Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 41 of 173
Found at i:11078403 original size:41 final size:39
Alignment explanation
Indices: 11078286--11078407 Score: 124
Period size: 37 Copynumber: 3.1 Consensus size: 39
11078276 TTTGGTACCT
* * *
11078286 AGTGCCTCATCGGATAATTCGAAGTAATAAATTGACACCC
1 AGTGCCTCAT-TGATAATCCGAAGTAGTAAATTGACACCC
* * * *
11078326 AGTGTCTCATTGGCTAAACCG-A--AGTAAATTGGCACCC
1 AGTGCCTCATT-GATAATCCGAAGTAGTAAATTGACACCC
11078363 AGTGCCTCATTGAATTAATCCGAAGTAGTAAATTGACACCC
1 AGTGCCTCATTG-A-TAATCCGAAGTAGTAAATTGACACCC
11078404 AGTG
1 AGTG
11078408 TCTCGTCGAC
Statistics
Matches: 65, Mismatches: 11, Indels: 11
0.75 0.13 0.13
Matches are distributed among these distances:
36 1 0.02
37 23 0.35
38 6 0.09
39 2 0.03
40 15 0.23
41 18 0.28
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (39 bp):
AGTGCCTCATTGATAATCCGAAGTAGTAAATTGACACCC
Found at i:11079410 original size:7 final size:7
Alignment explanation
Indices: 11079398--11079422 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11079388 GTTTTATTAT
11079398 TATAATA
1 TATAATA
11079405 TATAATA
1 TATAATA
11079412 TATAATA
1 TATAATA
11079419 TATA
1 TATA
11079423 TACTTATAGA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:11081366 original size:40 final size:38
Alignment explanation
Indices: 11081322--11081397 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 38
11081312 CGTTTGGATA
* * *
11081322 AAAACGCTGCTAAAGATTGAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAA-AATAAGCATTAGCGGCG-TTTTTGG
11081362 AAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTT
1 AAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTT
11081398 CAAGAAGCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 5 0.15
39 15 0.45
40 13 0.39
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (38 bp):
AAAACGCCGCTAAAAATAAGCATTAGCGGCGTTTTTGG
Found at i:11081416 original size:39 final size:39
Alignment explanation
Indices: 11081341--11081416 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 39
11081331 CTAAAGATTG
* * *
11081341 AGCATTAGCGGCGCTTTTTGGAAAACGCCGCTAAAAATA
1 AGCATTAGCGGCGCTTTTTGCAAAACGCCACAAAAAATA
11081380 AGCATTAGCGGCG-TTTTT-CAAGAAGCGCCACAAAAAA
1 AGCATTAGCGGCGCTTTTTGCAA-AA-CGCCACAAAAAA
11081417 CCTATGCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 2 0.06
38 7 0.22
39 23 0.72
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCATTAGCGGCGCTTTTTGCAAAACGCCACAAAAAATA
Found at i:11082624 original size:21 final size:21
Alignment explanation
Indices: 11082600--11082655 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
11082590 TAAGGTTTAA
11082600 GGGTTAGGGGTTAGACGTTAG
1 GGGTTAGGGGTTAGACGTTAG
11082621 GGGTTAGGGGTTAGACGTTAG
1 GGGTTAGGGGTTAGACGTTAG
*
11082642 GGGTTAGGGTTTAG
1 GGGTTAGGGGTTAG
11082656 GGTTTATGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.18, C:0.04, G:0.48, T:0.30
Consensus pattern (21 bp):
GGGTTAGGGGTTAGACGTTAG
Found at i:11082661 original size:7 final size:7
Alignment explanation
Indices: 11082600--11082657 Score: 71
Period size: 7 Copynumber: 8.3 Consensus size: 7
11082590 TAAGGTTTAA
11082600 GGGTTAG
1 GGGTTAG
11082607 GGGTTAG
1 GGGTTAG
**
11082614 ACGTTAG
1 GGGTTAG
11082621 GGGTTAG
1 GGGTTAG
11082628 GGGTTAG
1 GGGTTAG
**
11082635 ACGTTAG
1 GGGTTAG
11082642 GGGTTAG
1 GGGTTAG
*
11082649 GGTTTAG
1 GGGTTAG
11082656 GG
1 GG
11082658 TTTATGTTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.17, C:0.03, G:0.50, T:0.29
Consensus pattern (7 bp):
GGGTTAG
Found at i:11085550 original size:37 final size:37
Alignment explanation
Indices: 11085485--11085667 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
11085475 TACGTATGAT
* *
11085485 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11085520 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11085557 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11085594 CACTTATCACTTTGTTTCTTGATCAAATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
11085631 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
11085668 TAAAGCTATC
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 10 0.07
36 3 0.02
37 126 0.91
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:11085640 original size:111 final size:114
Alignment explanation
Indices: 11085485--11085714 Score: 326
Period size: 111 Copynumber: 2.0 Consensus size: 114
11085475 TACGTATGAT
* *
11085485 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGATAA
1 CACTTATCACTTGTCCCTGATCAAATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGATAA
*
11085550 -GT-G-T-AGC-CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
66 GGTAGCTAAGCTCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
* *
11085594 CACTTATCACTTTGTTTCTTGATCAAATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGAT
1 CACTTATCAC-TTG-TCCCTGATCAAATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGAT
11085659 AAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
64 AAG-GTAGCT-AAGC--TCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
11085714 C
1 C
11085715 GAAGCTATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
109 10 0.10
110 3 0.03
111 48 0.46
113 2 0.02
114 1 0.01
115 1 0.01
117 3 0.03
120 37 0.35
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (114 bp):
CACTTATCACTTGTCCCTGATCAAATAAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGATAA
GGTAGCTAAGCTCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
Found at i:11085684 original size:46 final size:46
Alignment explanation
Indices: 11085631--11085998 Score: 448
Period size: 46 Copynumber: 7.6 Consensus size: 46
11085621 TAAGTGTAGC
* **
11085631 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
11085677 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11085723 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11085775 CACTTATCACTTTCCATTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCA-----C--TTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11085828 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
11085874 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
11085920 TACTTATCACTTTCCACTAGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC-TT----T-GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
11085972 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
11085999 AGTACTCAAA
Statistics
Matches: 288, Mismatches: 17, Indels: 34
0.85 0.05 0.10
Matches are distributed among these distances:
46 156 0.54
47 3 0.01
48 1 0.00
49 1 0.00
51 3 0.01
52 79 0.27
53 42 0.15
56 2 0.01
57 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:11085750 original size:52 final size:52
Alignment explanation
Indices: 11085674--11085992 Score: 392
Period size: 52 Copynumber: 6.3 Consensus size: 52
11085664 TAGCTAAAGC
* *
11085674 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
11085727 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * *
11085779 TATCACTTTCCATTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCA-CTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11085832 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
11085878 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * * ** *
11085924 TATCACTTTCCACTAGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
11085976 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
11085993 ATCAGAAGTA
Statistics
Matches: 237, Mismatches: 21, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
46 88 0.37
52 89 0.38
53 60 0.25
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:11085993 original size:98 final size:96
Alignment explanation
Indices: 11085643--11085998 Score: 477
Period size: 98 Copynumber: 3.6 Consensus size: 96
11085633 CTTATCACTT
* * *
11085643 TGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAG
1 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
11085708 TATAGCCGAAGCTATCACTTATCACTTTTCAC
66 TATAGCCGAAGCTATCACTTATCAC-TTTCAC
* *
11085740 TTGTCACTTGATCAGATAAGTGTAACCGAAGCTATCACTTATCACTTTCCATTTTGTCACTTGAT
1 -TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCA-----C--TTTGTCACTTGAT
* *
11085805 CAGATAAGTGTAGCTGAAGCTATCACTTATCAC-TT---
58 CAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCAC
* *
11085840 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
1 TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
*
11085905 TATAGCCGAAGCTATTACTTATCACTTTCCAC
66 TATAGCCGAAGCTATCACTTATCACTTT-CAC
* *
11085937 TAGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 T-GTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
11085999 AGTACTCAAA
Statistics
Matches: 229, Mismatches: 16, Indels: 26
0.85 0.06 0.10
Matches are distributed among these distances:
92 43 0.19
93 2 0.01
94 1 0.00
97 1 0.00
98 95 0.41
99 41 0.18
103 3 0.01
105 43 0.19
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (96 bp):
TGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAG
TATAGCCGAAGCTATCACTTATCACTTTCAC
Found at i:11090116 original size:43 final size:43
Alignment explanation
Indices: 11090046--11090287 Score: 301
Period size: 43 Copynumber: 5.7 Consensus size: 43
11090036 CGAGAAGCGT
* *
11090046 CGCTAAAGGT-TTGTTCTATAGCAGCGTTTGTGGGAAAAACGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
* * *
11090088 CGCTAAAGGTATTGAGCTATAGCGGCGTTTGT-GAAAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAA-CGC
* * *
11090131 CGCTAAATGTCTTGATCTATAGCAGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
* * * * *
11090174 CGCTAAAGGTCCTGATCTATAGCGACGTTTAT-GCAAAATCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
* * *
11090216 CGCTAAAAGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
*
11090259 CGCTAAAGGTCATGATCTATAGCGGCGTT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTT
11090288 GACAACAGCG
Statistics
Matches: 172, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
42 53 0.31
43 114 0.66
44 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (43 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAACGC
Found at i:11090255 original size:85 final size:86
Alignment explanation
Indices: 11090060--11090287 Score: 343
Period size: 85 Copynumber: 2.7 Consensus size: 86
11090050 AAAGGTTTGT
* * *
11090060 TCTATAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGT-ATTGAGCTATAGCGGCGTTTGTGAAA
1 TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA-TGATCTATAGCGGCGTTTATGAAA
* *
11090124 AAAGCGCCGCTAAATGTCTTGA
65 AAAGCGCCGCTAAAAGTCCTGA
* * *
11090146 TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGATCTATAGCGACGTTTATG-CAA
1 TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATGAAAA
*
11090210 AATCGCCGCTAAAAGTCCTGA
66 AAGCGCCGCTAAAAGTCCTGA
*
11090231 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTT
1 TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTT
11090288 GACAACAGCG
