAGACATGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGACA
AGA
Found at i:11645570 original size:16 final size:16
Alignment explanation
Indices: 11645549--11645588 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
11645539 CGGTAGAGTT
11645549 TTTTTTTGCGCCATCA
1 TTTTTTTGCGCCATCA
*
11645565 TTTTTTTGCGCCATCT
1 TTTTTTTGCGCCATCA
11645581 TTTTTTTG
1 TTTTTTTG
11645589 GGCAATATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.20, G:0.12, T:0.60
Consensus pattern (16 bp):
TTTTTTTGCGCCATCA
Found at i:11649620 original size:22 final size:21
Alignment explanation
Indices: 11649585--11649642 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
11649575 AAAGGGTATC
* *
11649585 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
11649606 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
11649629 TGCATATCATATCT
1 TACAAATCATATCT
11649643 AAGATCATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:11649667 original size:14 final size:12
Alignment explanation
Indices: 11649634--11649659 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11649624 AAGATTGCAT
11649634 ATCATATCTAAG
1 ATCATATCTAAG
11649646 ATCATATCTAAG
1 ATCATATCTAAG
11649658 AT
1 AT
11649660 TGCATATCCT
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:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATCATATCTAAG
Found at i:11652477 original size:48 final size:48
Alignment explanation
Indices: 11652407--11652580 Score: 186
Period size: 48 Copynumber: 3.6 Consensus size: 48
11652397 AGAACAAATT
* * * *
11652407 TCTCGGTGGCCTACACACAGTCCGTACCACCTTTGTGTAATAACAGAC
1 TCTCGGTGGCCTGCACACAGTCCGTACCACCCTTGTATAATAACAGAA
* * **
11652455 TCTCGGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTGCACACAGTCCGTACCACCCTTGTATAATAACAGAA
* * ** **
11652503 TATTGGTGGCCTGCACACAGTCCGTGTCACCCTTGTATCTTAACAGAA
1 TCTCGGTGGCCTGCACACAGTCCGTACCACCCTTGTATAATAACAGAA
* * * *
11652551 TATTGGTGGCTTGCACACAGTCCGTGCCAC
1 TCTCGGTGGCCTGCACACAGTCCGTACCAC
11652581 ATATGTGACC
Statistics
Matches: 112, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 112 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (48 bp):
TCTCGGTGGCCTGCACACAGTCCGTACCACCCTTGTATAATAACAGAA
Found at i:11654955 original size:16 final size:16
Alignment explanation
Indices: 11654934--11654964 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11654924 TTTTGGTATT
*
11654934 ATTTTAATATTAAATA
1 ATTTTAAAATTAAATA
11654950 ATTTTAAAATTAAAT
1 ATTTTAAAATTAAAT
11654965 GAAATTAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTAAAATTAAATA
Found at i:11667119 original size:3 final size:3
Alignment explanation
Indices: 11667111--11667161 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
11667101 TCAGATTATG
* * * *
11667111 TTA TTA TTA TTA TCA TT- TTCA TTA TCA TTA TCA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
11667156 TTA TTA
1 TTA TTA
11667162 GATTGTTTCA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:11670674 original size:26 final size:25
Alignment explanation
Indices: 11670629--11670753 Score: 64
Period size: 24 Copynumber: 4.8 Consensus size: 25
11670619 TAGTTTATTA
11670629 ATATTTTA--ATTTAATT-TTTAAATG
1 ATATTTTATTATTT-ATTATTT-AATG
11670653 ATATTTTATTATTTATTATTTAAT-
1 ATATTTTATTATTTATTATTTAATG
* * * *
11670677 TTATTTNTAATTAAATAAATATTAGTTTATTA
1 ATATTT-T-ATT--AT--TTATTA-TTTAATG
*
11670709 ATATTTTA--ATTTATTTTTTAAATG
1 ATATTTTATTATTTATTATTT-AATG
11670733 ATATTTTATTATTTTATTATT
1 ATATTTTATTA-TTTATTATT
11670754 AATTTATTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 27
0.68 0.08 0.24
Matches are distributed among these distances:
23 3 0.04
24 27 0.35
25 7 0.09
26 13 0.17
27 8 0.10
28 2 0.03
30 6 0.08
31 6 0.08
32 5 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
ATATTTTATTATTTATTATTTAATG
Found at i:11670675 original size:38 final size:38
Alignment explanation
Indices: 11670633--11670762 Score: 140
Period size: 38 Copynumber: 3.3 Consensus size: 38
11670623 TTATTAATAT
*
11670633 TTTAATTTAATTTTTAAATGATATTTTATTATTTATTA
1 TTTAATTTATTTTTTAAATGATATTTTATTATTTATTA
* * *
11670671 TTTAATTTATTTNTAATTAAAT-AAATATTAGTT-TATTAATA
1 TTTAATTTATTT-T--TTAAATGATATTTTA-TTAT-TTATTA
11670712 TTTTAATTTATTTTTTAAATGATATTTTATTATTTTATTA
1 -TTTAATTTATTTTTTAAATGATATTTTATTA-TTTATTA
11670752 -TTAATTTATTT
1 TTTAATTTATTT
11670763 AGTATATATA
Statistics
Matches: 76, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
38 22 0.29
39 9 0.12
40 18 0.24
41 15 0.20
42 12 0.16
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (38 bp):
TTTAATTTATTTTTTAAATGATATTTTATTATTTATTA
Found at i:11670702 original size:80 final size:79
Alignment explanation
Indices: 11670603--11670762 Score: 286
Period size: 80 Copynumber: 2.0 Consensus size: 79
11670593 TATAGATTAA
11670603 TTAATTAAATAAATATTAGTTTATTAATATTTTAATTTAATTTTTAAATGATATTTTATTA-TTT
1 TTAATTAAATAAATATTAGTTTATTAATATTTTAATTTAATTTTTAAATGATATTTTATTATTTT
11670667 ATTATTTAATTTATT
66 ATTA-TTAATTTATT
*
11670682 TNTAATTAAATAAATATTAGTTTATTAATATTTTAATTTATTTTTTAAATGATATTTTATTATTT
1 T-TAATTAAATAAATATTAGTTTATTAATATTTTAATTTAATTTTTAAATGATATTTTATTATTT
11670747 TATTATTAATTTATT
65 TATTATTAATTTATT
11670762 T
1 T
11670763 AGTATATATA
Statistics
Matches: 78, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
79 1 0.01
80 70 0.90
81 7 0.09
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (79 bp):
TTAATTAAATAAATATTAGTTTATTAATATTTTAATTTAATTTTTAAATGATATTTTATTATTTT
ATTATTAATTTATT
Found at i:11670763 original size:42 final size:43
Alignment explanation
Indices: 11670616--11670763 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
11670606 ATTAAATAAA
*
11670616 TATTAGTTTATTAATATTTTAATTTAATTTTTAAATGATATTT
1 TATTAGTTTATTAATAATTTAATTTAATTTTTAAATGATATTT
* * *
11670659 TATTA-TTTATTATTTAATTTATTTNTAA---TTAAAT-A-A--A
1 TATTAGTTTATTA-ATAATTTAATT-TAATTTTTAAATGATATTT
* *
11670696 TATTAGTTTATTAATATTTTAATTTATTTTTTAAATGATATTT
1 TATTAGTTTATTAATAATTTAATTTAATTTTTAAATGATATTT
* *
11670739 TATTATTTTATTATTAATTT-ATTTA
1 TATTAGTTTATTAATAATTTAATTTA
11670764 GTATATATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
36 2 0.02
37 13 0.16
38 7 0.08
39 7 0.08
40 2 0.02
41 7 0.08
42 12 0.14
43 30 0.36
44 3 0.04
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (43 bp):
TATTAGTTTATTAATAATTTAATTTAATTTTTAAATGATATTT
Found at i:11673104 original size:10 final size:10
Alignment explanation
Indices: 11673089--11673117 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
11673079 AGTAGTAGAG
11673089 GACAAAAAAA
1 GACAAAAAAA
11673099 GACAAAAAAA
1 GACAAAAAAA
11673109 GACAAAAAA
1 GACAAAAAA
11673118 CAAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.79, C:0.10, G:0.10, T:0.00
Consensus pattern (10 bp):
GACAAAAAAA
Found at i:11673132 original size:10 final size:10
Alignment explanation
Indices: 11673090--11673150 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
11673080 GTAGTAGAGG
*
11673090 ACAAAAAAAG
1 ACAAAAAAAA
11673100 ACAAAAAAAGACA
1 AC-AAAAAA-A-A
*
11673113 AAAAACAAAAA
1 ACAAA-AAAAA
11673124 ACAAAAAAAA
1 ACAAAAAAAA
*
11673134 ACAAAAAGAA
1 ACAAAAAAAA
*
11673144 ATAAAAA
1 ACAAAAA
11673151 CCTCTACCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 22 0.52
11 11 0.26
12 5 0.12
13 4 0.10
ACGTcount: A:0.84, C:0.10, G:0.05, T:0.02
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:11673149 original size:16 final size:16
Alignment explanation
Indices: 11673092--11673151 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
11673082 AGTAGAGGAC
11673092 AAAAAAAGACAAAAAAAG
1 AAAAAAA-AC-AAAAAAG
* *
11673110 ACAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAG
11673126 AAAAAAAA-ACAAAAAG
1 AAAAAAAACA-AAAAAG
11673142 AAATAAAAAC
1 AAA-AAAAAC
11673152 CTCTACCGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
15 1 0.03
16 21 0.60
17 7 0.20
18 6 0.17
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.02
Consensus pattern (16 bp):
AAAAAAAACAAAAAAG
Found at i:11673149 original size:17 final size:16
Alignment explanation
Indices: 11673092--11673151 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
11673082 AGTAGAGGAC
*
11673092 AAAAAAAGACAAAAAA
1 AAAAAAAAACAAAAAA
*
11673108 AGACAAAAAACAAAAAA
1 A-AAAAAAAACAAAAAA
*
11673125 CAAAAAAAAACAAAAAG
1 -AAAAAAAAACAAAAAA
*
11673142 AAATAAAAAC
1 AAAAAAAAAC
11673152 CTCTACCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.27
17 26 0.70
18 1 0.03
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.02
Consensus pattern (16 bp):
AAAAAAAAACAAAAAA
Found at i:11673648 original size:46 final size:51
Alignment explanation
Indices: 11673581--11673701 Score: 153
Period size: 46 Copynumber: 2.5 Consensus size: 51
11673571 GGAGAAGGGG
* * **
11673581 CCAAGGTGAAAACCCCCAAAGGGCGCTTTGAG-TC-CTAAAAAA-GA-A-A
1 CCAAGGTGAAAACCCGCAAAGGGCGCATTGAGTTCAAAAAAAAAGGAGAGA
*
11673627 CCAAGGTGAAAACCCGCAAAGGGCGCATTGAGTTCAAAAAAAAAAGGAGAGG
1 CCAAGGTGAAAACCCGCAAAGGGCGCATTGAGTTC-AAAAAAAAAGGAGAGA
11673679 CCAAGGTGAAAACCCGCAAAGGG
1 CCAAGGTGAAAACCCGCAAAGGG
11673702 TGTCTTGAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
46 30 0.47
47 2 0.03
49 6 0.09
50 2 0.03
51 1 0.02
52 23 0.36
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.10
Consensus pattern (51 bp):
CCAAGGTGAAAACCCGCAAAGGGCGCATTGAGTTCAAAAAAAAAGGAGAGA
Found at i:11675213 original size:144 final size:144
Alignment explanation
Indices: 11674934--11675817 Score: 1477
Period size: 144 Copynumber: 6.2 Consensus size: 144
11674924 TGAAGTCATT
* * ** **
11674934 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTACAA-CTACAAATTATGGTAAATC
1 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
* * * * * *
11674998 TTATCTTCCTGAAGTTACAGTGG-GCAGATTGAAGCCACCAACCTTATCTCCCTGAAGTGGTAGT
66 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
*
11675062 GGAGCAGACTGAAG
131 GGAGCAAACTGAAG
* * * *
11675076 ACAGCGAATCTTATTTCCCTGGTGTTGCAGTGGAACAGATTAAAAGTTACAAATTGCAGCGAATC
1 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
* * *
11675141 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTGCCTGAAGTTCCAGC
66 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
*
11675206 GGAGCAGACTGAAG
131 GGAGCAAACTGAAG
*
11675220 ACAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
1 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
11675285 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
66 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
11675350 GGAGCAAACTGAAG
131 GGAGCAAACTGAAG
