Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold346
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: 475321
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 3
Found at i:266834 original size:33 final size:33
Alignment explanation
Indices: 266792--266857 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
266782 AAATTCCCAG
266792 ATGTATCGATACAAAGA-TCAATGTATCGATACA
1 ATGTATCGATACAAAGAGT-AATGTATCGATACA
**
266825 ATGTATCGATACATTGAGTAATGTATCGATACA
1 ATGTATCGATACAAAGAGTAATGTATCGATACA
266858 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGTAATGTATCGATACA
Found at i:266934 original size:21 final size:21
Alignment explanation
Indices: 266888--266962 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
266878 TAGCGATACA
*
266888 TTGTATCGATACAA-CACT-T
1 TTGTATCGATACAATTACTGT
*
266907 ATGTATCGATACAATTACTGT
1 TTGTATCGATACAATTACTGT
266928 TTGTATCGATACAATTACTGT
1 TTGTATCGATACAATTACTGT
266949 TTGTATCGATACAA
1 TTGTATCGATACAA
266963 ATTGTTGAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 13 0.25
20 3 0.06
21 35 0.69
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (21 bp):
TTGTATCGATACAATTACTGT
Found at i:271872 original size:27 final size:28
Alignment explanation
Indices: 271832--271891 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
271822 CGGTGTTATT
*
271832 TTTTTCTCTCTTTTCCTTGT-TGTTTCC
1 TTTTTCTCTCTTTTCATTGTCTGTTTCC
* *
271859 TTTTTCT-TCTTTTTTATTTTCTGTTTCC
1 TTTTTCTCTC-TTTTCATTGTCTGTTTCC
271887 TTTTT
1 TTTTT
271892 GTTTTTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 14 0.50
28 12 0.43
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTTTCTCTCTTTTCATTGTCTGTTTCC
Found at i:271873 original size:28 final size:27
Alignment explanation
Indices: 271832--271891 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
271822 CGGTGTTATT
*
271832 TTTTTCTCTCTTTTCCTTGT-TGTTTCC
1 TTTTTCTCTCTTTT-ATTGTCTGTTTCC
* *
271859 TTTTTCTTCTTTTTTATTTTCTGTTTCC
1 TTTTTC-TCTCTTTTATTGTCTGTTTCC
271887 TTTTT
1 TTTTT
271892 GTTTTTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.73
Consensus pattern (27 bp):
TTTTTCTCTCTTTTATTGTCTGTTTCC
Found at i:271938 original size:24 final size:25
Alignment explanation
Indices: 271911--271964 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
271901 TTTTTTTAAC
271911 TGTTT-CGATTTTTTTTCTT-CTTGT
1 TGTTTACGATTTTTTTTCTTCCTT-T
271935 TGTTTACGATTTTTTTTCTTCCTTT
1 TGTTTACGATTTTTTTTCTTCCTTT
271960 TGTTT
1 TGTTT
271965 TGTAGCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 5 0.18
25 20 0.71
26 3 0.11
ACGTcount: A:0.06, C:0.13, G:0.11, T:0.70
Consensus pattern (25 bp):
TGTTTACGATTTTTTTTCTTCCTTT
Found at i:272698 original size:25 final size:25
Alignment explanation
Indices: 272670--272728 Score: 118
Period size: 25 Copynumber: 2.4 Consensus size: 25
272660 TATAATTTAC
272670 TTTCATGCATGAATGCATGAATTAA
1 TTTCATGCATGAATGCATGAATTAA
272695 TTTCATGCATGAATGCATGAATTAA
1 TTTCATGCATGAATGCATGAATTAA
272720 TTTCATGCA
1 TTTCATGCA
272729 ATGCCACCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (25 bp):
TTTCATGCATGAATGCATGAATTAA
Found at i:272825 original size:17 final size:17
Alignment explanation
Indices: 272803--272843 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
272793 ATTATACATA
*
272803 TATTTTTTATATTTCCT
1 TATTTTTTATATTTACT
* *
272820 TATTTTATATATTTATT
1 TATTTTTTATATTTACT
272837 TATTTTT
1 TATTTTT
272844 ATTTATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTTTATATTTACT
Found at i:272848 original size:14 final size:14
Alignment explanation
Indices: 272803--272860 Score: 57
Period size: 14 Copynumber: 4.0 Consensus size: 14
272793 ATTATACATA
272803 TATTTTTTA-TATT
1 TATTTTTTATTATT
*
272816 TCCTTATTTTATATATT
1 T-ATT-TTTTAT-TATT
272833 TATTTATTT-TTATT
1 TATTT-TTTATTATT
272847 TATTTTTTATTATT
1 TATTTTTTATTATT
272861 AATATCAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
13 4 0.11
14 16 0.43
15 7 0.19
16 5 0.14
17 5 0.14
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTTTTTATTATT
Found at i:273562 original size:42 final size:42
Alignment explanation
Indices: 273429--273565 Score: 107
Period size: 43 Copynumber: 3.2 Consensus size: 42
273419 AAATCTCCAA
* * * *
273429 GGTCAAAGCTGACAGGCATACTTAAGGGTAAGG-AAGTCTCTG-G
1 GGTCAAAGCCGACAGGTAGACTGAA-GGT-AGGAAAGTCT-TGAG
* * * * ** ** *
273472 GGTTAAAACCGACAAGTAGACTTGAGGGTAAAAAAGTCTCCAA
1 GGTCAAAGCCGACAGGTAGAC-TGAAGGTAGGAAAGTCTTGAG
273515 GGTCAAAGCCGACAGGTAGACTGAAGGTAGGAAAGTCTTGAG
1 GGTCAAAGCCGACAGGTAGACTGAAGGTAGGAAAGTCTTGAG
273557 GGTCAAAGC
1 GGTCAAAGC
273566 TAATAGGCAA
Statistics
Matches: 69, Mismatches: 22, Indels: 7
0.70 0.22 0.07
Matches are distributed among these distances:
42 25 0.36
43 42 0.61
44 2 0.03
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (42 bp):
GGTCAAAGCCGACAGGTAGACTGAAGGTAGGAAAGTCTTGAG
Found at i:273636 original size:42 final size:42
Alignment explanation
Indices: 273412--274234 Score: 336
Period size: 42 Copynumber: 19.6 Consensus size: 42
273402 GTAGATAAAA
* * *
273412 GGTAAAAAAATCTCCAAGGTCAAAGCTGACAGGCATACTTAAG
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGAC-TAAG
* *** * * * * * *
273455 GGTAAGGAAGTCTCTGGGGTTAAAACCGACAAGTAGACTTGAG
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGAC-TAAG
* * *
273498 GGTAAAAAAGTCTCCAAGGTCAAAGCCGACAGGTAGACTGAA-
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACT-AAG
* ** * * * * *
273540 GGTAGGAAAGTCTTGAGGGTCAAAGCTAATAGGCAAACT-TG
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
* ** *
273581 AGATAAGGCAGTCTCCAAGGTCAAAGCTGACAAGCAGACTAAG
1 -GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
* * * * *
273624 GGTAAAAAAGTCTCCAGGGTCAAAGTTGACGGGCAGACT-TG
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
* * * * * * *
273665 AGATGAGGCAA-TCTCCAGGGTCAAAG-TCGATAGGTAGACTGAG
1 -GGT-AAGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTAAG
* * * * *
273708 GGTAAGAAAGTTTCCAAAGTCAAAG-TCGATAGGTAGACT-TG
1 GGTAAGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTAAG
* * ** * * * * *
273749 AGATGAGGCAGTCT-CTAGGTTAAAGCTGATAGGCAGATTGAG
1 -GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
* * *
273791 GGTAAGAAAATCTCCAAGGTCAAAG-TCGATAGGCAGACTGAG
1 GGTAAGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTAAG
* ** *
273833 GATAAGAAAGTCTCC-AGGTCAAAGCTGACAAACAGACT-TG
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
* * ** * *
273873 AGGTGATG-TAGTCT-TTAGAGTCAAAGGTGACAGGTAGACTAAG
1 -GGT-AAGAAAGTCTCCAAG-GTCAAAGCTGACAGGCAGACTAAG
* * * * * *
273916 GGTAAGAAAATCT-CTAGGATCAAAGCTGACAAGTAAACT-TG
1 GGTAAGAAAGTCTCCAAGG-TCAAAGCTGACAGGCAGACTAAG
* * * * *
273957 AGGTGATGCAA-TCTCTAGGGTCAAAGCTGACAGGCAGACTGAG
1 -GGT-AAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
* * ** *
274000 GGTAAGAAAGTCTCTAAGGTTAAAGCCAACAGGCAGACTTTA-
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGAC-TAAG
* * * * * * * * *
274042 GGTGATACAGTCTTCAGGGTCAAAGTTGACAAGCAAACTGAG
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
* * * * *
274084 GGTAAGAAAGTCTCTAGGGTCAAAGCCGATAGGCAAACTTAA-
1 GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGAC-TAAG
* * * * *
274126 GGTAATGCAA-TCTCTAGGGTCAAAGCTGACAAGCAGACTAGG
1 GGTAA-GAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
* * ** * * *
274168 GGTAA-AAATGTCTCTAGGGTCAAAGCCAATAGGTAGACTAAA
1 GGTAAGAAA-GTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
*
274210 GGTAAGACAGTCTCCAAGGTCAAAG
1 GGTAAGAAAGTCTCCAAGGTCAAAG
274235 ACATTAGGCA
Statistics
Matches: 578, Mismatches: 167, Indels: 71
0.71 0.20 0.09
Matches are distributed among these distances:
40 3 0.01
41 73 0.13
42 419 0.72
43 83 0.14
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (42 bp):
GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTAAG
Found at i:273750 original size:168 final size:167
Alignment explanation
Indices: 273508--273816 Score: 390
Period size: 168 Copynumber: 1.8 Consensus size: 167
273498 GGTAAAAAAG
* * **
273508 TCTCCAAGGTCAAAGCCGACAGGTAGACTGAAGGTAGGAAAGTCTTGAGGGTCAAAGCTAATAGG
1 TCTCCAAGGTCAAAGCCGACAGGTAGACTGAAGGTAAGAAAGTCTTCAAAGTCAAAGCTAATAGG
273573 CAAACTTGAGATAAGGCAGTCTCCAAGGTCAAAGCTGACAAGCAGACTAAGGGTAA-AAAAGTCT
66 CAAACTTGAGATAAGGCAGTCT-CAAGGTCAAAGCTGACAAGCAGACTAAGGGTAAGAAAA-TCT
*
273637 CCAGGGTCAAAGTTGACGGGCAGACTTGAGATGAGGCAA
129 CCAAGGTCAAAGTTGACGGGCAGACTTGAGATGAGGCAA
* * * * *
273676 TCTCCAGGGTCAAAGTCGATAGGTAGACTGAGGGTAAGAAAGT-TTCCAAAGTCAAAG-TCGATA
1 TCTCCAAGGTCAAAGCCGACAGGTAGACTGAAGGTAAGAAAGTCTT-CAAAGTCAAAGCT-AATA
* * * * * * * * *
273739 GGTAGACTTGAGATGAGGCAGTCTCTAGGTTAAAGCTGATAGGCAGATTGAGGGTAAGAAAATCT
64 GGCAAACTTGAGATAAGGCAGTCTCAAGGTCAAAGCTGACAAGCAGACTAAGGGTAAGAAAATCT
273804 CCAAGGTCAAAGT
129 CCAAGGTCAAAGT
273817 CGATAGGCAG
Statistics
Matches: 119, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
167 45 0.38
168 74 0.62
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (167 bp):
TCTCCAAGGTCAAAGCCGACAGGTAGACTGAAGGTAAGAAAGTCTTCAAAGTCAAAGCTAATAGG
CAAACTTGAGATAAGGCAGTCTCAAGGTCAAAGCTGACAAGCAGACTAAGGGTAAGAAAATCTCC
AAGGTCAAAGTTGACGGGCAGACTTGAGATGAGGCAA
Found at i:273918 original size:125 final size:125
Alignment explanation
Indices: 273674--273929 Score: 309
Period size: 125 Copynumber: 2.0 Consensus size: 125
273664 GAGATGAGGC
* * * * *
273674 AATCTCCAGGGTCAAAGTCGATAGGTAGACTGAGGGTAAGAAAGTTTCCAAAGTCAAAGTCGATA
1 AATCTCCAAGGTCAAAGTCGATAGGCAGACTGAGGATAAGAAAGTCTCCAAAGTCAAAGTCGACA
*** * * * *
273739 GGTAGACTTGAGATGAGGCAGTCTCTAGGTTAAAGCTGATAGGCAGATTGAGGGTAAGAA
66 AACAGACTTGAGATGAGGCAGTCTCTAGGTCAAAGCTGACAGGCAGACTAAGGGTAAGAA
*
273799 AATCTCCAAGGTCAAAGTCGATAGGCAGACTGAGGATAAGAAAGTCTCC-AGGTCAAAG-CTGAC
1 AATCTCCAAGGTCAAAGTCGATAGGCAGACTGAGGATAAGAAAGTCTCCAAAGTCAAAGTC-GAC
* * * * * *
273862 AAACAGACTTGAGGTGATGTAGTCTTTAGAGTCAAAGGTGACAGGTAGACTAAGGGTAAGAA
65 AAACAGACTTGAGATGAGGCAGTCTCTAG-GTCAAAGCTGACAGGCAGACTAAGGGTAAGAA
273924 AATCTC
1 AATCTC
273930 TAGGATCAAA
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
123 1 0.01
124 32 0.29
125 77 0.70
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (125 bp):
AATCTCCAAGGTCAAAGTCGATAGGCAGACTGAGGATAAGAAAGTCTCCAAAGTCAAAGTCGACA
AACAGACTTGAGATGAGGCAGTCTCTAGGTCAAAGCTGACAGGCAGACTAAGGGTAAGAA
Found at i:273947 original size:84 final size:83
Alignment explanation
Indices: 273808--274193 Score: 391
Period size: 84 Copynumber: 4.6 Consensus size: 83
273798 AAATCTCCAA
* * * *
273808 GGTCAAAG-TCGATAGGCAGACTGAGGATAAGAAAGTCTCCAGGTCAAAGCTGACAAACAGACTT
1 GGTCAAAGCT-GACAGGCAGACTGAGGGTAAGAAAGTCTCTAGGTCAAAGCTGACAAGCAGACTT
*
273872 GAGGTGATGTAGTCTTTAG
65 GAGGTGATGCAGTCTTTAG
* * * * * * *
273891 AGTCAAAGGTGACAGGTAGACTAAGGGTAAGAAAATCTCTAGGATCAAAGCTGACAAGTAAACTT
1 GGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTCTAGG-TCAAAGCTGACAAGCAGACTT
* *
273956 GAGGTGATGCAATCTCTAG
65 GAGGTGATGCAGTCTTTAG
* ** *
273975 GGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTCTAAGGTTAAAGCCAACAGGCAGACTT
1 GGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTCT-AGGTCAAAGCTGACAAGCAGACTT
* * *
274040 TAGGTGATACAGTCTTCAG
65 GAGGTGATGCAGTCTTTAG
* * * * * * *
274059 GGTCAAAGTTGACAAGCAAACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCCGATAGGCAAACTT
1 GGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTCTA-GGTCAAAGCTGACAAGCAGACTT
* * * *
274124 AAGGTAATGCAATCTCTAG
65 GAGGTGATGCAGTCTTTAG
*
274143 GGTCAAAGCTGACAAGCAGACT-AGGGGTAA-AAATGTCTCTAGGGTCAAAGC
1 GGTCAAAGCTGACAGGCAGACTGA-GGGTAAGAAA-GTCTCTA-GGTCAAAGC
274194 CAATAGGTAG
Statistics
Matches: 253, Mismatches: 44, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
83 39 0.15
84 211 0.83
85 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.20
Consensus pattern (83 bp):
GGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTCTAGGTCAAAGCTGACAAGCAGACTTG