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
85 74 0.57
86 55 0.43
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (86 bp):
TCTATAGCAGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATGAAAA
AAGCGCCGCTAAAAGTCCTGA
Found at i:11090255 original size:128 final size:128
Alignment explanation
Indices: 11090040--11090287 Score: 329
Period size: 128 Copynumber: 1.9 Consensus size: 128
11090030 TTTTTGCGAG
* * * * * * *
11090040 AAGCGTCGCTAAAGGTTTGTTCTATAGCAGCGTTTGTGGGAAAAACGCCGCTAAAGGTATTGAGC
1 AAGCGCCGCTAAAGGTCTGATCTATAGCAGCGTTTATGGCAAAAACGCCGCTAAAAGTACTGAGC
* *
11090105 TATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAATGTCTTGATCTATAGCAGCGTTTGTGGGAA
66 TATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGGGAA
* *
11090168 AAGCGCCGCTAAAGGTCCTGATCTATAGC-GACGTTTAT-GCAAAATCGCCGCTAAAAGTCCTGA
1 AAGCGCCGCTAAAGGT-CTGATCTATAGCAG-CGTTTATGGCAAAAACGCCGCTAAAAGTACTGA
* ** *
11090231 TCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTT
64 GCTATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTT
11090288 GACAACAGCG
Statistics
Matches: 103, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
128 87 0.84
129 16 0.16
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (128 bp):
AAGCGCCGCTAAAGGTCTGATCTATAGCAGCGTTTATGGCAAAAACGCCGCTAAAAGTACTGAGC
TATAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGATCTATAGCAGCGTTTGTGGGAA
Found at i:11091000 original size:35 final size:35
Alignment explanation
Indices: 11090933--11091007 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
11090923 TTGGGCTGGA
* * *
11090933 AAATGATATACTGGCTCTATAGAGTGATATCATGG
1 AAATGATATACTAGCTCTATAGAGCGACATCATGG
* * *
11090968 AAATGATCTACTAGCTCTATAGAGCGGCATCATGT
1 AAATGATATACTAGCTCTATAGAGCGACATCATGG
11091003 AAATG
1 AAATG
11091008 GTTTATTGAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (35 bp):
AAATGATATACTAGCTCTATAGAGCGACATCATGG
Found at i:11095591 original size:13 final size:13
Alignment explanation
Indices: 11095573--11095598 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11095563 AAAGAGATTT
11095573 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
11095586 GTTTTCTAGTAAA
1 GTTTTCTAGTAAA
11095599 AAATTGAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
GTTTTCTAGTAAA
Found at i:11095668 original size:19 final size:19
Alignment explanation
Indices: 11095628--11095669 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
11095618 GTCTCTTTTC
* *
11095628 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
11095647 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
11095666 GCAT
1 GCAT
11095670 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:11097577 original size:19 final size:19
Alignment explanation
Indices: 11097553--11097592 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
11097543 GCAAATGTTC
11097553 TTTCATTC-TTTACGATTTT
1 TTTCATTCTTTTA-GATTTT
11097572 TTTCATTCTTTTAGATTTT
1 TTTCATTCTTTTAGATTTT
11097591 TT
1 TT
11097593 CTGACAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTCATTCTTTTAGATTTT
Found at i:11100027 original size:132 final size:132
Alignment explanation
Indices: 11099848--11100619 Score: 1208
Period size: 132 Copynumber: 5.7 Consensus size: 132
11099838 GAGCAGGTTA
*
11099848 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATTAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
*
11099913 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAATGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
11099978 TG
131 TG
11099980 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
11100045 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCAGTAATTCTACTTCCCTGGGC
66 CTGTGGTTACAGTGGAGTACATTG-A---AG-----------CCAGTAATTCTACTTCCCTGGGC
11100110 AGCAGTGGAATAGATTG
116 AGCAGTGGAATAGATTG
*
11100127 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATTAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
*
11100192 CTGTGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
11100257 TG
131 TG
11100259 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
*
11100324 CTGTGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
11100389 TG
131 TG
*
11100391 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAGGATGGTGAATTTTACCTCC
1 AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
* *
11100456 CTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTA-TCTCCCTGGGCAACAGTGGAATAGA
66 CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAATAGA
11100520 TTG
130 TTG
* * * * *
11100523 AAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTTGAGCAGATCAAGGATGG-CAGATTTTACCT
1 AAGATT-TCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGA-ATTTTACCT
* * * *
11100586 CCTTGAGGTTGCAGTGGAGTATATTGAAGCCAGT
64 CCCTGTGGTTACAGTGGAGTACATTGAAGCCAGT
11100620 TACCCTATTT
Statistics
Matches: 602, Mismatches: 20, Indels: 36
0.91 0.03 0.05
Matches are distributed among these distances:
131 2 0.00
132 466 0.77
133 2 0.00
136 2 0.00
143 2 0.00
146 1 0.00
147 127 0.21
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
AAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGTGAATTTTACCTCC
CTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATAGAT
TG
Found at i:11100092 original size:15 final size:15
Alignment explanation
Indices: 11100072--11100103 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11100062 TACATTGAAG
11100072 CCAGTAATTCTACTT
1 CCAGTAATTCTACTT
11100087 CCAGTAATTCTACTT
1 CCAGTAATTCTACTT
11100102 CC
1 CC
11100104 CTGGGCAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (15 bp):
CCAGTAATTCTACTT
Found at i:11104096 original size:2 final size:2
Alignment explanation
Indices: 11104089--11104131 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11104079 TGTGCACGCG
11104089 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11104131 C
1 C
11104132 TAGCAGTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11105345 original size:30 final size:33
Alignment explanation
Indices: 11105284--11105345 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 33
11105274 ACTATAAAAC
**
11105284 ATTTATTATTAAATATTTATAAATTGTAATATAT
1 ATTTATTATTAAATA-TTATAAATTACAATATAT
11105318 ATTTATTATTAAA-A-TA-AAATTACAATAT
1 ATTTATTATTAAATATTATAAATTACAATAT
11105346 TAAATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
30 10 0.38
31 2 0.08
33 1 0.04
34 13 0.50
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (33 bp):
ATTTATTATTAAATATTATAAATTACAATATAT
Found at i:11105392 original size:39 final size:40
Alignment explanation
Indices: 11105310--11105410 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 40
11105300 TTATAAATTG
*
11105310 TAATATATATT-TATTATTAAA-ATAAAATTACAATATTAAA
1 TAATAT-TATTATATTATTAAATATAAAATTACAACATT-AA
11105350 TAAT-TTATTATATTATTAAATATAAATAATTA-AACATT-A
1 TAATATTATTATATTATTAAATAT-AA-AATTACAACATTAA
*
11105389 TAATATT-TGATATTATTTAAAT
1 TAATATTATTATATTA-TTAAAT
11105411 TTTTTAGAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
38 4 0.08
39 23 0.43
40 14 0.26
41 7 0.13
42 5 0.09
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (40 bp):
TAATATTATTATATTATTAAATATAAAATTACAACATTAA
Found at i:11115686 original size:39 final size:39
Alignment explanation
Indices: 11115635--11115730 Score: 140
Period size: 39 Copynumber: 2.5 Consensus size: 39
11115625 GGAGTTGTAA
* *
11115635 GTGACTATTCATCTACATCACTTAAGTGTTATAGGAGCT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGCT
* *
11115674 GTGACTAATCATCTTA-ATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATC-TACATCACTTAAATGCTATAGGAGCT
11115713 GTGACTATTCATCTACAT
1 GTGACTATTCATCTACAT
11115731 GCTTGTGTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.04
39 46 0.92
40 2 0.04
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACTTAAATGCTATAGGAGCT
Found at i:11120142 original size:39 final size:39
Alignment explanation
Indices: 11120092--11120187 Score: 174
Period size: 39 Copynumber: 2.5 Consensus size: 39
11120082 GGAGTTGTAA
*
11120092 GTGACTATTCATCTACATCACTTAAGTGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
*
11120131 GTGACTATTCATCTTCATCACTTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
11120170 GTGACTATTCATCTACAT
1 GTGACTATTCATCTACAT
11120188 GCATGTGTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACTTAAATGCTATAGGAGTT
Found at i:11120221 original size:16 final size:16
Alignment explanation
Indices: 11120200--11120252 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
11120190 ATGTGTGTAG
11120200 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
11120216 CTCTTCA-CATTTCTAA--
1 CTCTTCATC--TTC-AAGT
11120232 CTCTTCATCTTCAAGT
1 CTCTTCATCTTCAAGT
11120248 CTCTT
1 CTCTT
11120253 TACATACCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
14 2 0.06
15 4 0.13
16 19 0.61
17 4 0.13
18 2 0.06
ACGTcount: A:0.19, C:0.32, G:0.04, T:0.45
Consensus pattern (16 bp):
CTCTTCATCTTCAAGT
Found at i:11126251 original size:37 final size:37
Alignment explanation
Indices: 11126141--11126608 Score: 487
Period size: 37 Copynumber: 12.6 Consensus size: 37
11126131 TAAGATAAGA
* * * **
11126141 TCTATCCCAAGCTTTTT-AAGTTTGGCTTAGA-TGGG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
* *
11126176 TCTACCCCAACCTTTTT-TAGGTTGCCTTAGAC--GTG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAG-G
* *
11126211 TCTATCCCAACCGTTTTTAAAGATTGCCTTAGACGA-G
1 TCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGG
*
11126248 TCTATCCCAACCTTTTTTAAAGGTTGCTTTAGACAAGG
1 TCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGG
*
11126286 TCTATCCCAACC-TTTT-AAGGTTGCCTTCA-AC-GGG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTT-AGACAAGG
* * * *
11126320 TCTATCCTAACCTTTTTTATAGGATGCCCTAGACAAGG
1 TCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAGG
*
11126358 TCTATTCCAACCTTTTTTTAAAGGTTGCCTTAGACAAGG
1 TCTATCCCAACC--TTTTTAAAGGTTGCCTTAGACAAGG
*
11126397 TCTATCCCAACCTTTTTAAAGGTTGCTTTAGACAAGG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
*
11126434 TCTATCCTAACCTTTTT-AAGGTTGCCTTAGACAAGG
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
*
11126470 TCTA-CCCAACCTTTTTTAAAGGTTGCCTTAGATAAGAATG
1 TCTATCCCAACC-TTTTTAAAGGTTGCCTTAGACAAG---G
* * *
11126510 TCTATCCCAACCTTTTT-AAGGTTTCCTTAGA-TAGC
1 TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
* *
11126545 TCTATCCTAACCTTTTTTTAAAAGGTTTCCTTAGACAAGG
1 TCTATCCCAACC--TTTTT-AAAGGTTGCCTTAGACAAGG
11126585 TCTATCCCAACCTTTTTTAAAGGT
1 TCTATCCCAACC-TTTTTAAAGGT
11126609 CGGCCTCGAC
Statistics
Matches: 371, Mismatches: 37, Indels: 47
0.82 0.08 0.10
Matches are distributed among these distances:
34 14 0.04
35 67 0.18
36 42 0.11
37 118 0.32
38 33 0.09
39 67 0.18
40 23 0.06
41 7 0.02
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.37
Consensus pattern (37 bp):
TCTATCCCAACCTTTTTAAAGGTTGCCTTAGACAAGG
Found at i:11126604 original size:76 final size:74
Alignment explanation