11675364 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
1 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
11675429 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
66 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
11675494 GGAGCAAACTGAAG
131 GGAGCAAACTGAAG
11675508 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
1 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
11675573 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
66 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
11675638 GGAGCAAACTGAAG
131 GGAGCAAACTGAAG
* * *
11675652 ACAGCGAATCTTATTTCCCTGGCGTTGTAGTGGAATAGATT-AAAGCTACAAATTACGGCAAATC
1 ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
*
11675716 TTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
66 TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
** *
11675781 AAAGCAGACTGAAG
131 GGAGCAAACTGAAG
*
11675795 ACAGCGAATCTTATTTCCTTGGC
1 ACAGCGAATCTTATTTCCCTGGC
11675818 TACAAATTAT
Statistics
Matches: 707, Mismatches: 33, Indels: 3
0.95 0.04 0.00
Matches are distributed among these distances:
142 43 0.06
143 153 0.22
144 511 0.72
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (144 bp):
ACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGCGAATC
TTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGCAGC
GGAGCAAACTGAAG
Found at i:11675334 original size:44 final size:45
Alignment explanation
Indices: 11675281--11675779 Score: 256
Period size: 44 Copynumber: 10.5 Consensus size: 45
11675271 AATTGCGGCG
11675281 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA-CC
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAGCC
** * * * * *
11675325 AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAAACTGAAGACAGCG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAGCC
** ** * *
11675370 AATCTTAT-TTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGC
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAAATT-GAAGC--C--A--GC--C
11675424 GAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA-CC
1 -AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAGCC
** * * * * *
11675469 AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAAACTGAAGACAGCG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAGCC
** ** * *
11675514 AATCTTAT-TTCCCTGGCGTTGCAGTGGAATAGATTAAAAGCTACAAATTGCGGC
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAAATT-GAAGC--C--A--GC--C
11675568 GAATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA-CC
1 -AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAGCC
** * * * * *
11675613 AGCCTTATCTCCCTGAAGTTGCAGCGGAGCAAACTGAAGACAGCG
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAGCC
** * ** * * *
11675658 AATCTTAT-TTCCCTGGCGTTGTAGTGGAATAGATTAAAGCTACAAATTACGGCA
1 AATCTTATCTT-CCTGAAGTTGCAGTGGAGCAAATTGAAGC--C-----A--GCC
*
11675712 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CC
1 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAGCC
** *
11675756 AGCCTTATCTCCCTGAAGTTGCAG
1 AATCTTATCTTCCTGAAGTTGCAG
11675780 CAAAGCAGAC
Statistics
Matches: 334, Mismatches: 83, Indels: 76
0.68 0.17 0.15
Matches are distributed among these distances:
44 133 0.40
45 76 0.23
46 6 0.02
47 4 0.01
48 2 0.01
50 4 0.01
52 8 0.02
54 41 0.12
55 56 0.17
56 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (45 bp):
AATCTTATCTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAGCC
Found at i:11675849 original size:120 final size:120
Alignment explanation
Indices: 11675696--11675929 Score: 353
Period size: 120 Copynumber: 1.9 Consensus size: 120
11675686 ATAGATTAAA
*
11675696 GCTACAAATTACGGCAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCT
1 GCTACAAATTACGGCAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCT
*
11675761 TATCTCCCTGAAGTTGCAGCAAAGCAGACTGAAGACAGCGAATCTTATTTCCTTG
66 TATCTCCCTCAAGTTGCAGCAAAGCAGACTGAAGACAGCGAATCTTATTTCCTTG
* * * * *
11675816 GCTACAAATTATGG-AGGATCTTATCTTCCTGAAGTTGCAGTGAAGTAGATTGGAGCCTCCAGCC
1 GCTACAAATTACGGCA-AATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCC
* ** *
11675880 TTATCTCCTTCAAGTTGCAGCGGAGCAGACTGAAGACAGTGAATCTTATT
65 TTATCTCCCTCAAGTTGCAGCAAAGCAGACTGAAGACAGCGAATCTTATT
11675930 ACCCTGGCGT
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
119 1 0.01
120 101 0.99
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (120 bp):
GCTACAAATTACGGCAAATCTTATCTTCCTGAAGTTGCAGTGAAGCAGATTGAAGCCACCAGCCT
TATCTCCCTCAAGTTGCAGCAAAGCAGACTGAAGACAGCGAATCTTATTTCCTTG
Found at i:11677417 original size:3 final size:3
Alignment explanation
Indices: 11677409--11677465 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
11677399 TAAACCTCAG
* * * *
11677409 ATT ATT ATT ATT GTT ATT ATT ATT ATT ATC ATT ATC ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
11677457 AAT ATT ATT
1 ATT ATT ATT
11677466 CTTAGATTGT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:11679137 original size:28 final size:28
Alignment explanation
Indices: 11679097--11679153 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
11679087 TGTTATGGTG
11679097 AAGAAGCAAATCTATTCTGAATTTTTGT
1 AAGAAGCAAATCTATTCTGAATTTTTGT
11679125 AAGAAGCAAATCTATTCTGAATTTTTGT
1 AAGAAGCAAATCTATTCTGAATTTTTGT
11679153 A
1 A
11679154 CTGGCTTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.39
Consensus pattern (28 bp):
AAGAAGCAAATCTATTCTGAATTTTTGT
Found at i:11685481 original size:68 final size:68
Alignment explanation
Indices: 11685370--11685583 Score: 290
Period size: 68 Copynumber: 3.2 Consensus size: 68
11685360 GAATTGACAG
* *
11685370 GTAAGACCATAACTGGGTTATGGCACTATGAACGTAAGACCATGGTTGGACCATGGA-AATGTTT
1 GTAAGACCATAGCTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCAT-GACAATGTTT
11685434 ATAT
65 ATAT
* *
11685438 GTAAGACCATAGCTGGGCTATGGCACTATGAATGTAAGGCCATGGTTGGACCATGACAATGTTTA
1 GTAAGACCATAGCTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGACAATGTTTA
11685503 TAT
66 TAT
* ** ** * *
11685506 GTAATACCATAGCTGGGTTATGGCACTACAAATGTAAGACCATGGCAGGGCCATGACAA--TTCA
1 GTAAGACCATAGCTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGACAATGTTTA
*
11685569 TGT
66 TAT
11685572 GTAAGACCATAG
1 GTAAGACCATAG
11685584 TTGAACTATG
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
66 16 0.12
67 2 0.02
68 112 0.86
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (68 bp):
GTAAGACCATAGCTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCATGACAATGTTTA
TAT
Found at i:11686772 original size:40 final size:40
Alignment explanation
Indices: 11686718--11686803 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
11686708 GCGTTTTCTT
11686718 AAAAACACTACTATAGATCAAGCATTAGCAGCACTTTTTG
1 AAAAACACTACTATAGATCAAGCATTAGCAGCACTTTTTG
* * * * * * * *
11686758 AAAATCACTGCTATAGGTCGATCATTAGCGGCACTTTCTA
1 AAAAACACTACTATAGATCAAGCATTAGCAGCACTTTTTG
11686798 AAAAAC
1 AAAAAC
11686804 GCCGCAAAAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (40 bp):
AAAAACACTACTATAGATCAAGCATTAGCAGCACTTTTTG
Found at i:11686912 original size:40 final size:40
Alignment explanation
Indices: 11686854--11687039 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 40
11686844 AGCTTTAGAG
*
11686854 GCATTAGTGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * * * *
11686894 GCTTTAGTGGCGCTTTTTGAGAAACGCTGCTATAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * * * *
11686934 CCATTAGCGACGCTTTTTGAAAAACGCCACTGTAGGTCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
* * * *
11686974 GCATTAGCAGCGCTTCTTGAAAAACGCGGCTATATATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
*
11687014 GTATTAGCGGCGCTTTTTGAAAAACG
1 GCATTAGCGGCGCTTTTTGAAAAACG
11687040 TCGCAAAAAA
Statistics
Matches: 122, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGA
Found at i:11686957 original size:155 final size:155
Alignment explanation
Indices: 11686667--11686961 Score: 387
Period size: 155 Copynumber: 1.9 Consensus size: 155
11686657 TGGCGATCGT
* * *
11686667 ACAACGCCATCGTTTTATGTTGAGCTTTAGTGGCATTAGCGGCGTTTTCTTAAAAACACTACTAT
1 ACAACGCCATCGTTTTATGTTGAGCTTTAGAGGCATTAGCGGCGTTTTCTGAAAAACACCACTAT
* *
11686732 AGATCAAGCATTAGCAGCACTTTTTGAAAATCACTGCTATAGGTCGATCATTAGCGGCACTTTCT
66 AGATCAAGCATTAGCAGCACTTTTTGAAAATCACTGCTATAGGTCGACCATTAGCGACACTTTCT
11686797 AAAAAACGCCGCAAAATAATTAAGC
131 AAAAAACGCCGCAAAATAATTAAGC
** * * *
11686822 ACAACGCTGTCGTTTTATGTTGAGCTTTAGAGGCATTAGTGGCGCTTTT-TGAAAAACGCCGCTA
1 ACAACGCCATCGTTTTATGTTGAGCTTTAGAGGCATTAGCGGCG-TTTTCTGAAAAACACCACTA
* * ** * * *
11686886 TAGATCGAGCTTTAGTGGCGCTTTTTGAGAAA-CGCTGCTATAGGTCGACCATTAGCGACGCTTT
65 TAGATCAAGCATTAGCAGCACTTTTTGA-AAATCACTGCTATAGGTCGACCATTAGCGACACTTT
* *
11686950 TTGAAAAACGCC
129 CTAAAAAACGCC
11686962 ACTGTAGGTC
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
155 112 0.94
156 7 0.06
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (155 bp):
ACAACGCCATCGTTTTATGTTGAGCTTTAGAGGCATTAGCGGCGTTTTCTGAAAAACACCACTAT
AGATCAAGCATTAGCAGCACTTTTTGAAAATCACTGCTATAGGTCGACCATTAGCGACACTTTCT
AAAAAACGCCGCAAAATAATTAAGC
Found at i:11687280 original size:7 final size:7
Alignment explanation
Indices: 11687259--11687402 Score: 78
Period size: 7 Copynumber: 20.3 Consensus size: 7
11687249 TTAATTATCA
*
11687259 TTATAGT
1 TTATGGT
*
11687266 TTAGGGT
1 TTATGGT
11687273 TTATGGT
1 TTATGGT
*
11687280 TTAGGGT
1 TTATGGT
*
11687287 ATATGGT
1 TTATGGT
11687294 TTA-GGCT
1 TTATGG-T
*
11687301 TTAAGGT
1 TTATGGT
*
11687308 TTAAGAGT
1 TTATG-GT
11687316 TACTAT--T
1 T--TATGGT
*
11687323 TTAAGGT
1 TTATGGT
*
11687330 TTATGGA
1 TTATGGT
*
11687337 TTACGGT
1 TTATGGT
* *
11687344 TTAGGGA
1 TTATGGT
11687351 TTATGGT
1 TTATGGT
11687358 TTATGGT
1 TTATGGT
**
11687365 TTACAGT
1 TTATGGT
*
11687372 TTAAAGGT
1 TT-ATGGT
*
11687380 TTAGGGT
1 TTATGGT
*
11687387 TTAGGGT
1 TTATGGT
11687394 TTATGGT
1 TTATGGT
11687401 TT
1 TT
11687403 CAAGGTTTAG
Statistics
Matches: 106, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
7 90 0.85
8 10 0.09
10 2 0.02
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.47
Consensus pattern (7 bp):
TTATGGT
Found at i:11687281 original size:14 final size:14
Alignment explanation
Indices: 11687259--11687461 Score: 113
Period size: 14 Copynumber: 14.2 Consensus size: 14
11687249 TTAATTATCA
*
11687259 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
11687273 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
* *
11687287 ATATGGTTTAGGCT
1 TTATGGTTTAGGGT
* *
11687301 TTAAGGTTTAAGAGT
1 TTATGGTTT-AGGGT
*
11687316 TACTAT--TTTAAGGT
1 T--TATGGTTTAGGGT
* *
11687330 TTATGGATTACGGT