AGGTGATGCAGTCTTTAG
Found at i:274109 original size:168 final size:168
Alignment explanation
Indices: 273799--274234 Score: 475
Period size: 168 Copynumber: 2.6 Consensus size: 168
273789 AGGGTAAGAA
* * * * * **
273799 AATCTCCAAGGTCAAAG-TCGATAGGCAGACTGAGGATAAGAAAGTCTC-CAGGTCAAAGCTGAC
1 AATCTCTAGGGTCAAAGCT-GACAGGCAGACTGAGGGTAAGAAAGTCTCTAAGGTCAAAGCCAAC
** * ** * * * * *
273862 AAACAGACTTGAGGTGATGTAGTCTTTAGAGTCAAAGGTGACAGGTAGACTAAGGGTAAGAAAAT
65 AGGCAGACTTAAGGTGATACAGTCTTCAGGGTCAAAGGTGACAAGCAAACTAAGGGTAAGAAAAT
* * * *
273927 CTCTAGGATCAAAGCTGACAAGTAAACTTGAGGTGATGC
130 CTCTAGGATCAAAGCCGACAAGCAAACTTAAGGTAATGC
*
273966 AATCTCTAGGGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTCTAAGGTTAAAGCCAACA
1 AATCTCTAGGGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTCTAAGGTCAAAGCCAACA
* * * *
274031 GGCAGACTTTAGGTGATACAGTCTTCAGGGTCAAAGTTGACAAGCAAACTGAGGGTAAGAAAGTC
66 GGCAGACTTAAGGTGATACAGTCTTCAGGGTCAAAGGTGACAAGCAAACTAAGGGTAAGAAAATC
* * *
274096 TCTAGGGTCAAAGCCGATAGGCAAACTTAAGGTAATGC
131 TCTAGGATCAAAGCCGACAAGCAAACTTAAGGTAATGC
* *
274134 AATCTCTAGGGTCAAAGCTGACAAGCAGACT-AGGGGTAA-AAATGTCTCTAGGGTCAAAGCCAA
1 AATCTCTAGGGTCAAAGCTGACAGGCAGACTGA-GGGTAAGAAA-GTCTCTAAGGTCAAAGCCAA
* * * * * * *
274197 TAGGTAGACTAAAGGTAAGACAGTCTCCAAGGTCAAAG
64 CAGGCAGACTTAAGGTGATACAGTCTTCAGGGTCAAAG
274235 ACATTAGGCA
Statistics
Matches: 226, Mismatches: 39, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
167 46 0.20
168 180 0.80
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (168 bp):
AATCTCTAGGGTCAAAGCTGACAGGCAGACTGAGGGTAAGAAAGTCTCTAAGGTCAAAGCCAACA
GGCAGACTTAAGGTGATACAGTCTTCAGGGTCAAAGGTGACAAGCAAACTAAGGGTAAGAAAATC
TCTAGGATCAAAGCCGACAAGCAAACTTAAGGTAATGC
Found at i:274339 original size:47 final size:47
Alignment explanation
Indices: 274262--274439 Score: 194
Period size: 47 Copynumber: 3.8 Consensus size: 47
274252 ATGAGAAAAC
* *
274262 GTTTGACTAGGTCCTAATGCTTATACAGCCAAATGAGGGTGGAAAGA
1 GTTTGACTAGGTCCTAATGCTAATACAGCCAAACGAGGGTGGAAAGA
* *
274309 GTTTGACCAGGTCCTAATGCTAATATAGCCAAACGAGGGTGGAAAGA
1 GTTTGACTAGGTCCTAATGCTAATACAGCCAAACGAGGGTGGAAAGA
* * * ** * ** * *
274356 GTTTGACTTGGTCCTAACGCCAATACAGTGAAACAAATGTGAAAATA
1 GTTTGACTAGGTCCTAATGCTAATACAGCCAAACGAGGGTGGAAAGA
* * * *
274403 GTTTGACCAGGTCTTAATGCCAATACAGTCAAACGAG
1 GTTTGACTAGGTCCTAATGCTAATACAGCCAAACGAG
274440 AATAAGATTT
Statistics
Matches: 108, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (47 bp):
GTTTGACTAGGTCCTAATGCTAATACAGCCAAACGAGGGTGGAAAGA
Found at i:275338 original size:42 final size:42
Alignment explanation
Indices: 275279--275692 Score: 285
Period size: 42 Copynumber: 9.9 Consensus size: 42
275269 TCAACAAAAG
*
275279 GGTAGACTGAGGGTAAGAAAGTCTCTAGGGTTAAAGCTGACA
1 GGTAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACA
* * * *
275321 GGTAGACTGAGGGTAAGAAAGTCCCTAGTGTTAAAG-TCAACA
1 GGTAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCT-GACA
* * * * *
275363 GGTGGACTTTA-GGTGATG-TAGTCTCCAGGGTCAAAGCTGACA
1 GGTAGAC-TGAGGGT-AAGAAAGTCTCTAGGGTCAAAGCTGACA
* *
275405 AGCAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGC-GACA
1 GGTAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACA
* * ** *
275446 GGCAGACT-AGGGGTAA-AAATGTCTTTAGGGTCAAAGCCAATA
1 GGTAGACTGA-GGGTAAGAAA-GTCTCTAGGGTCAAAGCTGACA
* * * * *
275488 GGTAGACTTAAGGGGTAAGAAAGTCCCTAGTGTTAAAG-TCAACA
1 GGTAGAC-TGA-GGGTAAGAAAGTCTCTAGGGTCAAAGCT-GACA
* * * * *
275532 GGTGGACTTTA-GGTGATG-TAGTCTCCAGGGTCAAAGCTGACA
1 GGTAGAC-TGAGGGT-AAGAAAGTCTCTAGGGTCAAAGCTGACA
* *
275574 AGCAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGC-GACA
1 GGTAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACA
* * **
275615 GGCAGACT-AGGGGTAA-AAATGTCTTTAGGGTCAAAGCCAACA
1 GGTAGACTGA-GGGTAAGAAA-GTCTCTAGGGTCAAAGCTGACA
* * ** * *
275657 GGTAGACTTAAGGTAAGGTAGTCTCCAAGGTCAAAG
1 GGTAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAG
275693 TCGATAGGCA
Statistics
Matches: 294, Mismatches: 56, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
40 8 0.03
41 75 0.26
42 165 0.56
43 11 0.04
44 32 0.11
45 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (42 bp):
GGTAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCTGACA
Found at i:275610 original size:169 final size:169
Alignment explanation
Indices: 275289--275669 Score: 678
Period size: 169 Copynumber: 2.3 Consensus size: 169
275279 GGTAGACTGA
* * ** *
275289 GGGTAAGAAA-GTCTCTAGGGTTAAAGCTGACAGGTAGAC-TGA-GGGTAAGAAAGTCCCTAGTG
1 GGGTAA-AAATGTCTTTAGGGTCAAAGCCAACAGGTAGACTTAAGGGGTAAGAAAGTCCCTAGTG
275351 TTAAAGTCAACAGGTGGACTTTAGGTGATGTAGTCTCCAGGGTCAAAGCTGACAAGCAGACTGAG
65 TTAAAGTCAACAGGTGGACTTTAGGTGATGTAGTCTCCAGGGTCAAAGCTGACAAGCAGACTGAG
275416 GGTAAGAAAGTCTCTAGGGTCAAAGCGACAGGCAGACTAG
130 GGTAAGAAAGTCTCTAGGGTCAAAGCGACAGGCAGACTAG
*
275456 GGGTAAAAATGTCTTTAGGGTCAAAGCCAATAGGTAGACTTAAGGGGTAAGAAAGTCCCTAGTGT
1 GGGTAAAAATGTCTTTAGGGTCAAAGCCAACAGGTAGACTTAAGGGGTAAGAAAGTCCCTAGTGT
275521 TAAAGTCAACAGGTGGACTTTAGGTGATGTAGTCTCCAGGGTCAAAGCTGACAAGCAGACTGAGG
66 TAAAGTCAACAGGTGGACTTTAGGTGATGTAGTCTCCAGGGTCAAAGCTGACAAGCAGACTGAGG
275586 GTAAGAAAGTCTCTAGGGTCAAAGCGACAGGCAGACTAG
131 GTAAGAAAGTCTCTAGGGTCAAAGCGACAGGCAGACTAG
275625 GGGTAAAAATGTCTTTAGGGTCAAAGCCAACAGGTAGACTTAAGG
1 GGGTAAAAATGTCTTTAGGGTCAAAGCCAACAGGTAGACTTAAGG
275670 TAAGGTAGTC
Statistics
Matches: 204, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
166 3 0.01
167 30 0.15
168 2 0.01
169 169 0.83
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (169 bp):
GGGTAAAAATGTCTTTAGGGTCAAAGCCAACAGGTAGACTTAAGGGGTAAGAAAGTCCCTAGTGT
TAAAGTCAACAGGTGGACTTTAGGTGATGTAGTCTCCAGGGTCAAAGCTGACAAGCAGACTGAGG
GTAAGAAAGTCTCTAGGGTCAAAGCGACAGGCAGACTAG
Found at i:275704 original size:125 final size:128
Alignment explanation
Indices: 275279--275708 Score: 335
Period size: 125 Copynumber: 3.4 Consensus size: 128
275269 TCAACAAAAG
