Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 16 of 198
Found at i:4963453 original size:21 final size:21
Alignment explanation
Indices: 4963386--4963446 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
4963376 ACCCCGAACC
* * *
4963386 CTAAACCCTAAACCATGAAT-
1 CTAAACACTAAACCTTAAATA
* * *
4963406 CAAAACACTAAACTTTGAATA
1 CTAAACACTAAACCTTAAATA
4963427 CTAAACACTAAACCTTAAAT
1 CTAAACACTAAACCTTAAAT
4963447 CTTAAACCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.49, C:0.25, G:0.03, T:0.23
Consensus pattern (21 bp):
CTAAACACTAAACCTTAAATA
Found at i:4963486 original size:20 final size:21
Alignment explanation
Indices: 4963456--4963496 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
4963446 TCTTAAACCT
*
4963456 TTCATAGTTTAGGGTTTAAGG
1 TTCATAGTTTAAGGTTTAAGG
4963477 TTCA-AGTTTAAGGTTTAAGG
1 TTCATAGTTTAAGGTTTAAGG
4963497 CTTAGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (21 bp):
TTCATAGTTTAAGGTTTAAGG
Found at i:4974963 original size:22 final size:22
Alignment explanation
Indices: 4974936--4974986 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
4974926 CTCTCTAATC
4974936 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
4974958 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
4974980 CTCTCAA
1 CTCTCAA
4974987 ACCCATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:4975046 original size:40 final size:40
Alignment explanation
Indices: 4974963--4975046 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
4974953 AAATTCTCTC
**
4974963 AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTT
1 AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATAAT
* *
4975003 AATTTCCTTCCAAAATTCTCTCAAATCCATTTTTTAA-AAT
1 AATTTCCTTCCAAAATTCTCTCAAACCCA-TATTTAATAAT
4975043 AATT
1 AATT
4975047 ATAATTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 33 0.85
41 6 0.15
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.43
Consensus pattern (40 bp):
AATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATAAT
Found at i:4975069 original size:31 final size:31
Alignment explanation
Indices: 4975032--4975096 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
4975022 CTCAAATCCA
*
4975032 TTTTTTAAAATAATTATAATTTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
*
4975063 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
4975094 TTT
1 TTT
4975097 CATCAATGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTTTTTATAT
Found at i:4976189 original size:7 final size:7
Alignment explanation
Indices: 4976177--4976201 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4976167 AGTCGATTGA
4976177 TATTTAG
1 TATTTAG
4976184 TATTTAG
1 TATTTAG
4976191 TATTTAG
1 TATTTAG
4976198 TATT
1 TATT
4976202 ATGTATGTAA
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:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:4976874 original size:18 final size:18
Alignment explanation
Indices: 4976853--4976887 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4976843 AGGTATGTTT
* *
4976853 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
4976871 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
4976888 TCCTTGTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:4977082 original size:29 final size:29
Alignment explanation
Indices: 4977047--4977871 Score: 995
Period size: 29 Copynumber: 28.1 Consensus size: 29
4977037 ACATTCAAAC
4977047 ACCTAAATTAACTAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* * *
4977076 ACCTAAATTAATTAAAAACCCT-AATCGA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
4977104 ACCTAAATTAACTAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* * *
4977133 ACCTAAATTAATTAAAAA-CCTTAATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* *
4977161 ACCTAAATTAATTAAAAACCCT-AATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* *
4977189 ACCTAAATTAACAAAAAACCTTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
*
4977218 ACCTAAATTAACTAAAAACCCTAACCCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
**
4977247 ACCTAAATTCCCTAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* *
4977276 ACCTAAATTAATTAAAAACCCT-AATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* **
4977304 ACCTAAATTAACAAAAAACCCTACGCCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
4977333 ACCTAAATTAACTAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* * *
4977362 ACCTAAATTAATTGAAAACCCT-AATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* *
4977390 ACCTAAATTAACAAAAAACCTTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* *
4977419 ACCTAAATTAACAAAAAACCCTAACCCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
4977448 ACCTAAATTAACTAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
** *
4977477 ATATAAATTAACTAAAAACCCTAACCCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
*
4977506 ACCTAAATT-CCTTAAAAACCCTAAACCTA
1 ACCTAAATTAAC-TAAAAACCCTAAACCTA
* *
4977535 ACCTAAATTAATTAAAAA-CCT-AATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
*
4977562 ACCTAAATTAACAAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
*
4977591 ACCTAAATTAACTAAAAACCCT-AATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
*
4977619 ACCTAAATTAACAAAAAAACCCTAAACCTA
1 ACCTAAATTAAC-TAAAAACCCTAAACCTA
* *
4977649 ACCTAAATTAACAAAAAACCCTAACCCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
** *
4977678 ACCCTAACCCTAACCCTAACCTACATTCCCTAAAAACCCTA
1 A-CCTAA-ATTAA--CTAA---A-A-ACCCT--AAA-CCTA
4977719 ACCCTAACATAAATTAACTAAAAACCCTAAACCTA
1 A--C---C-TAAATTAACTAAAAACCCTAAACCTA
* *
4977754 ACCTAAATTAATTAAAAACCCT-AATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
* * *
4977782 ACCTAAATTAACAAAAAACCTTAAATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
*
4977811 ACCTAAATTAAATAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
4977840 ACCTAAATTAACTAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTA
4977869 ACC
1 ACC
4977872 CTAATCTGGT
Statistics
Matches: 688, Mismatches: 79, Indels: 58
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.03
28 172 0.25
29 425 0.62
30 23 0.03
31 3 0.00
33 4 0.01
35 5 0.01
36 4 0.01
37 1 0.00
38 8 0.01
39 1 0.00
40 3 0.00
41 5 0.01
42 2 0.00
43 4 0.01
45 4 0.01
46 3 0.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.22
Consensus pattern (29 bp):
ACCTAAATTAACTAAAAACCCTAAACCTA
Found at i:4977135 original size:57 final size:57
Alignment explanation
Indices: 4977047--4977871 Score: 985
Period size: 57 Copynumber: 14.1 Consensus size: 57
4977037 ACATTCAAAC
* * *
4977047 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAATCGA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTA
* * *
4977104 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCTTAATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTA
* * * *
4977161 ACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACAAAAAACCTTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AACCTA
* **
4977218 ACCTAAATTAACTAAAAACCCTAACCCTAACCTAAATTCCCTAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AACCTA
* * * *
4977276 ACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACAAAAAACCCTACGCCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTA-ACCTA
* * *
4977333 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAATTGAAAACCCTAATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTA
* * *
4977390 ACCTAAATTAACAAAAAACCTTAAACCTAACCTAAATTAACAAAAAACCCTAACCCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAA-CCTA
**
4977448 ACCTAAATTAACTAAAAACCCTAAACCTAATATAAATTAACTAAAAACCCTAACCCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAA-CCTA
* * *
4977506 ACCTAAATT-CCTTAAAAACCCTAAACCTAACCTAAATTAATTAAAAA-CCTAATCTA
1 ACCTAAATTAAC-TAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTA
* *
4977562 ACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTA
* *
4977619 ACCTAAATTAACAAAAAAACCCTAAACCTAACCTAAATTAACAAAAAACCCTAACCCTA
1 ACCTAAATTAAC-TAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAA-CCTA
* * *
4977678 ACCCTAACCCTAACCCTAACCTACATTCCCTAAAAACCCTAACCCTAACATAAATTAACTAAAAA
1 A-CCT-A----AA--TTAA-CTA-A------AA--ACCCTAAACCTAACCTAAATTAACTAAAAA
4977743 CCCTAAACCTA
48 CCCT-AACCTA
* * * * *
4977754 ACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAACAAAAAACCTTAAATCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AACCTA
*
4977811 ACCTAAATTAAATAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAACCTA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AACCTA
4977869 ACC
1 ACC
4977872 CTAATCTGGT
Statistics
Matches: 671, Mismatches: 67, Indels: 59
0.84 0.08 0.07
Matches are distributed among these distances:
56 71 0.11
57 279 0.42
58 251 0.37
59 4 0.01
60 5 0.01
61 1 0.00
65 2 0.00
66 1 0.00
67 6 0.01
68 5 0.01
70 2 0.00
74 3 0.00
75 3 0.00
76 36 0.05
77 2 0.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.22
Consensus pattern (57 bp):
ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTA
Found at i:4977305 original size:86 final size:86
Alignment explanation
Indices: 4977047--4977871 Score: 1009
Period size: 86 Copynumber: 9.7 Consensus size: 86
4977037 ACATTCAAAC
* * *
4977047 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAATCGAACCTAAAT
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTAACCTAAAT
4977112 TAACTAAAAACCCTAAACCTA
66 TAACTAAAAACCCTAAACCTA
* * * * *
4977133 ACCTAAATTAATTAAAAA-CCTTAATCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAAT
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTAACCTAAAT
* *
4977197 TAACAAAAAACCTTAAACCTA
66 TAACTAAAAACCCTAAACCTA
* **
4977218 ACCTAAATTAACTAAAAACCCTAACCCTAACCTAAATTCCCTAAAAACCCTAAACCTAACCTAAA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AACCTAACCTAAA
* *
4977283 TTAATTAAAAACCCT-AATCTA
65 TTAACTAAAAACCCTAAACCTA
* **
4977304 ACCTAAATTAACAAAAAACCCTACGCCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AACCTAACCTAAA
* * *
4977369 TTAATTGAAAACCCT-AATCTA
65 TTAACTAAAAACCCTAAACCTA
* * *
4977390 ACCTAAATTAACAAAAAACCTTAAACCTAACCTAAATTAACAAAAAACCCTAACCCTAACCTAAA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAA-CCTAACCTAAA
4977455 TTAACTAAAAACCCTAAACCTA
65 TTAACTAAAAACCCTAAACCTA
** * *
4977477 ATATAAATTAACTAAAAACCCTAACCCTAACCTAAATT-CCTTAAAAACCCTAAACCTAACCTAA
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAAC-TAAAAACCCT-AACCTAACCTAA
* *
4977541 ATTAATTAAAAA-CCT-AATCTA
64 ATTAACTAAAAACCCTAAACCTA
* *
4977562 ACCTAAATTAACAAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAAT
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTAACCTAAAT
*
4977627 TAACAAAAAAACCCTAAACCTA
66 TAAC-TAAAAACCCTAAACCTA
* * ** * ***
4977649 ACCTAAATTAACAAAAAACCCTAACCCTAACCCT-AA--CCCT---AACCCTAACCT-ACATTCC
1 ACCTAAATTAACTAAAAACCCTAAACCTAA-CCTAAATTAACTAAAAACCCTAACCTAACCTAAA
* *
4977707 CTAA--A--AACCCTAACCCTA
65 TTAACTAAAAACCCTAAACCTA
* * *
4977725 ACATAAATTAACTAAAAACCCTAAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAAT
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTAACCTAAAT
* * *
4977790 TAACAAAAAACCTTAAATCTA
66 TAACTAAAAACCCTAAACCTA
*
4977811 ACCTAAATTAAATAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACC
1 ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AACCTAACC
4977872 CTAATCTGGT
Statistics
Matches: 638, Mismatches: 78, Indels: 45
0.84 0.10 0.06
Matches are distributed among these distances:
75 3 0.00
76 41 0.06
78 2 0.00
81 16 0.03
82 16 0.03
84 17 0.03
85 137 0.21
86 265 0.42
87 136 0.21
88 5 0.01
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.22
Consensus pattern (86 bp):
ACCTAAATTAACTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAACCTAACCTAAAT
TAACTAAAAACCCTAAACCTA
Found at i:4977676 original size:6 final size:6
Alignment explanation
Indices: 4977665--4977698 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
4977655 ATTAACAAAA
4977665 AACCCT AACCCT AACCCT AACCCT AACCCT AACC
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACC
4977699 TACATTCCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.35, C:0.50, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCCT
Found at i:4977687 original size:47 final size:47
Alignment explanation
Indices: 4977636--4977726 Score: 137
Period size: 47 Copynumber: 1.9 Consensus size: 47
4977626 TTAACAAAAA
4977636 AACCCTAAACCTAACCTAAATTAACAAAAAACCCTAACCCTAACCCT
1 AACCCTAAACCTAACCTAAATTAACAAAAAACCCTAACCCTAACCCT
* * ** *
4977683 AACCCTAACCCTAACCTACATTCCCTAAAAACCCTAACCCTAAC
1 AACCCTAAACCTAACCTAAATTAACAAAAAACCCTAACCCTAAC
4977727 ATAAATTAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.18
Consensus pattern (47 bp):
AACCCTAAACCTAACCTAAATTAACAAAAAACCCTAACCCTAACCCT
Found at i:4981275 original size:126 final size:127
Alignment explanation
Indices: 4980976--4981316 Score: 585
Period size: 126 Copynumber: 2.7 Consensus size: 127
4980966 CCCAAACTTG
*
4980976 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTTACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