1 TTATGGTTTAGGGT
* * *
11687344 TTAGGGATTATGGT
1 TTATGGTTTAGGGT
**
11687358 TTATGGTTTACAGT
1 TTATGGTTTAGGGT
*
11687372 TTAAAGGTTTAGGGT
1 TT-ATGGTTTAGGGT
* *
11687387 TTAGGGTTTATGGT
1 TTATGGTTTAGGGT
* *
11687401 TTCAAGGTTTAGGGG
1 TT-ATGGTTTAGGGT
* * * *
11687416 ATAGGGGATAAGGGT
1 TTA-TGGTTTAGGGT
* *
11687431 TAAAGGTTTAGGGT
1 TTATGGTTTAGGGT
*
11687445 TTAGGGTTTAGGGT
1 TTATGGTTTAGGGT
11687459 TTA
1 TTA
11687462 GATTAATTAG
Statistics
Matches: 143, Mismatches: 38, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
12 3 0.02
14 102 0.71
15 36 0.25
17 2 0.01
ACGTcount: A:0.23, C:0.02, G:0.32, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:11687394 original size:29 final size:28
Alignment explanation
Indices: 11687355--11687454 Score: 101
Period size: 29 Copynumber: 3.5 Consensus size: 28
11687345 TAGGGATTAT
*
11687355 GGTTTATGGTTTACAGTTTAAAGGTTTAG
1 GGTTTAGGGTTTA-AGTTTAAAGGTTTAG
* *
11687384 GGTTTAGGGTTTATGGTTTCAAGGTTTAG
1 GGTTTAGGGTTTA-AGTTTAAAGGTTTAG
** ** *
11687413 GGGATAGGGGATAAGGGTTAAAGGTTTAG
1 GGTTTAGGGTTTAA-GTTTAAAGGTTTAG
11687442 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
11687455 GGGTTTAGAT
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.23, C:0.02, G:0.36, T:0.39
Consensus pattern (28 bp):
GGTTTAGGGTTTAAGTTTAAAGGTTTAG
Found at i:11687445 original size:7 final size:7
Alignment explanation
Indices: 11687435--11687462 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
11687425 AAGGGTTAAA
11687435 GGTTTAG
1 GGTTTAG
11687442 GGTTTAG
1 GGTTTAG
11687449 GGTTTAG
1 GGTTTAG
11687456 GGTTTAG
1 GGTTTAG
11687463 ATTAATTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.43, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:11687577 original size:14 final size:14
Alignment explanation
Indices: 11687555--11687594 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
11687545 TTAATTATCA
11687555 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
11687569 TTATGGTTTAGGGT
1 TTATAGTTTAGGGT
11687583 AATTATAGTTTA
1 --TTATAGTTTA
11687595 AATTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 13 0.59
16 9 0.41
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:11688186 original size:23 final size:24
Alignment explanation
Indices: 11688155--11688208 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
11688145 TATAAAAAAT
* *
11688155 AAAATAAAAGTTTTTTAGCAGA-A
1 AAAACAAAAGATTTTTAGCAGAGA
*
11688178 AAAACAAAAGATTTTTAGCAGAGC
1 AAAACAAAAGATTTTTAGCAGAGA
11688202 AAAACAA
1 AAAACAA
11688209 TGTTGTTTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.56, C:0.09, G:0.13, T:0.22
Consensus pattern (24 bp):
AAAACAAAAGATTTTTAGCAGAGA
Found at i:11693240 original size:43 final size:43
Alignment explanation
Indices: 11693159--11693417 Score: 225
Period size: 43 Copynumber: 6.0 Consensus size: 43
11693149 CTTTTTGCGA
* ** *
11693159 CATTTGTGATAAAAAGCGTCGCTAAATATCATGTTCTTTAGTGG
1 CATTTGTGAT-AAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * ** *
11693203 CATTTGTGATAAAAGTGCCACTAAAGGTCATACTCTTTAGCGA
1 CATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * * * *
11693246 CGTTTTTAATAAAAGTGCCGCTAAAAGTCATGTTCTTTAGCGG
1 CATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * ** * *
11693289 CGTTTGTGGTAAAAGCGTTGGTAAATGTCATGTTCTTTA-CTGG
1 CATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGC-GG
* * * *
11693332 CATTTGTGATAAAAGCGTCGCTAAAGGTCCTGTTATTTAGTGG
1 CATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
* * * * *
11693375 CGTTTCTGGT-GAAGCGCCGCTAAAGGTCATGTTTTTTAGCGG
1 CATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
11693417 C
1 C
11693418 GTTTTTTCAC
Statistics
Matches: 172, Mismatches: 41, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
42 29 0.17
43 133 0.77
44 10 0.06
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
CATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGG
Found at i:11693326 original size:86 final size:86
Alignment explanation
Indices: 11693170--11693423 Score: 253
Period size: 86 Copynumber: 3.0 Consensus size: 86
11693160 ATTTGTGATA
* * * * *
11693170 AAAAGCGTCGCTAAATA-TCATGTTCTTTAGTGGCATTTGTGATAAAAGTGCCACTAAAGGTCAT
1 AAAAGCGCCGCTAAA-AGTCATGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAT
** *
11693234 ACTCTTTAGCGACGTTTTTAAT
65 GTTCTTTAGCGGCGTTTTTAAT
* * ** * *
11693256 AAAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGTAAAAGCGTTGGTAAATGTCATG
1 AAAAGCGCCGCTAAAAGTCATGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATG
* * *
11693321 TTCTTTA-CTGGCATTTGTGAT
66 TTCTTTAGC-GGCGTTTTTAAT
* * * * * *
11693342 AAAAGCGTCGCTAAAGGTCCTGTTATTTAGTGGCGTTTCTGGT-GAAGCGCCGCTAAAGGTCATG
1 AAAAGCGCCGCTAAAAGTCATGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATG
*
11693406 TTTTTTAGCGGCGTTTTT
66 TTCTTTAGCGGCGTTTTT
11693424 TCACATAAAC
Statistics
Matches: 133, Mismatches: 32, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
85 31 0.23
86 102 0.77
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (86 bp):
AAAAGCGCCGCTAAAAGTCATGTTCTTTAGTGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCATG
TTCTTTAGCGGCGTTTTTAAT
Found at i:11693371 original size:129 final size:129
Alignment explanation
Indices: 11693161--11693421 Score: 317
Period size: 129 Copynumber: 2.0 Consensus size: 129
11693151 TTTTGCGACA
* *
11693161 TTTGTGATAAAAAGCGTCGCTAAATATCATGTTCTTTAGTGGCATTTGTGATAAAAGTGCCACTA
1 TTTGTGATAAAAAGCGTCGCTAAATATCATGTTCTTTACTGGCATTTGTGATAAAAGCGCCACTA
* * *
11693226 AAGGTCATACTCTTTAGCGACGTTTTTAATAAAAGTGCCGCTAAAAGTCATGTTCTTTAGCGGCG
66 AAGGTCATACTATTTAGCGACGTTTCTAAT-AAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
* * * * * *
11693291 TTTGTGGT-AAAAGCGTTGGTAAATGTCATGTTCTTTACTGGCATTTGTGATAAAAGCGTCGCTA
1 TTTGTGATAAAAAGCGTCGCTAAATATCATGTTCTTTACTGGCATTTGTGATAAAAGCGCCACTA
* ** * * ** * * *
11693355 AAGGTCCTGTTATTTAGTGGCGTTTCTGGTGAAGCGCCGCTAAAGGTCATGTTTTTTAGCGGCG
66 AAGGTCATACTATTTAGCGACGTTTCTAATAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
11693419 TTT
1 TTT
11693422 TTTCACATAA
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
128 33 0.30
129 70 0.64
130 7 0.06
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (129 bp):
TTTGTGATAAAAAGCGTCGCTAAATATCATGTTCTTTACTGGCATTTGTGATAAAAGCGCCACTA
AAGGTCATACTATTTAGCGACGTTTCTAATAAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCG
Found at i:11698647 original size:50 final size:50
Alignment explanation
Indices: 11698572--11698807 Score: 296
Period size: 50 Copynumber: 4.7 Consensus size: 50
11698562 GTAAAGAGAT
11698572 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGA
1 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGA
* * *
11698622 CCCATGTAAGACCATGTCTTGGACATGGCGTTGGTACCGAGATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGA
* *
11698672 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGT
1 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGA
** * * * * * *
11698722 CCCCCGTAAGACCATGTCTAGGACATGACATGGGCACCTATATGAGA--A
1 CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGA
* * *
11698770 CTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 C-C-CATGTAAGACCATGTCTGGGACATGGCGTTGGCA
11698808 GTATAAGAAA
Statistics
Matches: 162, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
48 1 0.01
49 1 0.01
50 160 0.99
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
CCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGA
Found at i:11701751 original size:101 final size:99
Alignment explanation
Indices: 11701614--11701804 Score: 256
Period size: 101 Copynumber: 1.9 Consensus size: 99
11701604 AATTAACAGG
* * * ** *
11701614 TAAGACCATAACTGGGTTATGGCACTACGAACGTAAGGCCATGGTTGGACCATGACAATGTTTAT
1 TAAGACCATAACTAGGTTATGGCACTACAAACGTAAGACCATGGCAGGACCATGACAATG--CAT
* *
11701679 ATGTAATACCATAGTTGGGCTATGGCATTCTGATGA
64 ATGTAAGACCATAGTTGGACTATGGCATTCTGATGA
* * * *
11701715 TAAGACCATAACTAGGTTATGGCACTACAAATGTAAGACCATGGCAGGGCCATGGCAATGCATGT
1 TAAGACCATAACTAGGTTATGGCACTACAAACGTAAGACCATGGCAGGACCATGACAATGCATAT
11701780 GTAAGACCATAGTTGGACTATGGCA
66 GTAAGACCATAGTTGGACTATGGCA
11701805 CAAAAAGAAC
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 26 0.33
101 52 0.67
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (99 bp):
TAAGACCATAACTAGGTTATGGCACTACAAACGTAAGACCATGGCAGGACCATGACAATGCATAT
GTAAGACCATAGTTGGACTATGGCATTCTGATGA
Found at i:11705756 original size:18 final size:18
Alignment explanation
Indices: 11705735--11705771 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11705725 CTTCTTTTTA
11705735 TTTTTCATCTTCAGCAAC
1 TTTTTCATCTTCAGCAAC
*
11705753 TTTTTCTTCTTCAGCAAC
1 TTTTTCATCTTCAGCAAC
11705771 T
1 T
11705772 ACTTCGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.27, G:0.05, T:0.49
Consensus pattern (18 bp):
TTTTTCATCTTCAGCAAC
Found at i:11715552 original size:935 final size:934
Alignment explanation
Indices: 11712006--11716006 Score: 6403
Period size: 934 Copynumber: 4.3 Consensus size: 934
11711996 ACTTGCTCTA
*
11712006 AGTAGATGTATTCCCATA-ACTGAATGTCGCAGCATTTTGTCTAGCATTCTAAGTTCCCCAAAAT
1 AGTAGATGTATTCCCATATA-TGAATGTCGCAGCATTTTGTCTAGCATTCTGAGTTCCCCAAAAT
* * * * * * *
11712070 GGTTAGTTGCGTGCAGAGTTGTTGTAGGAGTTACCATAAGAATTGTCGCGGATGTAATAATATAA
65 AGTTGGTTGCGTGCAAAGTTGTTGTAAGAGTTACCATAAGAATTGTTGTGGATGTACTAATATAA
* * *
11712135 CAGGCATTCTCTGTATGTTGTGGTCAATCTTCATAGCTATGGTTGTCACTACAAATCTCACAACA
130 CAGGCATTCTTTGCATATTGTGGTCAATCTTCATAGCTATGGTTGTCACTACAAATCTCACAACA
11712200 AAAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCATTT
195 AAAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCATTT
* *
11712265 TTTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCGGTTATTGCATCCAATTCCATAA
260 TTTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCAGTTATTGCATCCAATTCAATAA
* *
11712330 CTCCTGGACTAGTTTTTGCTTGTGCAACTATGGAGATAAGGTATTGATAATCATTCTGAGCAATT
325 CTCCGGGACTAGTTTTTGCTTGTGCAACTATAGAGATAAGGTATTGATAATCATTCTGAGCAATT
* * * *
11712395 CTCTCAAGAATTCTCACAGCATCATTATAAGTACAATCCAACAGAGGTCCATTGGCAGATGCATT
390 CTCTCAAGAATTCTCACAGCATCATTATAAGTACAATTCAACAGAAGTCCATTGGCTGATGCATC
* * * *
11712460 GACAAGTTTCCTTGTATATGAATTCAACCCATTATAAAAATATCAATTTGGGTTTCTAGTTGAAT
455 GACAAGTTTCCTTGTATATGAATTCAGCCCATTATAAAAATCTCAATTTGTGTTTCTGGTTGAAT
* * * * * ** * *
11712525 GTCGTGCATGGGACAAAGTCGAAGTAAAGATTTATAATTTTCTCATGTGGTGTGAAGATTATGAT
520 GTCGTACAGGGGACAAAGTCAAAGTAAAGATTTATAATGTTCCCACATGGTGTGAAGATTTTCAT
* * * * * * * *
11712590 CATCCAGCTGATGGTAAGTAGTAATATCATTTTGAAGACGAGCATTCATTGTTGGCGGGTTAAAT