Indices: 11126141--11126601 Score: 523
Period size: 72 Copynumber: 6.2 Consensus size: 74
11126131 TAAGATAAGA
* * * ** *
11126141 TCTATCCCAAGCTTTTTAAGTTTGGCTTAGA-TGGGTCTACCCCAACCTTTTTT--AGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
11126203 TAGAC--GTG
66 TAGACAAG-G
* *
11126211 TCTATCCCAACCGTTTTTAAAGATTGCCTTAGACGA-GTCTATCCCAACCTTTTTTAAAGGTTGC
1 TCTATCCCAACC-TTTTT-AAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGC
*
11126275 TTTAGACAAGG
64 CTTAGACAAGG
* * * *
11126286 TCTATCCCAACC-TTTTAAGGTTGCCTTCA-AC-GGGTCTATCCTAACCTTTTTTATAGGATGCC
1 TCTATCCCAACCTTTTTAAGGTTGCCTT-AGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCC
*
11126348 CTAGACAAGG
65 TTAGACAAGG
*
11126358 TCTATTCCAACCTTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAACC-TTTTTAAAGGTTG
1 TCTATCCCAACC--TTTTT-AAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTG
*
11126422 CTTTAGACAAGG
63 CCTTAGACAAGG
*
11126434 TCTATCCTAACCTTTTTAAGGTTGCCTTAGACAAGGTCTA-CCCAACCTTTTTTAAAGGTTGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
*
11126498 TAGATAAGAATG
66 TAGACAAG---G
* * * * *
11126510 TCTATCCCAACCTTTTTAAGGTTTCCTTAGA-TAGCTCTATCCTAACCTTTTTTTAAAAGGTTTC
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACC-TTTTTT-AAAGGTTGC
11126574 CTTAGACAAGG
64 CTTAGACAAGG
11126585 TCTATCCCAACCTTTTT
1 TCTATCCCAACCTTTTT
11126602 TAAAGGTCGG
Statistics
Matches: 337, Mismatches: 32, Indels: 39
0.83 0.08 0.10
Matches are distributed among these distances:
70 11 0.03
71 5 0.01
72 94 0.28
73 50 0.15
74 18 0.05
75 42 0.12
76 81 0.24
77 19 0.06
78 17 0.05
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (74 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGTCTATCCCAACCTTTTTTAAAGGTTGCCT
TAGACAAGG
Found at i:11128741 original size:12 final size:12
Alignment explanation
Indices: 11128724--11128762 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
11128714 ACAAGAACTG
11128724 CCTACATCTTTA
1 CCTACATCTTTA
11128736 CCTACATCTTTA
1 CCTACATCTTTA
11128748 CCTACATCTTTA
1 CCTACATCTTTA
11128760 CCT
1 CCT
11128763 TATTTTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (12 bp):
CCTACATCTTTA
Found at i:11131855 original size:44 final size:44
Alignment explanation
Indices: 11131792--11131882 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
11131782 AACTCTATTT
*
11131792 TTAGTTTTCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
11131836 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
1 TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
11131880 TTA
1 TTA
11131883 TTAGACCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.47
Consensus pattern (44 bp):
TTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATA
Found at i:11134316 original size:114 final size:115
Alignment explanation
Indices: 11134060--11134328 Score: 352
Period size: 115 Copynumber: 2.3 Consensus size: 115
11134050 ATATTGTATT
*
11134060 ATTTATATTTT-TTAAATGAAATAACATAGAAATATTCAAAATATTGCCTTATTTTAAAAAATTC
1 ATTT-TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTTAAAAAATTC
** * ** *
11134124 TATTTTATTAAAAACATTAAAGTAAATTACAATTACTTTATTCAAAACAAC
65 TATTTTATTAAAAACACAAAAGTAAATTACAATGAAATAATTCAAAACAAC
*
11134175 ATTTTATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTCTTA-TTTAAAAGAATTT
1 ATTTTATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTTAAAA-AA-TT
*
11134239 CTATTTTATTAAAAATACAAAAGTAAATTAC-ATGAAATAATAT-AAAA-AA-
64 CTATTTTATTAAAAACACAAAAGTAAATTACAATGAAATAAT-TCAAAACAAC
* *
11134288 ATTTCTATTTTATTACATGAAATAATATAAAAATATTCAAA
1 ATTT-TATTTTATTAAATGAAATAATATAGAAATATTCAAA
11134329 TTGTTTGTAC
Statistics
Matches: 138, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
113 4 0.03
114 49 0.36
115 54 0.39
116 31 0.22
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (115 bp):
ATTTTATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGCCTTATTTTAAAAAATTCT
ATTTTATTAAAAACACAAAAGTAAATTACAATGAAATAATTCAAAACAAC
Found at i:11134474 original size:20 final size:20
Alignment explanation
Indices: 11134451--11134497 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
11134441 ACGGGGGCTG
11134451 TGGTTGCTTCGG-GGGGATTC
1 TGGTTGCTTCGGAGGGGA-TC
*
11134471 TGGTTCCTTCGGTAGGGGATC
1 TGGTTGCTTCGG-AGGGGATC
11134492 TGGTTG
1 TGGTTG
11134498 TCGGTGTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.48
21 7 0.30
22 5 0.22
ACGTcount: A:0.06, C:0.15, G:0.43, T:0.36
Consensus pattern (20 bp):
TGGTTGCTTCGGAGGGGATC
Found at i:11134868 original size:30 final size:30
Alignment explanation
Indices: 11134834--11134897 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
11134824 GTTGAAGTGT
*
11134834 TGGGCCGGGTGACTGTGTCGGTGCTGTTGC
1 TGGGCCGGGTGACTGTGTCGGTGCTGTTGA
* * * *
11134864 TGGGCCTGGTGATTGTGTGGGTGTTGTTGA
1 TGGGCCGGGTGACTGTGTCGGTGCTGTTGA
11134894 TGGG
1 TGGG
11134898 ATTGCATTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.05, C:0.12, G:0.48, T:0.34
Consensus pattern (30 bp):
TGGGCCGGGTGACTGTGTCGGTGCTGTTGA
Found at i:11139776 original size:23 final size:22
Alignment explanation
Indices: 11139734--11139788 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
11139724 CAGCACAAAG
11139734 AAACAACA-AAAAGAAAGAAACAA
1 AAACAACAGAAAAGAAAG-AA-AA
*
11139757 AAACAACAGAAAAG-AGGAAAA
1 AAACAACAGAAAAGAAAGAAAA
*
11139778 AAAGAACAGAA
1 AAACAACAGAA
11139789 TAGGGGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 2 0.07
23 10 0.34
24 5 0.17
ACGTcount: A:0.75, C:0.11, G:0.15, T:0.00
Consensus pattern (22 bp):
AAACAACAGAAAAGAAAGAAAA
Found at i:11139785 original size:24 final size:24
Alignment explanation
Indices: 11139730--11139785 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
11139720 AACACAGCAC
*
11139730 AAAGAAACAACAAAAAGAAAGAAAC
1 AAAG-AACAACAAAAAGAAAGAAAA
*
11139755 AAA-AACAACAGAAAAG-AGGAAAA
1 AAAGAACAACA-AAAAGAAAGAAAA
11139778 AAAGAACA
1 AAAGAACA
11139786 GAATAGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 15 0.56
24 9 0.33
25 3 0.11
ACGTcount: A:0.75, C:0.11, G:0.14, T:0.00
Consensus pattern (24 bp):
AAAGAACAACAAAAAGAAAGAAAA
Found at i:11140597 original size:3 final size:3
Alignment explanation
Indices: 11140589--11140629 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11140579 TATGTTCTAC
11140589 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11140630 CATACGCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11140899 original size:22 final size:23
Alignment explanation
Indices: 11140858--11140901 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11140848 ACATGTACAT
* *
11140858 ATACATGTATTTTTATAATATTC
1 ATACATATATTTTTAAAATATTC
11140881 ATACATAT-TTTTTAAAATATT
1 ATACATATATTTTTAAAATATT
11140902 TATAAGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (23 bp):
ATACATATATTTTTAAAATATTC
Found at i:11149391 original size:31 final size:31
Alignment explanation
Indices: 11149353--11149424 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
11149343 ACCAACAATT
* *
11149353 ACTCAACTTTGATCTCAATGATAAAACGGTC
1 ACTCAACTTTGATCTCAATGACAAAACAGTC
*
11149384 ACTCAACTTTGGTCTCAATGACAAAACAGTC
1 ACTCAACTTTGATCTCAATGACAAAACAGTC
11149415 ACTCAACTTT
1 ACTCAACTTT
11149425 CAATTCAGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.29
Consensus pattern (31 bp):
ACTCAACTTTGATCTCAATGACAAAACAGTC
Found at i:11149631 original size:233 final size:233
Alignment explanation
Indices: 11149349--11149816 Score: 864
Period size: 233 Copynumber: 2.0 Consensus size: 233
11149339 TTACACCAAC
*
11149349 AATTACTCAACTTTGATCTCAATGATAAAACGGTCACTCAACTTTGGTCTCAATGACAAAACAGT
1 AATTACTCAACTTTGATCTCAATGATAAAACGGTCACTCAACTTTGGTCTCAATGACAAAACAAT
*
11149414 CACTCAACTTTCAATTCAGTCACTCAACTTTTAAAAAATAACAAATCAGTCCTACTAACTTTCAA
66 CACTCAACTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCCTACTAACTTTCAA
*
11149479 AAAACCAAACACCCAAAAAGAAGAACAAATAAAACCCTTGAATGAATTCTCCTTGTTCAGGAAGA
131 AAAACCAAACACCCAAAAAGAAGAACAAATAAAACCCTTGAATAAATTCTCCTTGTTCAGGAAGA
11149544 AAGTTGAAAACCATGGCTTCCTCATTGCCATTACCCCA
196 AAGTTGAAAACCATGGCTTCCTCATTGCCATTACCCCA
* *
11149582 AATTACTCAACTTTGATCTCAATGATAAAATGGTCACTTAACTTTGGTCTCAATGACAAAACAAT
1 AATTACTCAACTTTGATCTCAATGATAAAACGGTCACTCAACTTTGGTCTCAATGACAAAACAAT
11149647 CACTCAACTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCCTACTAACTTTCAA
66 CACTCAACTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCCTACTAACTTTCAA
* *
11149712 AAAACCAAACACTCAAAAAGAAGAACAAATAAAACCCTTGAATAAATTCTTCTTGTTCAGGAAGA
131 AAAACCAAACACCCAAAAAGAAGAACAAATAAAACCCTTGAATAAATTCTCCTTGTTCAGGAAGA
*
11149777 AAGTTGAGAACCATGGCTTCCTCATTGCCATTACCCCA
196 AAGTTGAAAACCATGGCTTCCTCATTGCCATTACCCCA
11149815 AA
1 AA
11149817 ATACCCTTTT
Statistics
Matches: 227, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
233 227 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (233 bp):
AATTACTCAACTTTGATCTCAATGATAAAACGGTCACTCAACTTTGGTCTCAATGACAAAACAAT
CACTCAACTTTCAATTCAGTCACTCAACTTTCAAAAAATAACAAATCAGTCCTACTAACTTTCAA
AAAACCAAACACCCAAAAAGAAGAACAAATAAAACCCTTGAATAAATTCTCCTTGTTCAGGAAGA
AAGTTGAAAACCATGGCTTCCTCATTGCCATTACCCCA
Found at i:11149650 original size:31 final size:31
Alignment explanation
Indices: 11149586--11149657 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
11149576 ACCCCAAATT
* ***
11149586 ACTCAACTTTGATCTCAATGATAAAATGGTC
1 ACTCAACTTTGATCTCAATGACAAAACAATC
* *
11149617 ACTTAACTTTGGTCTCAATGACAAAACAATC
1 ACTCAACTTTGATCTCAATGACAAAACAATC
11149648 ACTCAACTTT
1 ACTCAACTTT
11149658 CAATTCAGTC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (31 bp):
ACTCAACTTTGATCTCAATGACAAAACAATC
Found at i:11151947 original size:19 final size:20
Alignment explanation
Indices: 11151903--11151947 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
11151893 GAAAAAATCC
*
11151903 TAAAAATTAAGTGATAAAAT
1 TAAAAATTAAGTGACAAAAT
* *
11151923 TGAAAA-TAAGTGACCAAAT
1 TAAAAATTAAGTGACAAAAT
11151942 TAAAAA
1 TAAAAA
11151948 AAACTCTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.60, C:0.04, G:0.11, T:0.24
Consensus pattern (20 bp):
TAAAAATTAAGTGACAAAAT
Found at i:11163894 original size:23 final size:23
Alignment explanation
Indices: 11163864--11163910 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11163854 AGTAACAATT
11163864 ACAGACTGGCAAAAAGACCATGA
1 ACAGACTGGCAAAAAGACCATGA
11163887 ACAGACTGGCAAAAAGACCATGA
1 ACAGACTGGCAAAAAGACCATGA
11163910 A
1 A
11163911 AACCTGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (23 bp):
ACAGACTGGCAAAAAGACCATGA
Found at i:11170564 original size:16 final size:17
Alignment explanation
Indices: 11170543--11170588 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
11170533 AATTTTAAAA
11170543 TATTTTTAAAATACTTT
1 TATTTTTAAAATACTTT
* **
11170560 T-TTTTTAAATTTTTTT
1 TATTTTTAAAATACTTT
11170576 TATTTTTAAAATA
1 TATTTTTAAAATA
11170589 AATTTTTAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTTAAAATACTTT
Found at i:11172608 original size:21 final size:21
Alignment explanation
Indices: 11172584--11172624 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11172574 CACGATTTGT
11172584 CCACACGACCATGTACCTTAG
1 CCACACGACCATGTACCTTAG
* *
11172605 CCACACGGCCGTGTACCTTA
1 CCACACGACCATGTACCTTA
11172625 TCCATACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (21 bp):
CCACACGACCATGTACCTTAG
Found at i:11173185 original size:41 final size:40
Alignment explanation
Indices: 11173087--11173187 Score: 107
Period size: 39 Copynumber: 2.5 Consensus size: 40
11173077 ACGACTACTT
* ** *
11173087 ATTTGGTGTGTGTTGGATGGATAGGTCTATTATAATCCTA
1 ATTTGGTGTGTATTGGATGGATAGGTCTACCATAACCCTA
* *
11173127 A-TTGGTGTGCAGTGGATGGAT-GAGTCTACCATAACCCTA
1 ATTTGGTGTGTATTGGATGGATAG-GTCTACCATAACCCTA
*
11173166 GATTTGGTGTGTTTTGGATGGA
1 -ATTTGGTGTGTATTGGATGGA
11173188 CGAAGTTGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.02
39 30 0.61
40 2 0.04
41 16 0.33
ACGTcount: A:0.22, C:0.10, G:0.31, T:0.38
Consensus pattern (40 bp):
ATTTGGTGTGTATTGGATGGATAGGTCTACCATAACCCTA
Found at i:11177817 original size:22 final size:22
Alignment explanation
Indices: 11177792--11177867 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
11177782 CAATGCCTAT
11177792 TTTTATTACCAACTAGATTATA
1 TTTTATTACCAACTAGATTATA
* * *
11177814 TTTTACTACAAACCA-ATGCCTAT-
1 TTTTATTACCAACTAGAT---TATA
11177837 TTTTATTACCAACTAGATTATA
1 TTTTATTACCAACTAGATTATA
11177859 TTTTATTAC
1 TTTTATTAC
11177868 AAAATAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
21 5 0.12
22 21 0.49
23 12 0.28
24 5 0.12
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (22 bp):
TTTTATTACCAACTAGATTATA
Found at i:11177830 original size:45 final size:45
Alignment explanation
Indices: 11177780--11177870 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
11177770 TTTTAAGATT
11177780 ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTACTACAA
1 ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTACTACAA
*
11177825 ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTATTACAA
1 ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTACTACAA
11177870 A
1 A
11177871 ATAAAACTAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.41
Consensus pattern (45 bp):
ACCAATGCCTATTTTTATTACCAACTAGATTATATTTTACTACAA
Found at i:11181568 original size:48 final size:48
Alignment explanation
Indices: 11181468--11181577 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 48
11181458 TTGGGCACGG
* * * * * *
11181468 TAAACTACCGACTAAAATATATTGTGGACGAACCATTGGTTATGTAGG
1 TAAACTACCAACTAAAATACATTGTGGACGAACCACTGGTCATGAAGA
* * * *
11181516 TAAACTGCCAACTAAAATACGTTGTGGATGAACCACTGGTCGTGAAGA
1 TAAACTACCAACTAAAATACATTGTGGACGAACCACTGGTCATGAAGA
*
11181564 TAAACTACCGACTA
1 TAAACTACCAACTA
11181578 CTTCCACCAT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (48 bp):
TAAACTACCAACTAAAATACATTGTGGACGAACCACTGGTCATGAAGA
Found at i:11196949 original size:95 final size:95
Alignment explanation
Indices: 11196786--11196972 Score: 284
Period size: 95 Copynumber: 2.0 Consensus size: 95
11196776 CCACAATTTC
* * *
11196786 AAATTTTTTCCTAAAATCACTTCAACACTCCCCCATCCAAATCTCCCTAATTATCTCCAACAACC
1 AAATTTTCTCCGAAAATCACTCCAACACTCCCCCATCCAAATCTCCCTAATTATCTCCAACAACC
* *
11196851 TCTCCACTATCCGAATTTTAGTCCAACCCT
66 TCTCCACTATCAGAATTTTAATCCAACCCT
** * *
11196881 AAATTTTCTCCGAAAATCACTCCAACACTCTTCCATCCAAATCTCCTTAATTATCTCCATCAACC
1 AAATTTTCTCCGAAAATCACTCCAACACTCCCCCATCCAAATCTCCCTAATTATCTCCAACAACC
*
11196946 TCTCCACTATCATAATTTTAATCCAAC
66 TCTCCACTATCAGAATTTTAATCCAAC
11196973 ACAAACTCAC
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 82 1.00
ACGTcount: A:0.32, C:0.35, G:0.02, T:0.32
Consensus pattern (95 bp):
AAATTTTCTCCGAAAATCACTCCAACACTCCCCCATCCAAATCTCCCTAATTATCTCCAACAACC
TCTCCACTATCAGAATTTTAATCCAACCCT
Found at i:11202038 original size:20 final size:20
Alignment explanation
Indices: 11202013--11202050 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11202003 CACATGGTAG
*
11202013 TGTGTTTGAAAACCGTAGGT
1 TGTGTTGGAAAACCGTAGGT
*
11202033 TGTGTTGGAAAACTGTAG
1 TGTGTTGGAAAACCGTAG
11202051 CCCTTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.32, T:0.34
Consensus pattern (20 bp):
TGTGTTGGAAAACCGTAGGT
Found at i:11204050 original size:48 final size:48
Alignment explanation
Indices: 11203993--11204145 Score: 113
Period size: 48 Copynumber: 3.2 Consensus size: 48
11203983 AAATCTCTTT
11203993 AATTATCTCCAACAACCTCTCCACTATCCGAATTTTAGTCCAACCCTA
1 AATTATCTCCAACAACCTCTCCACTATCCGAATTTTAGTCCAACCCTA
* * * *** * *
11204041 AATTTTCTCCTAA-AATCACTCCAAC-ACTCC----CCCA-TCCAAATCTCTTT
1 AATTATCTCC-AACAACCTCTCC-ACTA-TCCGAATTTTAGTCC-AA-C-CCTA
*
11204088 AATTATCTCCAACAACCTCTCCACTATTCGAATTTTAGTCCAACCCTA
1 AATTATCTCCAACAACCTCTCCACTATCCGAATTTTAGTCCAACCCTA
*
11204136 AATTTTCTCC
1 AATTATCTCC
11204146 TAAAATCACT
Statistics
Matches: 74, Mismatches: 18, Indels: 26
0.63 0.15 0.22
Matches are distributed among these distances:
44 3 0.04
45 3 0.04
46 7 0.09
47 19 0.26
48 28 0.38
49 8 0.11
50 3 0.04
51 3 0.04
ACGTcount: A:0.30, C:0.35, G:0.03, T:0.32
Consensus pattern (48 bp):
AATTATCTCCAACAACCTCTCCACTATCCGAATTTTAGTCCAACCCTA
Found at i:11204108 original size:95 final size:95
Alignment explanation
Indices: 11203945--11204226 Score: 519
Period size: 95 Copynumber: 3.0 Consensus size: 95
11203935 CCACAATCCC
11203945 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
1 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
11204010 TCTCCACTATCCGAATTTTAGTCCAACCCT
66 TCTCCACTATCCGAATTTTAGTCCAACCCT
11204040 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
1 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
*
11204105 TCTCCACTATTCGAATTTTAGTCCAACCCT
66 TCTCCACTATCCGAATTTTAGTCCAACCCT
* * *
11204135 AAATTTTCTCCTAAAATCACTCCAAAACTCCCCCATCCAAATCTCCTTAATTATCTCCATCAACC
1 AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
*
11204200 TCTCCACTATCAGAATTTTAGTCCAAC
66 TCTCCACTATCCGAATTTTAGTCCAAC
11204227 ACAAACTCAC
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 181 1.00
ACGTcount: A:0.31, C:0.36, G:0.02, T:0.31
Consensus pattern (95 bp):
AAATTTTCTCCTAAAATCACTCCAACACTCCCCCATCCAAATCTCTTTAATTATCTCCAACAACC
TCTCCACTATCCGAATTTTAGTCCAACCCT
Found at i:11217970 original size:19 final size:18
Alignment explanation
Indices: 11217940--11217976 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
11217930 CTCCAATTAT
*
11217940 AATAAACATAATATAATA
1 AATAAACATAATAAAATA
11217958 AATAAATCATAATAAAATA
1 AATAAA-CATAATAAAATA
11217977 TATTTGAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (18 bp):
AATAAACATAATAAAATA
Found at i:11224001 original size:23 final size:23
Alignment explanation
Indices: 11223973--11224016 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11223963 AGTAAATAAT
*
11223973 AAATATTTAAAATGAATAATGCG
1 AAATATTCAAAATGAATAATGCG
*
11223996 AAATATTCAAAATTAATAATG
1 AAATATTCAAAATGAATAATG
11224017 TACAATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.32
Consensus pattern (23 bp):
AAATATTCAAAATGAATAATGCG
Found at i:11224192 original size:26 final size:26
Alignment explanation
Indices: 11224163--11224212 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11224153 AAATAACATA
* *
11224163 GAAAGCAATTTAAA-TAGGTAATATAT
1 GAAA-CAAGTTAAAGTAGCTAATATAT
11224189 GAAACAAGTTAAAGTAGCTAATAT
1 GAAACAAGTTAAAGTAGCTAATAT
11224213 CAAATATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (26 bp):
GAAACAAGTTAAAGTAGCTAATATAT
Found at i:11226095 original size:44 final size:44
Alignment explanation
Indices: 11226047--11226147 Score: 123
Period size: 44 Copynumber: 2.3 Consensus size: 44
11226037 TCAGTCTATT
* **
11226047 CCACTGTAACTTCAAGGAAATAAGACT-TGTATCTTCAACCTGCC
1 CCACTGCAACTTCAAGGAAATAAGACTCTCAAT-TTCAACCTGCC
* **
11226091 CCACTGCAACTTCAGGGGGATAAGACTCTCAATTTCAACCTGCC
1 CCACTGCAACTTCAAGGAAATAAGACTCTCAATTTCAACCTGCC
*
11226135 CCACTACAACTTC
1 CCACTGCAACTTC
11226148 GGGGAGATGA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
44 46 0.94
45 3 0.06
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.25
Consensus pattern (44 bp):
CCACTGCAACTTCAAGGAAATAAGACTCTCAATTTCAACCTGCC
Found at i:11226397 original size:44 final size:44
Alignment explanation
Indices: 11226329--11226438 Score: 139
Period size: 44 Copynumber: 2.5 Consensus size: 44
11226319 CAACTGCCCC
* * *
11226329 ACTGCAACTTCAGGGGGATAAGGTTTGTTACTTCAACCTGCTCT
1 ACTGTAACTTCAGGGAGATAAGGTTTGTGACTTCAACCTGCTCT
* * * **
11226373 ACTGTAACTTCAGAGAGATAAGGTTTGTGGCTTTAGTCTGCTCT
1 ACTGTAACTTCAGGGAGATAAGGTTTGTGACTTCAACCTGCTCT
*
11226417 GCTGTAACTTCAGGGAGATAAG
1 ACTGTAACTTCAGGGAGATAAG
11226439 ATTCGCCATG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 56 1.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (44 bp):
ACTGTAACTTCAGGGAGATAAGGTTTGTGACTTCAACCTGCTCT
Found at i:11231154 original size:25 final size:25
Alignment explanation
Indices: 11231098--11231216 Score: 116
Period size: 25 Copynumber: 4.8 Consensus size: 25
11231088 ATCCCAATAT
* * *
11231098 TTGGCTCTCACGAGCTTTCC-GGTAC
1 TTGGCTCTCATGAGC-TTCCAGATAA
*
11231123 TTGGCTCTCACGAGCTTCCAGATAA
1 TTGGCTCTCATGAGCTTCCAGATAA
* *
11231148 TTAGCTCTAATGAGCTTCCAGATTAA
1 TTGGCTCTCATGAGCTTCCAGA-TAA
* * *
11231174 -TGGCTCTCTTGAGCTTCCCGATAT
1 TTGGCTCTCATGAGCTTCCAGATAA
*
11231198 TTGGCTCGCATGAGCTTCC
1 TTGGCTCTCATGAGCTTCC
11231217 TGATTTACAG
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
24 6 0.08
25 70 0.89
26 3 0.04
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
TTGGCTCTCATGAGCTTCCAGATAA
Found at i:11231178 original size:50 final size:50
Alignment explanation
Indices: 11231124--11231266 Score: 144
Period size: 50 Copynumber: 2.9 Consensus size: 50
11231114 TTCCGGTACT
* *
11231124 TGGCTCTCACGAGCTTCCAGATAATTAGCTCTAATGAGCTTCCAGATTAA
1 TGGCTCTCATGAGCTTCCCGATAATTAGCTCTAATGAGCTTCCAGATTAA
* * * ** * *
11231174 TGGCTCTCTTGAGCTTCCCGATATTTGGCTCGCATGAGCTTCCTGATTTA
1 TGGCTCTCATGAGCTTCCCGATAATTAGCTCTAATGAGCTTCCAGATTAA
** * * *
11231224 CAGCTCTTATGAGCTTCCCGATACTCAGCT-TGAATGAGCTTCC
1 TGGCTCTCATGAGCTTCCCGATAATTAGCTCT-AATGAGCTTCC
11231267 CATCATACAA
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (50 bp):
TGGCTCTCATGAGCTTCCCGATAATTAGCTCTAATGAGCTTCCAGATTAA
Found at i:11231202 original size:75 final size:74
Alignment explanation
Indices: 11231099--11231241 Score: 171
Period size: 75 Copynumber: 1.9 Consensus size: 74
11231089 TCCCAATATT
* * *
11231099 TGGCTCTCACGAGCTTTCCGGTACTTGGCTCTCACGAGCTTCCAGATAATT-AGCTCTAATGAGC
1 TGGCTCTCACGAGCTTCCCGATACTTGGCTCGCACGAGCTTCCAGAT--TTAAGCTCTAATGAGC
11231163 TTCCAGATTAA
64 TTCCAGATTAA
** * * * *
11231174 TGGCTCTCTTGAGCTTCCCGATATTTGGCTCGCATGAGCTTCCTGATTTACAGCTCTTATGAGCT
1 TGGCTCTCACGAGCTTCCCGATACTTGGCTCGCACGAGCTTCCAGATTTA-AGCTCTAATGAGCT
11231239 TCC
65 TCC
11231242 CGATACTCAG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
73 2 0.04
75 55 0.96