4981041 TAGAAACGATTTTATACTATTTGCTCAGAAACATCAGAAAAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAAATTATTTCTTACATGAC
* * *
4981103 CTACTGTAGCAAAATCGCGTCCACGAGGGCGAGATTTCACTATTTCTTCTCAAATAGCATCCTTG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
4981168 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAG-AAAACAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAAATTATTTCTTACATGAC
* *
4981229 CTACTGTAGCAAAATCGCGTCCATGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
**
4981294 TAGAAGTGATTTTATACTATTTG
66 TAGAAACGATTTTATACTATTTG
4981317 ACCAGAGAAG
Statistics
Matches: 202, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
126 105 0.52
127 97 0.48
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (127 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAAATTATTTCTTACATGAC
Found at i:4982510 original size:15 final size:15
Alignment explanation
Indices: 4982481--4982510 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4982471 CTTAATTTAA
*
4982481 TTATTTTTAATATTT
1 TTATTTTTAAAATTT
4982496 TTATTTTTAAAATTT
1 TTATTTTTAAAATTT
4982511 GAAATTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTTTAAAATTT
Found at i:4987384 original size:22 final size:22
Alignment explanation
Indices: 4987342--4987386 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4987332 CTCATATTTA
* *
4987342 TAATTTTTATTTCATGTTGTTT
1 TAATTTTTATTTAATGATGTTT
4987364 TAATTTTT-TTTAATGAATGTTT
1 TAATTTTTATTTAATG-ATGTTT
4987386 T
1 T
4987387 TAACGTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (22 bp):
TAATTTTTATTTAATGATGTTT
Found at i:4987740 original size:35 final size:34
Alignment explanation
Indices: 4987671--4987740 Score: 79
Period size: 35 Copynumber: 2.0 Consensus size: 34
4987661 TGATCCTCTA
**
4987671 ATTTTTATATGAAAAAAACAATGATATTTGAAAT
1 ATTTTTATATGAAAAAAACAATGATATTAAAAAT
* *
4987705 ATTTTATATAT-AAAAACAATAATTATATTAAAAAT
1 ATTTT-TATATGAAAAA-AACAATGATATTAAAAAT
4987740 A
1 A
4987741 ATTATTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (34 bp):
ATTTTTATATGAAAAAAACAATGATATTAAAAAT
Found at i:4988071 original size:37 final size:37
Alignment explanation
Indices: 4987994--4988076 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 37
4987984 TAAAAAGATG
** **
4987994 AATT-AAAATAAAAAAATTGAAAACAATATATTTATT
1 AATTAAAAATAAAAAAATTGAAAACAATATAAATAAA
*
4988030 AATTAAAAATAAAAAACTTG-AAACAATATGAAATAAA
1 AATTAAAAATAAAAAAATTGAAAACAATAT-AAATAAA
*
4988067 AATTACAAAT
1 AATTAAAAAT
4988077 GTGTTTAGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
36 13 0.33
37 26 0.67
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.28
Consensus pattern (37 bp):
AATTAAAAATAAAAAAATTGAAAACAATATAAATAAA
Found at i:4991746 original size:3 final size:3
Alignment explanation
Indices: 4991738--4991787 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
4991728 CCACTCATTT
*
4991738 TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4991786 TA
1 TA
4991788 CTTACCTTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4994190 original size:16 final size:17
Alignment explanation
Indices: 4994146--4994190 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
4994136 ATGTATGCGT
4994146 ATATATTTATATTTTATA
1 ATAT-TTTATATTTTATA
*
4994164 ATATTTATATATTTT-TC
1 ATATTT-TATATTTTATA
4994181 ATATTTTATA
1 ATATTTTATA
4994191 ATCCAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 4 0.16
17 9 0.36
18 12 0.48
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTTTATATTTTATA
Found at i:5000682 original size:53 final size:51
Alignment explanation
Indices: 5000593--5000698 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 51
5000583 TTTTATTTAT
* * *
5000593 TATATTTTTTACTCTTACTTTCAACTTGTTGAAAAGGTTATACAAAGTTATCA
1 TATAATTTCTACTCTTACTTTCAACTTGTTGAAAAGG-T-TACAAAGTCATCA
*
5000646 TATAATTTCTACTCTTACTTTCTACTTGTTGAAAAGGTTACAAAGTCATCA
1 TATAATTTCTACTCTTACTTTCAACTTGTTGAAAAGGTTACAAAGTCATCA
5000697 TA
1 TA
5000699 CATTTCCTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 14 0.29
52 1 0.02
53 34 0.69
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (51 bp):
TATAATTTCTACTCTTACTTTCAACTTGTTGAAAAGGTTACAAAGTCATCA
Found at i:5004576 original size:28 final size:28
Alignment explanation
Indices: 5004536--5004596 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
5004526 TTAGATCCAT
5004536 GATGAACTAATCCTCTTGTGGAGGATTA
1 GATGAACTAATCCTCTTGTGGAGGATTA
5004564 GATGAACTAATCCTCTTGTGGAGGATTA
1 GATGAACTAATCCTCTTGTGGAGGATTA
5004592 G-TGAA
1 GATGAA
5004597 TTGAGGTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (28 bp):
GATGAACTAATCCTCTTGTGGAGGATTA
Found at i:5005650 original size:28 final size:28
Alignment explanation
Indices: 5005610--5005665 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
5005600 ATTACACACA
5005610 GCCCTGTCTAAACATTGTAATAAGTGAC
1 GCCCTGTCTAAACATTGTAATAAGTGAC
*
5005638 GCCCTGTCTAAACATTGTGATAAGTGAC
1 GCCCTGTCTAAACATTGTAATAAGTGAC
5005666 TTCTACTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (28 bp):
GCCCTGTCTAAACATTGTAATAAGTGAC
Found at i:5012047 original size:70 final size:69
Alignment explanation
Indices: 5011918--5012279 Score: 328
Period size: 69 Copynumber: 5.2 Consensus size: 69
5011908 AATTTGTGAA
* * * * * * * *
5011918 CCTTAATGTGACAACTAGAAACTTTTAACTCTCACTAATTGTTTGAAGGTTGCGGTGTTAAACCT
1 CCTTAATATGACAACTGGGAGCTTTTAACTCTCGCTAACTGTTTG-GGGGTGCGGTGTTAAACCT
5011983 GCGAG
65 GCGAG
* * * * * *
5011988 TCTTTATATGACAGCTGGGAGCTTTTAACTCTCACTAACTGTTTGGGGGCTGCGATGTTAAACTT
1 CCTTAATATGACAACTGGGAGCTTTTAACTCTCGCTAACTGTTTGGGGG-TGCGGTGTTAAACCT
5012053 GCGAG
65 GCGAG
* * ** * * * * * * *
5012058 CCAGAATAATATGATAGTTGGGAGCTTTTAACTCTCGGTAATTGTTTGAGAGTGTGGTGTCAAAT
1 CC---TTAATATGACAACTGGGAGCTTTTAACTCTCGCTAACTGTTTGGGGGTGCGGTGTTAAAC
*
5012123 CTACGAG
63 CTGCGAG
* * ** *
5012130 CTTTAATATGACAACTAGGAGCTTTTAACTCTCGCTAACTGTTTGGGGGTGTAGTGTTAAACCTA
1 CCTTAATATGACAACTGGGAGCTTTTAACTCTCGCTAACTGTTTGGGGGTGCGGTGTTAAACCTG
* *
5012195 TGAA
66 CGAG
* * * **
5012199 CCTTAATATGACAATTGGGAGCTTTTAACTCTCGCTAACTGCTTGGGAGCTTTGGTGTTAAACCT
1 CCTTAATATGACAACTGGGAGCTTTTAACTCTCGCTAACTGTTTGGG-GGTGCGGTGTTAAACCT
5012264 GCGAG
65 GCGAG
5012269 CCTTAATATGA
1 CCTTAATATGA
5012280 TACGAATGTT
Statistics
Matches: 234, Mismatches: 53, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
69 98 0.42
70 83 0.35
72 15 0.06
73 38 0.16
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (69 bp):
CCTTAATATGACAACTGGGAGCTTTTAACTCTCGCTAACTGTTTGGGGGTGCGGTGTTAAACCTG
CGAG
Found at i:5020959 original size:16 final size:17
Alignment explanation
Indices: 5020940--5020995 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
5020930 TAGGTGAAAT
*
5020940 TTTATATAAATAT-ATA
1 TTTATAAAAATATGATA
5020956 TTTATAAAAATATGATA
1 TTTATAAAAATATGATA
**
5020973 TAAATAACAAATAGTGAT-
1 TTTATAA-AAATA-TGATA
5020991 TTTAT
1 TTTAT
5020996 TGAAAGATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
16 12 0.38
17 8 0.25
18 8 0.25
19 4 0.12
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (17 bp):
TTTATAAAAATATGATA
Found at i:5021721 original size:39 final size:38
Alignment explanation
Indices: 5021678--5021759 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 38
5021668 GCCCGGCCCG
5021678 AATATATAATAAATATA-TATTTTTATTTTTTAATTTTAA
1 AATAT-TAATAAA-ATACTATTTTTATTTTTTAATTTTAA
** * *
5021717 AATATTTTTAAAATACTTTTTTTTATTTTTTATTTTTAA
1 AATATTAATAAAATAC-TATTTTTATTTTTTAATTTTAA
5021756 AATA
1 AATA
5021760 AATTTTTGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
37 3 0.08
38 5 0.14
39 29 0.78
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (38 bp):
AATATTAATAAAATACTATTTTTATTTTTTAATTTTAA
Found at i:5024331 original size:16 final size:17
Alignment explanation
Indices: 5024312--5024345 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5024302 TATTTTTATT
*
5024312 AATTTTT-TTAATTTAA
1 AATTTTTATAAATTTAA
5024328 AATTTTTATAAATTTAA
1 AATTTTTATAAATTTAA
5024345 A
1 A
5024346 TATGACCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTTATAAATTTAA
Found at i:5029580 original size:20 final size:20
Alignment explanation
Indices: 5029535--5029580 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
5029525 ATGTAAAAGT
*
5029535 TAAATTAAAAACAAAAATATC
1 TAAA-TAAAAACAAAAATAGC
* *
5029556 AAAATAAAAATAAAAATAGC
1 TAAATAAAAACAAAAATAGC
5029576 TAAAT
1 TAAAT
5029581 TAATAGAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.22
Consensus pattern (20 bp):
TAAATAAAAACAAAAATAGC
Found at i:5031184 original size:90 final size:90
Alignment explanation
Indices: 5031028--5031201 Score: 271
Period size: 90 Copynumber: 1.9 Consensus size: 90
5031018 CAAAAGTCGA
* *
5031028 CATAGTGTTGGATAAAACTGATTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCTTTA
1 CATAGTGTTGGATAAAACTGAATCTTATTTAAGCGTTGCCTTAGGCATGCATATCCAAACCTTTA
*
5031093 TACAAAGAGTTGGCCAAAGTGTCAG
66 TACAAAGAGTTGACCAAAGTGTCAG
* *
5031118 CATAGTGTTGGA-CAAACTCGAATCTTATTTAAGTGTTGCCTTAGGCATGCATATCTCAAACC-T
1 CATAGTGTTGGATAAAACT-GAATCTTATTTAAGCGTTGCCTTAGGCATGCATATC-CAAACCTT
5031181 TATACAAAGAGTTGACCAAAG
64 TATACAAAGAGTTGACCAAAG
5031202 CGTATGTCGG
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
89 5 0.06
90 67 0.87
91 5 0.06
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (90 bp):
CATAGTGTTGGATAAAACTGAATCTTATTTAAGCGTTGCCTTAGGCATGCATATCCAAACCTTTA
TACAAAGAGTTGACCAAAGTGTCAG
Found at i:5035714 original size:14 final size:14
Alignment explanation
Indices: 5035695--5035727 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
5035685 TTCTAAGAAA
5035695 ATATGTATGTATAT
1 ATATGTATGTATAT
5035709 ATATGTATGTATAT
1 ATATGTATGTATAT
5035723 ATATG
1 ATATG
5035728 AAAATAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.48
Consensus pattern (14 bp):
ATATGTATGTATAT
Found at i:5035866 original size:26 final size:26
Alignment explanation
Indices: 5035836--5035907 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
5035826 TATGTATGTG
*
5035836 AAAATATGTATGAATTATAAAATGGA
1 AAAATATATATGAATTATAAAATGGA
* * *
5035862 AAAATGTATATGTATTATAAAATGTA
1 AAAATATATATGAATTATAAAATGGA
** *
5035888 AATGTATATATGTA-TATAAA
1 AAAATATATATGAATTATAAA
5035908 CTATATATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 6 0.15
26 33 0.85
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.36
Consensus pattern (26 bp):
AAAATATATATGAATTATAAAATGGA
Found at i:5036049 original size:3 final size:3
Alignment explanation
Indices: 5036041--5036082 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
5036031 ATGTATAAGT
*
5036041 ATA ATA ATA AT- ATA ATA ATA ATA GTA ATA TATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA A
5036083 CAAAAATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 27 0.79
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:5036055 original size:8 final size:8
Alignment explanation
Indices: 5036044--5036082 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
5036034 TATAAGTATA
5036044 ATAATAAT
1 ATAATAAT
5036052 ATAATAAT
1 ATAATAAT
*
5036060 AATAGTAAT
1 -ATAATAAT
5036069 AT-ATAAT
1 ATAATAAT
5036076 ATAATAA
1 ATAATAA
5036083 CAAAAATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.22
8 14 0.52
9 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (8 bp):
ATAATAAT
Found at i:5037249 original size:41 final size:40
Alignment explanation
Indices: 5037180--5037411 Score: 227
Period size: 41 Copynumber: 5.7 Consensus size: 40
5037170 AATTCTCCTA
* *
5037180 TCTTTAGCGGCGTTTT-TGAATAATCGCCGCTAATGCTGCGG
1 TCTTTAGCGGCGTTTTCT-AAAAAGCGCCGCTAATGCT-CGG
* *
5037221 TCTTTAGCGGCGTTTTCTAAGATGCGCCGCTAATGCTCAGG
1 TCTTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCTC-GG
* * * * *
5037262 CCTTTAGCGGCGCTTTGTAAAAGGCGTCGCTAATGCTCAGG
1 TCTTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCTC-GG
* * * **
5037303 TCTTTAGCGGCATTTTTTACAAAGCGCCGCTAATGCTACAA
1 TCTTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCT-CGG
* *
5037344 TCTTTAGCGGCG-TTTCTCAGAAAGCACCGCTAATGCTCCGG
1 TCTTTAGCGGCGTTTTCT-AAAAAGCGCCGCTAATGCT-CGG
5037385 TCTTTAGCGGCG-TTTCTTAAAAAGCGC
1 TCTTTAGCGGCGTTTTC-TAAAAAGCGC
5037412 TGGTAAATAC
Statistics
Matches: 159, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
40 5 0.03
41 151 0.95
42 3 0.02
ACGTcount: A:0.20, C:0.25, G:0.25, T:0.31
Consensus pattern (40 bp):
TCTTTAGCGGCGTTTTCTAAAAAGCGCCGCTAATGCTCGG
Found at i:5037409 original size:82 final size:78
Alignment explanation
Indices: 5037163--5037411 Score: 255
Period size: 82 Copynumber: 3.0 Consensus size: 78
5037153 TTTCAAAACA
* * * * *
5037163 CGCCGCTAATTCTCCTATCTTTAGCGGCGTTTTTGAATAATCGCCGCTAATGCTGCGGTCTTTAG
1 CGCCGCTAATGCT-CAATCTTTAGCGGCGTTTCT-AA-AAGCGCCGCTAATGCTCCGGTCTTTAG
* *
5037228 CGGCGTTTTCTAAGATG
63 CGGCGTTTT-TAAAAAG
** * * *
5037245 CGCCGCTAATGCTCAGGCCTTTAGCGGCGCTTTGTAAAAGGCGTCGCTAATGCTCAGGTCTTTAG
1 CGCCGCTAATGCTCA-ATCTTTAGCGGCG-TTTCTAAAA-GCGCCGCTAATGCTCCGGTCTTTAG
* *
5037310 CGGCATTTTTTACAAAG
63 CGGC-GTTTTTAAAAAG
*
5037327 CGCCGCTAATGCTACAATCTTTAGCGGCGTTTCTCAGAAAGCACCGCTAATGCTCCGGTCTTTAG
1 CGCCGCTAATGCT-CAATCTTTAGCGGCGTTTCT-A-AAAGCGCCGCTAATGCTCCGGTCTTTAG
5037392 CGGCGTTTCTTAAAAAG