585 AATCCAACTGATGGTAAGCAATAATATCATTTTCAAGATGAACATTCATTGTTGGTGGGTTAAAT
** *
11712655 CACAAAACAAACTGTGTTACTAGTGCATCCCAAGAAGTAATTGATTTAGTAGGTAGCCCAAAAAA
650 CACAAAACAAACTGTGTTACTAGTGCATCCCAAGAAGTAATTGATCCAGTAGATAGCCCAAAAAA
** * * *
11712720 TGAAGTACTGGATCTTCTCTCTAAGGAATAAGGAAATAATTGCATCTTCAAGGCATCATCAAGAT
715 CCAAGTACGGGATCTTCCCTATAAGGAATAAGGAAATAATTGCATCTTCAAGGCATCATCAAGAT
*
11712785 ATCATAAGGAATAAGGATATATCGATCCTACAGGGATGGTTGTCTTTTTTCTATTAGTGTCGATG
780 ATCATAAGGAATAAGGATATATCGATCCCACAGGGATGGTTGTCTTTTTTCTATTAGTGTCGATG
*
11712850 CAATAACTAGATAGAAACAAGATAAATTGTGAGGATAGTTGTCAGAGCAACAACTTGAAAACAAT
845 CAATAACTAGATAGAAACAAGATAAATTGTGAGGATAGTTATCAGAGCAACAACTTGAAAACAAT
*
11712915 AAAATAAAATTTGATAATTGCCCTTG
910 AAAATAAAATATGATAATTGCCC-TG
* * * * *
11712941 -GTAGATGTATTCCCATATCTGAATGTAGCAGCATTTTGTCTAGCATTTTGACTTCCCCAAAATG
1 AGTAGATGTATTCCCATATATGAATGTCGCAGCATTTTGTCTAGCATTCTGAGTTCCCCAAAATA
* *
11713005 GTTGGTTGTGTGCAAAGTTGTTGTAAGAGTTACCATAAGAATTGTTGCGGATGTACTAATATAAC
66 GTTGGTTGCGTGCAAAGTTGTTGTAAGAGTTACCATAAGAATTGTTGTGGATGTACTAATATAAC
* * *
11713070 AGGCATTCTTTGCATATTGTGGTCAATTTTCATAGCTATAGTTGTCACTACAAATCTCAGAACAA
131 AGGCATTCTTTGCATATTGTGGTCAATCTTCATAGCTATGGTTGTCACTACAAATCTCACAACAA
11713135 AAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCATTTT
196 AAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCATTTT
11713200 TTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCAGTTATTGCATCCAATTCAATAAC
261 TTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCAGTTATTGCATCCAATTCAATAAC
* * * *
11713265 TCCGGGAGTAGTTTTTTCTTGTGCAGCTCTAGAGATAAGGTATTGATAATCATTCTGAGCAATTC
326 TCCGGGACTAGTTTTTGCTTGTGCAACTATAGAGATAAGGTATTGATAATCATTCTGAGCAATTC
*
11713330 TCTCGAGAATTCTCACAGCATCATTATAAGTACAATTCAACAGAAGTCCATTGGCTGATGCATCG
391 TCTCAAGAATTCTCACAGCATCATTATAAGTACAATTCAACAGAAGTCCATTGGCTGATGCATCG
*
11713395 ACAAGTTTCCTTGTATATGAATTCAGCCCATTATAAAAATCTCAATTTGTGTTTTTGGTTGAATG
456 ACAAGTTTCCTTGTATATGAATTCAGCCCATTATAAAAATCTCAATTTGTGTTTCTGGTTGAATG
** *
11713460 TCGTACAGGGGACAAAGTCAAAGTAAAGATTTATAATGTTCCCATGTGGTGTGAAGATTTTCATC
521 TCGTACAGGGGACAAAGTCAAAGTAAAGATTTATAATGTTCCCACATGGTGTGAAGATTTTCATA
* * * * * * * *
11713525 ATCCAGCTGACGGTAAGTAGTAATATCATTTTGAAGA-CAAGCATTTATTGTTGGTGAGTTAAAT
586 ATCCAACTGATGGTAAGCAATAATATCATTTTCAAGATGAA-CATTCATTGTTGGTGGGTTAAAT
* ** *
11713589 CACAAAACAAACTGTGGTACTAGTGCATCCCAAGAAGTAATTGATTTAGTAGGTAGCCCAAAAAA
650 CACAAAACAAACTGTGTTACTAGTGCATCCCAAGAAGTAATTGATCCAGTAGATAGCCCAAAAAA
** * * *
11713654 TGAAGTACTGGATCTTCTCTCTAAGGAATAAGGAAATAATTGCATCTTCAAGGCATCATCAAGAT
715 CCAAGTACGGGATCTTCCCTATAAGGAATAAGGAAATAATTGCATCTTCAAGGCATCATCAAGAT
*
11713719 ATCATAAGGAATAAGGATATATCGATCCTACAGGGATGGTTGTCTTTTTTCTATTAGTGTCGATG
780 ATCATAAGGAATAAGGATATATCGATCCCACAGGGATGGTTGTCTTTTTTCTATTAGTGTCGATG
* *
11713784 CAATAACTAGATAGAAACAGGATAAATTGTGAGGATAGTTATCAGAGCAACAACTTGAGAACAAT
845 CAATAACTAGATAGAAACAAGATAAATTGTGAGGATAGTTATCAGAGCAACAACTTGAAAACAAT
11713849 AAAATAAAATATGATAATTGCCCTG
910 AAAATAAAATATGATAATTGCCCTG
11713874 AGTAGATGTATTCCCATATATGAATGTCGCAGCATTTTGTCTAGCATTCTGAGTTCCCCAAAATA
1 AGTAGATGTATTCCCATATATGAATGTCGCAGCATTTTGTCTAGCATTCTGAGTTCCCCAAAATA
* *
11713939 GTTGGTTGCGTGCAAAGTTGTTGTAAGAGTTACCTTAAGAATTGTTGTGGATGTACTAATATAAT
66 GTTGGTTGCGTGCAAAGTTGTTGTAAGAGTTACCATAAGAATTGTTGTGGATGTACTAATATAAC
* * *
11714004 AGGCATTCTTTGCATATTGTGGTCAATTTTCATAGCTATAGTTGTCACTACAAATCTCAGAACAA
131 AGGCATTCTTTGCATATTGTGGTCAATCTTCATAGCTATGGTTGTCACTACAAATCTCACAACAA
11714069 AAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCATTTT
196 AAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCATTTT
* *
11714134 TTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCGGTTATTGCATCCAATTCCATAAC
261 TTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCAGTTATTGCATCCAATTCAATAAC
* *
11714199 TCCTGGACTAGTTTTTGCTTGTGCAACTATGGAGATAAGGTATTGATAATCATTCTGAGCAATTC
326 TCCGGGACTAGTTTTTGCTTGTGCAACTATAGAGATAAGGTATTGATAATCATTCTGAGCAATTC
*
11714264 TCTCGAGAATTCTCACAGCATCATTATAAGTACAATTCAACAGAAGTCCATTGGCTGATGCATCG
391 TCTCAAGAATTCTCACAGCATCATTATAAGTACAATTCAACAGAAGTCCATTGGCTGATGCATCG
*
11714329 ACAAGTTTCCTTGTATATGAATTCAGCCCATTATAAAAATCTCAATTTGTGTTTTTGGTTGAATG
456 ACAAGTTTCCTTGTATATGAATTCAGCCCATTATAAAAATCTCAATTTGTGTTTCTGGTTGAATG
*
11714394 TCGTACAGGGGACAAAGTCAAAGTAAAGATTTATAATGTTCCCACATGGTTTGAAGATTTTCATA
521 TCGTACAGGGGACAAAGTCAAAGTAAAGATTTATAATGTTCCCACATGGTGTGAAGATTTTCATA
* *
11714459 ATCCAACTGATGGTAAGCAATAATATCATTTTCAAGATGAACATTCGTTGTTGGTGGGTTAAATT
586 ATCCAACTGATGGTAAGCAATAATATCATTTTCAAGATGAACATTCATTGTTGGTGGGTTAAATC
* *
11714524 GCAAAACAAACTGTGTTACTAGTGCATCCCAAGAAGTAATTGATCCGGTAGATAGCCCAAAAAAC
651 ACAAAACAAACTGTGTTACTAGTGCATCCCAAGAAGTAATTGATCCAGTAGATAGCCCAAAAAAC
* *
11714589 CAAGTACGGGCTCTTCCCTATAAGGAATAAGGAAATAATTGCATCTTCAAGGCATCATCAGGATA
716 CAAGTACGGGATCTTCCCTATAAGGAATAAGGAAATAATTGCATCTTCAAGGCATCATCAAGATA
* * * ***
11714654 TCATAAGGATTAATGATATATCGATCCCACAGGGATGGTTGTTTTTTTTCTCGAAGTGTCGATGC
781 TCATAAGGAATAAGGATATATCGATCCCACAGGGATGGTTGTCTTTTTTCTATTAGTGTCGATGC
* *
11714719 AATAACTAGATAGAAACAGGATAAATTGTGAGGATAGTTATCAGAGCAACAACTTGAGAACAATA
846 AATAACTAGATAGAAACAAGATAAATTGTGAGGATAGTTATCAGAGCAACAACTTGAAAACAATA
11714784 AAATAAAATATGATAATTGCCCTG
911 AAATAAAATATGATAATTGCCCTG
11714808 AGTAGATGTATTCCCATATATGAATGTCGCAGCATTTTGTCTAGCATTCTGAGTTCCCCAAAATA
1 AGTAGATGTATTCCCATATATGAATGTCGCAGCATTTTGTCTAGCATTCTGAGTTCCCCAAAATA
* *
11714873 GTTGGTTGCGTGCAAAGTTGTTGTAAGAGTTACCTTAAGAATTGTTGTGGATGTACTAATATAAT
66 GTTGGTTGCGTGCAAAGTTGTTGTAAGAGTTACCATAAGAATTGTTGTGGATGTACTAATATAAC
11714938 AGGCATTCTTTGCATATTGTGGTCAATCTTCATAGCTATGGTTGTCACTACAAATCTCACAACAA
131 AGGCATTCTTTGCATATTGTGGTCAATCTTCATAGCTATGGTTGTCACTACAAATCTCACAACAA
* *
11715003 AAAGTAGGAACATCAACTTGTTAAGCGACTTGTATAGGTGCAACGCCACTAGTCTATTGCATATT
196 AAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCAT-TT
11715068 TTTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCAGTTATTGCATCCAATTCAATAA
260 TTTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCAGTTATTGCATCCAATTCAATAA
* * * *
11715133 CTCCGGGAGTAGTTTTTTCTTGTGCAGCTCTAGAGATAAGGTATTGATAATCATTCTGAGCAATT
325 CTCCGGGACTAGTTTTTGCTTGTGCAACTATAGAGATAAGGTATTGATAATCATTCTGAGCAATT
* * * *
11715198 CTCTCAAGACTTCTCACAGCATCATCATAAGTACAA-TCTAACAGAGGTCCATTGGCTGATGCGT
390 CTCTCAAGAATTCTCACAGCATCATTATAAGTACAATTC-AACAGAAGTCCATTGGCTGATGCAT
* * *
11715262 CGACAAGTTTCCTTGTATATGAATTCAGCCCGTTATAGAAATCTCAATTTGTATTTCTGGTTGAA
454 CGACAAGTTTCCTTGTATATGAATTCAGCCCATTATAAAAATCTCAATTTGTGTTTCTGGTTGAA
* * * *
11715327 TGTCGTGCATGGGACAAAGCCAAAGTAAAGATTTATAATGTTCCCACATGGTTTGAAGATTTTCA
519 TGTCGTACAGGGGACAAAGTCAAAGTAAAGATTTATAATGTTCCCACATGGTGTGAAGATTTTCA
*
11715392 TAATCCAACTGATGGTAAGCAATAATATCATTTTCAAGATGAACATTCGTTGTTGGTGGGTTAAA
584 TAATCCAACTGATGGTAAGCAATAATATCATTTTCAAGATGAACATTCATTGTTGGTGGGTTAAA
** *
11715457 TTGCAAAACAAACTGTGTTACTAGTGCATCCCAAGAAGTAATTGATCCGGTAGATAGCCCAAAAA
649 TCACAAAACAAACTGTGTTACTAGTGCATCCCAAGAAGTAATTGATCCAGTAGATAGCCCAAAAA
* * *
11715522 ACCAAGTACGGGCTCTTCCCTATAAGGAATAAGGAAATAATTACATCTTCAAGGCATCATCAGGA
714 ACCAAGTACGGGATCTTCCCTATAAGGAATAAGGAAATAATTGCATCTTCAAGGCATCATCAAGA
*
11715587 TATCATAAGGAATAAGGATATATCGATCCCACAGGGATGGTTGCCTTTTTTCTATTAGTGTCGAT
779 TATCATAAGGAATAAGGATATATCGATCCCACAGGGATGGTTGTCTTTTTTCTATTAGTGTCGAT
* * * * *
11715652 GCGATAACTAGATAGGAACAAGATAAATTGTGACGATAGTTGTTAGAGCAACAACTTGAAAACAA
844 GCAATAACTAGATAGAAACAAGATAAATTGTGAGGATAGTTATCAGAGCAACAACTTGAAAACAA
11715717 TAAAATAAAATATGATAATTGCCCTG
909 TAAAATAAAATATGATAATTGCCCTG
* * * * *
11715743 AGTAGATGTATTCCCATATCTAAACGTCGCAGTATTTTGTCTAGCATTCTGAGTTCCCCAAAACA
1 AGTAGATGTATTCCCATATATGAATGTCGCAGCATTTTGTCTAGCATTCTGAGTTCCCCAAAATA
* * * *
11715808 GTTGGTTGCGTGTAAAGTTGTTGTAAGAGTTACCATAGGAATTGTT-TCAGATGTAATAATATAA
66 GTTGGTTGCGTGCAAAGTTGTTGTAAGAGTTACCATAAGAATTGTTGT-GGATGTACTAATATAA
* * *** *
11715872 CAGACATTCTCTATTTATTGTGGTCAATCTTCATAGCTATGGTTATCACTACAAATCTCACAA-A
130 CAGGCATTCTTTGCATATTGTGGTCAATCTTCATAGCTATGGTTGTCACTACAAATCTCACAACA
* * *
11715936 AAAAGTAGGAAAATCAACTTGTTGAGCAACTTGTATAGGTGCAACGCCACTAGTCTATTGCATAT
195 AAAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCAT-T
11716001 TTTTAA
259 TTTTAA
11716007 CCAATGGGAT
Statistics
Matches: 2895, Mismatches: 164, Indels: 15
0.94 0.05 0.00
Matches are distributed among these distances:
933 3 0.00
934 2078 0.72
935 814 0.28
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (934 bp):
AGTAGATGTATTCCCATATATGAATGTCGCAGCATTTTGTCTAGCATTCTGAGTTCCCCAAAATA
GTTGGTTGCGTGCAAAGTTGTTGTAAGAGTTACCATAAGAATTGTTGTGGATGTACTAATATAAC
AGGCATTCTTTGCATATTGTGGTCAATCTTCATAGCTATGGTTGTCACTACAAATCTCACAACAA
AAAGTAGGAACATCAACTTGTTGAGCGACTTGCATAGGTGCAACGCCACTAGTCTATTGCATTTT
TTAATCATGTTTGTGTGAGAAGAAACTTGAGCACTTAGTGCAGTTATTGCATCCAATTCAATAAC
TCCGGGACTAGTTTTTGCTTGTGCAACTATAGAGATAAGGTATTGATAATCATTCTGAGCAATTC
TCTCAAGAATTCTCACAGCATCATTATAAGTACAATTCAACAGAAGTCCATTGGCTGATGCATCG
ACAAGTTTCCTTGTATATGAATTCAGCCCATTATAAAAATCTCAATTTGTGTTTCTGGTTGAATG
TCGTACAGGGGACAAAGTCAAAGTAAAGATTTATAATGTTCCCACATGGTGTGAAGATTTTCATA
ATCCAACTGATGGTAAGCAATAATATCATTTTCAAGATGAACATTCATTGTTGGTGGGTTAAATC
ACAAAACAAACTGTGTTACTAGTGCATCCCAAGAAGTAATTGATCCAGTAGATAGCCCAAAAAAC
CAAGTACGGGATCTTCCCTATAAGGAATAAGGAAATAATTGCATCTTCAAGGCATCATCAAGATA
TCATAAGGAATAAGGATATATCGATCCCACAGGGATGGTTGTCTTTTTTCTATTAGTGTCGATGC
AATAACTAGATAGAAACAAGATAAATTGTGAGGATAGTTATCAGAGCAACAACTTGAAAACAATA
AAATAAAATATGATAATTGCCCTG
Found at i:11721259 original size:24 final size:24
Alignment explanation
Indices: 11721226--11721324 Score: 101
Period size: 24 Copynumber: 4.2 Consensus size: 24
11721216 TAAACACGTG
* *
11721226 ATTCTGTAAGTTCCTTTGTGGCAT
1 ATTCTATAAGTGCCTTTGTGGCAT
* *
11721250 ATTCTATAAGTTCCTTTGTGGCGT
1 ATTCTATAAGTGCCTTTGTGGCAT
* * * *
11721274 ATT-TATAAGTGCCATTGTAGAAA
1 ATTCTATAAGTGCCTTTGTGGCAT
* *
11721297 ATTCTGTAAGTGCCTTTGTGGCGT
1 ATTCTATAAGTGCCTTTGTGGCAT
11721321 ATTC
1 ATTC
11721325 GAGGTTGCCT
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 17 0.28
24 43 0.72
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (24 bp):
ATTCTATAAGTGCCTTTGTGGCAT
Found at i:11722554 original size:153 final size:153
Alignment explanation
Indices: 11722267--11722576 Score: 530
Period size: 153 Copynumber: 2.0 Consensus size: 153
11722257 ATTTGATTCT
* *
11722267 TGTTCCCTATCTCTTTATTTTTTGCTGTTGTTATGCTAAACATATCTATCAATATTTATGTTGTT
1 TGTTCCCTATCTCTTTAATTTTTGCTATTGTTATGCTAAACATATCTATCAATATTTATGTTGTT
* ** *