* * ** * * *
275279 GGTAGACTGAGGGTAAGAAAGTCTCTAGGGTTAAAGCTGACAGGTAGACTGA-GGGTAAGAAA-G
1 GGTAGACTTAAGGTAAGGTAGTCTCCAGGGTCAAAGC-GACAGGCAGACTGAGGGGTAA-AAATG
* * * * ** * * * * **
275342 TCCCTAGTGTTAAAGTCAACAGGTGGACTTTAGGTG-ATG-TAGTCTCC-AGGGTCAAAGCTGAC
64 TCTCTAGGGTCAAAGCCAACAGGCAGACTTAAGGGGTAAGAAAGTC-CCTAGGGTCAAAGCCAAC
275404 A
128 A
* * * * ** *
275405 AGCAGACTGAGGGTAAGAAAGTCTCTAGGGTCAAAGCGACAGGCAGACT-AGGGGTAAAAATGTC
1 GGTAGACTTAAGGTAAGGTAGTCTCCAGGGTCAAAGCGACAGGCAGACTGAGGGGTAAAAATGTC
* * * * * *
275469 TTTAGGGTCAAAGCCAATAGGTAGACTTAAGGGGTAAGAAAGTCCCTAGTGTTAAAGTCAACA
66 TCTAGGGTCAAAGCCAACAGGCAGACTTAAGGGGTAAGAAAGTCCCTAGGGTCAAAGCCAACA
* * * * *
275532 GGTGGACTTTAGGTGATGTAGTCTCCAGGGTCAAAGCTGACAAGCAGACTGA-GGGTAAGAAA-G
1 GGTAGACTTAAGGTAAGGTAGTCTCCAGGGTCAAAGC-GACAGGCAGACTGAGGGGTAA-AAATG
* **
275595 TCTCTAGGGTCAAAG-CGACAGGCAGAC-T-AGGGGTAA-AAATGTCTTTAGGGTCAAAGCCAAC
64 TCTCTAGGGTCAAAGCCAACAGGCAGACTTAAGGGGTAAGAAA-GTCCCTAGGGTCAAAGCCAAC
275656 A
128 A
* *
275657 GGTAGACTTAAGGTAAGGTAGTCTCCAAGGTCAAAGTCGATAGGCAGACTGA
1 GGTAGACTTAAGGTAAGGTAGTCTCCAGGGTCAAAG-CGACAGGCAGACTGA
275709 AATGAGAAAA
Statistics
Matches: 246, Mismatches: 48, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
124 7 0.03
125 113 0.46
126 40 0.16
127 50 0.20
128 32 0.13
129 4 0.02
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (128 bp):
GGTAGACTTAAGGTAAGGTAGTCTCCAGGGTCAAAGCGACAGGCAGACTGAGGGGTAAAAATGTC
TCTAGGGTCAAAGCCAACAGGCAGACTTAAGGGGTAAGAAAGTCCCTAGGGTCAAAGCCAACA
Found at i:275787 original size:47 final size:46
Alignment explanation
Indices: 275714--275895 Score: 179
Period size: 47 Copynumber: 3.9 Consensus size: 46
275704 ACTGAAATGA
* * * *
275714 GAAAAAGTTTTGACCATGTCCGAATGCTAATACAGACAAACAAGCGTG
1 GAAAAAG-TTTGACCAGGTCCTAATGCCAATACAGTCAAACAAG-GTG
* * *
275762 GAAAAAGTTTGACTAGGTCCTAATGCCAATATAGCCAAACAAGGGTG
1 GAAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAA-GGTG
* ** * *
275809 GAAAGAGTTTGACTTGGTCCTAACGCCAATACAGTGAAACAAAGGT-
1 GAAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAAC-AAGGTG
*
275855 GAGAAGAGTTTGACCAGGT-CTGAATGCCAATACAGTCAAAC
1 GA-AAAAGTTTGACCAGGTCCT-AATGCCAATACAGTCAAAC
275896 GAGAATAAGA
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
46 4 0.04
47 100 0.88
48 10 0.09
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (46 bp):
GAAAAAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAAGGTG
Found at i:276199 original size:89 final size:89
Alignment explanation
Indices: 276076--276242 Score: 217
Period size: 89 Copynumber: 1.9 Consensus size: 89
276066 GGTTGGGTAA
* * * * * * *
276076 AAGGGGATATGATTAAGAATGTGTGGGCTACACCTTACCCTAAGGAAATCAAGCTTTATGATGCA
1 AAGGGAATATGATTAAGAATGTGTAGGCTACACCTTACCCCAAGAAAACCAAACTTTATGAAGCA
276141 TCAATACCATCTACTAGTTCGGTG
66 TCAATACCATCTACTAGTTCGGTG
** * * * *
276165 AAGGGAATATGATTGGGAATGTGTAGGCTGCACCTTGCCCCCAGAAAACCAAACTTTGTGAAGCA
1 AAGGGAATATGATTAAGAATGTGTAGGCTACACCTTACCCCAAGAAAACCAAACTTTATGAAGCA
276230 TCAATACCATCTA
66 TCAATACCATCTA
276243 AGGGCTAAGT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
89 65 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (89 bp):
AAGGGAATATGATTAAGAATGTGTAGGCTACACCTTACCCCAAGAAAACCAAACTTTATGAAGCA
TCAATACCATCTACTAGTTCGGTG
Found at i:276255 original size:89 final size:89
Alignment explanation
Indices: 276079--276265 Score: 196
Period size: 89 Copynumber: 2.1 Consensus size: 89
276069 TGGGTAAAAG
* * * * * *
276079 GGGATATGATTAAGAATGTGTGGGCTACACCTTACCCTAAGGAAATCAAGCTTTATGATGCATCA
1 GGGATATGATTAAGAATGTGTAGGCTACACCTTACCCCAAGAAAACCAAACTTTATGAAGCATCA
** * **
276144 ATACCATCTACTAGTTCGGTG-AA
66 ATACCATCTAAGAGCTAAGTGAAA
** * * * *
276167 GGGAATATGATTGGGAATGTGTAGGCTGCACCTTGCCCCCAGAAAACCAAACTTTGTGAAGCATC
1 GGG-ATATGATTAAGAATGTGTAGGCTACACCTTACCCCAAGAAAACCAAACTTTATGAAGCATC
*
276232 AATACCATCTAAGGGCTAAGTGAAA
65 AATACCATCTAAGAGCTAAGTGAAA
276257 GGGATATGA
1 GGGATATGA
276266 CTAGGAAATG
Statistics
Matches: 79, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
88 3 0.04
89 71 0.90
90 5 0.06
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (89 bp):
GGGATATGATTAAGAATGTGTAGGCTACACCTTACCCCAAGAAAACCAAACTTTATGAAGCATCA
ATACCATCTAAGAGCTAAGTGAAA
Found at i:280914 original size:79 final size:79
Alignment explanation
Indices: 280783--280951 Score: 223
Period size: 79 Copynumber: 2.1 Consensus size: 79
280773 ACGACGGGGC
* * * * * *
280783 TGGAGTACCCCTGATTATGGAAAATCGGTGTTTTGGAAATAAAATCGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCTAATTATGAAAAATCGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTC
**
280848 GGAAATAACAAGGT
66 AAAAATAACAAGGT
*
280862 TGGAGTATCCCTAATTAT-AAACAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCT
1 TGGAGTATCCCTAATTATGAAA-AATCGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCT
**
280926 CAAAAATAACGGGGT
65 CAAAAATAACAAGGT
280941 TGGAGTATCCC
1 TGGAGTATCCC
280952 CGCGAAAATA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 2 0.03
79 76 0.97
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATGAAAAATCGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCTC
AAAAATAACAAGGT
Found at i:280943 original size:28 final size:28
Alignment explanation
Indices: 280907--280979 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
280897 AAAATAAAAT
*
280907 CAGGGTTGGAGTATCCCCTCAAAAATAA
1 CAGGGTTGGAGTATCCCCGCAAAAATAA
* *
280935 CGGGGTTGGAGTATCCCCGCGAAAATAA
1 CAGGGTTGGAGTATCCCCGCAAAAATAA
280963 CAGGGTTGGAGTATCCC
1 CAGGGTTGGAGTATCCC
280980 TGATTGTGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (28 bp):
CAGGGTTGGAGTATCCCCGCAAAAATAA
Found at i:281020 original size:107 final size:107
Alignment explanation
Indices: 280828--281060 Score: 299
Period size: 107 Copynumber: 2.2 Consensus size: 107
280818 GAAATAAAAT
** * ** *
280828 CGGGGTTGGAGTATCCCCTTGGAAATAACAAGGTTGGAGTATCCCTAATTATAAACAATTGGTGT