63 CGGCGTTT-TTAAAAAG
5037409 CGC
1 CGC
5037412 TGGTAAATAC
Statistics
Matches: 138, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
81 10 0.07
82 115 0.83
83 13 0.09
ACGTcount: A:0.20, C:0.26, G:0.24, T:0.31
Consensus pattern (78 bp):
CGCCGCTAATGCTCAATCTTTAGCGGCGTTTCTAAAAGCGCCGCTAATGCTCCGGTCTTTAGCGG
CGTTTTTAAAAAG
Found at i:5037433 original size:41 final size:41
Alignment explanation
Indices: 5037388--5037498 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
5037378 GCTCCGGTCT
* * * * *
5037388 TTAGCGGCGTTTCTTA-AAAAGCGCTGGTAAATACCTGAGCA
1 TTAGCGGCGCTTCTTAGAAAA-CGCCGCTAAAGACCGGAGCA
*
5037429 TTAGCGGCGCATCTTAGAAAACGCCGCTAAAGACCGGAGCA
1 TTAGCGGCGCTTCTTAGAAAACGCCGCTAAAGACCGGAGCA
* *
5037470 TTAGTGGCGCTTCTGAG-AAACGCCGCTAA
1 TTAGCGGCGCTTCTTAGAAAACGCCGCTAA
5037499 TAATAAAATC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
40 12 0.20
41 44 0.73
42 4 0.07
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTAGAAAACGCCGCTAAAGACCGGAGCA
Found at i:5039223 original size:7 final size:7
Alignment explanation
Indices: 5039211--5039236 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5039201 ACGGCTTGAT
5039211 GTTTATG
1 GTTTATG
5039218 GTTTATG
1 GTTTATG
5039225 GTTTATG
1 GTTTATG
5039232 GTTTA
1 GTTTA
5039237 GCCTTATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.27, T:0.58
Consensus pattern (7 bp):
GTTTATG
Found at i:5041833 original size:15 final size:15
Alignment explanation
Indices: 5041813--5041848 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5041803 ACCACCAATT
*
5041813 TGTTTTCATTTGTAC
1 TGTTTTCATTTCTAC
5041828 TGTTTTCATTTCTAC
1 TGTTTTCATTTCTAC
5041843 T-TTTTC
1 TGTTTTC
5041849 CTTTTATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.11, C:0.17, G:0.08, T:0.64
Consensus pattern (15 bp):
TGTTTTCATTTCTAC
Found at i:5042510 original size:9 final size:9
Alignment explanation
Indices: 5042496--5042551 Score: 59
Period size: 9 Copynumber: 6.8 Consensus size: 9
5042486 TTTAAAATGA
5042496 TACATAACT
1 TACATAACT
5042505 TACATAACT
1 TACATAACT
*
5042514 TA-TTAA--
1 TACATAACT
5042520 TACATAACT
1 TACATAACT
*
5042529 TATATAA--
1 TACATAACT
5042536 TACATAACT
1 TACATAACT
5042545 TACATAA
1 TACATAA
5042552 TACGACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 2 0.05
7 9 0.24
8 3 0.08
9 24 0.63
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:5042513 original size:43 final size:40
Alignment explanation
Indices: 5042449--5042551 Score: 127
Period size: 43 Copynumber: 2.5 Consensus size: 40
5042439 TTACCCATTT
* *
5042449 ATAATACAT-ACATTACATAACTTATTAATATATATATTTTAAA
1 ATAATACATAAC-TTACATAACTTATTAATACATA-A-CTT-AA
* *
5042492 ATGATACATAACTTACATAACTTATTAATACATAACTTAT
1 ATAATACATAACTTACATAACTTATTAATACATAACTTAA
5042532 ATAATACATAACTTACATAA
1 ATAATACATAACTTACATAA
5042552 TACGACATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
40 20 0.37
41 2 0.04
42 1 0.02
43 29 0.54
44 2 0.04
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.38
Consensus pattern (40 bp):
ATAATACATAACTTACATAACTTATTAATACATAACTTAA
Found at i:5042538 original size:16 final size:16
Alignment explanation
Indices: 5042505--5042554 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
5042495 ATACATAACT
5042505 TACATAACTTAT-TAA
1 TACATAACTTATATAA
5042520 TACATAACTTATATAA
1 TACATAACTTATATAA
*
5042536 TACATAACTTACATAA
1 TACATAACTTATATAA
5042552 TAC
1 TAC
5042555 GACATAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 12 0.36
16 21 0.64
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (16 bp):
TACATAACTTATATAA
Found at i:5048220 original size:66 final size:66
Alignment explanation
Indices: 5048129--5048296 Score: 203
Period size: 66 Copynumber: 2.5 Consensus size: 66
5048119 CAAATTACAA
* * * *
5048129 AACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAAAAATGAAGAACTCCAGCTA
1 AACTTAAAGCAGATGCAGCAACGAGAGAAGCTGAGGTTCAAAAAAAAAATGAAGAACTCCAGC-A
5048194 -C
65 GC
* ** **
5048195 AACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCAGCAG
1 AACTTAAAGCAGATGCAGCAACGAGAGAAGCTGAGGTTCAAAAAAAAAATGAAGAACTCCAGCAG
*
5048260 T
66 C
* * *
5048261 AGCTTAAAGCAGATGCGGCAACGAGAGAAGCAGAGG
1 AACTTAAAGCAGATGCAGCAACGAGAGAAGCTGAGG
5048297 CTGCAGCGAG
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
65 1 0.01
66 87 0.99
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (66 bp):
AACTTAAAGCAGATGCAGCAACGAGAGAAGCTGAGGTTCAAAAAAAAAATGAAGAACTCCAGCAG
C
Found at i:5048293 original size:21 final size:21
Alignment explanation
Indices: 5048267--5048316 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
5048257 CAGTAGCTTA
*
5048267 AAGCAGATGCGGCAACGAGAG
1 AAGCAGAGGCGGCAACGAGAG
* * *
5048288 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGGCGGCAACGAGAG
5048309 AAGCAGAG
1 AAGCAGAG
5048317 CAGCGTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Found at i:5048702 original size:43 final size:42
Alignment explanation
Indices: 5048650--5048754 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
5048640 TTAAAGGTAA
* *
5048650 TGGTCTTTAGCGGCGTTT-TATGCAAAAGCGCCGCTAAAGATCAG
1 TGGTATTTAGCGGCGTTTGTAAG--AAAGCGCCGCTAAAGATC-G
* *
5048694 -GGTATTTAGCGGCGTTTGTAAGGAAGCGCCGCTAAAGGTCG
1 TGGTATTTAGCGGCGTTTGTAAGAAAGCGCCGCTAAAGATCG
* *
5048735 TTGTCTTTAGCGGCGTTTGT
1 TGGTATTTAGCGGCGTTTGT
5048755 TTGGTAAGCG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.02
42 33 0.62
43 16 0.30
44 3 0.06
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.30
Consensus pattern (42 bp):
TGGTATTTAGCGGCGTTTGTAAGAAAGCGCCGCTAAAGATCG
Found at i:5048744 original size:42 final size:42
Alignment explanation
Indices: 5048651--5048817 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 42
5048641 TAAAGGTAAT
*
5048651 GGTCTTTAGCGGCGTTT-TATGCAAAAGCGCCGCTAAAGATCAG
1 GGTCTTTAGCGGCGTTTGTATG--GAAGCGCCGCTAAAGATCAG
* * *
5048694 GGTATTTAGCGGCGTTTGTAAGGAAGCGCCGCTAAAGGTC-G
1 GGTCTTTAGCGGCGTTTGTATGGAAGCGCCGCTAAAGATCAG
* * * *
5048735 TTGTCTTTAGCGGCGTTTGTTTGGTAAGCGCCGTTAAAG-TCCAT
1 -GGTCTTTAGCGGCGTTTGTATGG-AAGCGCCGCTAAAGAT-CAG
** * * *
5048779 GACCTTTAGCAGCGTTTGTTTCGTAAGCGCCGCTAAAGA
1 GGTCTTTAGCGGCGTTTGTAT-GGAAGCGCCGCTAAAGA
5048818 CCATAACCTT
Statistics
Matches: 101, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 36 0.36
43 60 0.59
44 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (42 bp):
GGTCTTTAGCGGCGTTTGTATGGAAGCGCCGCTAAAGATCAG
Found at i:5048786 original size:43 final size:43
Alignment explanation
Indices: 5048698--5048838 Score: 169
Period size: 43 Copynumber: 3.3 Consensus size: 43
5048688 GATCAGGGTA
** ** *
5048698 TTTAGCGGCGTTTGTAAGG-AAGCGCCGCTAAAGGTCGTTG-TC
1 TTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAA-GTCCATGACC
*
5048740 TTTAGCGGCGTTTGTTTGGTAAGCGCCGTTAAAGTCCATGACC
1 TTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAAGTCCATGACC
* * * *
5048783 TTTAGCAGCGTTTGTTTCGTAAGCGCCGCTAAAGACCATAACC
1 TTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAAGTCCATGACC
5048826 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
5048839 TTAGAAATAA
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 22 0.26
43 63 0.74
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTTTGGTAAGCGCCGCTAAAGTCCATGACC
Found at i:5049219 original size:24 final size:24
Alignment explanation
Indices: 5049192--5049252 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
5049182 GTTGTCATTT
* *
5049192 AATTAAAAAATTTA-TATATATTA
1 AATTAAAAAATATATTATATAGTA
*
5049215 CAATTATAAAAATATATTATTTAGTA
1 -AATTA-AAAAATATATTATATAGTA
5049241 AATTAAAAAATA
1 AATTAAAAAATA
5049253 AACAAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 12 0.38
25 13 0.41
26 7 0.22
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
AATTAAAAAATATATTATATAGTA
Found at i:5063594 original size:6 final size:6
Alignment explanation
Indices: 5063583--5063612 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
5063573 TTAAATCTTT
5063583 ATTTTA ATTTTA ATTTTA ATTTTA TATTTT
1 ATTTTA ATTTTA ATTTTA ATTTTA -ATTTT
5063613 TTGTTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTTA
Found at i:5063848 original size:73 final size:73
Alignment explanation
Indices: 5063717--5064113 Score: 469
Period size: 73 Copynumber: 5.4 Consensus size: 73
5063707 ACTATACGTG
** * * *
5063717 TCTATCCCAATTTTTTTAAGGTTACCTTAGACGGGTTTATCTCAACCTTTTTTAAAGGTTGCCTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
5063782 AGACAAGA
66 AGACAAGA
* * *
5063790 TTTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCGTT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
* *
5063855 AGACATGG
66 AGACAAGA
* ** *
5063863 TCTATCCCAACCTGTTTAAGGTTGCCTTAGATAGGTCTATCCCAACCTTTTTTTATAA-GTTGTC
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACC-TTTTTTA-AAGGTTGCC
5063927 TTAGACAA-A
64 TTAGACAAGA
* * *
5063936 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGCTCTAT-CCAAACTGTTTTTAAAAGTTGCC
1 -TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCT-TTTTTAAAGGTTGCC
5064000 TTAGACAAGA
64 TTAGACAAGA
* ** * * *
5064010 ACTATATCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCTCAACCTTTTTCAAAGGTTGGCCT
1 TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTT-GCCT
* *
5064075 TA-ACTAGG
65 TAGACAAGA
5064083 TCTATCCCAACCCTTTTTAAAGGTTGGCCTT
1 TCTATCCCAA-CCTTTTT-AAGGTT-GCCTT
5064114 GACTAGGCCT
Statistics
Matches: 274, Mismatches: 39, Indels: 19
0.83 0.12 0.06
Matches are distributed among these distances:
72 3 0.01
73 185 0.68
74 73 0.27
75 8 0.03
76 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (73 bp):
TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAAGGTTGCCTT
AGACAAGA
Found at i:5063989 original size:147 final size:145
Alignment explanation
Indices: 5063716--5064113 Score: 487
Period size: 147 Copynumber: 2.7 Consensus size: 145
5063706 CACTATACGT
** * * *
5063716 GTCTATCCCAATTTTTTTAAGGTTACCTTAGACGGGTTTATCTCAACCTTTTTTAAAGGTTGCCT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCTCAACCTTTTTTAAAGGTTGCCT
* * * *
5063781 TAGACAAGATTTATCTCAACCTTTTTAAGGTTGCCTTAGACGGGTCTATCCCAACCTTTTTTAAA
66 TAGACAAG-TCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCCAAACTTTTTTAAA
* * *
5063846 GGTTGCGTTAGACATG
130 AGTTGCCTTAGACAAG
* * * *
5063862 GTCTATCCCAACCTGTTTAAGGTTGCCTTAGATAGGTCTATCCCAACCTTTTTTTATAA-GTTGT
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCTCAACC-TTTTTTA-AAGGTTGC
5063926 CTTAGACAAAGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGCTCTAT-CCAAACTGTTTTT
64 CTTAGAC-AAGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCCAAACT-TTTTT
5063990 AAAAGTTGCCTTAGACAAG
127 AAAAGTTGCCTTAGACAAG
** ** *
5064009 AACTATATCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCTCAACCTTTTTCAAAGGTTGGCC
1 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCTCAACCTTTTTTAAAGGTT-GCC
*
5064074 TTA-ACTAGGTCTATCCCAACCCTTTTTAAAGGTTGGCCTT
65 TTAGAC-AAGTCTATCCCAA-CCTTTTT-AAGGTT-GCCTT
5064114 GACTAGGCCT
Statistics
Matches: 216, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
145 2 0.01
146 69 0.32
147 129 0.60
148 11 0.05
149 5 0.02
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (145 bp):
GTCTATCCCAACCTTTTTAAGGTTGCCTTAGACAGGTCTATCTCAACCTTTTTTAAAGGTTGCCT
TAGACAAGTCTATCCCAACCTTTTTAAGGTTGCCTTAGACGGCTCTATCCCAAACTTTTTTAAAA
GTTGCCTTAGACAAG
Found at i:5066969 original size:15 final size:14
Alignment explanation
Indices: 5066951--5066996 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
5066941 ACAAATATGT
5066951 ATTTTGTATATATAA
1 ATTTT-TATATATAA
*
5066966 ATTTTTATAATCTAA
1 ATTTTTAT-ATATAA
5066981 A-TTTTATATATAA
1 ATTTTTATATATAA
5066994 ATT
1 ATT
5066997 CATGTGTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.22
14 10 0.37
15 11 0.41
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (14 bp):
ATTTTTATATATAA
Found at i:5067067 original size:4 final size:4
Alignment explanation
Indices: 5067058--5067082 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
5067048 TATATTTTTG
5067058 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
5067083 GTTTTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:5070583 original size:86 final size:86
Alignment explanation
Indices: 5070436--5071705 Score: 1748
Period size: 86 Copynumber: 14.7 Consensus size: 86
5070426 ACTAGTGCTT
* *
5070436 AGGAAGGCAAGATCTGCTTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGCTTCATTT
1 AGGAAGGCAAGATCTGC-T-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTT
5070501 TCAATCTGCTTCGCTGTTAATGC
64 TCAATCTGCTTCGCTGTTAATGC
* *
5070524 AGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
*
5070589 AATCTGCTTCGCTGTTAATGT
66 AATCTGCTTCGCTGTTAATGC
* * * * * **
5070610 AGGAAGGAAAAATCTGCTTCTTTAAACAGCTCCACTACAACCAATGGAGGCAAGGCTTTATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
*
5070675 GATCTGCTTCGCTGTTAATGC
66 AATCTGCTTCGCTGTTAATGC
* * *
5070696 AAGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTCGTTTTT
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
* * *
5070761 AATCTGCTTCGTTGTGAATAC
66 AATCTGCTTCGCTGTTAATGC
* * *