11722332 GGAATGGTTAATTTAATCAATTTATCTTGAATTTAATTCGTGTTATGTTGATTGCATTTTGTTTT
66 GGAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTCGTGTTATGTTGATTGCATTTCATTTG
11722397 TTAAAATCATTAAAATTGTGTTA
131 TTAAAATCATTAAAATTGTGTTA
* *
11722420 TGTTCCCTATCTCTTTAATTTTTGTTATTGTTCTGCTAAACATATCTATCAATATTTATGTTGTT
1 TGTTCCCTATCTCTTTAATTTTTGCTATTGTTATGCTAAACATATCTATCAATATTTATGTTGTT
*
11722485 GGAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTTGTGTTATGTTGATTGCATTTCATTTG
66 GGAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTCGTGTTATGTTGATTGCATTTCATTTG
*
11722550 TTAAAATTATTAAAATTGTGTTA
131 TTAAAATCATTAAAATTGTGTTA
11722573 TGTT
1 TGTT
11722577 GTTATAGGCC
Statistics
Matches: 147, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
153 147 1.00
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (153 bp):
TGTTCCCTATCTCTTTAATTTTTGCTATTGTTATGCTAAACATATCTATCAATATTTATGTTGTT
GGAATGGTTAATTTAATCAATTTAGCTTGAATTTAATTCGTGTTATGTTGATTGCATTTCATTTG
TTAAAATCATTAAAATTGTGTTA
Found at i:11728853 original size:12 final size:13
Alignment explanation
Indices: 11728828--11728857 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
11728818 AGGGCTATAA
11728828 TTATTGCATTTAT
1 TTATTGCATTTAT
11728841 TTATTGC-TTTAT
1 TTATTGCATTTAT
11728853 TTATT
1 TTATT
11728858 CATGTATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (13 bp):
TTATTGCATTTAT
Found at i:11742474 original size:23 final size:19
Alignment explanation
Indices: 11742440--11742483 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 19
11742430 AACCAACAAA
11742440 AATATCAATTATAATTACTTC
1 AATATCAATTAT-A-TACTTC
11742461 AATATACATATTATATACTTC
1 AATAT-CA-ATTATATACTTC
11742482 AA
1 AA
11742484 ATGGCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 13 0.62
22 3 0.14
23 5 0.24
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATCAATTATATACTTC
Found at i:11746285 original size:6 final size:6
Alignment explanation
Indices: 11746270--11746307 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
11746260 TTACCATCTC
11746270 TTTC-T TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
11746308 GCCACAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:11751544 original size:26 final size:26
Alignment explanation
Indices: 11751507--11751664 Score: 217
Period size: 26 Copynumber: 6.1 Consensus size: 26
11751497 GTAATAGGCC
* * *
11751507 TAAATTATCGAAACACCCTCTATGGG
1 TAAATTACCGAAATACCCTCGATGGG
11751533 TAAATTACCGAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* * *
11751559 TAAATTACTGAAATACCCCCAATGGG
1 TAAATTACCGAAATACCCTCGATGGG
*
11751585 TAAATTATCGAAATACCCTCGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
*
11751611 TAAATTACCGAAATACCCTTGATGGG
1 TAAATTACCGAAATACCCTCGATGGG
* * *
11751637 TAAATTATCGAAATACCCCCGAAGGG
1 TAAATTACCGAAATACCCTCGATGGG
11751663 TA
1 TA
11751665 GAATGACTGT
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 116 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (26 bp):
TAAATTACCGAAATACCCTCGATGGG
Found at i:11751588 original size:52 final size:52
Alignment explanation
Indices: 11751528--11751682 Score: 211
Period size: 52 Copynumber: 3.0 Consensus size: 52
11751518 AACACCCTCT
*
11751528 ATGGGTAAATTACCGAAATACCCTCGATGGGTAAATTACTGAAATACCCCCA
1 ATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCCCA
* ***
11751580 ATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTACCGAAATACCCTTG
1 ATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCCCA
* * * **
11751632 ATGGGTAAATTATCGAAATACCCCCGAAGGGTAGAATGACTGTTATACCCC
1 ATGGGTAAATTATCGAAATACCCTCGATGGGTA-AATTACTGAAATACCCC
11751683 TAGGAGATAA
Statistics
Matches: 90, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
52 78 0.87
53 12 0.13
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (52 bp):
ATGGGTAAATTATCGAAATACCCTCGATGGGTAAATTACTGAAATACCCCCA
Found at i:11751636 original size:78 final size:78
Alignment explanation
Indices: 11751507--11751664 Score: 257
Period size: 78 Copynumber: 2.0 Consensus size: 78
11751497 GTAATAGGCC
*
11751507 TAAATTATCGAAACACCCTCTATGGGTAAATTACCGAAATACCCTCGATGGGTAAATTA-CTGAA
1 TAAATTATCGAAACACCCTCGATGGGTAAATTACCGAAATACCCTCGATGGGTAAATTATC-GAA
11751571 ATACCCCC-AATGGG
65 ATACCCCCGAA-GGG
* *
11751585 TAAATTATCGAAATACCCTCGATGGGTAAATTACCGAAATACCCTTGATGGGTAAATTATCGAAA
1 TAAATTATCGAAACACCCTCGATGGGTAAATTACCGAAATACCCTCGATGGGTAAATTATCGAAA
11751650 TACCCCCGAAGGG
66 TACCCCCGAAGGG
11751663 TA
1 TA
11751665 GAATGACTGT
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
78 72 0.96
79 3 0.04
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (78 bp):
TAAATTATCGAAACACCCTCGATGGGTAAATTACCGAAATACCCTCGATGGGTAAATTATCGAAA
TACCCCCGAAGGG
Found at i:11751917 original size:26 final size:26
Alignment explanation
Indices: 11751888--11751937 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
11751878 ACATATACTG
* *
11751888 TACTGGCAGCTCTGCTGCGATATTAT
1 TACTGGCAGCTATGCTGCAATATTAT
11751914 TACTGGCAGCTATGCTGCAATATT
1 TACTGGCAGCTATGCTGCAATATT
11751938 GGTGTGTGGG
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:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (26 bp):
TACTGGCAGCTATGCTGCAATATTAT
Found at i:11753263 original size:15 final size:14
Alignment explanation
Indices: 11753238--11753285 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
11753228 AATTTGAGAG
*
11753238 AAGAAAAAAAGAAA
1 AAGAGAAAAAGAAA
*
11753252 TGAGAGAAAAAGAAA
1 -AAGAGAAAAAGAAA
11753267 AAGAGATAAAAGAAA
1 AAGAGA-AAAAGAAA
11753282 AAGA
1 AAGA
11753286 AATTGAGAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (14 bp):
AAGAGAAAAAGAAA
Found at i:11753269 original size:21 final size:21
Alignment explanation
Indices: 11753232--11753287 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
11753222 TGAATGAATT
*
11753232 TGAGAGAAGAA-AAAAAGAAA
1 TGAGAGAAAAAGAAAAAGAAA
*
11753252 TGAGAGAAAAAGAAAAAGAGA
1 TGAGAGAAAAAGAAAAAGAAA
* *
11753273 TAAAAGAAAAAGAAA
1 TGAGAGAAAAAGAAA
11753288 TTGAGAGTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 10 0.32
21 21 0.68
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.05
Consensus pattern (21 bp):
TGAGAGAAAAAGAAAAAGAAA
Found at i:11755412 original size:20 final size:20
Alignment explanation
Indices: 11755369--11755416 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11755359 TTTAGCTTGG
* ** *
11755369 TTCAGCTCACTTAATTTTAT
1 TTCAGCTCACATAAGCTTAA
11755389 TTCAGCTCACATAAGCTTAA
1 TTCAGCTCACATAAGCTTAA
11755409 TTCAGCTC
1 TTCAGCTC
11755417 GTTTGAGCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (20 bp):
TTCAGCTCACATAAGCTTAA
Found at i:11759011 original size:38 final size:38
Alignment explanation
Indices: 11758969--11759041 Score: 110
Period size: 38 Copynumber: 1.9 Consensus size: 38
11758959 TAAGGGAATG
* ** *
11758969 AGAGAATTGATACTGCCCTAAATTTGGATGAATTCGTC
1 AGAGAATTGAAACCACCCTAAATTTGGATAAATTCGTC
11759007 AGAGAATTGAAACCACCCTAAATTTGGATAAATTC
1 AGAGAATTGAAACCACCCTAAATTTGGATAAATTC
11759042 ACCGGAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (38 bp):
AGAGAATTGAAACCACCCTAAATTTGGATAAATTCGTC
Found at i:11759225 original size:15 final size:15
Alignment explanation
Indices: 11759202--11759258 Score: 75
Period size: 15 Copynumber: 3.9 Consensus size: 15
11759192 TGCATAATAA
11759202 AATAAAATAAAAATCT
1 AATAAAATAAAAAT-T
11759218 AA-AAAAT-AAAA-T
1 AATAAAATAAAAATT
11759230 AATAACAATAAAAATT
1 AATAA-AATAAAAATT
11759246 AATAAAATAAAAA
1 AATAAAATAAAAA
11759259 ACTAAATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 2 0.05
14 7 0.19
15 17 0.46
16 8 0.22
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAAAATAAAAATT
Found at i:11759242 original size:20 final size:20
Alignment explanation
Indices: 11759200--11759258 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
11759190 AGTGCATAAT
*
11759200 AAAATAAAATAAAAATCTAA
1 AAAATAAAATAAAAATCAAA
11759220 AAAATAAAATAATAACAAT-AAA
1 AAAATAAAAT-A-AA-AATCAAA
11759242 AATTAATAAAATAAAAA
1 AA--AATAAAATAAAAA
11759259 ACTAAATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
20 10 0.30
21 3 0.09
22 8 0.24
23 4 0.12
24 8 0.24
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.20
Consensus pattern (20 bp):
AAAATAAAATAAAAATCAAA
Found at i:11759252 original size:29 final size:28
Alignment explanation
Indices: 11759202--11759257 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
11759192 TGCATAATAA
11759202 AATAAAATAAAAATCTAAAAAATAAAAT
1 AATAAAATAAAAATCTAAAAAATAAAAT
11759230 AATAACAATAAAAAT-TAATAAAATAAAA
1 AATAA-AATAAAAATCTAA-AAAATAAAA
11759258 AACTAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (28 bp):
AATAAAATAAAAATCTAAAAAATAAAAT
Found at i:11759768 original size:9 final size:9
Alignment explanation
Indices: 11759754--11759784 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11759744 GTTAAACGAA
11759754 TCGAGTTAT
1 TCGAGTTAT
*
11759763 TCGAGTTAA
1 TCGAGTTAT
11759772 TCGAGTTAT
1 TCGAGTTAT
11759781 TCGA
1 TCGA
11759785 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11759941 original size:21 final size:21
Alignment explanation
Indices: 11759900--11759942 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
11759890 ACCCCAAACT
*
11759900 CTCAAAACTTTTTACTTTTCC
1 CTCAAAACTTTTTACTATTCC
11759921 CTCAAAAC-TTTTACTCATTCC
1 CTCAAAACTTTTTACT-ATTCC
11759942 C
1 C
11759943 ACTTTCCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.42
Consensus pattern (21 bp):
CTCAAAACTTTTTACTATTCC
Found at i:11760112 original size:30 final size:31
Alignment explanation
Indices: 11760078--11760137 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11760068 AAACCTTTTA
*
11760078 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
11760108 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
11760138 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:11783438 original size:23 final size:23
Alignment explanation
Indices: 11783390--11783443 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
11783380 AGATTTATCA
*
11783390 ATTTAAG--TTTTAAAATCAATG
1 ATTTAAGCATTTTAAAATCAAAG
11783411 ATTTAAGCATTTTAAAATCCAAAG
1 ATTTAAGCATTTTAAAAT-CAAAG
*
11783435 -TTTATGCAT
1 ATTTAAGCAT
11783444 GTCTTTGGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
23 17 0.61
24 4 0.14
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATTTAAGCATTTTAAAATCAAAG
Found at i:11794429 original size:20 final size:19
Alignment explanation
Indices: 11794404--11794444 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
11794394 ATATATAATA
11794404 TATATTATATAATATATTTT