1 CGGGGTTGGAGTATCCCCGCGAAAATAACAAGGTTGGAGTATCCCTAATTATAAACAATTAATAT
* *
280893 TTTGAAAATAAAATCAGGGTTGGAGTATCCCCTCAAAAATAA
66 TTTGAAAAGAAAACCAGGGTTGGAGTATCCCCTCAAAAATAA
* * * *
280935 CGGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTGGAGTATCCCTGATTGTGAGA-AATTAATA
1 CGGGGTTGGAGTATCCCCGCGAAAATAACAAGGTTGGAGTATCCCTAATTAT-AAACAATTAATA
* *
280999 TTTT-AGAAAGAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
65 TTTTGA-AAAGAAAACCAGGGTTGGAGTATCCCCTCAAAAATAA
*
281042 CGCGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
281061 ATTGTGAGAA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
106 1 0.01
107 106 0.97
108 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCGCGAAAATAACAAGGTTGGAGTATCCCTAATTATAAACAATTAATAT
TTTGAAAAGAAAACCAGGGTTGGAGTATCCCCTCAAAAATAA
Found at i:281027 original size:79 final size:79
Alignment explanation
Indices: 280935--281614 Score: 990
Period size: 79 Copynumber: 8.6 Consensus size: 79
280925 TCAAAAATAA
* * * *
280935 CGGGGTTGGAGTATCCCCGCGAAAATAACAGGGTTGGAGTATCCCTGATTGTGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
* * *
281000 TTTAGAAAGAAAAC
66 TTTAGGAATAAAGC
*
281014 CGGGGTTGGAGTATCCCCTC-AGAAATAACGCGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
*
281078 TTTTAGGAATAAAAC
65 TTTTAGGAATAAAGC
* *
281093 CGGGGTTGGAGTATCCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
281158 TTTAGGAATAAAGC
66 TTTAGGAATAAAGC
* * * *
281172 CAGTGTTGGAGTATCCTCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
* *
281237 TTTAGAAATAAAAC
66 TTTAGGAATAAAGC
* * * *
281251 CGAGGTTGGAGTATCCTCTCGGAAATAACGGGGTTGGAGTATTCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
281316 TTTAGAAATAAAGC
66 TTTAGGAATAAAGC
* * * * *
281330 CAGGGTTGGAGTATCCCCTCGGAAATAACAGGATTGGAGTATCCCCGATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
281395 TTTAGGAATAAAGT
66 TTTAGGAATAAAGC
* *
281409 CGGGGTTGGAGTATCCCCTC-AGAAAGAAC-GGGTTGGAGTATCCCCGAATGTGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
*
281472 TTTTAGGAATAAAGT
65 TTTTAGGAATAAAGC
* *
281487 CGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
281552 TTTAGGAATAAAGC
66 TTTAGGAATAAAGC
* *
281566 CGGGGTTGGAGTAT-CCCTCCGAAAATAACGGGGTTAGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCT-CGAAAATAACGGGGTTGGAGTATCCCCGAT
281615 GATTAATGGG
Statistics
Matches: 550, Mismatches: 45, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
78 76 0.14
79 474 0.86
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
TTTAGGAATAAAGC
Found at i:284128 original size:19 final size:21
Alignment explanation
Indices: 284104--284155 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
284094 AGCGATACAC
*
284104 TGTATCGATACA-TTACT-TA
1 TGTATCGATACATTTACTGAA
284123 TGTATCGATACATTTACTGAA
1 TGTATCGATACATTTACTGAA
284144 TGTATCGATACA
1 TGTATCGATACA
284156 AATTATTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 12 0.40
20 5 0.17
21 13 0.43
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTTACTGAA
Found at i:284526 original size:42 final size:42
Alignment explanation
Indices: 284480--284582 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 42
284470 TCCCATTTTT
* * *
284480 TGAGGATAAAGGAAAAAGGGAAATGAAA-TACGTCCTGCTCTC
1 TGAGGACAAAAGAAAAAGGAAAAT-AAAGTACGTCCTGCTCTC
* *
284522 TGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCCTGCTCTT
1 TGAGGACAAAAGAAAAAGGAAAATAAAGTACGTCCTGCTCTC
284564 TGAGGACAAAAGAGAAAAG
1 TGAGGACAAAAGA-AAAAG
284583 AAGGGAAGGA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
41 3 0.06
42 46 0.85
43 5 0.09
ACGTcount: A:0.45, C:0.13, G:0.26, T:0.17
Consensus pattern (42 bp):
TGAGGACAAAAGAAAAAGGAAAATAAAGTACGTCCTGCTCTC
Found at i:284828 original size:60 final size:61
Alignment explanation
Indices: 284598--284832 Score: 271
Period size: 61 Copynumber: 3.9 Consensus size: 61
284588 AAGGAAGTGT
* * * *
284598 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGT
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
* * * * *
284659 GTCCTGCCCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGC
* * * *
284720 ATCTTGCTCTTTCAAGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGC
* ** *
284781 GTCCTGCTCTTTGAGGACTG-AAAGTGCCATCGGCTTGTGTAGGCTTT-AAAAG
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
284833 TTATCCTGCT
Statistics
Matches: 146, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
59 5 0.03
60 27 0.18
61 110 0.75
62 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
Found at i:285136 original size:55 final size:54
Alignment explanation
Indices: 284872--285468 Score: 645
Period size: 55 Copynumber: 10.4 Consensus size: 54
284862 AAAGGAGAGA
* *
284872 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT---A--A-AAG
*
284933 GCGTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-----AAAAG
* * *
284993 GTGTCCTGCTCTTTGAGGACTGCAAAATGCCACCCACTTGTGTGGGATTTGAAAAG
1 GCGTCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-AAAAG
* * *
285049 AAAAAGCATCTTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGTTTTAAAAG
1 -----GCGTCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
285109 GCGTCCTTCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAACG
1 GCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* *
285164 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAG
* * *
285219 GCATCCTGCTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTTAAGAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
*
285274 GCGTCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT------AAAAG
* * * * *
285335 GTGTCATGCTCTTTGAGGATTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAA
1 GCGTCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
* * * *
285390 GAGTCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAG
*
285445 GCGTCTTGCTCTTTGAGGACTGAA
1 GCGTCCTGCTCTTTGAGGACTGAA
285469 GGGTGAAAGG
Statistics