5070782 AGGAAGGCAAAATCTACTTCTTTAACTAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
* *
5070847 AATATGCTTCACTGTTAATGC
66 AATCTGCTTCGCTGTTAATGC
* * * *
5070868 AGGAAGGCAAGATCTGCTTATTTAACCAGCTCCACTACAACCAATGGAGGCAAGGCTTTGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
* *
5070933 GATCTGCTTTGCTGTTAATGC
66 AATCTGCTTCGCTGTTAATGC
* * * *
5070954 AGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAAGCTTCATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
* *
5071019 AATCTACTTCGCTGTGAATGC
66 AATCTGCTTCGCTGTTAATGC
* * * *
5071040 AGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGCAGGCAATGCTTCGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
*
5071105 AATCTGCTTTGCTGTTAATGC
66 AATCTGCTTCGCTGTTAATGC
* ** *
5071126 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTACAACTAATGGAGGCAAGGCTTTGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
* * *
5071191 GATCTGCTTCGTTGTTAATGT
66 AATCTGCTTCGCTGTTAATGC
* * * *
5071212 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACTGATGGAAGCAAAGCTTCATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
*
5071277 AATCTGCTTTGCTGTTAATGC
66 AATCTGCTTCGCTGTTAATGC
* * * *
5071298 AGGAAGGCAAAATCTACTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTCATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
* *
5071363 AATCTGCTTCACTGTTAATAC
66 AATCTGCTTCGCTGTTAATGC
* * * ** *
5071384 AGGAAGGTAAGATCTGTTTCTTTAACCAGCTCCACTACAACTAATGGAGGCAAGGCTTTGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
* *
5071449 GATCTGCTTCGCTGTTAATAC
66 AATCTGCTTCGCTGTTAATGC
* * * * * * *
5071470 AGGAATGCAATATCTACTTTTTTAATCAGCTCCACTGCAACCGATGGAGGCAAAGTTTCGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
5071535 AATCTGCTTCGCTGTTAATGC
66 AATCTGCTTCGCTGTTAATGC
* * * * * *
5071556 AGGAAGGAAAAATGTGCTTCTTTAACCAGCTCCACTACAACCAATGGAGGCAAGGCTTTGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
* *
5071621 GATCTGCTTCGCTGTTGATGC
66 AATCTGCTTCGCTGTTAATGC
* * * *
5071642 AGAAAGACAAGATCTGCTTCTTTAACCAGCTCCACCGCAACCGATGGAGGCAAGGCTTCATTTT
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTT
5071706 TTATCTTCAC
Statistics
Matches: 1038, Mismatches: 144, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
86 1021 0.98
87 1 0.00
88 16 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (86 bp):
AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTC
AATCTGCTTCGCTGTTAATGC
Found at i:5070747 original size:43 final size:42
Alignment explanation
Indices: 5070700--5070921 Score: 98
Period size: 43 Copynumber: 5.2 Consensus size: 42
5070690 TAATGCAAGA
5070700 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTT-TTTAACCAGCTCCACTGCAACCGATGG
* * * * * ** * *
5070743 AGGCAA-AGCTTCGTTTTTAATCTGCTTCGTTGTGAATAC-A-GG
1 AGGCAAGATCTGC-TTTTTAACCAGCTCCACTG-CAA-CCGATGG
* * *
5070785 AAGGCAAAATCTACTTCTTTAACTAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTT-TTTAACCAGCTCCACTGCAACCGATGG
* * * * * * *
5070829 AGGCAAG-GCTTCGTTTTCAA-TATGCTTCACTGTTAA-TGCA-GG
1 AGGCAAGATCTGC-TTTTTAACCA-GCTCCACTG-CAACCG-ATGG
* *
5070871 AAGGCAAGATCTGCTTATTTAACCAGCTCCACTACAACCAATGG
1 -AGGCAAGATCTGCTT-TTTAACCAGCTCCACTGCAACCGATGG
5070915 AGGCAAG
1 AGGCAAG
5070922 GCTTTGTTTT
Statistics
Matches: 126, Mismatches: 35, Indels: 36
0.64 0.18 0.18
Matches are distributed among these distances:
41 2 0.02
42 37 0.29
43 52 0.41
44 34 0.27
45 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (42 bp):
AGGCAAGATCTGCTTTTTAACCAGCTCCACTGCAACCGATGG
Found at i:5070767 original size:258 final size:258
Alignment explanation
Indices: 5070436--5071699 Score: 1936
Period size: 258 Copynumber: 4.9 Consensus size: 258
5070426 ACTAGTGCTT
* *
5070436 AGGAAGGCAAGATCTGCTTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGCTTCATTT
1 AGGAAGGCAAGATCTGC-T-TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTCATTT
5070501 TCAATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACC
64 TCAATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACC
* * *
5070566 GATGGAGGCAAGGCTTCATTTTCAATCTGCTTCGCTGTTAATGTAGGAAGGAAAAATCTGCTTCT
129 GATGGAGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGAAGGAAAGATCTGCTTCT
* *
5070631 TTAAACAGCTCCACTACAACCAATGGAGGCAAGGCTTTATTTTCGATCTGCTTCGCTGTTAATGC
194 TTAACCAGCTCCACTACAACCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGC
* * *
5070696 AAGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTCGTTTTT
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTCATTTTC
* * * * *
5070761 AATCTGCTTCGTTGTGAATACAGGAAGGCAAAATCTACTTCTTTAACTAGCTCCACTGCAACCGA
66 AATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACCGA
* * * *
5070826 TGGAGGCAAGGCTTCGTTTTCAATATGCTTCACTGTTAATGCAGGAAGGCAAGATCTGCTTATTT
131 TGGAGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGAAGGAAAGATCTGCTTCTTT
*
5070891 AACCAGCTCCACTACAACCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTTGCTGTTAATGC
196 AACCAGCTCCACTACAACCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGC
* *
5070954 AGGAAGGCAAGATCTACTTCTTTAACCAGCTCCACTACAACCGATGGAGGCAAAGCTTCATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTCATTTTC
* * *
5071019 AATCTACTTCGCTGTGAATGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACCAA
66 AATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACCGA
* * * *
5071084 TGCAGGCAATGCTTCGTTTTCAATCTGCTTTGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTT
131 TGGAGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGAAGGAAAGATCTGCTTCTTT
* * *
5071149 AACCAGCTCCACTACAACTAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGT
196 AACCAGCTCCACTACAACCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGC
* *
5071212 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACTGATGGAAGCAAAGCTTCATTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTCATTTTC
* * *
5071277 AATCTGCTTTGCTGTTAATGCAGGAAGGCAAAATCTACTTCTTTAACCAGCTCCACTACAACCGA
66 AATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACCGA
* * * * *
5071342 TGGAGGCAAGGCTTCATTTTCAATCTGCTTCACTGTTAATACAGGAAGGTAAGATCTGTTTCTTT
131 TGGAGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGAAGGAAAGATCTGCTTCTTT
* *
5071407 AACCAGCTCCACTACAACTAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATAC
196 AACCAGCTCCACTACAACCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGC
* * * * * * *
5071470 AGGAATGCAATATCTACTTTTTTAATCAGCTCCACTGCAACCGATGGAGGCAAAGTTTCGTTTTC
1 AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTCATTTTC
* * * *
5071535 AATCTGCTTCGCTGTTAATGCAGGAAGGAAAAATGTGCTTCTTTAACCAGCTCCACTACAACCAA
66 AATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACCGA
* * * *
5071600 TGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTGATGCA-GAAAGACAAGATCTGCTTCTT
131 TGGAGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGAAGGA-AAGATCTGCTTCTT
** *
5071664 TAACCAGCTCCACCGCAACCGATGGAGGCAAGGCTT
195 TAACCAGCTCCACTACAACCAATGGAGGCAAGGCTT
5071700 CATTTTTTAT
Statistics
Matches: 914, Mismatches: 89, Indels: 4
0.91 0.09 0.00
Matches are distributed among these distances:
257 4 0.00
258 893 0.98
259 1 0.00
260 16 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (258 bp):
AGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAGCTTCATTTTC
AATCTGCTTCGCTGTTAATGCAGGAAGGCAAAATCTGCTTCTTTAACCAGCTCCACTGCAACCGA
TGGAGGCAAGGCTTCGTTTTCAATCTGCTTCGCTGTTAATGCAGGAAGGAAAGATCTGCTTCTTT
AACCAGCTCCACTACAACCAATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGC
Found at i:5072961 original size:33 final size:35
Alignment explanation
Indices: 5072876--5072962 Score: 106
Period size: 33 Copynumber: 2.5 Consensus size: 35
5072866 TTCATATTTT
* * *
5072876 ATTTTGACTTTGATTTTTTCTCTTTTTTGCTTTTG
1 ATTTTGATTTTGATTTTTTCACTTTTTTGCTTTCG
* **
5072911 ACTTTGATTTTTCTTTTTT-AC-TTTTTGCTTTCG
1 ATTTTGATTTTGATTTTTTCACTTTTTTGCTTTCG
5072944 ATTTTGATTTTGATTTTTT
1 ATTTTGATTTTGATTTTTT
5072963 TTTTGAATCT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
33 27 0.63
34 1 0.02
35 15 0.35
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.69
Consensus pattern (35 bp):
ATTTTGATTTTGATTTTTTCACTTTTTTGCTTTCG
Found at i:5084370 original size:21 final size:22
Alignment explanation
Indices: 5084340--5084380 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
5084330 TTACATTCAT
5084340 TTTTCGAGTAAATATTCTTTTA
1 TTTTCGAGTAAATATTCTTTTA
*
5084362 TTTT-GAGTAATTATTCTTT
1 TTTTCGAGTAAATATTCTTT
5084381 CATTCTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.59
Consensus pattern (22 bp):
TTTTCGAGTAAATATTCTTTTA
Found at i:5086555 original size:44 final size:44
Alignment explanation
Indices: 5086419--5086997 Score: 199
Period size: 44 Copynumber: 13.2 Consensus size: 44
5086409 AAACTCCAGC
*
5086419 CTTGCTTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* * ** * * ** * * *
5086463 CTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGC-AGAT
* *
5086507 CTTGCCTCCCTGGGTTGTAGCGGAGTAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* **** * ** ** * * * *
5086551 CTTGCCTTCCTGCACAGACAGCGAAGCAAATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
* * * * *
5086595 CTTACCTCCTTGGATTGCAGCGGAGCAGGTTAAAAAAAGCAAAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* ** ** * * ** * * *
5086639 CTTGCCTTCCTACGCCGACAGCGAAGCAGATCGAAGACA-C-CAT
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
* *
5086682 CCTTGCCTCCCTGGGTTGCAGTGGAGCATGTTAAAAATAGCAGAT
1 -CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* ** ** * * * *
5086727 CTTGCCTTCCTACGCCGACAGCGAAACAGATCGAAGAAACTAGC----
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGT-TAA-AAA-TAGCAGAT
* **
5086771 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAATAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* **** * * ** * * * *
5086815 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACATCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
*
5086859 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
* * ** * * ** * * * *
5086903 CTTGCCTTCCTGCGCCGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGGAGCAGGTTAAAAATAGCAGAT
* *
5086947 CTTGCCTCCCTGGGTTACAGCAGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
5086991 CTTGCCT
1 CTTGCCT
5086998 TCCTACACCG
Statistics
Matches: 350, Mismatches: 163, Indels: 44
0.63 0.29 0.08
Matches are distributed among these distances:
40 2 0.01
41 3 0.01
42 2 0.01
43 90 0.26
44 153 0.44
45 91 0.26
46 2 0.01
47 3 0.01
48 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
Found at i:5086571 original size:88 final size:88
Alignment explanation
Indices: 5086414--5087045 Score: 931
Period size: 88 Copynumber: 7.2 Consensus size: 88
5086404 CGATGAAACT
*
5086414 CCAGCCTTGCTTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
1 CCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
5086479 GACAGCGAAGCAGATCGAAGACA
66 GACAGCGAAGCAGATCGAAGACA
* * * * *
5086502 CTAGCCTTGCCTCCCTGGGTTGTAGCGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTGCACA
1 CCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
*
5086567 GACAGCGAAGCAAATCGAAGACA
66 GACAGCGAAGCAGATCGAAGACA
* * * * * *
5086590 CCAGCCTTACCTCCTTGGATTGCAGCGGAGCAGGTTAAAAAAAGCAAATCTTGCCTTCCTACGCC
1 CCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
5086655 GACAGCGAAGCAGATCGAAGACA
66 GACAGCGAAGCAGATCGAAGACA
* * * *
5086678 CCATCCTTGCCTCCCTGGGTTGCAGTGGAGCATGTTAAAAATAGCAGATCTTGCCTTCCTACGCC
1 CCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
* *
5086743 GACAGCGAAACAGATCGAAGAAA
66 GACAGCGAAGCAGATCGAAGACA
* * ** *
5086766 CTAGCCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTAAAAATAATAGATCTTGCCTTCCTGCACC
1 CCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
5086831 GACAGCGAAGCAGATCGAAGACA
66 GACAGCGAAGCAGATCGAAGACA
* *
5086854 TCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGCGCC
1 CCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
5086919 GACAGCGAAGCAGATCGAAGACA
66 GACAGCGAAGCAGATCGAAGACA
* * * *
5086942 CCAGCCTTGCCTCCCTGGGTTACAGCAGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTACACC
1 CCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
** * * * *
5087007 GGTAGTGGAGCAGATCGAAGTCC
66 GACAGCGAAGCAGATCGAAGACA
*
5087030 CCAGCCTTGTCTCCCT
1 CCAGCCTTGCCTCCCT
5087046 AAGCAGTAGT
Statistics
Matches: 488, Mismatches: 56, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 488 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.21
Consensus pattern (88 bp):
CCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGATCTTGCCTTCCTGCGCC
GACAGCGAAGCAGATCGAAGACA
Found at i:5086974 original size:43 final size:42
Alignment explanation
Indices: 5086832--5086974 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 42
5086822 TCCTGCACCG
*
5086832 ACAGCGAAGCAGATCGAAGACATCAGCCTTGCCTCCCTGGGTT
1 ACAGCG-AGCAGATCGAAGACAACAGCCTTGCCTCCCTGGGTT
* * ** * * * * ***
5086875 GCAGCGGAGCAGGTTAAAAATAACAGATCTTGCCTTCCTGCGCCG
1 ACAGC-GAGCAGATCGAAGACAACAG-CCTTGCCTCCCTG-GGTT
*
5086920 ACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 ACAGCG-AGCAGATCGAAGACAACAGCCTTGCCTCCCTGGGTT