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.34
Consensus pattern (74 bp):
TGGCTCTCACGAGCTTCCCGATACTTGGCTCGCACGAGCTTCCAGATTTAAGCTCTAATGAGCTT
CCAGATTAA
Found at i:11231252 original size:25 final size:25
Alignment explanation
Indices: 11231134--11231267 Score: 85
Period size: 25 Copynumber: 5.4 Consensus size: 25
11231124 TGGCTCTCAC
* *
11231134 GAGCTTCCAGATAATTAGCTCTAAT
1 GAGCTTCCCGATAATCAGCTCTAAT
* * **
11231159 GAGCTTCCAGATTAAT-GGCTCTCTT
1 GAGCTTCCCGA-TAATCAGCTCTAAT
* ** **
11231184 GAGCTTCCCGATATTTGGCTCGCAT
1 GAGCTTCCCGATAATCAGCTCTAAT
* * *
11231209 GAGCTTCCTGAT-TTACAGCTCTTAT
1 GAGCTTCCCGATAAT-CAGCTCTAAT
*
11231234 GAGCTTCCCGATACTCAGCT-TGAAT
1 GAGCTTCCCGATAATCAGCTCT-AAT
11231259 GAGCTTCCC
1 GAGCTTCCC
11231268 ATCATACAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
24 6 0.07
25 78 0.88
26 5 0.06
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGATAATCAGCTCTAAT
Found at i:11231336 original size:25 final size:24
Alignment explanation
Indices: 11231201--11231336 Score: 80
Period size: 25 Copynumber: 5.5 Consensus size: 24
11231191 CCGATATTTG
* *
11231201 GCTCGCATGAGCTTCCTGATTTACA
1 GCTCGAATGAGCTTCC-CATTTACA
** *
11231226 GCTCTTATGAGCTTCCCGATACT-CA
1 GCTCGAATGAGCTTCCC-AT-TTACA
* *
11231251 GCTTGAATGAGCTTCCCATCATACA
1 GCTCGAATGAGCTTCCCAT-TTACA
* * *
11231276 ACTC-ACATGAGATTCCCATTATA-T
1 GCTCGA-ATGAGCTTCCCATT-TACA
*
11231300 GCTCGAAAGAGCTTCCCATTTACA
1 GCTCGAATGAGCTTCCCATTTACA
*
11231324 TGCTCGTATGAGC
1 -GCTCGAATGAGC
11231337 ATACTTGTAA
Statistics
Matches: 83, Mismatches: 20, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
23 2 0.02
24 19 0.23
25 61 0.73
26 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (24 bp):
GCTCGAATGAGCTTCCCATTTACA
Found at i:11240789 original size:138 final size:138
Alignment explanation
Indices: 11240553--11240806 Score: 382
Period size: 138 Copynumber: 1.8 Consensus size: 138
11240543 ATCTTATGAT
* * * * *
11240553 GGTAACACACTTACAAAGTCATTGGTTAAGAAGTTGATTAGCAGTTTCGTGATAGTATATAATAA
1 GGTAACACAATTACAAAGTCACTGGCTAAGAAGTTGATAAGCAGTTTCGTGATAGGATATAATAA
* *
11240618 TGAAGAGTTCAATCATGATACTTAAGTGGAATGACTTCATGACTAAATAATACTGTAACGAATAT
66 TGAAGAGCTCAATCATGATACTTAAGTGAAATGACTTCATGACTAAATAATACTGTAACGAATAT
11240683 CCTATTAG
131 CCTATTAG
* * * *
11240691 GGTAATACAATTACAAAGTCACTGGCTGAGAAGTTGATAAGTAGTTTTGTGATAGGATATAATAA
1 GGTAACACAATTACAAAGTCACTGGCTAAGAAGTTGATAAGCAGTTTCGTGATAGGATATAATAA
* * *
11240756 TGGAGAGCTCAATCATGATACTTTAGTGAAATGACTTCATGACTGAATAAT
66 TGAAGAGCTCAATCATGATACTTAAGTGAAATGACTTCATGACTAAATAAT
11240807 GTTATAATGA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 102 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (138 bp):
GGTAACACAATTACAAAGTCACTGGCTAAGAAGTTGATAAGCAGTTTCGTGATAGGATATAATAA
TGAAGAGCTCAATCATGATACTTAAGTGAAATGACTTCATGACTAAATAATACTGTAACGAATAT
CCTATTAG
Found at i:11243347 original size:17 final size:18
Alignment explanation
Indices: 11243314--11243353 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
11243304 CATAAACAAC
*
11243314 ATAAACTTGATAAAATAA
1 ATAAACATGATAAAATAA
11243332 ATAAACATGA-AAAATAA
1 ATAAACATGATAAAATAA
11243349 ATAAA
1 ATAAA
11243354 GAGTAAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (18 bp):
ATAAACATGATAAAATAA
Found at i:11245954 original size:41 final size:41
Alignment explanation
Indices: 11245908--11245990 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
11245898 TCAAACCTAA
* ** *
11245908 AAATTCTTATTTTACCCTTATACCTGAAACAACCTTAAATC
1 AAATTCTCATTTTACCCTTATACCCAAAACAACCCTAAATC
11245949 AAATTCTCATTTTACCCTTATACCCAAAACAACCCTAAATC
1 AAATTCTCATTTTACCCTTATACCCAAAACAACCCTAAATC
11245990 A
1 A
11245991 CCTTTTCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.28, G:0.01, T:0.33
Consensus pattern (41 bp):
AAATTCTCATTTTACCCTTATACCCAAAACAACCCTAAATC
Found at i:11251535 original size:44 final size:44
Alignment explanation
Indices: 11251482--11251569 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 44
11251472 TTACACGTAG
* *
11251482 ATCTTAAGTCGATGCCAACG-CCCGAGACGTGGTCTTACATGAAA
1 ATCTCAAGTCGATGCCAACGTCCC-AGACATGGTCTTACATGAAA
*
11251526 ATCTCAAGTCGATGCCAACGTCCCAGATATGGTCTTACATGAAA
1 ATCTCAAGTCGATGCCAACGTCCCAGACATGGTCTTACATGAAA
11251570 TCACATACCG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 37 0.93
45 3 0.08
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (44 bp):
ATCTCAAGTCGATGCCAACGTCCCAGACATGGTCTTACATGAAA
Found at i:11258688 original size:43 final size:41
Alignment explanation
Indices: 11258641--11258735 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 41
11258631 TCCCGAACGT
*
11258641 GGTCTTACATATAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACATA-AATCAAATA-CGATGCCAATGTCCCAGACAG
* * * *
11258684 GGTCTTACACGAAGTCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACA-TAAATCAAATACGATGCCAATGTCCCAGACAG
11258726 GGTCTTACAT
1 GGTCTTACAT
11258736 GTAAATCTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 28 0.62
43 16 0.36
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
GGTCTTACATAAATCAAATACGATGCCAATGTCCCAGACAG
Found at i:11274232 original size:18 final size:18
Alignment explanation
Indices: 11274195--11274233 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
11274185 ATTTTTTCCA
* *
11274195 TTTATTTTACTTGTTTAT
1 TTTATTTTACTTATTAAT
*
11274213 TTTATTTTAGTTATTAAT
1 TTTATTTTACTTATTAAT
11274231 TTT
1 TTT
11274234 TTTCTTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (18 bp):
TTTATTTTACTTATTAAT
Found at i:11288405 original size:27 final size:27
Alignment explanation
Indices: 11288373--11288426 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11288363 TCCTTTCTTT
* *
11288373 AGAGTTTGTCATACATACTATTCCTTC
1 AGAGTTCGTCACACATACTATTCCTTC
**
11288400 AGAGTTCGTCACATGTACTATTCCTTC
1 AGAGTTCGTCACACATACTATTCCTTC
11288427 CAAGTTTACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (27 bp):
AGAGTTCGTCACACATACTATTCCTTC
Found at i:11288536 original size:53 final size:52
Alignment explanation
Indices: 11288441--11288616 Score: 262
Period size: 53 Copynumber: 3.3 Consensus size: 52
11288431 TTTACCATGT
* * * *
11288441 ATATCATCCTTTCATGGTTTCCATACTTATCATTCTTCAAAGTTAGCCAAAC
1 ATATCATTCTTTCAGGGTTTCCATACTTACCATTCTTCAAAGTTAGCCATAC
*
11288493 ATATCATTCTTTCAGGGTTTGCCATACTTACCATTCTTCAAAGTTAACCATAC
1 ATATCATTCTTTCAGGGTTT-CCATACTTACCATTCTTCAAAGTTAGCCATAC
* * *
11288546 ATATTATTCTTTTAAGGTTTTCCATACTTACCATTCTTCAAAGTTAGCCATAC
1 ATATCATTC-TTTCAGGGTTTCCATACTTACCATTCTTCAAAGTTAGCCATAC
11288599 ATATCATTCTTTCAGGGT
1 ATATCATTCTTTCAGGGT
11288617 CCGCCACAAA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
52 25 0.23
53 76 0.69
54 9 0.08
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (52 bp):
ATATCATTCTTTCAGGGTTTCCATACTTACCATTCTTCAAAGTTAGCCATAC
Found at i:11288622 original size:27 final size:27
Alignment explanation
Indices: 11288441--11288612 Score: 145
Period size: 26 Copynumber: 6.5 Consensus size: 27
11288431 TTTACCATGT
* * *
11288441 ATATCATCCTTTCATGGTT-TCCATAC
1 ATATCATTCTTTCAAGGTTAGCCATAC
* * *
11288467 TTATCATTC-TTCAAAGTTAGCCAAAC
1 ATATCATTCTTTCAAGGTTAGCCATAC
* *
11288493 ATATCATTCTTTCAGGGTTTGCCATAC
1 ATATCATTCTTTCAAGGTTAGCCATAC
* * * *
11288520 TTACCATTC-TTCAAAGTTAACCATAC
1 ATATCATTCTTTCAAGGTTAGCCATAC
* * **
11288546 ATATTATTCTTTTAAGGTTTTCCATAC
1 ATATCATTCTTTCAAGGTTAGCCATAC
* * *
11288573 TTACCATTC-TTCAAAGTTAGCCATAC
1 ATATCATTCTTTCAAGGTTAGCCATAC
11288599 ATATCATTCTTTCA
1 ATATCATTCTTTCA
11288613 GGGTCCGCCA
Statistics
Matches: 109, Mismatches: 33, Indels: 7
0.73 0.22 0.05
Matches are distributed among these distances:
25 7 0.06
26 59 0.54
27 43 0.39
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
ATATCATTCTTTCAAGGTTAGCCATAC
Found at i:11297137 original size:33 final size:32
Alignment explanation
Indices: 11297064--11297141 Score: 84
Period size: 33 Copynumber: 2.4 Consensus size: 32
11297054 TAGTGTTTAT
* * **
11297064 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAACTGGGCTATGGCATACAA
* *
11297096 ATGATAAGACCATAACTGGGTTATGGCGCTACAA
1 ATG-TAAGACCATAACTGGGCTATGGC-ATACAA
11297130 ATGTAAGACCAT
1 ATGTAAGACCAT
11297142 GGTAGGGTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 3 0.08
33 30 0.79
34 5 0.13
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATGGCATACAA
Found at i:11305132 original size:18 final size:17
Alignment explanation
Indices: 11305107--11305169 Score: 76
Period size: 18 Copynumber: 3.7 Consensus size: 17
11305097 ATAATTTACC
11305107 ATTATAATTTTAAAATT
1 ATTATAATTTTAAAATT
* *
11305124 ATCTTTAATTTAAAAATAT
1 AT-TATAATTTTAAAAT-T
11305143 ATTATAATTTT-AAATT
1 ATTATAATTTTAAAATT
11305159 ATTAT-ATTTTA
1 ATTATAATTTTA
11305170 TTAATTTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 5 0.13
16 6 0.15
17 6 0.15
18 19 0.49
19 3 0.08
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTATAATTTTAAAATT
Found at i:11309055 original size:15 final size:15
Alignment explanation
Indices: 11309037--11309083 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
11309027 CCAACCATAC
11309037 TCATCTAGGAAGTAA
1 TCATCTAGGAAGTAA
*
11309052 TCA--TAGGAAGTAC
1 TCATCTAGGAAGTAA
11309065 TCATCTAGGAAGTAA
1 TCATCTAGGAAGTAA
11309080 TCAT
1 TCAT
11309084 ACTCTTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 12 0.43
15 16 0.57
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (15 bp):
TCATCTAGGAAGTAA
Found at i:11309060 original size:13 final size:13
Alignment explanation
Indices: 11309042--11309084 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
11309032 CATACTCATC
11309042 TAGGAAGTAATCA
1 TAGGAAGTAATCA
*
11309055 TAGGAAGTACTCA
1 TAGGAAGTAATCA
11309068 TCTAGGAAGTAATCA
1 --TAGGAAGTAATCA
11309083 TA
1 TA
11309085 CTCTTTCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 14 0.54
15 12 0.46
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.26
Consensus pattern (13 bp):
TAGGAAGTAATCA
Found at i:11309727 original size:43 final size:43
Alignment explanation
Indices: 11309672--11309855 Score: 194
Period size: 43 Copynumber: 4.3 Consensus size: 43
11309662 TTTTTCACAT
11309672 AAACGCCGCTAAAGAGCATGACTTTTAGCGGCACTTTTATCAC
1 AAACGCCGCTAAAGAGCATGACTTTTAGCGGCACTTTTATCAC
* * * * * *
11309715 ACACGCCACTAAAGAGCCTGAC-CTTAGCAGCGAC-TTCATCAC
1 AAACGCCGCTAAAGAGCATGACTTTTAGCGGC-ACTTTTATCAC
* * * *
11309757 AAATGCCGCTAAAGAACATGA-TCTTTAGTGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAGCATGACT-TTTAGCGGCACTTTTATCAC
* * * * *
11309800 AAACACCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTATTAT
1 AAACGCCGCTAAAGAGCATGACTTTTAGCGGCACTTTTATCAC
11309843 AAACGCCGCTAAA
1 AAACGCCGCTAAA
11309856 AGTACCGTTC
Statistics
Matches: 112, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
42 31 0.28
43 81 0.72
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAGCATGACTTTTAGCGGCACTTTTATCAC
Found at i:11314870 original size:100 final size:101