Matches: 469, Mismatches: 47, Indels: 46
0.83 0.08 0.08
Matches are distributed among these distances:
54 9 0.02
55 254 0.54
56 11 0.02
59 1 0.00
60 52 0.11
61 138 0.29
62 1 0.00
63 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (54 bp):
GCGTCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAG
Found at i:285352 original size:226 final size:222
Alignment explanation
Indices: 284872--285466 Score: 728
Period size: 226 Copynumber: 2.6 Consensus size: 222
284862 AAAGGAGAGA
* * *
284872 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGT
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCGT
* * *
284937 CCTACTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGTGTCCTG
60 CCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTG
* *
285001 CTCTTTGAGGACTGCAAAATGCCACCCACTTGTGTGGGATTTGAAAAGAAAAAGCATCTTGCTCT
119 CTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTGGGATTT--AAAG--AAAGCATCCTGCTCT
* *
285066 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGTTTTAAAAG
180 TTGAGGACTGAAAAATGCCACCAACCTGTGTGGGTTTGAAAAG
* * *
285109 GCGTCCTTCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAACGGCGTCCTGCT
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
285174 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGAGGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
* * * * *
285239 TGGAAAATGCCACTAACTTGTGTGGGCTTT-AAG-AGGCGTCCTGCTCTTTGAGGACTGAAAAAT
131 TGCAAAATGCCACCAACTTGTGTGGGATTTAAAGAAAGCATCCTGCTCTTTGAGGACTGAAAAAT
285302 GCCACCAACCTGTGTGGGCTTTAAAAAGAAAAG
196 GCCACCAACCTGTGTGGG-TTT-----GAAAAG
* * * * * * *
285335 GTGTCATGCTCTTTGAGGATTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAAGAGTCATGCT
1 GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
*
285400 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAGGAC
66 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
285465 TG
131 TG
285467 AAGGGTGAAA
Statistics
Matches: 322, Mismatches: 29, Indels: 25
0.86 0.08 0.07
Matches are distributed among these distances:
220 44 0.14
221 3 0.01
223 3 0.01
226 173 0.54
227 1 0.00
230 4 0.01
231 45 0.14
232 2 0.01
237 47 0.15
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (222 bp):
GCGTCATGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCT
CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGAC
TGCAAAATGCCACCAACTTGTGTGGGATTTAAAGAAAGCATCCTGCTCTTTGAGGACTGAAAAAT
GCCACCAACCTGTGTGGGTTTGAAAAG
Found at i:285364 original size:281 final size:285
Alignment explanation
Indices: 284872--285473 Score: 840
Period size: 281 Copynumber: 2.1 Consensus size: 285
284862 AAAGGAGAGA
* *
284872 GCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT---A-GAGAAGGCA
*
284936 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGTGTCCTG
61 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAG--AAGGCGTCCTG
* * * * *
285001 CTCTTTGAGGACTGCAAAATGCCACCCACTTGTGTGGGATTTGAAAAGAAAAAGCATCTTGCTCT
123 CTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGATTTAAAAAGAAAAAGCATCATGCTCT
* * * * * *
285066 TTGAGGACTGAAAAATGCCACCAACTTGTGTGGGTTTTAAAAGGCGTCCTTCTCTTTGAGGACTA
188 TTGAGGACTGAAAAATGCCACCAACTCGTGTGGGCTTTAAAAAGAGTCATGCTCTTTGAGGACT-
*
285131 GAAA-ATGCCACCAACTTGTGTGGGCTTTGAACG
252 GAAAGATGCCACCAACTTGTGTGGGCTTTGAAAG
*
285164 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-GA-AAGGCATCCTG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCATCCTA
*
285227 CTCTTTGAGGACTGGAAAATGCCACTAACTTGTGTGGGCTTT-AAG-AGGCGTCCTGCTCTTTGA
66 CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAGGCGTCCTGCTCTTTGA
* * **
285290 GGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAAGAAAAGGTGTCATGCTCTTTGAGGA-
131 GGACTGAAAAATGCCACCAACCTGTGTGGGATTTAAAAAGAAAAAGCATCATGCTCTTTGAGGAC
* *
285354 TTAGAAAATGCCACCAACTCGTGTGGGCTTTAAAAAGAGTCATGCTCTTTGAGGACTGAAAGGTG
196 TGA-AAAATGCCACCAACTCGTGTGGGCTTTAAAAAGAGTCATGCTCTTTGAGGACTGAAAGATG
285419 CCACCAACTTGTGTGGGCTTTGAAAG
260 CCACCAACTTGTGTGGGCTTTGAAAG
* *
285445 GCGTCTTGCTCTTTGAGGACTGAAGGGTG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTG
285474 AAAGGAGAGA
Statistics
Matches: 282, Mismatches: 25, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
280 6 0.02
281 173 0.61
284 3 0.01
286 50 0.18
287 2 0.01
291 3 0.01
292 45 0.16
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (285 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAGAGAAGGCATCCTA
CTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGAAGGCGTCCTGCTCTTTGA
GGACTGAAAAATGCCACCAACCTGTGTGGGATTTAAAAAGAAAAAGCATCATGCTCTTTGAGGAC
TGAAAAATGCCACCAACTCGTGTGGGCTTTAAAAAGAGTCATGCTCTTTGAGGACTGAAAGATGC
CACCAACTTGTGTGGGCTTTGAAAG
Found at i:286576 original size:28 final size:28
Alignment explanation
Indices: 286545--286599 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
286535 TTTCTCTCTT
286545 TTTTCTTTGTT-CTGTTTGTTTTTTTTTG
1 TTTTCTTTGTTGCT-TTTGTTTTTTTTTG
* *
286573 TTTTTTTTTTTGCTTTTGTTTTTTTTT
1 TTTTCTTTGTTGCTTTTGTTTTTTTTT
286600 TTTAGAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 22 0.92
29 2 0.08
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (28 bp):
TTTTCTTTGTTGCTTTTGTTTTTTTTTG
Found at i:286580 original size:12 final size:12
Alignment explanation
Indices: 286563--286602 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
286553 GTTCTGTTTG
286563 TTTTTTTTTGTT
1 TTTTTTTTTGTT
286575 TTTTTTTTTGCTT
1 TTTTTTTTTG-TT
286588 TTGTTTTTTT-TT
1 TT-TTTTTTTGTT
286600 TTT
1 TTT
286603 AGAAGAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 1 0.04
12 14 0.54
13 4 0.15
14 7 0.27
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:286593 original size:32 final size:30
Alignment explanation
Indices: 286543--286602 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
286533 CTTTTCTCTC
286543 TTTTTTCTTTGTTCTGTTTGTTTTTTTTTGT
1 TTTTTTCTTTGTTCTGTTT-TTTTTTTTTGT
* *
286574 TTTTTTTTTTGCTTTTGTTTTTTTTTTTT