1 TATATTA-ATAATATATTTT
* *
11794424 TATATTAGTAATGTATTTT
1 TATATTAATAATATATTTT
11794443 TA
1 TA
11794445 AACTATTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TATATTAATAATATATTTT
Found at i:11794597 original size:40 final size:40
Alignment explanation
Indices: 11794526--11794614 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
11794516 AAATATATAA
* * * *
11794526 ATTTCGATTAATTCGGTTATCAAACTAAATTAACTGAAAT
1 ATTTCGATTAATTCAGTTAACAAACCAAATTAACCGAAAT
** *
11794566 ATTTCGATTAATTCAGTTAACGGACCGAATTAACCGAAAT
1 ATTTCGATTAATTCAGTTAACAAACCAAATTAACCGAAAT
11794606 ATTTCGATT
1 ATTTCGATT
11794615 CAACTAATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (40 bp):
ATTTCGATTAATTCAGTTAACAAACCAAATTAACCGAAAT
Found at i:11803985 original size:7 final size:7
Alignment explanation
Indices: 11803973--11804001 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
11803963 GAAAAGGGTG
11803973 TTTTCCA
1 TTTTCCA
11803980 TTTTCCA
1 TTTTCCA
11803987 TTTTCCA
1 TTTTCCA
11803994 TTTTCCA
1 TTTTCCA
11804001 T
1 T
11804002 GAATTGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.59
Consensus pattern (7 bp):
TTTTCCA
Found at i:11805033 original size:29 final size:28
Alignment explanation
Indices: 11805000--11805060 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
11804990 AAGCCGTTTT
11805000 TTTTTTCAAAATTTACCAAAATGGGCCGA
1 TTTTTTCAAAATTTACCAAAATGGGCC-A
* ** **
11805029 TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTCAAAATTTACCAAAATGGGCCA
11805057 TTTT
1 TTTT
11805061 CCGAGAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (28 bp):
TTTTTTCAAAATTTACCAAAATGGGCCA
Found at i:11805569 original size:123 final size:124
Alignment explanation
Indices: 11805260--11805608 Score: 601
Period size: 124 Copynumber: 2.8 Consensus size: 124
11805250 TTATTTCAAG
*
11805260 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTATG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
11805325 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATTGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
11805384 TTGACGTTTCTGAGAAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
11805449 AAATTGCGCCCTCGTGGACGCGATTTTGCGACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATTGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* * * *
11805508 TT-TCGTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGCTATTTGAAAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
11805572 AAATTGTGCCCTCGTGGATGCGATTTTGCTACAGTAG
66 AAATTGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
11805609 CAAGTTTGGG
Statistics
Matches: 213, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
123 91 0.43
124 122 0.57
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATTGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:11807981 original size:40 final size:40
Alignment explanation
Indices: 11807937--11808015 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
11807927 GACTGTGGGA
*
11807937 AGTTTGATACACTTCGTTATCCATGCGCTCATGTTATTGC
1 AGTTTGATACACTTCGCTATCCATGCGCTCATGTTATTGC
*
11807977 AGTTTGATGCACTTCGCTATCCATGCGCTCATGTTATTG
1 AGTTTGATACACTTCGCTATCCATGCGCTCATGTTATTG
11808016 TAAGTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (40 bp):
AGTTTGATACACTTCGCTATCCATGCGCTCATGTTATTGC
Found at i:11808092 original size:25 final size:26
Alignment explanation
Indices: 11808039--11808102 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
11808029 AAATTAGGGT
11808039 TTTTATTACATCAAATAGAACTTCAA
1 TTTTATTACATCAAATAGAACTTCAA
* * *
11808065 TTTTATTATATTAAATA-AACTTCTA
1 TTTTATTACATCAAATAGAACTTCAA
11808090 TTTTATTACATCA
1 TTTTATTACATCA
11808103 GATAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTTATTACATCAAATAGAACTTCAA
Found at i:11809199 original size:7 final size:7
Alignment explanation
Indices: 11809189--11809213 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11809179 TTATATACAT
11809189 AATACTA
1 AATACTA
11809196 AATACTA
1 AATACTA
11809203 AATACTA
1 AATACTA
11809210 AATA
1 AATA
11809214 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:11810325 original size:11 final size:10
Alignment explanation
Indices: 11810295--11810360 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
11810285 GCCATTGATG
*
11810295 AAAATATAAA
1 AAAATTTAAA
11810305 AAAATTTAAA
1 AAAATTTAAA
* *
11810315 ATTATTTTAAA
1 A-AAATTTAAA
*
11810326 AAAATATAAA
1 AAAATTTAAA
11810336 AAAATTTAAA
1 AAAATTTAAA
** *
11810346 ATTATTTTAA
1 AAAATTTAAA
11810356 AAAAT
1 AAAAT
11810361 GAAATTGAGG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 35 0.81
11 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:11810330 original size:31 final size:31
Alignment explanation
Indices: 11810295--11810359 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
11810285 GCCATTGATG
11810295 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
11810326 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
11810357 AAA
1 AAA
11810360 TGAAATTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:11810342 original size:21 final size:20
Alignment explanation
Indices: 11810295--11810346 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
11810285 GCCATTGATG
* *
11810295 AAAATATAAAAAAATTTAAA
1 AAAATTTAAAAAAATATAAA
* *
11810315 ATTATTTTAAAAAAATATAAA
1 A-AAATTTAAAAAAATATAAA
11810336 AAAATTTAAAA
1 AAAATTTAAAA
11810347 TTATTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATTTAAAAAAATATAAA
Found at i:11810426 original size:51 final size:51
Alignment explanation
Indices: 11810361--11810473 Score: 190
Period size: 51 Copynumber: 2.2 Consensus size: 51
11810351 TTTAAAAAAT
*
11810361 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGGAAG
* *
11810412 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGGAAG
*
11810463 GAAATTAAGAG
1 GAAATTGAGAG
11810474 AATTTTGGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.43, C:0.00, G:0.28, T:0.28
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTAAGAGAATTTTGGAAG
Found at i:11810473 original size:22 final size:22
Alignment explanation
Indices: 11810448--11810490 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11810438 TATGGGTTTG
*
11810448 AGAGAATTTTGGAAGGAAATTA
1 AGAGAATTTTGGAAGAAAATTA
11810470 AGAGAATTTTGGAAGAAAATT
1 AGAGAATTTTGGAAGAAAATT
11810491 GAGAAGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.28
Consensus pattern (22 bp):
AGAGAATTTTGGAAGAAAATTA
Found at i:11812215 original size:27 final size:27
Alignment explanation
Indices: 11812155--11812242 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
11812145 TTAGTCTTGC
11812155 GCCGCCAATCTCTTTGGCACCTTTGGT
1 GCCGCCAATCTCTTTGGCACCTTTGGT
*
11812182 -CAGGCCAATCTCTTTGGCACCTTTGGT
1 GC-CGCCAATCTCTTTGGCACCTTTGGT
* ** *
11812209 GCCGCCAATCACTTAAGCACTTTTGGT
1 GCCGCCAATCTCTTTGGCACCTTTGGT
11812236 GCCGCCA
1 GCCGCCA
11812243 CAGGTTTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.16, C:0.33, G:0.22, T:0.30
Consensus pattern (27 bp):
GCCGCCAATCTCTTTGGCACCTTTGGT
Found at i:11812334 original size:28 final size:28
Alignment explanation
Indices: 11812278--11812343 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
11812268 TTTTTTTGGT
***
11812278 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGGGATA
11812306 ATATTTTGGTAAATAAAAAAAAGGGATA
1 ATATTTTGGTAAATAAAAAAAAGGGATA
*
11812334 ACATTTTGGT
1 ATATTTTGGT
11812344 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGGGATA
Found at i:11813108 original size:19 final size:19
Alignment explanation
Indices: 11813084--11813123 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11813074 TCTATTTATA
11813084 AACATAAGAAGTATAAATG
1 AACATAAGAAGTATAAATG
11813103 AACATAAGAAGTATAAATG
1 AACATAAGAAGTATAAATG
11813122 AA
1 AA
11813124 GTAGAGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.05, G:0.15, T:0.20
Consensus pattern (19 bp):
AACATAAGAAGTATAAATG
Found at i:11813352 original size:22 final size:22
Alignment explanation
Indices: 11813324--11813367 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
11813314 TACTCCCCCT
11813324 CATGAGAACATCACATAATATA
1 CATGAGAACATCACATAATATA
11813346 CATGAGAACATCACATAATATA
1 CATGAGAACATCACATAATATA
11813368 TCATATTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.23
Consensus pattern (22 bp):
CATGAGAACATCACATAATATA
Found at i:11816126 original size:14 final size:15
Alignment explanation
Indices: 11816092--11816136 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
11816082 ATTAGTCTCC
11816092 AATTATAATAAATAT
1 AATTATAATAAATAT
11816107 AA-TATAATAAATA-
1 AATTATAATAAATAT
*
11816120 AATTATAGTAAAATAT
1 AATTATAAT-AAATAT
11816136 A
1 A
11816137 CCTGAGATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 16 0.62
15 7 0.27
16 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (15 bp):
AATTATAATAAATAT
Found at i:11822047 original size:9 final size:9
Alignment explanation
Indices: 11822033--11822064 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
11822023 GATCAAGTAA
11822033 AATAAAATT
1 AATAAAATT
11822042 AATAAAATT
1 AATAAAATT
11822051 AATTAAAATT
1 AA-TAAAATT
11822061 AATA
1 AATA
11822065 TTCAAGTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AATAAAATT
Found at i:11822059 original size:10 final size:10
Alignment explanation
Indices: 11822035--11822063 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11822025 TCAAGTAAAA
11822035 TAAAATTAA-
1 TAAAATTAAT
11822044 TAAAATTAAT
1 TAAAATTAAT
11822054 TAAAATTAAT
1 TAAAATTAAT
11822064 ATTCAAGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAAAATTAAT
Found at i:11822498 original size:16 final size:17
Alignment explanation
Indices: 11822435--11822581 Score: 55
Period size: 17 Copynumber: 8.9 Consensus size: 17
11822425 TCTAAAAATA
* *
11822435 ATATTATTTTAATA-CT
1 ATATTAATTTAATATTT
*
11822451 AAATTAAATTTAATATTT
1 ATATT-AATTTAATATTT
* *
11822469 ATATTGA--TAGTATTT
1 ATATTAATTTAATATTT
*
11822484 -TATTAATTTAATATTAAA
1 ATATTAATTTAATATT--T
*
11822502 ATATTAAATTAAT-TTT
1 ATATTAATTTAATATTT
*
11822518 ATA--AGATTTAATATTG
1 ATATTA-ATTTAATATTT
*
11822534 A-ATTTAATCTAATATTT
1 ATA-TTAATTTAATATTT
* * *
11822551 ATCTTGA--TAAGTA-TA
1 ATATTAATTTAA-TATTT
11822566 ATATTAATTTAATATT
1 ATATTAATTTAATATT
11822582 AAAGTGTTTA
Statistics
Matches: 94, Mismatches: 20, Indels: 33
0.64 0.14 0.22
Matches are distributed among these distances:
14 6 0.06
15 23 0.24
16 20 0.21
17 26 0.28
18 8 0.09
19 11 0.12
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (17 bp):