Alignment explanation
Indices: 11314735--11314951 Score: 260
Period size: 100 Copynumber: 2.2 Consensus size: 101
11314725 TAGAGTTGCA
** * * * *
11314735 ATCATAAATCGGTGAACTCTTAATGAATTGTTCATGAT-AGTAAATCAATGAACCGAAGTTGTGA
1 ATCATAAATCAATGAACTCTTAATAAAGTGCTCATGATCA-TAAATCAATGAACAGAAGTTGTGA
* * *
11314799 TCGT-AAATCAG-TGAGCTTCAGAAGATGACAGCTGTG
65 TAGTAAAATCAGCT-AGCTTCAAAAAATGACAGCTGTG
*
11314835 ATCATAAATCAATGAACTGTTAATAAAGTGCTCATGATCATAAATCAATGAACAGAAGTTGTGAT
1 ATCATAAATCAATGAACTCTTAATAAAGTGCTCATGATCATAAATCAATGAACAGAAGTTGTGAT
* * *
11314900 AGTAAAATTAGCTAGCTTTAAAAAATGACAGTTGTG
66 AGTAAAATCAGCTAGCTTCAAAAAATGACAGCTGTG
* *
11314936 ATCGTAAATCCATGAA
1 ATCATAAATCAATGAA
11314952 TTATTTCAAG
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
100 58 0.59
101 40 0.40
102 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (101 bp):
ATCATAAATCAATGAACTCTTAATAAAGTGCTCATGATCATAAATCAATGAACAGAAGTTGTGAT
AGTAAAATCAGCTAGCTTCAAAAAATGACAGCTGTG
Found at i:11314977 original size:136 final size:134
Alignment explanation
Indices: 11314835--11315187 Score: 429
Period size: 134 Copynumber: 2.6 Consensus size: 134
11314825 GACAGCTGTG
* *
11314835 ATCATAAATCAATGAACTGTTAATAAAGTGCTCATGATCATAAATCAATGAACAGAAGTTGTGAT
1 ATCATAAATCAATGAACTCTTAATAAAGTGTTCATGATCATAAATCAATGAACAGAAGTTGTGAT
* * * *
11314900 AGTAAAATTAGCTAGCTTTAAAAAATGACAGTTGTGATCGTAAATCCATGAATTATTTCAAGGGA
66 AGT-AAATTAGCGAGCTTT-AAAAATGACAGTTGTGATCGTAAATCAATGAACTATTTAAAGGGA
11314965 GTTGCA
129 GTTGCA
* * * * * *
11314971 ATCATAAATCAATGAAATCTTAATAAACTGTTCATCATCATAAATCAATAAACAAAAATTGTGAT
1 ATCATAAATCAATGAACTCTTAATAAAGTGTTCATGATCATAAATCAATGAACAGAAGTTGTGAT
* * *
11315036 CGTAAATTAGCGAGCTTTAAAGATGACAGTTGTGATCGTAAATCAATGAACTATTTAAATGGAGT
66 AGTAAATTAGCGAGCTTTAAAAATGACAGTTGTGATCGTAAATCAATGAACTATTTAAAGGGAGT
11315101 TGCA
131 TGCA
* ** * * * * * **
11315105 ATCATAAATCGACAAACTCTTAATGAAGTGTTCACGATCGTAAATTAATGGATTGAAGTTGTGAT
1 ATCATAAATCAATGAACTCTTAATAAAGTGTTCATGATCATAAATCAATGAACAGAAGTTGTGAT
* *
11315170 CA-TAAATCAGCGACCTTT
66 -AGTAAATTAGCGAGCTTT
11315188 TTAAAAGGAT
Statistics
Matches: 182, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
134 109 0.60
135 14 0.08
136 59 0.32
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (134 bp):
ATCATAAATCAATGAACTCTTAATAAAGTGTTCATGATCATAAATCAATGAACAGAAGTTGTGAT
AGTAAATTAGCGAGCTTTAAAAATGACAGTTGTGATCGTAAATCAATGAACTATTTAAAGGGAGT
TGCA
Found at i:11315112 original size:134 final size:136
Alignment explanation
Indices: 11314835--11315114 Score: 411
Period size: 136 Copynumber: 2.1 Consensus size: 136
11314825 GACAGCTGTG
* * * * * * *
11314835 ATCATAAATCAATGAACTGTTAATAAAGTGCTCATGATCATAAATCAATGAACAGAAGTTGTGAT
1 ATCATAAATCAATGAAATCTTAATAAACTGCTCATCATCATAAATCAATAAACAAAAATTGTGAT
* * * *
11314900 AGTAAAATTAGCTAGCTTTAAAAAATGACAGTTGTGATCGTAAATCCATGAATTATTTCAAGGGA
66 AGTAAAATTAGCGAGCTTTAAAAAATGACAGTTGTGATCGTAAATCAATGAACTATTTAAAGGGA
11314965 GTTGCA
131 GTTGCA
*
11314971 ATCATAAATCAATGAAATCTTAATAAACTGTTCATCATCATAAATCAATAAACAAAAATTGTGAT
1 ATCATAAATCAATGAAATCTTAATAAACTGCTCATCATCATAAATCAATAAACAAAAATTGTGAT
* * *
11315036 CGT-AAATTAGCGAGCTTT-AAAGATGACAGTTGTGATCGTAAATCAATGAACTATTTAAATGGA
66 AGTAAAATTAGCGAGCTTTAAAAAATGACAGTTGTGATCGTAAATCAATGAACTATTTAAAGGGA
11315099 GTTGCA
131 GTTGCA
11315105 ATCATAAATC
1 ATCATAAATC
11315115 GACAAACTCT
Statistics
Matches: 129, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
134 56 0.43
135 14 0.11
136 59 0.46
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (136 bp):
ATCATAAATCAATGAAATCTTAATAAACTGCTCATCATCATAAATCAATAAACAAAAATTGTGAT
AGTAAAATTAGCGAGCTTTAAAAAATGACAGTTGTGATCGTAAATCAATGAACTATTTAAAGGGA
GTTGCA
Found at i:11315277 original size:98 final size:98
Alignment explanation
Indices: 11315063--11315285 Score: 266
Period size: 98 Copynumber: 2.3 Consensus size: 98
11315053 TAAAGATGAC
* ** * * * *
11315063 AGTTGTGATCGTAAATCAATGAACTATTTAAATGGAGTTGCAATCATAAATCGACAAACTCTTAA
1 AGTTGTGATCATAAATCAGCGACCTTTTTAAAAGGAGTTGCAATCATAAATCGACAAACTCTGAA
* * * *
11315128 TGAAGTGTTCACGATCGTAAATTAATGGATTGA
66 TGAAGTGTTCACGATCATAAATCAATGAACTGA
* ** *
11315161 AGTTGTGATCATAAATCAGCGACCTTTTTAAAAGGATTTGCAATTGTAAATCGACGAACTCTGAA
1 AGTTGTGATCATAAATCAGCGACCTTTTTAAAAGGAGTTGCAATCATAAATCGACAAACTCTGAA
* * *
11315226 TGAAGTGTTCATGATCATATATCACTGAACTGA
66 TGAAGTGTTCACGATCATAAATCAATGAACTGA
* *
11315259 AGTTGTTATCATAAATCAGCGAGCTTT
1 AGTTGTGATCATAAATCAGCGACCTTT
11315286 AAAAATGACA
Statistics
Matches: 105, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
98 105 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (98 bp):
AGTTGTGATCATAAATCAGCGACCTTTTTAAAAGGAGTTGCAATCATAAATCGACAAACTCTGAA
TGAAGTGTTCACGATCATAAATCAATGAACTGA
Found at i:11315302 original size:134 final size:133
Alignment explanation
Indices: 11315161--11315664 Score: 505
Period size: 134 Copynumber: 3.8 Consensus size: 133
11315151 AATGGATTGA
* * * ** * *
11315161 AGTTGTGATCATAAATCAGCGACCTTTTTAAAAGGA-TT-TGCAATTGTAAATCGACGAACTCTG
1 AGTTGTGATCGTAAATCAGCGAACTTTTTAAATGGAGTTATG--ATCATAAATCGACAAACTCTT
* * *
11315224 AATGAAGTGTTCATGATCATATATCACTGAACTGAAGTTGTTATCATAAATCAGCGAGCTTTAAA
64 AATGAAGTGTTCATGATCATAAATCAATGAACTGAAGTTG-TATCATAAATCAACGAGCTTTAAA
11315289 AATGAC
128 AATGAC
* * ** * *
11315295 AGTTGTGATCGTAAATCAGTGAACTATTTAAATGGAGTTGCGATTATAAAT-AACAAAACTCTTA
1 AGTTGTGATCGTAAATCAGCGAACTTTTTAAATGGAGTTATGATCATAAATCGAC-AAACTCTTA
* * * *
11315359 ATGAAGTGTTCATGATCATAAGTCAAT-AAATCAAAGTTG-ATCATAAATCAACGAGTTTTAAAA
65 ATGAAGTGTTCATGATCATAAATCAATGAACT-GAAGTTGTATCATAAATCAACGAGCTTTAAAA
*
11315422 ATGGC
129 ATGAC
* * * * ** * *
11315427 AGTTGTGATCGTAAATTAGAGAACTTTTTAAATGAAGTTATGATCGTGTACCGACGAACTCTTAA
1 AGTTGTGATCGTAAATCAGCGAACTTTTTAAATGGAGTTATGATCATAAATCGACAAACTCTTAA
** * * * * * * **
11315492 TGAAACGTTCATGATCGTAAATCAATGAACTGAGGTTGTGGTCGTAAATCAACAAACGATAAAAA
66 TGAAGTGTTCATGATCATAAATCAATGAACTGAAGTTGT-ATCATAAATCAACGAGCTTTAAAAA
**
11315557 TTCC
130 TGAC
* * *
11315561 ATTTGTGATTGTAAATCAGCGAACTGTTTAAATGGAGTTATGATCATAAATCGACAAACTCTTAA
1 AGTTGTGATCGTAAATCAGCGAACTTTTTAAATGGAGTTATGATCATAAATCGACAAACTCTTAA
* *
11315626 TGAAGTGTTCATGATCGTAAATTAATGAACTGAAGTTGT
66 TGAAGTGTTCATGATCATAAATCAATGAACTGAAGTTGT
11315665 GATCTTTAAA
Statistics
Matches: 300, Mismatches: 62, Indels: 16
0.79 0.16 0.04
Matches are distributed among these distances:
132 102 0.34
133 10 0.03
134 185 0.62
135 2 0.01
136 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (133 bp):
AGTTGTGATCGTAAATCAGCGAACTTTTTAAATGGAGTTATGATCATAAATCGACAAACTCTTAA
TGAAGTGTTCATGATCATAAATCAATGAACTGAAGTTGTATCATAAATCAACGAGCTTTAAAAAT
GAC
Found at i:11320539 original size:23 final size:24
Alignment explanation
Indices: 11320496--11320540 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11320486 ATGATTATGT
11320496 TAATTCAGTATTTTCAGAAAAATA
1 TAATTCAGTATTTTCAGAAAAATA
11320520 TAATTCAG-ATTTTTCA-AAAAA
1 TAATTCAGTA-TTTTCAGAAAAA
11320541 CTTTCTACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (24 bp):
TAATTCAGTATTTTCAGAAAAATA
Found at i:11326435 original size:26 final size:26
Alignment explanation
Indices: 11326374--11326450 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
11326364 TATAGAACAA
* * **
11326374 TTATATGTAATGTGTAAGTGTTATGG
1 TTATATGAAATGTTTAAGTGAAATGG
* * *
11326400 TAACAAGAAATGTTTAAGTGAAATGG
1 TTATATGAAATGTTTAAGTGAAATGG
11326426 TTATATGAAATGCTTATAAG-GAAAT
1 TTATATGAAATG-TT-TAAGTGAAAT
11326451 ATATATATAT
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
26 28 0.72
27 7 0.18
28 4 0.10
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (26 bp):
TTATATGAAATGTTTAAGTGAAATGG
Found at i:11332676 original size:25 final size:26
Alignment explanation
Indices: 11332632--11332686 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
11332622 TCAATCATAG
* *
11332632 TCATACATATCATAGAGCAA-ATCAA
1 TCATACATAACATAGAGCAATAACAA
11332657 TCATACATAACATA-AGGCAATAACAA
1 TCATACATAACATAGA-GCAATAACAA
11332683 TCAT
1 TCAT
11332687 TTCATCTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 1 0.04
25 17 0.65
26 8 0.31
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (26 bp):
TCATACATAACATAGAGCAATAACAA
Found at i:11332962 original size:27 final size:26
Alignment explanation
Indices: 11332710--11332950 Score: 284
Period size: 27 Copynumber: 8.9 Consensus size: 26
11332700 GGTATAACAA
*
11332710 TCATTTTACCCTATAGGGGTATTTTAG
1 TCATTTTACCCTAT-GGGGTATTTTGG
11332737 TCATTTTACCCTATGGGCGTATTTTGG
1 TCATTTTACCCTATGGG-GTATTTTGG
***
11332764 TCATTTTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTAT-GGGGTATTTTGG
* *
11332791 TCATTTTACCCAATGGGGGTATTTTGA
1 TCATTTTACCCTAT-GGGGTATTTTGG
*
11332818 TCATGTTACCCTATGGGGTTATTTTGG
1 TCATTTTACCCTATGGGG-TATTTTGG
11332845 TCATTTTACCCTATGGAGGTATTTTGG
1 TCATTTTACCCTATGG-GGTATTTTGG
* *
11332872 TCATTTTAACTTATGGGGGTATTTTGG
1 TCATTTTACCCTAT-GGGGTATTTTGG
** *
11332899 TCATTTTACCCTATGAGGGTATTCCGA
1 TCATTTTACCCTATG-GGGTATTTTGG
*
11332926 TTATTTTACCCTATAGGGGTATTTT
1 TCATTTTACCCTAT-GGGGTATTTT
11332951 CTTTATTTTA
Statistics
Matches: 186, Mismatches: 21, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
26 8 0.04
27 170 0.91
28 8 0.04
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (26 bp):
TCATTTTACCCTATGGGGTATTTTGG
Found at i:11335590 original size:17 final size:16
Alignment explanation
Indices: 11335568--11335601 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11335558 GATTATCAAA
11335568 TATTTTGTTCATTTTTT
1 TATTTT-TTCATTTTTT
*
11335585 TATTTTTTCCTTTTTT
1 TATTTTTTCATTTTTT
11335601 T
1 T
11335602 TTTCCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (16 bp):
TATTTTTTCATTTTTT
Found at i:11335602 original size:12 final size:13
Alignment explanation
Indices: 11335582--11335610 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11335572 TTGTTCATTT
11335582 TTTTATTTTTTCC
1 TTTTATTTTTTCC
11335595 TTTT-TTTTTTCC
1 TTTTATTTTTTCC
11335607 TTTT
1 TTTT
11335611 CCCAAAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTTCC
Found at i:11343009 original size:14 final size:14
Alignment explanation
Indices: 11342990--11343018 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11342980 TATTGAATTA
11342990 GTACTAGAAACATT
1 GTACTAGAAACATT
11343004 GTACTAGAAACATT
1 GTACTAGAAACATT
11343018 G
1 G
11343019 CCGATATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (14 bp):
GTACTAGAAACATT
Found at i:11349858 original size:18 final size:18
Alignment explanation
Indices: 11349829--11349921 Score: 55
Period size: 18 Copynumber: 5.0 Consensus size: 18
11349819 TTAAAAATAT
11349829 ATATATAAAAATCATAAAA
1 ATATA-AAAAATCATAAAA
**
11349848 ATATAAAAAATTGTAAAA
1 ATATAAAAAATCATAAAA
* * * *
11349866 TTTTATAAAATCGTAAAAA
1 ATATAAAAAATCAT-AAAA
*
11349885 ATTATAAAATAT-ATGGAAAA
1 A-TATAAAAAATCAT--AAAA
*
11349905 ATA-AAAAAATTATAAAA
1 ATATAAAAAATCATAAAA
11349922 TTTTATAAAG
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