1 TTTTTTCTTTG-TTCTGTTTTTTTTTTTT
286603 AGAAGAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (30 bp):
TTTTTTCTTTGTTCTGTTTTTTTTTTTTGT
Found at i:296887 original size:4 final size:4
Alignment explanation
Indices: 296878--296902 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
296868 AAAACAAAAC
296878 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
296903 CCTCAAAATA
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:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:299109 original size:79 final size:79
Alignment explanation
Indices: 298978--299146 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 79
298968 ACGACGGGGC
* * * *
298978 TGGAGTACCCCTAATTATGGAAAATCGATATTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTT
1 TGGAGTATCCCTAATTATAGAAAATCGATATTCTGGAAATAAAATCAGGGTTGGAGTATCCCCTC
**
299043 GGAAATAACAGGGT
66 AAAAATAACAGGGT
* * * * *
299057 TGGAGTGTCCCTAATTATAGAAAATTGGTGTT-TTGAAATTAAAATCAGGGTTGGAGTATCCCCT
1 TGGAGTATCCCTAATTATAGAAAATCGATATTCTGGAAA-TAAAATCAGGGTTGGAGTATCCCCT
*
299121 CAAAAATAACGGGGT
65 CAAAAATAACAGGGT
299136 TGGAGTATCCC
1 TGGAGTATCCC
299147 CGCGAAAATA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 5 0.07
79 71 0.93
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATAGAAAATCGATATTCTGGAAATAAAATCAGGGTTGGAGTATCCCCTC
AAAAATAACAGGGT
Found at i:299136 original size:28 final size:28
Alignment explanation
Indices: 299102--299176 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
299092 AAATTAAAAT
*
299102 CAGGGTTGGAGTATCCCCTCAAAAATAA
1 CAGGGTTGGAGTATCCCCGCAAAAATAA
* *
299130 CGGGGTTGGAGTATCCCCGCGAAAATAA
1 CAGGGTTGGAGTATCCCCGCAAAAATAA
*
299158 CAGGCTTGGAGTATCCCCG
1 CAGGGTTGGAGTATCCCCG
299177 ATTCTGAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (28 bp):
CAGGGTTGGAGTATCCCCGCAAAAATAA
Found at i:299214 original size:79 final size:79
Alignment explanation
Indices: 299130--299730 Score: 929
Period size: 79 Copynumber: 7.6 Consensus size: 79
299120 TCAAAAATAA
* * * *
299130 CGGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCGATTCTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
* *
299195 TTTAGAAATAAAAC
66 TTTAGGAATAAAGC
299209 CGGGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
299273 TTTTAGGAATAAAGC
65 TTTTAGGAATAAAGC
* * *
299288 CGGGGTTTGAGTATCCTCTCGAAAATAACAGGGTTGGAGTATCCCCGATTGTGAGAAATCAAT-T
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
* **
299352 TTTAGAAATAAAAT
66 TTTAGGAATAAAGC
* *
299366 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATTCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
299431 TTTAGAAATAAAGC
66 TTTAGGAATAAAGC
*
299445 CGGGGTTGGAGTATCCCCTC-AGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATA
299509 TTTTAGGAATAAAGC
65 TTTTAGGAATAAAGC
*
299524 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
*
299589 TTTAGGAATAAAGT
66 TTTAGGAATAAAGC
* * * * *
299603 TGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
299668 TTTAGGAATAAAGC
66 TTTAGGAATAAAGC
* * *
299682 CGGGGTTGGAGTATCCCCTCGGAAATAGCGGGGTTAGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
299731 GATTAACGGG
Statistics
Matches: 481, Mismatches: 36, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
78 71 0.15
79 409 0.85
80 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
TTTAGGAATAAAGC
Found at i:299215 original size:107 final size:107
Alignment explanation
Indices: 299023--299255 Score: 299
Period size: 107 Copynumber: 2.2 Consensus size: 107
299013 GAAATAAAAT
** * * * * *** *
299023 CGGGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGAGTGTCCCTAATTATAGAAAATTGGTGT
1 CGGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCAATTATAGAAAATCAATAT
*
299088 TTTGAAATTAAAATCAGGGTTGGAGTATCCCCTCAAAAATAA
66 TTTGAAATTAAAACCAGGGTTGGAGTATCCCCTCAAAAATAA
* *
299130 CGGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCGATTCT-GAGAAATCAATA
1 CGGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCAATTATAGA-AAATCAATA
* *
299194 TTTTAGAAA-TAAAACCGGGGTTGGAGTATCCCCTCAGAAATAA
65 TTTT-GAAATTAAAACCAGGGTTGGAGTATCCCCTCAAAAATAA
299237 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
299256 ATTGTGAGAA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
106 2 0.02
107 103 0.94
108 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCAATTATAGAAAATCAATAT
TTTGAAATTAAAACCAGGGTTGGAGTATCCCCTCAAAAATAA
Found at i:299302 original size:186 final size:186
Alignment explanation
Indices: 298999--299334 Score: 433
Period size: 186 Copynumber: 1.8 Consensus size: 186
298989 TAATTATGGA
* * * ** *
298999 AAATCGATATTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGAGTG
1 AAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTA
* *** * *
299064 TCCCTAATTATAGAAAATTGGTGTTTTGAAATTAAAATCAGGGTTGGAGTATCCCCTCAAAAATA
66 TCCCCAATTATAGAAAATCAATATTTTGAAATTAAAACCAGGGTTGGAGTATCCCCTCAAAAATA
*
299129 ACGGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCGATTCTGAG
131 ACAGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCGATTCTGAG
* *
299185 AAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTA
1 AAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTA
* * * * * * * *
299250 TCCCCGATTGT-GAGAAATCAATATTTTAGGAA-TAAAGCCGGGGTTTGAGTATCCTCTCGAAAA
66 TCCCCAATTATAGA-AAATCAATATTTT-GAAATTAAAACCAGGGTTGGAGTATCCCCTCAAAAA
299313 TAACAGGGTTGGAGTATCCCCG
129 TAACAGGGTTGGAGTATCCCCG
299335 ATTGTGAGAA
Statistics
Matches: 125, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
185 2 0.02
186 120 0.96
187 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.26
Consensus pattern (186 bp):
AAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTA
TCCCCAATTATAGAAAATCAATATTTTGAAATTAAAACCAGGGTTGGAGTATCCCCTCAAAAATA
ACAGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCGATTCTGAG
Found at i:299552 original size:236 final size:237
Alignment explanation