ATATTAATTTAATATTT
Found at i:11841015 original size:11 final size:11
Alignment explanation
Indices: 11840992--11841027 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
11840982 GATTTACAAC
11840992 TAAATCTGAGCT
1 TAAATC-GAGCT
11841004 TAAATCGAGCT
1 TAAATCGAGCT
*
11841015 TAAATCAAGCT
1 TAAATCGAGCT
11841026 TA
1 TA
11841028 CATAAGCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (11 bp):
TAAATCGAGCT
Found at i:11841897 original size:13 final size:13
Alignment explanation
Indices: 11841879--11841903 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11841869 TGGATTAGAT
11841879 TTGATTATGTAAG
1 TTGATTATGTAAG
11841892 TTGATTATGTAA
1 TTGATTATGTAA
11841904 TCTTGTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAG
Found at i:11843612 original size:5 final size:5
Alignment explanation
Indices: 11843602--11843672 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
11843592 AAAAAAATAT
* *
11843602 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TTATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA -TATTA
11843648 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
11843673 ACATAAAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 4 0.07
4 8 0.15
5 31 0.56
6 11 0.20
7 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:11843654 original size:19 final size:19
Alignment explanation
Indices: 11843630--11843672 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
11843620 ATTATGTTTT
11843630 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
11843649 TATATTATATTATATTATA
1 TATATTATATTATATTATA
11843668 TATAT
1 TATAT
11843673 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:11844345 original size:29 final size:30
Alignment explanation
Indices: 11844286--11844343 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11844276 TCCGAGCCTT
*
11844286 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
11844316 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
11844344 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:11844573 original size:13 final size:13
Alignment explanation
Indices: 11844555--11844586 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11844545 TTTCCAGCAA
11844555 TTATGAATTTATT
1 TTATGAATTTATT
11844568 TTATGAATTTATT
1 TTATGAATTTATT
*
11844581 TGATGA
1 TTATGA
11844587 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:11844794 original size:50 final size:50
Alignment explanation
Indices: 11844681--11844922 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
11844671 ATTTGGGTAA
* * *
11844681 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
11844737 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11844787 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
11844837 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
11844887 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
11844923 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:11844870 original size:100 final size:103
Alignment explanation
Indices: 11844681--11844930 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
11844671 ATTTGGGTAA
11844681 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
11844746 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
11844787 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
11844849 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
11844887 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
11844931 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:11848669 original size:45 final size:45
Alignment explanation
Indices: 11848606--11848819 Score: 239
Period size: 45 Copynumber: 4.8 Consensus size: 45
11848596 GTTAGAAAAT
* * * *
11848606 CAACACCGGTACATAGTACCTATTGTATGTATATGGCATGATAGT
1 CAACACCGGTACATAGTACCTGTTGTATGTATATAGCATGAAAGC
* * * *
11848651 CAACACCGGTACATAGTACCTATTGTATTTGTATGGCATGAAAGC
1 CAACACCGGTACATAGTACCTGTTGTATGTATATAGCATGAAAGC
* * * *
11848696 CAACACCGGTAAATAGTACTTGCTGTATGTATATAGCATGATAGC
1 CAACACCGGTACATAGTACCTGTTGTATGTATATAGCATGAAAGC
* * * *
11848741 CAACACCGGTACATAATACTTGCTGTATTTATATAGCATGAAAGC
1 CAACACCGGTACATAGTACCTGTTGTATGTATATAGCATGAAAGC
* * ** *
11848786 CGATACTAGTACATACTACCTGTTGTATGTATAT
1 CAACACCGGTACATAGTACCTGTTGTATGTATAT
11848820 CCTAATTGTT
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 145 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (45 bp):
CAACACCGGTACATAGTACCTGTTGTATGTATATAGCATGAAAGC
Found at i:11848813 original size:90 final size:90
Alignment explanation
Indices: 11848606--11848819 Score: 266
Period size: 90 Copynumber: 2.4 Consensus size: 90
11848596 GTTAGAAAAT
* * * * *
11848606 CAACACCGGTACATAGTACCTATTGTATGTATATGGCATGATAGTCAACACCGGTACATAGTACC
1 CAACACCAGTACATAGTACCTGTTGTATGTATATAGCATGATAGCCAACACCGGTACATAATACC
* * *
11848671 TATTGTATTTGTATGGCATGAAAGC
66 TACTGTATTTATATAGCATGAAAGC
* * * * *
11848696 CAACACCGGTAAATAGTACTTGCTGTATGTATATAGCATGATAGCCAACACCGGTACATAATACT
1 CAACACCAGTACATAGTACCTGTTGTATGTATATAGCATGATAGCCAACACCGGTACATAATACC
*
11848761 TGCTGTATTTATATAGCATGAAAGC
66 TACTGTATTTATATAGCATGAAAGC
* * * *
11848786 CGATACTAGTACATACTACCTGTTGTATGTATAT
1 CAACACCAGTACATAGTACCTGTTGTATGTATAT
11848820 CCTAATTGTT
Statistics
Matches: 104, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 104 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (90 bp):
CAACACCAGTACATAGTACCTGTTGTATGTATATAGCATGATAGCCAACACCGGTACATAATACC
TACTGTATTTATATAGCATGAAAGC
Found at i:11852503 original size:88 final size:87
Alignment explanation
Indices: 11852355--11852525 Score: 272
Period size: 88 Copynumber: 2.0 Consensus size: 87
11852345 CTTCTTTACA
* * *
11852355 AGACTTGTTTACCTATCTAATTTTGTATAGGATCCAATGCTTCATTTATATACATATTTCCATTC
1 AGACTTGTTTACATATCTAATTTCGTATAGGATCCAATGCTTCATTTATATACATATTTCCATTA
*
11852420 CATGTTTATATGAAAGTGCGTG
66 CATGTTGATATGAAAGTGCGTG
*
11852442 AGACTTGTTTACATATCTTAATTTCGTATAGGGTCCAATGCTT-ACTTTATATACATATTTCCAT
1 AGACTTGTTTACATATC-TAATTTCGTATAGGATCCAATGCTTCA-TTTATATACATATTTCCAT
11852506 TACATGTTGATATGAAAGTG
64 TACATGTTGATATGAAAGTG
11852526 TGCGGATAAG
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
87 17 0.22
88 60 0.78
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (87 bp):
AGACTTGTTTACATATCTAATTTCGTATAGGATCCAATGCTTCATTTATATACATATTTCCATTA
CATGTTGATATGAAAGTGCGTG
Found at i:11852928 original size:23 final size:22
Alignment explanation
Indices: 11852902--11852953 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
11852892 ATTATATAAT
11852902 TAAATAATTAGGAATTAATTA-AA
1 TAAATAATTA-GAA-TAATTAGAA
11852925 TAAA-ATATTAGAATAATTAGAA
1 TAAATA-ATTAGAATAATTAGAA
*
11852947 TTAATAA
1 TAAATAA
11852954 CTTCAGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 9 0.36
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (22 bp):
TAAATAATTAGAATAATTAGAA
Found at i:11854728 original size:18 final size:18
Alignment explanation
Indices: 11854700--11854755 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
11854690 TATATTATTA
11854700 TGGCGAACTGTATTAATT
1 TGGCGAACTGTATTAATT
* * *
11854718 TGGTGATCTGTATTAATA
1 TGGCGAACTGTATTAATT
*
11854736 TGGCGAACTATATTAATT
1 TGGCGAACTGTATTAATT
11854754 TG
1 TG
11854756 CCAAATTGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
TGGCGAACTGTATTAATT
Found at i:11857705 original size:17 final size:17
Alignment explanation
Indices: 11857622--11857705 Score: 89
Period size: 17 Copynumber: 4.9 Consensus size: 17
11857612 TTATGATGTA
* *
11857622 GTATGAACTATTATTTT
1 GTATGAACTGTTATTTG
*
11857639 GTATGAACTGTTATGTG
1 GTATGAACTGTTATTTG
*
11857656 TTATGAACTGCTTA-TTG
1 GTATGAACTG-TTATTTG
* *
11857673 GAATGAACTGTCATTTG
1 GTATGAACTGTTATTTG
*
11857690 GTATGTACTGTTATTT
1 GTATGAACTGTTATTT
11857706 CATATGAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
16 2 0.04
17 49 0.91
18 3 0.06
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.46
Consensus pattern (17 bp):
GTATGAACTGTTATTTG
Found at i:11857713 original size:34 final size:34
Alignment explanation
Indices: 11857617--11857713 Score: 88
Period size: 34 Copynumber: 2.9 Consensus size: 34
11857607 ATGAGTTATG
* * ** *
11857617 ATGTAGTATGAACTATTATTTTGTATGAACTGTT
1 ATGTGGTATGAACTGTTATTTCATATGAACTGTC
* **
11857651 ATGTGTTATGAACTGCTTATTGGA-ATGAACTGTC
1 ATGTGGTATGAACTG-TTATTTCATATGAACTGTC
* *
11857685 ATTTGGTATGTACTGTTATTTCATATGAA
1 ATGTGGTATGAACTGTTATTTCATATGAA
11857714 TAGATGTTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
33 6 0.12
34 38 0.78
35 5 0.10
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (34 bp):
ATGTGGTATGAACTGTTATTTCATATGAACTGTC
Found at i:11859972 original size:35 final size:35
Alignment explanation
Indices: 11859925--11860023 Score: 117
Period size: 35 Copynumber: 2.8 Consensus size: 35
11859915 CAGATGTTCA
* * * *
11859925 TAAGAGCCAATCCATCTGAAAGACACCAACGCTCG
1 TAAGAGCTAATCCATCCGAAACACACCAACGCTAG
* *
11859960 TAAGAGCTAATCCCTCCGAAACACACCAATGCTAG
1 TAAGAGCTAATCCATCCGAAACACACCAACGCTAG
* * *
11859995 TAAGAGCTAGTCTAACCGAAACACACCAA
1 TAAGAGCTAATCCATCCGAAACACACCAA
11860024 AACAGAGAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.39, C:0.30, G:0.15, T:0.15
Consensus pattern (35 bp):
TAAGAGCTAATCCATCCGAAACACACCAACGCTAG
Found at i:11863266 original size:30 final size:29
Alignment explanation
Indices: 11863232--11863289 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
11863222 GTATAAATAC
*
11863232 AAAAATATTTATTAGAAAAATA-AAATATAG
1 AAAAATATTCA-TA-AAAAATATAAATATAG
11863262 AAAAATATTCATAAAAAATATAAATATA
1 AAAAATATTCATAAAAAATATAAATATA
11863290 TATACATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 9 0.35
30 10 0.38
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAAATATTCATAAAAAATATAAATATAG
Found at i:11863292 original size:23 final size:23
Alignment explanation
Indices: 11863253--11863297 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
11863243 TTAGAAAAAT
*
11863253 AAAATATAGAAAAATATTCATAA
1 AAAATATAGAAAAATATACATAA
*
11863276 AAAATATA-AATATATATACATA
1 AAAATATAGAA-AAATATACATA
11863298 TGTAGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAATATAGAAAAATATACATAA
Found at i:11875433 original size:18 final size:19
Alignment explanation
Indices: 11875396--11875436 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
11875386 AATATTATTT
* *
11875396 TAATGTATTATAAATTACA
1 TAATGTATTAAAAATAACA
11875415 TAATGTA-TAAAAATAACA
1 TAATGTATTAAAAATAACA
11875433 TAAT
1 TAAT
11875437 ATAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (19 bp):