5086963 ACAGCAGAGCAG
1 ACAGC-GAGCAG
5086975 GTTAAAAATA
Statistics
Matches: 71, Mismatches: 24, Indels: 10
0.68 0.23 0.10
Matches are distributed among these distances:
43 28 0.39
44 25 0.35
45 18 0.25
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (42 bp):
ACAGCGAGCAGATCGAAGACAACAGCCTTGCCTCCCTGGGTT
Found at i:5087056 original size:43 final size:43
Alignment explanation
Indices: 5087008--5087219 Score: 201
Period size: 44 Copynumber: 4.9 Consensus size: 43
5086998 TCCTACACCG
* * *
5087008 GTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTAAGCA
1 GTAGTGGAGTAGATCGAAATCCCCAGCCTTATCTCCCTAAGCA
* * ** *
5087051 GTAGTGGAGTAGGTTGAAAAT-TACAGATCTTATCTCCCTAAGCA
1 GTAGTGGAGTAGATCG-AAATCCCCAG-CCTTATCTCCCTAAGCA
* * *
5087095 GTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTAAGCA
1 GTAGTGGAGTAGATCGAAATCCCCAGCCTTATCTCCCTAAGCA
* * * ** * ** *
5087138 GCAGTGGAGTAGGTTGAAAATTACAAAACTTATCTCCCTAAGCG
1 GTAGTGGAGTAGATCG-AAATCCCCAGCCTTATCTCCCTAAGCA
*
5087182 GTAGTGGAGTAGATCGAAATCCCCAGCCTTTTCTCCCT
1 GTAGTGGAGTAGATCGAAATCCCCAGCCTTATCTCCCT
5087220 GCGCAGCAGT
Statistics
Matches: 128, Mismatches: 37, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
43 62 0.48
44 66 0.52
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.25
Consensus pattern (43 bp):
GTAGTGGAGTAGATCGAAATCCCCAGCCTTATCTCCCTAAGCA
Found at i:5087091 original size:44 final size:44
Alignment explanation
Indices: 5087034--5087268 Score: 190
Period size: 44 Copynumber: 5.4 Consensus size: 44
5087024 AAGTCCCCAG
*
5087034 CCTTGTCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGA
* * * * * **
5087078 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGTCCCCAG-
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAAT-TACAGA
* * *
5087121 CCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATTACAAA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGA
* * * * **
5087165 ACTTATCTCCCTAAGCGGTAGTGGAGTAGATCG-AAATCCCCAG-
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAAT-TACAGA
* ** * * * *
5087208 CCTTTTCTCCCTGCGCAGCAGTAGAGTAGGTTGAAAATTATATA
1 CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGA
* *
5087252 TCTTATCTCCTTAAGCA
1 CCTTATCTCCCTAAGCA
5087269 AAAGTAGAGC
Statistics
Matches: 140, Mismatches: 45, Indels: 12
0.71 0.23 0.06
Matches are distributed among these distances:
43 61 0.44
44 79 0.56
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (44 bp):
CCTTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATTACAGA
Found at i:5087126 original size:87 final size:87
Alignment explanation
Indices: 5087008--5087283 Score: 408
Period size: 87 Copynumber: 3.2 Consensus size: 87
5086998 TCCTACACCG
*
5087008 GTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTAAGCAGTAGTGGAGTAGGTTGAAAATT
1 GTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATT
*
5087073 ACAGATCTTATCTCCCTAAGCA
66 ACAAATCTTATCTCCCTAAGCA
5087095 GTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATT
1 GTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATT
* *
5087160 ACAAAACTTATCTCCCTAAGCG
66 ACAAATCTTATCTCCCTAAGCA
* * * ** *
5087182 GTAGTGGAGTAGATCGAAATCCCCAGCCTTTTCTCCCTGCGCAGCAGTAGAGTAGGTTGAAAATT
1 GTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATT
* * *
5087247 ATATATCTTATCTCCTTAAGCA
66 ACAAATCTTATCTCCCTAAGCA
** *
5087269 AAAGTAGAGCAGATC
1 GTAGTGGAGCAGATC
5087284 AAGAATGGTA
Statistics
Matches: 170, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 170 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (87 bp):
GTAGTGGAGCAGATCGAAGTCCCCAGCCTTGTCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATT
ACAAATCTTATCTCCCTAAGCA
Found at i:5090238 original size:23 final size:23
Alignment explanation
Indices: 5090211--5090309 Score: 144
Period size: 23 Copynumber: 4.3 Consensus size: 23
5090201 AGTGTTATTG
* *
5090211 ATCAGTGGCAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
5090234 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
5090257 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
5090280 TTCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
5090303 ATCAGTG
1 ATCAGTG
5090310 TTGCACTTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:5093334 original size:18 final size:20
Alignment explanation
Indices: 5093311--5093353 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
5093301 GACACATAAG
5093311 TATTTAATAT-T-TGTATTT
1 TATTTAATATATATGTATTT
5093329 TATTTAATATATATGTATTT
1 TATTTAATATATATGTATTT
5093349 TATTT
1 TATTT
5093354 TTACACATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.43
19 1 0.04
20 12 0.52
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TATTTAATATATATGTATTT
Found at i:5093591 original size:15 final size:15
Alignment explanation
Indices: 5093571--5093632 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
5093561 AATTTATTTG
5093571 ATAATAATAAATATA
1 ATAATAATAAATATA
* *
5093586 ATAATAATAATTACA
1 ATAATAATAAATATA
* * *
5093601 ACATTAATTTAATATA
1 ATAATAA-TAAATATA
5093617 ATAATTTAATAAATAT
1 ATAA--TAATAAATAT
5093633 CTATTTAATA
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
15 18 0.53
16 7 0.21
17 6 0.18
18 3 0.09
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAATAATAAATATA
Found at i:5093752 original size:14 final size:17
Alignment explanation
Indices: 5093733--5093770 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
5093723 ATTTATTTCT
5093733 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
5093747 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
5093764 TAATATA
1 TAATATA
5093771 GTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:5093788 original size:11 final size:11
Alignment explanation
Indices: 5093750--5093788 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
5093740 ATATTTATAA
5093750 TATAATTAATT
1 TATAATTAATT
*
5093761 TAATAATATAGTT
1 T-ATAAT-TAATT
5093774 TATAATTAATT
1 TATAATTAATT
5093785 TATA
1 TATA
5093789 TATTTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:5099017 original size:4 final size:4
Alignment explanation
Indices: 5099008--5099038 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
5098998 CATCTATTCG
5099008 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
5099039 CACTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:5105297 original size:44 final size:44
Alignment explanation
Indices: 5105166--5105469 Score: 142
Period size: 44 Copynumber: 7.0 Consensus size: 44
5105156 CAAACCTTAT
* *
5105166 CTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAATAGATCTTGC
1 CTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGC
* * * * * *
5105210 CT-TC-CTATATTGACAGC-GAAGCAGATTG-A-A-AACAAACCTTGC
1 CTCTCTC-GT-TTG-TAGCAG-AGCTGGTTGAAGATAACAGATCTTGC
*
5105252 CTCTCTCGTTTGTAGCAGGGCTGGTTGAAGATAACAGATCTTGC
1 CTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGC
* *** * * *
5105296 CT-TC-CTGCATTG-ACGGC-GAAGCAAATCGAAG---ACAAACCTTGC
1 CTCTCTC-G-TTTGTA--GCAG-AGCTGGTTGAAGATAACAGATCTTGC
*
5105338 CTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAATAGATCTTGC
1 CTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGC
* * * * * *
5105382 CT-TC-CTGCATTGACAGC-GAAGCAGATTGAAG---ACAAACCTTGC
1 CTCTCTC-G-TTTG-TAGCAG-AGCTGGTTGAAGATAACAGATCTTGC
*
5105424 CTCTCTCGTTTGTAGCAGAGCTGGTTGACGATAACAGATCTTGC
1 CTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGC
5105468 CT
1 CT
5105470 TCCTGCATTG
Statistics
Matches: 183, Mismatches: 45, Indels: 64
0.63 0.15 0.22
Matches are distributed among these distances:
41 31 0.17
42 48 0.26
43 22 0.12
44 51 0.28
45 31 0.17
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (44 bp):
CTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGC
Found at i:5105298 original size:86 final size:86
Alignment explanation
Indices: 5105149--5105586 Score: 671
Period size: 86 Copynumber: 5.1 Consensus size: 86
5105139 ATCAGTAAAA
** * *
5105149 ATCGAA-ACAAACCTTATCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAATAGATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
**
5105213 CCTATATTGACAGCGAAGCAG
66 CCTGCATTGACAGCGAAGCAG
* * *
5105234 ATTGAAAACAAACCTTGCCTCTCTCGTTTGTAGCAGGGCTGGTTGAAGATAACAGATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
* *
5105299 CCTGCATTGACGGCGAAGCAA
66 CCTGCATTGACAGCGAAGCAG
*
5105320 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAATAGATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
5105385 CCTGCATTGACAGCGAAGCAG
66 CCTGCATTGACAGCGAAGCAG
* *
5105406 ATTGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGACGATAACAGATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
* *
5105471 CCTGCATTGACGGCGAAGCGG
66 CCTGCATTGACAGCGAAGCAG
** *
5105492 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATTGCAAATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
* *
5105557 CCTGTATTTGGCAGCGAAGCAG
66 CCTGCA-TTGACAGCGAAGCAG
5105579 ATCGAAGA
1 ATCGAAGA
5105587 TGGCAGATTT
Statistics
Matches: 321, Mismatches: 30, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
85 5 0.02
86 296 0.92
87 20 0.06
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (86 bp):
ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
CCTGCATTGACAGCGAAGCAG
Found at i:5105413 original size:45 final size:43
Alignment explanation
Indices: 5105190--5105499 Score: 114
Period size: 45 Copynumber: 7.2 Consensus size: 43
5105180 GTAGAGCTGG
*
5105190 TTGAAGATAATAGATCTTGCCTTCCTATATTGACAGCGAAGCAGA
1 TTGAAGATAA-AGATCTTGCCTTCCT-CATTGACAGCGAAGCAGA
* * * *
5105235 TTGAA-A-ACAA-ACCTTGCC-TCTCTCGTTTGTAGCAG-G--GCTGG
1 TTGAAGATA-AAGATCTTGCCTTC-CTC-ATTG-A-CAGCGAAGCAGA
* *
5105276 TTGAAGATAACAGATCTTGCCTTCCTGCATTGACGGCGAAGCAAA
1 TTGAAGATAA-AGATCTTGCCTTCCT-CATTGACAGCGAAGCAGA
* * * * * * *
5105321 TCGAAGA-CAA-ACCTTGCC-TCTCTCGTTTG-TAGC-AGAGCTGG
1 TTGAAGATAAAGATCTTGCCTTC-CTC-ATTGACAGCGA-AGCAGA
5105362 TTGAAGATAATAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGA
1 TTGAAGATAA-AGATCTTGCCTTCCT-CATTGACAGCGAAGCAGA
* * * * * *
5105407 TTGAAGA-CAA-ACCTTGCC-TCTCTCGTTTG-TAGC-AGAGCTGG
1 TTGAAGATAAAGATCTTGCCTTC-CTC-ATTGACAGCGA-AGCAGA
* * *
5105448 TTGACGATAACAGATCTTGCCTTCCTGCATTGACGGCGAAGCGGA
1 TTGAAGATAA-AGATCTTGCCTTCCT-CATTGACAGCGAAGCAGA
*
5105493 TCGAAGA
1 TTGAAGA
5105500 CAAACCTTGC
Statistics
Matches: 188, Mismatches: 43, Indels: 68
0.63 0.14 0.23
Matches are distributed among these distances:
40 2 0.01
41 40 0.21
42 42 0.22
43 12 0.06
44 43 0.23
45 47 0.25
46 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (43 bp):
TTGAAGATAAAGATCTTGCCTTCCTCATTGACAGCGAAGCAGA
Found at i:5105555 original size:44 final size:42
Alignment explanation
Indices: 5105323--5105555 Score: 137
Period size: 44 Copynumber: 5.4 Consensus size: 42
5105313 GAAGCAAATC
5105323 GAAGA-CAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
1 GAAGATCAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
* * * * * *
5105364 GAAGATAATAGATCTTGCCT-TC-CTGCATTGACAGC-GAAGCAGATT
1 GAAGATCA-A-ACCTTGCCTCTCTC-G-TTTG-TAGCAG-AGCTGGTT
5105409 GAAGA-CAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
1 GAAGATCAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
* * * * *
5105450 GACGATAACAGATCTTGCCT-TC-CTGCATTG-ACGGC-GAAGC-GGATC
1 GAAGAT--CAAACCTTGCCTCTCTC-G-TTTGTA--GCAG-AGCTGG-TT
5105495 GAAGA-CAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
1 GAAGATCAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
*
5105536 GAAGATTGCAAATCTTGCCT
1 GAAGA-T-CAAACCTTGCCT
5105556 TCCTGTATTT
Statistics
Matches: 142, Mismatches: 23, Indels: 51
0.66 0.11 0.24
Matches are distributed among these distances:
41 29 0.20
42 31 0.22
43 16 0.11
44 42 0.30
45 24 0.17
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (42 bp):
GAAGATCAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTT
Found at i:5105741 original size:46 final size:46
Alignment explanation
Indices: 5105557--5105741 Score: 114
Period size: 46 Copynumber: 4.1 Consensus size: 46
5105547 ATCTTGCCTT
* *
5105557 CCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTC
1 CCTGTATTTCGCAGCGAAGCAGATCGAAGATGACAGATTTTACCTC
* * * * * ** * * * *
5105603 ACTG-ATTACAG-AG-G-AGTACATTGAAGCCGATA-ACTCTATCTC
1 CCTGTATTTC-GCAGCGAAGCAGATCGAAGATGACAGATTTTACCTC
* * * * * * *
5105645 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATTG-CAGATCTTGCCTT
1 CCTGTATTTCGCAG-CGAAGCAGATCGAAGA-TGACAGATTTTACCTC
5105691 CCTGTATTTCGCAGCGAAGCAGATCGAAGATGACAGATTTTACCTC
1 CCTGTATTTCGCAGCGAAGCAGATCGAAGATGACAGATTTTACCTC
5105737 CCTGT
1 CCTGT
5105742 GACTACAGTG
Statistics
Matches: 96, Mismatches: 33, Indels: 20
0.64 0.22 0.13
Matches are distributed among these distances:
42 11 0.11
43 16 0.17
44 1 0.01
45 21 0.22
46 47 0.49
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (46 bp):
CCTGTATTTCGCAGCGAAGCAGATCGAAGATGACAGATTTTACCTC
Found at i:5105790 original size:134 final size:133
Alignment explanation
Indices: 5105534--5107139 Score: 2590
Period size: 134 Copynumber: 12.0 Consensus size: 133
5105524 GCAGAGCTGG
*
5105534 TTGAAGATTGCAAATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * *
5105599 CCTCACTGATTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5105664 TAGA
130 TAGA
* *
5105668 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTCGCAGCGAAGCAGATCGAAGATGACAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * *
5105733 CCTCCCTGTGACTACAGTGGAGTACATTAAAGCCAATAACTCTATCTCCCTG-GTTGGCAGTGGA
66 CCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGATTTGGCAGTGGA
5105797 ATAGA
129 ATAGA
* * * *
5105802 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCGGCAAAGCAGGTCGAAGATGGTAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * *** *
5105867 CCTCCCTGACTATAGTGGAGTACATTGAAGCCAATAGGGGCGATCTCCCTGA-TTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATA-ACTCTATCTCCCTGATTTGGCAGTGGAA
5105931 TAGA
130 TAGA
*
5105935 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
*
5106000 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5106065 TAGA
130 TAGA
* *
5106069 TTGAAGATTGCAGATCTTGCCTTCTTGTATTTGGTAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
*
5106134 CCTCCCTGACTACAGTGGAGTACATTGAAACCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5106199 TAGA
130 TAGA
5106203 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
*
5106268 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5106333 TAGA
130 TAGA
**
5106337 TTGAAGATAACAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * *
5106402 CCTCCCTGACTATAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5106467 TAGA
130 TAGA
*** * * * * * *
5106471 TTGAAGATAATAGATCTTGCCCTCCTGCA-TCGTCAGTGAGGCAGATC-AGAGATGGCAGATTTT
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGA-AGATGGCAGATTTT
*
5106534 ACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGA
65 ACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGA
5106599 ATAGA
129 ATAGA
* * *
5106604 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGTAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * *
5106669 CCTCCTTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5106734 TAGA
130 TAGA
5106738 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
*
5106803 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCTTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5106868 TAGA
130 TAGA
* *
5106872 TTGAAGATTGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAACAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
*
5106937 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5107002 TAGA
130 TAGA
*
5107006 TTGAAGATTGCAGATTTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
*
5107071 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTAGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTG-ATTTGGCAGTGGAA
5107136 TAGA
130 TAGA
5107140 GTAAAGAAAA
Statistics
Matches: 1378, Mismatches: 85, Indels: 18
0.93 0.06 0.01
Matches are distributed among these distances:
132 39 0.03
133 239 0.17
134 1059 0.77
135 1 0.00
136 40 0.03
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (133 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGATTTGGCAGTGGAAT
AGA
Found at i:5106543 original size:535 final size:536
Alignment explanation
Indices: 5105534--5107139 Score: 2693
Period size: 535 Copynumber: 3.0 Consensus size: 536
5105524 GCAGAGCTGG
*
5105534 TTGAAGATTGCAAATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * *
5105599 CCTCACTGATTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
* *
5105664 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTCGCAGCGAAGCAGATCGAAGATGACAGAT
131 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
* * *
5105729 TTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCAATAACTCTATCTCCCTG--GTTGGCA
196 TTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCA
* * *
5105792 GTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCGGCAAAGCAGGTCGAAGATG
259 GTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATG
* * * *** *
5105857 GTAGATTTTACCTCCCTGACTATAGTGGAGTACATTGAAGCCAATAGGGGCGATCTCCCTG-A-T
324 GCAGATTTTACCTCCCTGACTATAGAGGAGTACATTGAAGCCGATA-ACTCTATCTCCCTGTATT
*
5105920 TGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAA
388 TGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAG
5105985 AGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTG
453 AGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTG
5106050 TATTTGGCAGTGGAATAGA
518 TATTTGGCAGTGGAATAGA
* *
5106069 TTGAAGATTGCAGATCTTGCCTTCTTGTATTTGGTAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
*
5106134 CCTCCCTGACTACAGTGGAGTACATTGAAACCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
5106199 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
131 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
*
5106264 TTTACCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
196 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
**
5106329 GGAATAGATTGAAGATAACAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGC
261 GGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGC
5106394 AGATTTTACCTCCCTGACTATAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
326 AGATTTTACCTCCCTGACTATAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
* *** * * * * * *
5106459 CAGTAGAATAGATTGAAGATAATAGATCTTGCCCTCCTGCA-TCGTCAGTGAGGCAGATCAGAGA
391 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAGAGA
5106523 TGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTAT
456 TGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTAT
5106588 TTGGCAGTGGAATAGA
521 TTGGCAGTGGAATAGA
* * *
5106604 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGTAGATCAAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* * *
5106669 CCTCCTTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
5106734 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
131 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
*
5106799 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCTTGTATTTGGCAGT
196 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
* *
5106864 GGAATAGATTGAAGATTGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAACAGATCGAAGATGGC
261 GGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGC
*
5106929 AGATTTTACCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
326 AGATTTTACCTCCCTGACTATAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
*
5106994 CAGTGGAATAGATTGAAGATTGCAGATTTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC-GAAG
391 CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAG-AG
*
5107058 ATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTA
455 ATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTA
*
5107123 TTTGGCAGTAGAATAGA
520 TTTGGCAGTGGAATAGA
5107140 GTAAAGAAAA
Statistics
Matches: 1000, Mismatches: 65, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
533 41 0.04
534 10 0.01
535 814 0.81
536 135 0.14
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (536 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
CCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
GGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGC
AGATTTTACCTCCCTGACTATAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
CAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAGAGA
TGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTAT
TTGGCAGTGGAATAGA
Found at i:5106811 original size:669 final size:669
Alignment explanation
Indices: 5105534--5107158 Score: 2747
Period size: 669 Copynumber: 2.4 Consensus size: 669
5105524 GCAGAGCTGG
*
5105534 TTGAAGATTGCAAATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
* *
5105599 CCTCACTGATTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
* *
5105664 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTCGCAGCGAAGCAGATCGAAGATGACAGAT
131 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
* * *
5105729 TTTACCTCCCTGTGACTACAGTGGAGTACATTAAAGCCAATAACTCTATCTCCCTG--GTTGGCA
196 TTTACCTCCC--TGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCA
* ** * * * * *
5105792 GTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCGGCAAAGCAGGTCGAAGATG
259 GTAGAATAGATTGAAGATAACAGATCTTGCCCTCCTGCATTCGGCAGCAAAGCAGATCGAAGATG
* * *
5105857 GTAGATTTTACCTCCCTGACTATAGTGGAGTACATTGAAGCCAATAGGGGCGATCTCCCTGATTG
324 GCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAGAGGCGATCTCCCTGATTG
*
5105922 GCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAG
389 GCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCAAAG
*
5105987 ATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTA
454 ATGGCAGATTTTACCTCCCTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGTA
* *
5106052 TTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCTTGTATTTGGTAGCGAAGCAGATC
519 TTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATC
5106117 GAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAACCGATAACTCTATCTCCC
584 GAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAACCGATAACTCTATCTCCC
5106182 TGTATTTGGCAGTGGAATAGA
649 TGTATTTGGCAGTGGAATAGA
5106203 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
5106268 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
**
5106333 TAGATTGAAGATAACAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
131 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
* *
5106398 TTTACCTCCCTGACTATAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
196 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
* * ** *
5106463 AGAATAGATTGAAGATAATAGATCTTGCCCTCCTGCA-TCGTCAGTGAGGCAGATC-AGAGATGG
261 AGAATAGATTGAAGATAACAGATCTTGCCCTCCTGCATTCGGCAGCAAAGCAGATCGA-AGATGG
* ** *
5106526 CAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATA-ATTCTATCTCCCTGTATTT
325 CAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAGAGGCGATCTCCCTG-A-TT
*
5106590 GGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGTAGATCAAA
388 GGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCAAA
*
5106655 GATGGCAGATTTTACCTCCTTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGT
453 GATGGCAGATTTTACCTCCCTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGT
5106720 ATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGAT
518 ATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGAT
*
5106785 CGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCC
583 CGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAACCGATAACTCTATCTCC
*
5106850 TTGTATTTGGCAGTGGAATAGA
648 CTGTATTTGGCAGTGGAATAGA
* *
5106872 TTGAAGATTGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAACAGATCGAAGATGGCAGATTTTA
1 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
5106937 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
66 CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
*
5107002 TAGATTGAAGATTGCAGATTTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
131 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
5107067 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
196 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
* * *
5107132 AGAATAGAGTAAAGAAAACCAGATCTT
261 AGAATAGATTGAAGATAA-CAGATCTT
5107159 ATCTCCCTAA
Statistics
Matches: 899, Mismatches: 51, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
667 51 0.06
668 60 0.07
669 781 0.87
670 7 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (669 bp):
TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTA
CCTCCCTGACTACAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGAT
TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGT
AGAATAGATTGAAGATAACAGATCTTGCCCTCCTGCATTCGGCAGCAAAGCAGATCGAAGATGGC
AGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAGAGGCGATCTCCCTGATTGGC
AGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCAAAGCAGATCAAAGAT
GGCAGATTTTACCTCCCTGACTACAGTAGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATT
TGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGA
AGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAACCGATAACTCTATCTCCCTG
TATTTGGCAGTGGAATAGA
Found at i:5107011 original size:45 final size:45
Alignment explanation
Indices: 5106815--5107011 Score: 114
Period size: 46 Copynumber: 4.4 Consensus size: 45
5106805 TCCCTGACTA
* * *
5106815 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCTTGTATTTGG
1 CAGTGGAATAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
** * * * *
5106860 CAGTGGAATAGATTGAAGATTGCAGATCT-TGTCTTCCTGTATTTGG
1 CAGTGGAATAGATTGAAG-CCG-ATAACTCTATCTCCCTGTATTTGG
* * * * ** ** * * * * *
5106906 CAGCGAAACAGATCGAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAATAGATTGAAGCCGATA-ACTCTATCTCCCTGTATTTGG
* * *
5106949 CAGAGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
5106994 CAGTGGAATAGATTGAAG
1 CAGTGGAATAGATTGAAG
5107012 ATTGCAGATT
Statistics
Matches: 104, Mismatches: 41, Indels: 14
0.65 0.26 0.09
Matches are distributed among these distances:
42 11 0.11
43 15 0.14
44 3 0.03
45 35 0.34
46 36 0.35
47 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGTGGAATAGATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