17 4 0.07
18 27 0.47
19 14 0.25
20 12 0.21
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
ATATAAAAAATCATAAAA
Found at i:11349882 original size:28 final size:28
Alignment explanation
Indices: 11349851--11349947 Score: 101
Period size: 28 Copynumber: 3.4 Consensus size: 28
11349841 CATAAAAATA
*
11349851 TAAAAAATTGTAAAATTTTATAAAATCG
1 TAAAAAATTATAAAATTTTATAAAATCG
*
11349879 TAAAAAATTATAAAA-TATATGGAAAAAT--
1 TAAAAAATTATAAAATTTTAT---AAAATCG
* *
11349907 AAAAAAATTATAAAATTTTATAAAGTCG
1 TAAAAAATTATAAAATTTTATAAAATCG
11349935 TAAGAAAATTATA
1 TAA-AAAATTATA
11349948 TAAAATGTAA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
26 4 0.07
27 4 0.07
28 30 0.54
29 13 0.23
30 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (28 bp):
TAAAAAATTATAAAATTTTATAAAATCG
Found at i:11349960 original size:21 final size:21
Alignment explanation
Indices: 11349918--11349962 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11349908 AAAAAATTAT
* *
11349918 AAAATTTTATAAAGTCGTAAG
1 AAAATTATATAAAATCGTAAG
11349939 AAAATTATATAAAAT-GTAAAG
1 AAAATTATATAAAATCGT-AAG
11349960 AAA
1 AAA
11349963 TATAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.29
Consensus pattern (21 bp):
AAAATTATATAAAATCGTAAG
Found at i:11350171 original size:36 final size:36
Alignment explanation
Indices: 11350131--11350199 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
11350121 TCATTAATTT
*
11350131 TTTTTAT-GATTTTTATAAAATTTTAC-AATTTTTTAG
1 TTTTTATAG-TTTTTATAAAAATTT-CTAATTTTTTAG
11350167 TTTTTATAGTTTTTATAAAAATTTCTAATTTTT
1 TTTTTATAGTTTTTATAAAAATTTCTAATTTTT
11350200 AATCAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 1 0.03
36 28 0.93
37 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.62
Consensus pattern (36 bp):
TTTTTATAGTTTTTATAAAAATTTCTAATTTTTTAG
Found at i:11350209 original size:47 final size:46
Alignment explanation
Indices: 11350156--11350245 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 46
11350146 TAAAATTTTA
* *
11350156 CAATTTTTTAGTTTTTATAGTTTTTATAAAAATTT-CTAATTTTTAAT
1 CAATTTTTAAGTTTTTATA-TTTTTAT-AAAATTTAATAATTTTTAAT
* *
11350203 CAATTTTTAATTTTTTATATTTTTATTAAATTTAATAATTTTT
1 CAATTTTTAAGTTTTTATATTTTTATAAAATTTAATAATTTTT
11350246 CTAAAATTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
45 6 0.16
46 15 0.39
47 17 0.45
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.62
Consensus pattern (46 bp):
CAATTTTTAAGTTTTTATATTTTTATAAAATTTAATAATTTTTAAT
Found at i:11350254 original size:46 final size:46
Alignment explanation
Indices: 11350142--11350245 Score: 115
Period size: 46 Copynumber: 2.3 Consensus size: 46
11350132 TTTTATGATT
* *
11350142 TTTATAAAATTTT-ACAATTTTTTAGTTTTTATAGTTTTTATAAAAA
1 TTTAT-AATTTTTAACAATTTTTAAGTTTTTATAGTTTTTATAAAAA
* * *
11350188 TTTCTAATTTTTAATCAATTTTTAATTTTTTATA-TTTTTAT-TAAA
1 TTTATAATTTTTAA-CAATTTTTAAGTTTTTATAGTTTTTATAAAAA
11350233 TTTAATAATTTTT
1 TTT-ATAATTTTT
11350246 CTAAAATTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
45 12 0.24
46 20 0.41
47 17 0.35
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (46 bp):
TTTATAATTTTTAACAATTTTTAAGTTTTTATAGTTTTTATAAAAA
Found at i:11350465 original size:88 final size:91
Alignment explanation
Indices: 11350304--11350509 Score: 267
Period size: 89 Copynumber: 2.3 Consensus size: 91
11350294 ATAAGAGTAG
* *
11350304 GGGCTTAATTGC-TTTTTTGAAAAAAATTTAAGGATCTTTTTAATGCATTTTGAAAGTTCAATTA
1 GGGCTTAATTGCTTTTTTTGAAAAAAATTTAAGGATCTTTTTAATGCATTTTAAAAGTTCAAGTA
*
11350368 CTCAATTGAGTG-AAAAAAAAAGCAA
66 CTAAATTGAGTGCAAAAAAAAAGCAA
* * * * * *
11350393 GGGCTTAATTGCTTTTTTTG-AAGAAGTTTAAGGGT-TTTTTTATGTATTTTAAAAGTTCAAGTG
1 GGGCTTAATTGCTTTTTTTGAAAAAAATTTAAGGATCTTTTTAATGCATTTTAAAAGTTCAAGTA
* *
11350456 CTAAATTGAGTGCAAAAAAAAAGGAG
66 CTAAATTGAGTGCAAAAAAAAAGCAA
*
11350482 GGGCTTAATTGCATTTTTTTTAAAAAAA
1 GGGCTTAATTGC-TTTTTTTGAAAAAAA
11350510 ATTGAGGGCT
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
88 34 0.34
89 47 0.47
90 14 0.14
91 4 0.04
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.38
Consensus pattern (91 bp):
GGGCTTAATTGCTTTTTTTGAAAAAAATTTAAGGATCTTTTTAATGCATTTTAAAAGTTCAAGTA
CTAAATTGAGTGCAAAAAAAAAGCAA
Found at i:11358242 original size:361 final size:361
Alignment explanation
Indices: 11357562--11358661 Score: 1553
Period size: 361 Copynumber: 3.0 Consensus size: 361
11357552 AAGTTTAAAT
*
11357562 AAGCTTTGAAAATGTTTTAGAAATGAAGTGTCCTTGGTTAGTGTTGTTT-GGATGGTAGTTGTAG
1 AAGCTTTGAAAATGTTTTAGAAATGAAGTGTCTTTGGTTAGTGTTGTTTGGGATGGTAGTTGTAG
* * * *
11357626 GGTCATCTAGATGGAAAAATTTAACTACCCATATAGAAGGCAAATTGTCTTAAGAGATGTGCTTT
66 GGCCATCTAGATGGAAGAATTTAGCTATCC-------AGG-AAATTGTCTTAAGAGATGTGCTTT
* *
11357691 TGCCAAAACGTCATATGAGGGGGAGGGGGGATTAGCCACCTAAATTGCATCAGGATTGCTTTAAC
123 TGCCAAAACGTCATTTGAGGGGGAGGGGGGAATAGCCACCTAAATTGCATCAGGATTGCTTTAAC
* *
11357756 ATATGTAAAATTGTGTTGATTGCATTTTAATTTATCGGAAGTCAATTTTATGTAATTGTCATATC
188 ATATGTAAAAGTGTGTTGATTGCATTTTAATTTATCGAAAGTCAATTTTATGTAATTGTCATATC
* * * * *
11357821 CAAACAAGTAGCGGGCGATATGATATG-GTTTTTAAAATGTCTTTGAGCCTTAGAAAAGGTTGGA
253 CAAAC-ACTAGAGGGTGATTTGATGTGAG-TTTTAAAATGTCTTTGAGCCTTAGAAAAGGTTGGA
* *
11357885 ATTTGTTTTTCTGATATTTTTATTAAATTATTTTAAAAATGTATTA
316 ATTTGTTTTTATGATATTTTTATTAAATGATTTTAAAAATGTATTA
* * *
11357931 AAGCTTTGAAAATGTTTTAAAAATGAAGTGTCTTTGGTTAGTGTTGTTTGGGCTGGTAGTTGCAG
1 AAGCTTTGAAAATGTTTTAGAAATGAAGTGTCTTTGGTTAGTGTTGTTTGGGATGGTAGTTGTAG
* * *
11357996 GGCCATCTAAATGGTAGAATTTAGCTATCCA-GAAATTGTCTTAAGAGATGTACTTTTGCCAAAA
66 GGCCATCTAGATGGAAGAATTTAGCTATCCAGGAAATTGTCTTAAGAGATGTGCTTTTGCCAAAA
* ** * * *
11358060 CGCCATTTGAACGGGAGGGGGGAATAGCCACCTAAATTGCATCAAGATTGCTTCAACGTATGTAA
131 CGTCATTTGAGGGGGAGGGGGGAATAGCCACCTAAATTGCATCAGGATTGCTTTAACATATGTAA
* * *
11358125 AAGTGTGTTAATTGCATTTTAATTTATCGAAAGTCCATTTTATGTAATTGTCAAATCCAAACACT
196 AAGTGTGTTGATTGCATTTTAATTTATCGAAAGTCAATTTTATGTAATTGTCATATCCAAACACT
* *
11358190 AAGAGGGTGATTTGATGTGAGTTTTAAAATGTCTTTGAGCCTTGGTAAAGGTTGGAATTTGTTTT
261 -AGAGGGTGATTTGATGTGAGTTTTAAAATGTCTTTGAGCCTTAGAAAAGGTTGGAATTTGTTTT
11358255 TATGATATTTTTATTAAATGATTTTAAAAATGTATTA
325 TATGATATTTTTATTAAATGATTTTAAAAATGTATTA
*
11358292 AAGCTTTGAAAATGTTTTAGAAATGAAGTGTCTTTGGTTAGTGTTGTTTGGGTTGGTAGTTGTAG
1 AAGCTTTGAAAATGTTTTAGAAATGAAGTGTCTTTGGTTAGTGTTGTTTGGGATGGTAGTTGTAG
** * * *
11358357 GGCCATCTAGATGGCGGAGTTTAGCTATCTAGATGGAGGGCATATTGTCTTAAGAAATGTGCTTT
66 GGCCATCTAGATGGAAGAATTTAGCTATC--CA-GGA----A-ATTGTCTTAAGAGATGTGCTTT
* * *
11358422 TACCAAAACGTCATTTG-GGGGGAGGGGGGAATAGCCACCTGAATTGCATCAGGATTGTTTTAAC
123 TGCCAAAACGTCATTTGAGGGGGAGGGGGGAATAGCCACCTAAATTGCATCAGGATTGCTTTAAC
* * *
11358486 ATATGTAAAAGTGTGTTGATTGTATTTTAATTTATCGCAAGTCTATTTTATGTAATTGTCATATC
188 ATATGTAAAAGTGTGTTGATTGCATTTTAATTTATCGAAAGTCAATTTTATGTAATTGTCATATC
* * *
11358551 CAAACACT-TAGGGTGATTTGATGTGATTTTTAAAATGTCTTTGAGCCTTAGAAAATGTTGGAAT
253 CAAACACTAGAGGGTGATTTGATGTGAGTTTTAAAATGTCTTTGAGCCTTAGAAAAGGTTGGAAT
*
11358615 TTATTTTTATGATATTTTTATTAAATGATTTTAAAAATGTATTA
318 TTGTTTTTATGATATTTTTATTAAATGATTTTAAAAATGTATTA
11358659 AAG
1 AAG
11358662 TTGTTTAAAT
Statistics
Matches: 656, Mismatches: 63, Indels: 26
0.88 0.08 0.03
Matches are distributed among these distances:
360 2 0.00
361 323 0.49
362 2 0.00
363 2 0.00
365 2 0.00
367 97 0.15
369 156 0.24
370 72 0.11
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (361 bp):
AAGCTTTGAAAATGTTTTAGAAATGAAGTGTCTTTGGTTAGTGTTGTTTGGGATGGTAGTTGTAG
GGCCATCTAGATGGAAGAATTTAGCTATCCAGGAAATTGTCTTAAGAGATGTGCTTTTGCCAAAA
CGTCATTTGAGGGGGAGGGGGGAATAGCCACCTAAATTGCATCAGGATTGCTTTAACATATGTAA
AAGTGTGTTGATTGCATTTTAATTTATCGAAAGTCAATTTTATGTAATTGTCATATCCAAACACT
AGAGGGTGATTTGATGTGAGTTTTAAAATGTCTTTGAGCCTTAGAAAAGGTTGGAATTTGTTTTT
ATGATATTTTTATTAAATGATTTTAAAAATGTATTA
Found at i:11358683 original size:18 final size:20
Alignment explanation
Indices: 11358649--11358689 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
11358639 ATGATTTTAA
*
11358649 AAATGTATTAAAGTTGTT-T
1 AAATGTATTAAAATTGTTCT
11358668 AAATGT-TTAAAATTGTTCT
1 AAATGTATTAAAATTGTTCT
11358687 AAA
1 AAA
11358690 GGATTTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.41, C:0.02, G:0.12, T:0.44
Consensus pattern (20 bp):
AAATGTATTAAAATTGTTCT
Found at i:11360713 original size:26 final size:26
Alignment explanation
Indices: 11360677--11360757 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
11360667 AACACACCAA
11360677 TATCGCAGCAAGGCTACCAGTAACAG
1 TATCGCAGCAAGGCTACCAGTAACAG
*
11360703 TATCGCAGCAAGGCTACCAGTAACTG
1 TATCGCAGCAAGGCTACCAGTAACAG
* * *
11360729 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAGGCTACCAGTAACAG
11360755 TAT
1 TAT
11360758 ACTTCCTCCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAGGCTACCAGTAACAG
Found at i:11360955 original size:27 final size:27
Alignment explanation
Indices: 11360923--11361058 Score: 148
Period size: 27 Copynumber: 5.0 Consensus size: 27
11360913 AGAATAACAG
11360923 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * ** *
11360950 TTATTTTACTCTATAAGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGA
** * *
11360977 TCATTTTATTCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
11361004 TCATTTTACCCTGTGGGGGTATTT-TA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
11361030 GTCATTTTACCCTATAGGGGTATTTCGA
1 -TCATTTTACCCTATGGGGGTATTTCGA
11361058 T
1 T
11361059 TATTCATTGA
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 88 0.99
28 1 0.01
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:11361010 original size:54 final size:54
Alignment explanation
Indices: 11360920--11361058 Score: 170
Period size: 54 Copynumber: 2.6 Consensus size: 54
11360910 AGGAGAATAA
* *
11360920 CAGTCATTTTACCCTATGGGGGTATTTCGATTATTTTACTCTATAAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTT
* ** * * * **
11360974 CGGTCATTTTATTCTATGGGGGTATTTTGGTCATTTTACCCTGTGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTT
* *
11361028 TAGTCATTTTACCCTATAGGGGTATTTCGAT
1 CAGTCATTTTACCCTATGGGGGTATTTCGAT
11361059 TATTCATTGA
Statistics
Matches: 68, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.45
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTT
Found at i:11362901 original size:37 final size:37
Alignment explanation
Indices: 11362851--11362947 Score: 158
Period size: 37 Copynumber: 2.6 Consensus size: 37
11362841 CTGTTTCAAT
* *
11362851 GTTGCGAGCTTAACTTACCTAACTCAAATAATTTGAG
1 GTTGCGAGCTTAACTCACCTAACTCAAATAATTGGAG
*
11362888 GTTGCGAGCTTAACTCAGCTAACTCAAATAATTGGAG
1 GTTGCGAGCTTAACTCACCTAACTCAAATAATTGGAG
*
11362925 GTTGCGAGCTTAACTCAGCTAAC
1 GTTGCGAGCTTAACTCACCTAAC
11362948 CTTTAATCAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (37 bp):
GTTGCGAGCTTAACTCACCTAACTCAAATAATTGGAG
Found at i:11363032 original size:141 final size:141
Alignment explanation
Indices: 11362755--11363009 Score: 348
Period size: 141 Copynumber: 1.8 Consensus size: 141
11362745 GAGTTGTGAA
* * *