TAATGTATTAAAAATAACA
Found at i:11875519 original size:15 final size:15
Alignment explanation
Indices: 11875501--11875530 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11875491 ATGTTCAAGC
11875501 CCATTTCAAACCTAA
1 CCATTTCAAACCTAA
*
11875516 CCATTTCGAACCTAA
1 CCATTTCAAACCTAA
11875531 TATTTTTGTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.33, G:0.03, T:0.27
Consensus pattern (15 bp):
CCATTTCAAACCTAA
Found at i:11875847 original size:69 final size:70
Alignment explanation
Indices: 11875733--11875877 Score: 204
Period size: 69 Copynumber: 2.1 Consensus size: 70
11875723 TCACGTAAGT
* *
11875733 TTTTAGAGCTCTCAAGGTTGAAATAGGTTAAAGCATACTAGAAGTTCTAGTACCATTTCAAAAAG
1 TTTTAGAGCTCTCAAGGTAGAAATAGGTTAAAGCATACTACAAGTTCTAGTACCATTTCAAAAAG
11875798 -CTCA
66 TCTCA
* ** *
11875802 TTTTAGA-CTCCTCAAGGTAGAAATTGGTTAAAGTTTACTACAAGTTTTAGTACCATTTCAAAAA
1 TTTTAGAGCT-CTCAAGGTAGAAATAGGTTAAAGCATACTACAAGTTCTAGTACCATTTCAAAAA
*
11875866 GTTTCA
65 GTCTCA
11875872 TTTTAG
1 TTTTAG
11875878 TCACTGCACA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 2 0.03
69 56 0.84
70 9 0.13
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (70 bp):
TTTTAGAGCTCTCAAGGTAGAAATAGGTTAAAGCATACTACAAGTTCTAGTACCATTTCAAAAAG
TCTCA
Found at i:11878106 original size:10 final size:11
Alignment explanation
Indices: 11878091--11878119 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
11878081 TGATAATAGA
11878091 AAAAGAAAA-G
1 AAAAGAAAAGG
11878101 AAAAGAAAAGG
1 AAAAGAAAAGG
11878112 AAAAGAAA
1 AAAAGAAA
11878120 CGTTAGTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGG
Found at i:11878109 original size:16 final size:16
Alignment explanation
Indices: 11878088--11878119 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11878078 AAATGATAAT
11878088 AGAAAAAGAAAAGAAA
1 AGAAAAAGAAAAGAAA
*
11878104 AGAAAAGGAAAAGAAA
1 AGAAAAAGAAAAGAAA
11878120 CGTTAGTTCT
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:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAAAGAAA
Found at i:11884601 original size:70 final size:70
Alignment explanation
Indices: 11884488--11884627 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
11884478 TTAAAATAAA
11884488 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACTAAATGCCAAAATATCATTAGATG
1 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACTAAATGCCAAAATATCATTAGATG
11884553 TGATG
66 TGATG
*
11884558 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCTGATACTAAATGCCAAAATATCATTAGATG
1 CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACTAAATGCCAAAATATCATTAGATG
11884623 TGATG
66 TGATG
11884628 GCATTGAATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.24
Consensus pattern (70 bp):
CTTTAACAAAAGCCAACATTAAATCCAAAAGCACCAGATACTAAATGCCAAAATATCATTAGATG
TGATG
Found at i:11889541 original size:2 final size:2
Alignment explanation
Indices: 11889536--11889570 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
11889526 AAAATTTTAA
*
11889536 AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11889571 AATTAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11892353 original size:130 final size:130
Alignment explanation
Indices: 11892120--11892483 Score: 701
Period size: 130 Copynumber: 2.8 Consensus size: 130
11892110 AGGGTATTTA
*
11892120 TTTATAACATTGATATGAAACGAAATTGTATGATAACTTATTTTAGCTTGTCTTGGCTTGGAATA
1 TTTATAACATTGATATGAAACAAAATTGTATGATAACTTATTTTAGCTTGTCTTGGCTTGGAATA
11892185 TGTTGAAATTGAAATCAAATCGTCTGTCAAGGGAAATTTTCATATACTACCTTGAACTTATTTTC
66 TGTTGAAATTGAAATCAAATCGTCTGTCAAGGGAAATTTTCATATACTACCTTGAACTTATTTTC
11892250 TTTATAACATTGATATGAAACAAAATTGTATGATAACTTATTTTAGCTTGTCTTGGCTTGGAATA
1 TTTATAACATTGATATGAAACAAAATTGTATGATAACTTATTTTAGCTTGTCTTGGCTTGGAATA
11892315 TGTTGAAATTGAAATCAAATCGTCTGTCAAGGGAAATTTTCATATACTACCTTGAACTTATTTTC
66 TGTTGAAATTGAAATCAAATCGTCTGTCAAGGGAAATTTTCATATACTACCTTGAACTTATTTTC
11892380 TTTATAACATTGATATGAAACAAAATTGTATGATAACTTATTTTAGCTTGTCTTGGCTTGGAATA
1 TTTATAACATTGATATGAAACAAAATTGTATGATAACTTATTTTAGCTTGTCTTGGCTTGGAATA
* *
11892445 TGTTGAAACTGAAATCAAATCGTCTGTCAAGAGAAATTT
66 TGTTGAAATTGAAATCAAATCGTCTGTCAAGGGAAATTT
11892484 AACTTATATC
Statistics
Matches: 231, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 231 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (130 bp):
TTTATAACATTGATATGAAACAAAATTGTATGATAACTTATTTTAGCTTGTCTTGGCTTGGAATA
TGTTGAAATTGAAATCAAATCGTCTGTCAAGGGAAATTTTCATATACTACCTTGAACTTATTTTC
Found at i:11893562 original size:25 final size:25
Alignment explanation
Indices: 11893534--11893592 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
11893524 GAAGCTCTAT
11893534 TTGCAATTCAAGAGGTATTTTATAG
1 TTGCAATTCAAGAGGTATTTTATAG
*
11893559 TTGCAATTCAAGAGGTTTTTTATAG
1 TTGCAATTCAAGAGGTATTTTATAG
11893584 TTGCAATTC
1 TTGCAATTC
11893593 CAGTAAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (25 bp):
TTGCAATTCAAGAGGTATTTTATAG
Found at i:11893836 original size:32 final size:32
Alignment explanation
Indices: 11893795--11893857 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
11893785 GCTTGCACTA
11893795 GTGTATATTCATATACAACGCATTAATTAAAT
1 GTGTATATTCATATACAACGCATTAATTAAAT
11893827 GTGTATATTCATATACAACGCATTAATTAAA
1 GTGTATATTCATATACAACGCATTAATTAAA
11893858 AATATTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (32 bp):
GTGTATATTCATATACAACGCATTAATTAAAT
Found at i:11894140 original size:64 final size:64
Alignment explanation
Indices: 11893974--11894150 Score: 275
Period size: 66 Copynumber: 2.7 Consensus size: 64
11893964 AAATAAAATA
*
11893974 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTTATAACATAT
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTGAT-A-ATAT
*
11894039 T
64 G
* * *
11894040 AAAATTGGATCATTAGATATAATCAAGTAAATAACTTGATTAGAAAACAATTATTGGAT-ATATG
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATT-GATAATATG
11894104 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAA
1 AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAA
11894151 AATATTCATT
Statistics
Matches: 103, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
64 49 0.48
66 52 0.50
67 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (64 bp):
AAAATTGGATCATTAGATATAATCAAGTAAACAACTTGATTAAAAAACAAATATTGATAATATG
Found at i:11895958 original size:49 final size:49
Alignment explanation
Indices: 11895901--11896004 Score: 147
Period size: 49 Copynumber: 2.1 Consensus size: 49
11895891 TTATGTGTTA
* * * *
11895901 TAATTTTATACAGTGTTGA-GTTTGTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTT-TGATTCATGATATTAAACTCAATTT
*
11895950 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
11895999 TAATTT
1 TAATTT
11896005 GTTTTTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 46 0.94
50 3 0.06
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.49
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAATTT
Found at i:11897719 original size:39 final size:41
Alignment explanation
Indices: 11897665--11897775 Score: 109
Period size: 44 Copynumber: 2.6 Consensus size: 41
11897655 TTTCCTTATG
* * *
11897665 CTATTACACATCTATTCCATTCAGCCAAACACAAGAA-TA-
1 CTATTACGCCTCTATTCCATTCAGCCAAACAAAAGAATTAC
* *
11897704 CTATTATGCCTCTATTCCATTCTATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C---C-ATTCAGCCAAACAAAAGAATTAC
11897750 CTATTACGCCTCTATTCCATTACAGC
1 CTATTACGCCTCTATTCCATT-CAGC
11897776 GAACCAAACG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
39 13 0.23
40 1 0.02
41 3 0.05
42 4 0.07
43 1 0.02
44 17 0.30
45 3 0.05
46 15 0.26
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAGCCAAACAAAAGAATTAC
Found at i:11897737 original size:44 final size:46
Alignment explanation
Indices: 11897678--11897770 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
11897668 TTACACATCT
* * *
11897678 ATTCCATTCAGCCAAACACAAGAA-TA-CTATTATGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
*
11897722 ATTCTATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
11897768 ATT
1 ATT
11897771 ACAGCGAACC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 21 0.49
45 2 0.05
46 20 0.47
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.31
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCC
Found at i:11900510 original size:49 final size:49
Alignment explanation
Indices: 11900435--11900528 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
11900425 TGCTATGCAA
* *
11900435 TGCTAAACTTGGTCTTCAACTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTTAGTCTTCAACTATCTACACTCTTATCACTATTTATACAT
*
11900484 TGCTAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTTAT
1 TGCTAAACTTAGTCTTCAACTATCTACACTCTTATCACTATTTAT
11900529 CCCTTCTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (49 bp):
TGCTAAACTTAGTCTTCAACTATCTACACTCTTATCACTATTTATACAT
Found at i:11901815 original size:18 final size:19
Alignment explanation
Indices: 11901781--11901823 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
11901771 TCTTAATTCA
*
11901781 TCATTTCATATTTCATTTC
1 TCATCTCATATTTCATTTC
11901800 TCATCTCATA-TTCATTTC
1 TCATCTCATATTTCATTTC
11901818 TCATCT
1 TCATCT
11901824 TTGTCATTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (19 bp):
TCATCTCATATTTCATTTC
Found at i:11908836 original size:11 final size:11
Alignment explanation
Indices: 11908822--11908851 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
11908812 TATTAACCAC
11908822 ACCACCACCGG
1 ACCACCACCGG
11908833 ACCACCACCGG
1 ACCACCACCGG
11908844 ACCACCAC
1 ACCACCAC
11908852 TACACCATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.57, G:0.13, T:0.00
Consensus pattern (11 bp):
ACCACCACCGG
Found at i:11913673 original size:18 final size:19
Alignment explanation
Indices: 11913650--11913695 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
11913640 TTGATAGAAT
*
11913650 AAAAATAAA-TAAAGAAAG
1 AAAAATAAACAAAAGAAAG
*
11913668 AAAAATAAACAAAAGAAAT
1 AAAAATAAACAAAAGAAAG
11913687 AAAAA-AAAC
1 AAAAATAAAC
11913696 CAATTAGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (19 bp):
AAAAATAAACAAAAGAAAG
Found at i:11916540 original size:24 final size:24
Alignment explanation
Indices: 11916512--11916561 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
11916502 GGGTTAAAGT
*
11916512 GATAGATTTTAAGTTTATAACTGA
1 GATAGATTTTAAGTTTAGAACTGA
*
11916536 GATAGATTTTAAGTTTAGAATTGA
1 GATAGATTTTAAGTTTAGAACTGA
11916560 GA
1 GA
11916562 AAAGGACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.40
Consensus pattern (24 bp):
GATAGATTTTAAGTTTAGAACTGA
Done.