Found at i:5107058 original size:46 final size:46
Alignment explanation
Indices: 5106980--5107078 Score: 128
Period size: 46 Copynumber: 2.2 Consensus size: 46
5106970 ATAACTCTAT
* * * * *
5106980 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATTTTGC
1 CTCCCTGTATTTGGCAGTCGAACAGATCGAAGATGGCAGATTTTAC
*
5107026 CTTCCTGTATTTGGCAG-CGAAGCAGATCGAAGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTCGAA-CAGATCGAAGATGGCAGATTTTAC
5107072 CTCCCTG
1 CTCCCTG
5107079 ACTACAGTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 3 0.07
46 42 0.93
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTCGAACAGATCGAAGATGGCAGATTTTAC
Found at i:5107261 original size:44 final size:44
Alignment explanation
Indices: 5107142--5107267 Score: 163
Period size: 40 Copynumber: 2.9 Consensus size: 44
5107132 AGAATAGAGT
5107142 AAAGAAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 AAAG-AAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
5107187 --A-CATCAAG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-C
1 AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
5107226 GAAAGAAACCAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
1 -AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
5107268 GTCGAAAATG
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
39 1 0.01
40 30 0.43
41 4 0.06
42 1 0.01
43 5 0.07
44 28 0.41
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (44 bp):
AAAGAAACCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
Found at i:5107405 original size:44 final size:44
Alignment explanation
Indices: 5107357--5107667 Score: 116
Period size: 44 Copynumber: 7.2 Consensus size: 44
5107347 GGAATAGGGT
* * * *
5107357 GAAGATTACAGATCTTATCTCCCTAAGTAATAGTGGAGCAGGTC
1 GAAGATGACAGATCTTATCTCCCTAAGCAACAGTGGAGCAGATC
* * * * * ** * * *
5107401 GAAGATGGCAGATTTTACCTCACTGA-TTACAGTGGAGTACATT
1 GAAGATGACAGATCTTATCTCCCTAAGCAACAGTGGAGCAGATC
* * * * ** **
5107444 GAAGCTGATAGTTC-TATCTCTCTGGGCAACAGTGGAATAGATC
1 GAAGATGACAGATCTTATCTCCCTAAGCAACAGTGGAGCAGATC
* * * *
5107487 AAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTC
1 GAAGATGACAGATCTTATCTCCCTAAGCAACAGTGGAGCAGATC
* * * * ** ** * * *
5107531 GAAGATGGCGGATTTTACCTCCCCGA-TTACGGTGGAGTACAT-
1 GAAGATGACAGATCTTATCTCCCTAAGCAACAGTGGAGCAGATC
* * ** **
5107573 TAA-A-GCCAGTAGT-TCTATCTCCCTGGGCAACAGTGGAATAGAGT-
1 GAAGATGACAG-A-TCT-TATCTCCCTAAGCAACAGTGGAGCAGA-TC
* * *
5107617 GAAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTC
1 GAAGATGACAGATCTTATCTCCCTAAGCAACAGTGGAGCAGATC
5107661 GAAGATG
1 GAAGATG
5107668 GTGGATTTTA
Statistics
Matches: 183, Mismatches: 73, Indels: 22
0.66 0.26 0.08
Matches are distributed among these distances:
40 3 0.02
41 3 0.02
42 19 0.10
43 61 0.33
44 91 0.50
45 3 0.02
46 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
GAAGATGACAGATCTTATCTCCCTAAGCAACAGTGGAGCAGATC
Found at i:5107437 original size:130 final size:130
Alignment explanation
Indices: 5107235--5107787 Score: 840
Period size: 130 Copynumber: 4.3 Consensus size: 130
5107225 CGAAAGAAAC
*
5107235 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAAATGGCGGATTTTACCTCCCCGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA
* * *
5107300 CGTTGGAGTACATTAAAACCAGTAGTTCTATCTCTCTGGGCAACAGTGGAATAGGGTGAAGATTA
66 CGGTGGAGTACATTAAAACCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
* * * *
5107365 CAGATCTTATCTCCCTAAGTAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCACTGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA
* * * * * *
5107430 CAGTGGAGTACATT-GAAGCTGATAGTTCTATCTCTCTGGGCAACAGTGGAATAGA-TCAAAGAT
66 CGGTGGAGTACATTAAAACCAG-TAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGT-GAAGAT
5107493 TA
129 TA
5107495 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA
*
5107560 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
66 CGGTGGAGTACATTAAAACCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
* *
5107625 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGTGGATTTTACCTCCCTGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA
* * ** **
5107690 CGGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGAGCA
66 CGGTGGAGTACATTAAAACCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
* * *
5107755 CAAATCTTATCTCCCTAATCAGTAGTGGAGCAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
5107788 ATCACATCCA
Statistics
Matches: 386, Mismatches: 33, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
129 5 0.01
130 377 0.98
131 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (130 bp):
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA
CGGTGGAGTACATTAAAACCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
Found at i:5107552 original size:260 final size:260
Alignment explanation
Indices: 5107235--5107787 Score: 928
Period size: 260 Copynumber: 2.1 Consensus size: 260
5107225 CGAAAGAAAC
5107235 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAAATGGCGGATTTTACCTCCCCGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAAATGGCGGATTTTACCTCCCCGATTA
* * *
5107300 CGTTGGAGTACATTAAAACCAGTAGTTCTATCTCTCTGGGCAACAGTGGAATAGGGTGAAGATTA
66 CGGTGGAGTACATTAAAACCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
*
5107365 CAGATCTTATCTCCCTAAGTAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCACTGATTA
131 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCACTGATTA
* **
5107430 CAGTGGAGTACATTGAAGCTGATAGTTCTATCTCTCTGGGCAACAGTGGAATAGA-TCAAAGATT
196 CAGTGGAGTACATTGAAGCTGATAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGT-AAAGAGC
5107494 A
260 A
*
5107495 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCGGATTTTACCTCCCCGATTA
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAAATGGCGGATTTTACCTCCCCGATTA
*
5107560 CGGTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
66 CGGTGGAGTACATTAAAACCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
** *
5107625 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGTGGATTTTACCTCCCTGATTA
131 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCACTGATTA
* * *
5107690 CGGTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGAGCA
196 CAGTGGAGTACATTGAAGCTGATAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTAAAGAGCA
* * *
5107755 CAAATCTTATCTCCCTAATCAGTAGTGGAGCAG
1 CAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
5107788 ATCACATCCA
Statistics
Matches: 274, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
260 273 1.00
261 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (260 bp):
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAAATGGCGGATTTTACCTCCCCGATTA
CGGTGGAGTACATTAAAACCAGTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTA
CAGATCTTATCTCCCTAAGCAATAGTGGAGCAGGTCGAAGATGGCAGATTTTACCTCACTGATTA
CAGTGGAGTACATTGAAGCTGATAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTAAAGAGCA
Found at i:5107739 original size:43 final size:43
Alignment explanation
Indices: 5107562--5107739 Score: 97
Period size: 43 Copynumber: 4.1 Consensus size: 43
5107552 CCCGATTACG
* ***
5107562 GTGGAGTACATTAAAGCCAGTAGTTCTATCTCCCTGGGCAACA
1 GTGGAGTACATTGAAGATGGTAGTTCTATCTCCCTGGGCAACA
* * * *** * ** *
5107605 GTGGAATAGAGTGAAGATTACAGATCTTATCTCCCTAAGCAATA
1 GTGGAGTACATTGAAGATGGTAGTTC-TATCTCCCTGGGCAACA
* ** * * * * *** *
5107649 GTGGAGCAGGTCGAAGATGGTGGATTTTACCTCCCT-GATTACG
1 GTGGAGTACATTGAAGATGGTAG-TTCTATCTCCCTGGGCAACA
*
5107692 GTGGAGTACATTGAAGCTGGTAGTTCTATCTCCCTGGGCAACA
1 GTGGAGTACATTGAAGATGGTAGTTCTATCTCCCTGGGCAACA
5107735 GTGGA
1 GTGGA
5107740 ATAGAGTGAA
Statistics
Matches: 89, Mismatches: 43, Indels: 6
0.64 0.31 0.04
Matches are distributed among these distances:
42 10 0.11
43 42 0.47
44 36 0.40
45 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
GTGGAGTACATTGAAGATGGTAGTTCTATCTCCCTGGGCAACA
Found at i:5107750 original size:43 final size:43
Alignment explanation
Indices: 5107581--5107751 Score: 121
Period size: 43 Copynumber: 4.0 Consensus size: 43
5107571 ATTAAAGCCA
*
5107581 GTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATT
1 GTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATG
** * ** * **
5107624 ACAGATCTTATCTCCCTAAGCAATAGTGGAGCAG-GTCGAAGATG
1 GTAGTTC-TATCTCCCTGGGCAACAGTGGAATAGAGT-GAAGATG
* * * *** * * * * *
5107668 GTGGATTTTACCTCCCT-GATTACGGTGGAGTACATTGAAGCTG
1 GTAG-TTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATG
5107711 GTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGA
1 GTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGA
5107752 GCACAAATCT
Statistics
Matches: 87, Mismatches: 36, Indels: 10
0.65 0.27 0.08
Matches are distributed among these distances:
42 10 0.11
43 39 0.45
44 37 0.43
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (43 bp):
GTAGTTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATG
Found at i:5109688 original size:4 final size:4
Alignment explanation
Indices: 5109679--5109705 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
5109669 CATCTATTCG
5109679 TTAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA
5109706 CACTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:5115883 original size:20 final size:20
Alignment explanation
Indices: 5115858--5115896 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
5115848 TACTTTCTTC
5115858 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
5115878 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
5115897 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:5116243 original size:50 final size:50
Alignment explanation
Indices: 5116098--5116290 Score: 181
Period size: 50 Copynumber: 3.8 Consensus size: 50
5116088 TGATAATAAC
* * * * *
5116098 ATGCCAAAGCCATGTCCCAAACATGGTCTTATATGGGACGTATCAT-GTA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTATCATATTA
* * * * * * * *
5116147 CTACCAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTATCATATTA
* *
5116197 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACTTATCATAACCTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTATCAT-A--T---TA
*
5116253 ATGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
5116291 TCTCATTCCC
Statistics
Matches: 112, Mismatches: 25, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
49 35 0.31
50 39 0.35
51 1 0.01
53 1 0.01
56 36 0.32
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTATCATATTA
Found at i:5116640 original size:26 final size:26
Alignment explanation
Indices: 5116604--5116657 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
5116594 TATTTAATAT
5116604 TCACATTCATCAAAACAGTCCTTGAC
1 TCACATTCATCAAAACAGTCCTTGAC
5116630 TCACATTCATCAAAACAGTCCTTGAC
1 TCACATTCATCAAAACAGTCCTTGAC
5116656 TC
1 TC
5116658 TAACTTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.31, G:0.07, T:0.28
Consensus pattern (26 bp):
TCACATTCATCAAAACAGTCCTTGAC
Found at i:5118636 original size:23 final size:23
Alignment explanation
Indices: 5118610--5118685 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
5118600 ATAAGTGCCA
*
5118610 CACTAATATGTAGCTGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* *
5118633 CACTGATATGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
*
5118656 CACCGAAT-TGTAGCCGAAGCTAC
1 CA-CTAATATGTAGCCGAAGCTAC
*
5118679 CGCTAAT
1 CACTAAT
5118686 CAATAACATT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 4 0.09
23 37 0.84
24 3 0.07
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:5125094 original size:5 final size:5
Alignment explanation
Indices: 5125082--5125146 Score: 86
Period size: 5 Copynumber: 13.8 Consensus size: 5
5125072 AAAAGTTAAG
5125082 TATA- TATAT TATA- TATTAT T-TAT TATAT T-TAT TATAT TATAT T-TAT
1 TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT
5125128 TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATA
5125147 AAAGAAACAA
Statistics
Matches: 55, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
4 18 0.33
5 36 0.65
6 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:5125096 original size:9 final size:9
Alignment explanation
Indices: 5125082--5125142 Score: 63
Period size: 9 Copynumber: 6.6 Consensus size: 9
5125072 AAAAGTTAAG
5125082 TATATATAT
1 TATATATAT
5125091 TATATATTAT
1 TATATA-TAT
5125101 T-TATTATAT
1 TATA-TATAT
5125110 T-TATTATAT
1 TATA-TATAT
*
5125119 TATATTTAT
1 TATATATAT
5125128 TATATTATAT
1 TATA-TATAT
5125138 TATAT
1 TATAT
5125143 TATAAAAGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
9 30 0.65
10 16 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
TATATATAT
Found at i:5125107 original size:14 final size:14
Alignment explanation
Indices: 5125086--5125146 Score: 97
Period size: 14 Copynumber: 4.3 Consensus size: 14
5125076 GTTAAGTATA
5125086 TATATTATATATTAT
1 TATATTATAT-TTAT
5125101 T-TATTATATTTAT
1 TATATTATATTTAT
5125114 TATATTATATTTAT
1 TATATTATATTTAT
5125128 TATATTATATTATAT
1 TATATTATATT-TAT
5125143 TATA
1 TATA
5125147 AAAGAAACAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
13 5 0.11
14 31 0.70
15 8 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATATTATATTTAT
Found at i:5126128 original size:22 final size:22
Alignment explanation
Indices: 5126102--5126165 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
5126092 TCTCTGATTA
* *
5126102 TTAGCACGTCAGTGCTCTTTGT
1 TTAGCACATCAGTGCTCTCTGT
* *
5126124 TTAGCACATCTGTGCTATCTGT
1 TTAGCACATCAGTGCTCTCTGT
* *
5126146 ATAGCACTTCAGTGCTCTCT
1 TTAGCACATCAGTGCTCTCT
5126166 ATTCCTTAGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (22 bp):
TTAGCACATCAGTGCTCTCTGT
Found at i:5126797 original size:19 final size:18
Alignment explanation
Indices: 5126773--5126811 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
5126763 GGACGATAAG
*
5126773 GTTAAATTATGATGTGAAT
1 GTTAAATAATGATGT-AAT
*
5126792 GTTAAATAATTATGTAAT
1 GTTAAATAATGATGTAAT
5126810 GT
1 GT
5126812 CTGTATTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (18 bp):
GTTAAATAATGATGTAAT
Found at i:5128590 original size:19 final size:20
Alignment explanation
Indices: 5128545--5128582 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5128535 AGAACTAAAG
5128545 AAATTTTTCACAAAATTTCC
1 AAATTTTTCACAAAATTTCC
*
5128565 AAATTTTTCGCAAAATTT
1 AAATTTTTCACAAAATTT
5128583 TTAATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATTTTTCACAAAATTTCC
Found at i:5130511 original size:41 final size:41
Alignment explanation
Indices: 5130454--5130542 Score: 169
Period size: 41 Copynumber: 2.2 Consensus size: 41
5130444 AACAAACTGA
5130454 AAGACAACCCTGCAGTAGCAAATATTTGAGGTGAATATGAT
1 AAGACAACCCTGCAGTAGCAAATATTTGAGGTGAATATGAT
5130495 AAGACAACCCTGCAGTAGCAAATATTTGAGGTGAATATGAT
1 AAGACAACCCTGCAGTAGCAAATATTTGAGGTGAATATGAT
*
5130536 AACACAA
1 AAGACAA
5130543 AAGTCAAGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (41 bp):
AAGACAACCCTGCAGTAGCAAATATTTGAGGTGAATATGAT
Found at i:5132769 original size:40 final size:40
Alignment explanation
Indices: 5132653--5132782 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 40
5132643 CGAGTTGATA
* * **
5132653 AGACACTGGGTATCAATTTACTACTTCGGATTAATTTGATG
1 AGACACTGGGTGTCAATTTATTACTTCGGATT-ATCCGATG
* * * * *
5132694 AGGCACTGGGTGCCAA--T-TTACTTTGGTTTAGCCGATG
1 AGACACTGGGTGTCAATTTATTACTTCGGATTATCCGATG
*
5132731 AGACACTGGGTGTCAATTTATTACTTCGAATTATCCGATG
1 AGACACTGGGTGTCAATTTATTACTTCGGATTATCCGATG
**
5132771 AGGTACTGGGTG
1 AGACACTGGGTG
5132783 CCAAACTGGT
Statistics
Matches: 69, Mismatches: 17, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
37 19 0.28
38 9 0.13
39 2 0.03
40 26 0.38
41 13 0.19
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (40 bp):
AGACACTGGGTGTCAATTTATTACTTCGGATTATCCGATG
Found at i:5133742 original size:27 final size:27
Alignment explanation
Indices: 5133712--5133789 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
5133702 GGCCAATCAC
*
5133712 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
* *
5133739 ATTGGTGGCACCAATGGTGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
5133766 ATTGGCGGCACCAATGGTGCCAAA
1 ATTGGCGGCACCAATGGTGCCAAA
5133790 TGACTAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.29, C:0.22, G:0.32, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:5133891 original size:19 final size:19
Alignment explanation
Indices: 5133864--5133933 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
5133854 TCAACTCATT
*
5133864 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
5133883 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
5133901 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
5133920 TTTTAATTTAATAA
1 TTTTAATTTAATAA
5133934 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:5133914 original size:37 final size:37
Alignment explanation
Indices: 5133869--5133939 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
5133859 TCATTTTTTT
5133869 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
5133906 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
5133940 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:5134249 original size:19 final size:18
Alignment explanation
Indices: 5134225--5134283 Score: 73
Period size: 19 Copynumber: 3.2 Consensus size: 18
5134215 TCTAATTAAG
5134225 TAATAAGTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
* * *
5134244 TAATAAACTATTCTCATT
1 TAATAATCTATTTTAATT
5134262 TAATAACTCTATTTTAATT
1 TAATAA-TCTATTTTAATT
5134281 TAA
1 TAA
5134284 ATGAGAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (18 bp):
TAATAATCTATTTTAATT
Found at i:5134254 original size:18 final size:19
Alignment explanation
Indices: 5134233--5134283 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
5134223 AGTAATAAGT
5134233 CTATTTTAATTTAATAA-A
1 CTATTTTAATTTAATAACA
* * *
5134251 CTATTCTCATTTAATAACT
1 CTATTTTAATTTAATAACA
5134270 CTATTTTAATTTAA
1 CTATTTTAATTTAA
5134284 ATGAGAATAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 15 0.56
19 12 0.44
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (19 bp):
CTATTTTAATTTAATAACA
Found at i:5134303 original size:18 final size:19
Alignment explanation
Indices: 5134280--5134326 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
5134270 CTATTTTAAT
* *
5134280 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAATTA
*
5134298 TTAAATTAAAATAGAATTA
1 TTAAATGAAAATAGAATTA
5134317 TTAAAT-AAAA
1 TTAAATGAAAA
5134327 AAATAAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAATTA
Found at i:5134440 original size:27 final size:27
Alignment explanation
Indices: 5134402--5134479 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
5134392 ATTTTAGTCA
*
5134402 TTTGGTACCATTGGTGCCGCCAATCAC
1 TTTGGCACCATTGGTGCCGCCAATCAC
* * *
5134429 TTTGGCACCATTGGTGCCACTAATCTC
1 TTTGGCACCATTGGTGCCGCCAATCAC
*
5134456 TTTAGCA-CATTTGGTGCCGCCAAT
1 TTTGGCACCA-TTGGTGCCGCCAAT
5134480 GTGATTGGCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.05
27 41 0.95
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCGCCAATCAC
Found at i:5134603 original size:28 final size:24
Alignment explanation
Indices: 5134542--5134587 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
5134532 ATTTTTTGGT
*
5134542 ATATTTTCGTAAATAAAAAAAATA
1 ATATTTTGGTAAATAAAAAAAATA
5134566 ATATTTTGGTAAATAAAAAAAA
1 ATATTTTGGTAAATAAAAAAAA
5134588 ATTATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (24 bp):
ATATTTTGGTAAATAAAAAAAATA
Found at i:5135514 original size:5 final size:5
Alignment explanation
Indices: 5135504--5135529 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5135494 TGAGCATTCG
5135504 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
5135530 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:5135639 original size:7 final size:7
Alignment explanation
Indices: 5135627--5135683 Score: 105
Period size: 7 Copynumber: 8.1 Consensus size: 7
5135617 TAAGAATGAG
5135627 ATACATC
1 ATACATC
5135634 ATACATC
1 ATACATC
5135641 ATACATC
1 ATACATC
5135648 ATACATC
1 ATACATC
5135655 ATACATC
1 ATACATC
5135662 ATACATC
1 ATACATC
*
5135669 ATACACC
1 ATACATC
5135676 ATACATC
1 ATACATC
5135683 A
1 A
5135684 CTCCTGTAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (7 bp):
ATACATC
Found at i:5147585 original size:18 final size:18
Alignment explanation
Indices: 5147534--5147585 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
5147524 GTTTAATTAA
**
5147534 TTTTTAAAATTTAAGTAC
1 TTTTTAAAATTTATTTAC
*
5147552 TTTTT-AAATATT-TTTAT
1 TTTTTAAAAT-TTATTTAC
5147569 TTTTTAAAATTTATTTA
1 TTTTTAAAATTTATTTA
5147586 AAAATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTTTAAAATTTATTTAC
Found at i:5148554 original size:19 final size:19
Alignment explanation
Indices: 5148530--5148566 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5148520 AGTCATTCAG
*
5148530 AAAAATATTTAAAATTTAA
1 AAAAATATATAAAATTTAA
*
5148549 AAAAATGTATAAAATTTA
1 AAAAATATATAAAATTTA
5148567 TATCTTATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAATATATAAAATTTAA
Found at i:5148663 original size:54 final size:54
Alignment explanation
Indices: 5148558--5148664 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 54
5148548 AAAAAATGTA
* * **
5148558 TAAAATTTATATCTTATCTTTTAAATAATTTAAATAATAATAATTTTTATATAT
1 TAAAATTAATATCTTATCTTTTAAATAATATAAATAATAATAATTAATATATAT
*
5148612 TAAAATTAATATACTATCTCTTTTGAAATAATATAAA-AAT-AT-ATTAATATATA
1 TAAAATTAATAT-CT-TATCTTTT-AAATAATATAAATAATAATAATTAATATATA
5148665 AAAAATAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
54 20 0.44
55 4 0.09
56 10 0.22
57 11 0.24
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.47
Consensus pattern (54 bp):
TAAAATTAATATCTTATCTTTTAAATAATATAAATAATAATAATTAATATATAT
Found at i:5149048 original size:19 final size:21
Alignment explanation
Indices: 5149024--5149063 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
5149014 TTAAGATATT
5149024 ATTTCA-ATAAAATAT-TTAA
1 ATTTCATATAAAATATATTAA
5149043 ATTTCATATAAAATATATTAA
1 ATTTCATATAAAATATATTAA
5149064 TTATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTCATATAAAATATATTAA
Found at i:5149065 original size:20 final size:19
Alignment explanation
Indices: 5149019--5149065 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
5149009 TTTAATTAAG
5149019 ATATT-ATTTCAATAAAAT
1 ATATTAATTTCAATAAAAT
5149037 AT-TTAAATTTCATATAAAAT
1 ATATT-AATTTCA-ATAAAAT
5149057 ATATTAATT
1 ATATTAATT
5149066 ATATTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 2 0.08
18 2 0.08
19 6 0.24
20 13 0.52
21 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATTAATTTCAATAAAAT
Found at i:5151886 original size:18 final size:18
Alignment explanation
Indices: 5151863--5151903 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
5151853 ACTCTATGCG
5151863 TTGGATTTT-GATGGAATC
1 TTGGATTTTGGA-GGAATC
5151881 TTGGATTTTGGAGGAATC
1 TTGGATTTTGGAGGAATC
5151899 TTGGA
1 TTGGA
5151904 GGGAGCTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.22, C:0.05, G:0.32, T:0.41
Consensus pattern (18 bp):
TTGGATTTTGGAGGAATC
Found at i:5154136 original size:21 final size:23
Alignment explanation
Indices: 5154094--5154136 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
5154084 GAATTGGTTT
* *
5154094 TAGGGTTCTAAAATGGGTTTATA
1 TAGGGTTCAAAAATGGGATTATA
5154117 TAGGGTT-AAAAAT-GGATTAT
1 TAGGGTTCAAAAATGGGATTAT
5154137 TTTCGCCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.35, C:0.02, G:0.26, T:0.37
Consensus pattern (23 bp):
TAGGGTTCAAAAATGGGATTATA
Found at i:5154666 original size:13 final size:11
Alignment explanation
Indices: 5154639--5154668 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5154629 ATTTATATCT
5154639 TATAATATTTA
1 TATAATATTTA
5154650 TATAATATTTA
1 TATAATATTTA
5154661 TAT-ATATT
1 TATAATATT
5154669 ATAACCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TATAATATTTA
Found at i:5154822 original size:17 final size:16
Alignment explanation
Indices: 5154802--5154836 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
5154792 ATTTAATATC
5154802 ATATTTTATTTATATTT
1 ATATTTTATTTAT-TTT
5154819 ATATTTTATTTATTTT
1 ATATTTTATTTATTTT
5154835 AT
1 AT
5154837 TTAGTTCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATATTTTATTTATTTT
Found at i:5154832 original size:26 final size:27
Alignment explanation
Indices: 5154803--5154857 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
5154793 TTTAATATCA
*
5154803 TATTTTATTTA-TATTTATAT-TTTATT
1 TATTTTATTTAGT-TCTATATATTTATT
5154829 TATTTTATTTAGTTCTATATATTTATT
1 TATTTTATTTAGTTCTATATATTTATT
5154856 TA
1 TA
5154858 GATACCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (27 bp):
TATTTTATTTAGTTCTATATATTTATT
Found at i:5155741 original size:20 final size:21
Alignment explanation
Indices: 5155718--5155776 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
5155708 AATAATTTTT
5155718 TATAAAAATTATAAAAAT-AA
1 TATAAAAATTATAAAAATAAA
*
5155738 TATAAAATATT-TAAAACTAAA
1 TATAAAA-ATTATAAAAATAAA
*
5155759 AATATAAAATTA-AAAAAT
1 TATA-AAAATTATAAAAAT
5155777 GGAAAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 13 0.41
21 16 0.50
22 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
TATAAAAATTATAAAAATAAA
Found at i:5155941 original size:23 final size:23
Alignment explanation
Indices: 5155862--5155948 Score: 86
Period size: 23 Copynumber: 3.7 Consensus size: 23
5155852 AAAATCCAAA
*
5155862 TTTTTATAATTAAATAAATATAATT
1 TTTTTATAATT-AATAATTATAA-T
*
5155887 TTTTTATATATAAAT-ATTATAAT
1 TTTTTATA-ATTAATAATTATAAT
** * *
5155910 AATTAATAATTAATAATTTTAAT
1 TTTTTATAATTAATAATTATAAT
5155933 TTTTTATAATTAATAA
1 TTTTTATAATTAATAA
5155949 AAATTAAATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
22 5 0.10
23 26 0.52
24 6 0.12
25 11 0.22
26 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTTATAATTAATAATTATAAT
Found at i:5156606 original size:26 final size:26
Alignment explanation
Indices: 5156556--5156607 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
5156546 GTTTAGTTAT
*
5156556 TATTATTTAATATTCAATAGTTTTAC
1 TATTATTTAATATTCAATAATTTTAC
*
5156582 TATTATTTGAT-TTCAATAATATTTAC
1 TATTATTTAATATTCAATAAT-TTTAC
5156608 ATACTTGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTATTTAATATTCAATAATTTTAC
Done.