11362755 CTTAACTCAACTAACTCAAATAACTGGAAGTTATGAGCTTAACTCAACTAACCTTTGATCATTAG
1 CTTAACTCAACTAACTCAAATAACTGGAAGTTACGAGCTTAACTCAACTAACCTTTAATCATCAG
* * * * * * *
11362820 TTGGGAATGTAGGTCCGCGAGCTGTTTCAATGTTGCGAGCTTAACTTACCTAACTCAAATAATTT
66 TTGGGAACGTAGGTCCGCGAGCTATTTCAAGGCTGCAAGCTTAAATCACCTAACTCAAATAATTT
11362885 GAGGTTGCGAG
131 GAGGTTGCGAG
* * * * *
11362896 CTTAACTCAGCTAACTCAAATAATTGGAGGTTGCGAGCTTAACTCAGCTAACCTTTAATCATCAG
1 CTTAACTCAACTAACTCAAATAACTGGAAGTTACGAGCTTAACTCAACTAACCTTTAATCATCAG
* *
11362961 TTGGGAACGTAGGTTCGCGAGCTATTTCAGAGGCTGCAATCTTAAATCA
66 TTGGGAACGTAGGTCCGCGAGCTATTTCA-AGGCTGCAAGCTTAAATCA
11363010 GCAAGCCTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
141 83 0.86
142 13 0.14
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (141 bp):
CTTAACTCAACTAACTCAAATAACTGGAAGTTACGAGCTTAACTCAACTAACCTTTAATCATCAG
TTGGGAACGTAGGTCCGCGAGCTATTTCAAGGCTGCAAGCTTAAATCACCTAACTCAAATAATTT
GAGGTTGCGAG
Found at i:11373006 original size:20 final size:20
Alignment explanation
Indices: 11372968--11373006 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11372958 CTTTTGGGAA
* * *
11372968 TTTTGAAAGAGAGAGGAAAT
1 TTTTGAAAAAGAAAAGAAAT
11372988 TTTTGAAAAAGAAAAGAAA
1 TTTTGAAAAAGAAAAGAAA
11373007 AACAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (20 bp):
TTTTGAAAAAGAAAAGAAAT
Found at i:11379266 original size:17 final size:19
Alignment explanation
Indices: 11379226--11379266 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
11379216 TCAATTAATA
11379226 ATTATTAAAATACAATTACT
1 ATTA-TAAAATACAATTACT
11379246 -TTATAAAATA-AATTA-T
1 ATTATAAAATACAATTACT
11379262 ATTAT
1 ATTAT
11379267 TTAATGATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 1 0.05
17 9 0.45
18 7 0.35
19 3 0.15
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTATAAAATACAATTACT
Found at i:11394877 original size:17 final size:17
Alignment explanation
Indices: 11394855--11394887 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11394845 TCTCAGATTT
11394855 TGATACCCATATCTTTC
1 TGATACCCATATCTTTC
11394872 TGATACCCATATCTTT
1 TGATACCCATATCTTT
11394888 GACTTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.42
Consensus pattern (17 bp):
TGATACCCATATCTTTC
Found at i:11396789 original size:9 final size:9
Alignment explanation
Indices: 11396775--11396805 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11396765 GTTAAACGAA
11396775 TCGAGTTAT
1 TCGAGTTAT
*
11396784 TCGAGTTAA
1 TCGAGTTAT
11396793 TCGAGTTAT
1 TCGAGTTAT
11396802 TCGA
1 TCGA
11396806 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:11399685 original size:17 final size:17
Alignment explanation
Indices: 11399660--11399695 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11399650 AAATCTCAGA
11399660 TTTTGATACCCATATCT
1 TTTTGATACCCATATCT
* *
11399677 TTTTTATACTCATATCT
1 TTTTGATACCCATATCT
11399694 TT
1 TT
11399696 GACTTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTTGATACCCATATCT
Found at i:11399959 original size:23 final size:22
Alignment explanation
Indices: 11399900--11399961 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
11399890 CAATCCAAAA
11399900 AAAAAT-AAAAAAAATAACACT
1 AAAAATAAAAAAAAATAACACT
11399921 AAAAATAAAAATAAAATAACGA-T
1 AAAAATAAAAA-AAAATAAC-ACT
11399944 AAATAA-AAGAAAAAAATA
1 AAA-AATAA-AAAAAAATA
11399962 GGTAGGATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
21 6 0.17
22 4 0.11
23 20 0.56
24 6 0.17
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAAAAAATAACACT
Found at i:11404338 original size:26 final size:27
Alignment explanation
Indices: 11404258--11404340 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 27
11404248 GTTTTGATAG
11404258 TTGTAAATTTGATAAGTTATATCATAT
1 TTGTAAATTTGATAAGTTATATCATAT
*
11404285 TTGTAATTTTGA-AA-TTATAT-ATAT
1 TTGTAAATTTGATAAGTTATATCATAT
11404309 TTGTAAATTTGATAAGTTATATCATA-
1 TTGTAAATTTGATAAGTTATATCATAT
11404335 TTGTAA
1 TTGTAA
11404341 TTATGAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
24 15 0.29
25 8 0.16
26 14 0.27
27 14 0.27
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.49
Consensus pattern (27 bp):
TTGTAAATTTGATAAGTTATATCATAT
Found at i:11404355 original size:26 final size:24
Alignment explanation
Indices: 11404258--11404356 Score: 85
Period size: 26 Copynumber: 3.8 Consensus size: 24
11404248 GTTTTGATAG
*
11404258 TTGTAAATTTGATAAGTTATATCATA
1 TTGT-AATTTGA-AATTTATATCATA
11404284 TTTGTAATTTTGAAA-TTATAT-ATA
1 -TTGTAA-TTTGAAATTTATATCATA
*
11404308 TTTGTAAATTTGATAAGTTATATCATA
1 -TTGT-AATTTGA-AATTTATATCATA
11404335 TTGTAATTATGAAATTGTATAT
1 TTGTAATT-TGAAATT-TATAT
11404357 ATTTGTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 15
0.80 0.01 0.19
Matches are distributed among these distances:
24 13 0.20
25 17 0.27
26 22 0.34
27 12 0.19
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.49
Consensus pattern (24 bp):
TTGTAATTTGAAATTTATATCATA
Found at i:11404360 original size:50 final size:51
Alignment explanation
Indices: 11404258--11404362 Score: 185
Period size: 50 Copynumber: 2.1 Consensus size: 51
11404248 GTTTTGATAG
*
11404258 TTGTAAATTTGATAAGTTATATCATATTTGTAATTTTGAAATTATATATAT
1 TTGTAAATTTGATAAGTTATATCATATTTGTAATTATGAAATTATATATAT
*
11404309 TTGTAAATTTGATAAGTTATATCATA-TTGTAATTATGAAATTGTATATAT
1 TTGTAAATTTGATAAGTTATATCATATTTGTAATTATGAAATTATATATAT
11404359 TTGT
1 TTGT
11404363 TGAAGAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
50 26 0.50
51 26 0.50
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.50
Consensus pattern (51 bp):
TTGTAAATTTGATAAGTTATATCATATTTGTAATTATGAAATTATATATAT
Found at i:11406810 original size:44 final size:45
Alignment explanation
Indices: 11406753--11406846 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 45
11406743 CATCGTCGAT
* *
11406753 ATCTTCTGAGACCACATCCATATC-GGGTCACTATATTCTTCAAA
1 ATCTTCTGAGACCACATCCACATCAGGGACACTATATTCTTCAAA
* * *
11406797 ATCTTTTGGGACCACATCCACATCAGGGACACTATATTCTTCAAC
1 ATCTTCTGAGACCACATCCACATCAGGGACACTATATTCTTCAAA
11406842 ATCTT
1 ATCTT
11406847 ATTAGAATCC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 21 0.48
45 23 0.52
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.32
Consensus pattern (45 bp):
ATCTTCTGAGACCACATCCACATCAGGGACACTATATTCTTCAAA
Found at i:11412409 original size:57 final size:57
Alignment explanation
Indices: 11412316--11412427 Score: 197
Period size: 57 Copynumber: 2.0 Consensus size: 57
11412306 ACATTCTAGA
* * *
11412316 ATCATCATCATCACCATCATCATCGTCTCTGTTGTCATCACCACCACCACCACCATC
1 ATCATCATCATCACCATCATCATCGTCGCCGATGTCATCACCACCACCACCACCATC
11412373 ATCATCATCATCACCATCATCATCGTCGCCGATGTCATCACCACCACCACCACCA
1 ATCATCATCATCACCATCATCATCGTCGCCGATGTCATCACCACCACCACCACCA
11412428 CCACCACCAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.28, C:0.43, G:0.06, T:0.23
Consensus pattern (57 bp):
ATCATCATCATCACCATCATCATCGTCGCCGATGTCATCACCACCACCACCACCATC
Found at i:11412419 original size:3 final size:3
Alignment explanation
Indices: 11412411--11412442 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11412401 CCGATGTCAT
11412411 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
11412443 TCATCATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:11413544 original size:22 final size:22
Alignment explanation
Indices: 11413502--11413544 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11413492 CCCATTCATT
*
11413502 CATCAATTAGACAGATTACAAG
1 CATCAATTAGACAGATCACAAG
*
11413524 CATCAATGTA-ACATATCACAA
1 CATCAAT-TAGACAGATCACAA
11413545 CCCATTTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (22 bp):
CATCAATTAGACAGATCACAAG
Found at i:11414459 original size:17 final size:17
Alignment explanation
Indices: 11414437--11414477 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
11414427 ATTCACAATA
11414437 CACAATATAATAGGGCT
1 CACAATATAATAGGGCT
11414454 CACAATATAATAGGGCT
1 CACAATATAATAGGGCT
*
11414471 CGCAATA
1 CACAATA
11414478 CAACAGAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (17 bp):
CACAATATAATAGGGCT
Found at i:11414629 original size:18 final size:18
Alignment explanation
Indices: 11414606--11414640 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11414596 AGGATCGCAC
*
11414606 AATAGCATGTGTTTGCAT
1 AATAGCATGGGTTTGCAT
11414624 AATAGCATGGGTTTGCA
1 AATAGCATGGGTTTGCA
11414641 CATAGTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (18 bp):
AATAGCATGGGTTTGCAT
Found at i:11414666 original size:21 final size:21
Alignment explanation
Indices: 11414633--11414741 Score: 85
Period size: 21 Copynumber: 5.2 Consensus size: 21
11414623 TAATAGCATG
* *
11414633 GGTTTGCACATAGTATAACAT
1 GGTTCGCATATAGTATAACAT
* * *
11414654 GGTTCACATATAGTATAATAA
1 GGTTCGCATATAGTATAACAT
* *
11414675 GGTTCTCATATAGTATAATAAT
1 GGTTCGCATATAGTATAA-CAT
* * *
11414697 -TTTTGCATATAATATAACAT
1 GGTTCGCATATAGTATAACAT
* * *
11414717 GGTTTGCATATGGTATAACAG
1 GGTTCGCATATAGTATAACAT
11414738 GGTT
1 GGTT
11414742 TTTAGAATAC
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
20 2 0.03
21 66 0.96
22 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (21 bp):
GGTTCGCATATAGTATAACAT
Found at i:11420074 original size:41 final size:41
Alignment explanation
Indices: 11420000--11420175 Score: 246
Period size: 41 Copynumber: 4.3 Consensus size: 41
11419990 CCTTTCGGGG
** *
11420000 CTTTAGCGGCGATTTTAAGAAAAGCG-CAACTAATGCTCAGAT
1 CTTTAGCGGCG-TTTTTGGAAAAGCGTC-GCTAATGCTCAGAT
* * *
11420042 CTTTAGCGTCGTTTTTGAAAAAGCGTCGCTAATTCTCAGAT
1 CTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTCAGAT
* *
11420083 CTTTAGCGGCATTTTTGGAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTCAGAT
*
11420124 CTTTAGTGGCGTTTTTGGAAAAGCGTCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTCAGAT
11420165 CTTTAGCGGCG
1 CTTTAGCGGCG
11420176 CTCGGGGCTT
Statistics
Matches: 118, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
41 107 0.91
42 11 0.09
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTCAGAT
Found at i:11420138 original size:82 final size:83
Alignment explanation
Indices: 11420000--11420175 Score: 273
Period size: 82 Copynumber: 2.1 Consensus size: 83
11419990 CCTTTCGGGG
*
11420000 CTTTAGCGGCGATTTTAAGAAAAGCGCAACTAATGCTCAGATCTTTAGCGTCGTTTTTGAAAAAG
1 CTTTAGCGGCGATTTTAAGAAAAGCGCAACTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAG
*
11420065 CGTCGCTAATTCTCAGAT
66 CGTCGCTAATGCTCAGAT
** ** * *
11420083 CTTTAGCGGC-ATTTTTGGAAAAGCGCCGCTAATGCTCAGATCTTTAGTGGCGTTTTTGGAAAAG
1 CTTTAGCGGCGATTTTAAGAAAAGCGCAACTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAG
11420147 CGTCGCTAATGCTCAGAT
66 CGTCGCTAATGCTCAGAT
11420165 CTTTAGCGGCG
1 CTTTAGCGGCG
11420176 CTCGGGGCTT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 74 0.88
83 10 0.12
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (83 bp):
CTTTAGCGGCGATTTTAAGAAAAGCGCAACTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAG
CGTCGCTAATGCTCAGAT
Done.