Indices: 299130--299730 Score: 997
Period size: 236 Copynumber: 2.5 Consensus size: 237
299120 TCAAAAATAA
* * * * *
299130 CGGGGTTGGAGTATCCCCGCGAAAATAACAGGCTTGGAGTATCCCCGATTCTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
* *
299195 TTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTG
66 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTA
* *
299260 TGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTTGAGTATCCTCTCGAAAATAACAGGGTTGG
131 TGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGG
299325 AGTATCCCCGATTGTGAGAAATCAAT-TTTTAGAAATAAAAT
196 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAT
* *
299366 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATTCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
299431 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTA
66 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTA
* *
299496 TGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGG
131 TGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGG
* *
299561 AGTATCCCCGATTGTGAGAAATCAATATTTTAGGAATAAAGT
196 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAT
* * *
299603 TGGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
* * * *
299668 TTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAGCGGGGTTAGAGTATCCCCGAT
66 TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGAT
299731 GATTAACGGG
Statistics
Matches: 341, Mismatches: 23, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
236 209 0.61
237 132 0.39
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (237 bp):
CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTA
TGAGAAATCAATATTTTAGGAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGG
AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAAT
Found at i:299748 original size:27 final size:28
Alignment explanation
Indices: 299682--299753 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
299672 GGAATAAAGC
** *
299682 CGGGGTTGGAGTATCCCCTCGGAAATAG
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
* * *
299710 CGGGGTTAGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
299737 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
299754 TGATTATGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 19 0.51
28 18 0.49
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:302199 original size:21 final size:21
Alignment explanation
Indices: 302157--302232 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
302147 AAACTTCCTA
*
302157 GATGTATCGATACAA-AGATC
1 GATGTATCGATACAATGGATC
302177 GATGTATCGATACAATGGATC
1 GATGTATCGATACAATGGATC
302198 GATGTATCGATACAATGGATC
1 GATGTATCGATACAATGGATC
302219 GATGTATCGATACA
1 GATGTATCGATACA
302233 TTTGGGTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
20 15 0.28
21 39 0.72
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (21 bp):
GATGTATCGATACAATGGATC
Found at i:305711 original size:24 final size:25
Alignment explanation
Indices: 305676--305722 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
305666 ATTTTTCTTC
*
305676 TTTTCTTTTTGCTATTT-CGATTTT
1 TTTTCTTCTTGCTATTTGCGATTTT
305700 TTTTCTTCTTGCTATTTGCGATT
1 TTTTCTTCTTGCTATTTGCGATT
305723 CTGTTTTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.09, C:0.15, G:0.11, T:0.66
Consensus pattern (25 bp):
TTTTCTTCTTGCTATTTGCGATTTT
Found at i:305733 original size:25 final size:24
Alignment explanation
Indices: 305676--305734 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
305666 ATTTTTCTTC
* *
305676 TTTTCTTTTTGCTATTTCGATTTT
1 TTTTCTTCTTGCTATTTCGATTTG
305700 TTTTCTTCTTGCTATTTGCGATTCTG
1 TTTTCTTCTTGCTATTT-CGATT-TG
305726 TTTT-TTCTT
1 TTTTCTTCTT
305735 CCTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
24 16 0.52
25 10 0.32
26 5 0.16
ACGTcount: A:0.07, C:0.15, G:0.10, T:0.68
Consensus pattern (24 bp):
TTTTCTTCTTGCTATTTCGATTTG
Found at i:306672 original size:15 final size:15
Alignment explanation
Indices: 306652--306690 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
306642 TGCATATATT
306652 TTTTATATTTTCTTA
1 TTTTATATTTTCTTA
*
306667 TTTTATATTTTTTTA
1 TTTTATATTTTCTTA
306682 TTTT-TATTT
1 TTTTATATTT
306691 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTATATTTTCTTA
Found at i:306692 original size:25 final size:25
Alignment explanation
Indices: 306645--306700 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
306635 ATTAATATGC
306645 ATATATTTTTTATATTTTCTTATTTT
1 ATAT-TTTTTTATATTTTCTTATTTT
*
306671 ATATTTTTTTAT-TTTTATTTATTTT
1 ATATTTTTTTATATTTT-CTTATTTT
*
306696 TTATT
1 ATATT
306701 ATTAATGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 4 0.15
25 19 0.70
26 4 0.15
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (25 bp):
ATATTTTTTTATATTTTCTTATTTT
Found at i:306695 original size:15 final size:14
Alignment explanation
Indices: 306651--306695 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 14
306641 ATGCATATAT
306651 TTTTTATATTTTCTTA
1 TTTTTAT-TTTT-TTA
306667 TTTTATATTTTTTTA
1 TTTT-TATTTTTTTA
306682 TTTTTATTTATTTT
1 TTTTTATTT-TTTT
306696 TTATTATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 11 0.41
16 8 0.30
17 3 0.11
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:308750 original size:22 final size:22
Alignment explanation
Indices: 308725--308775 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
308715 TAAATGCTAG
308725 TCTTTTTTATTGTATTCTTTCT
1 TCTTTTTTATTGTATTCTTTCT
*
308747 TCTTTTTTTTTGTATTCTTTCT
1 TCTTTTTTATTGTATTCTTTCT
308769 TCTTTTT
1 TCTTTTT
308776 CTTCTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.06, C:0.14, G:0.04, T:0.76
Consensus pattern (22 bp):
TCTTTTTTATTGTATTCTTTCT
Found at i:319302 original size:44 final size:44
Alignment explanation
Indices: 319252--319338 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
319242 ACACAAACTG
* * *
319252 TAATGGACTTATTGTGCTAACAAG-CTGAATTCTGAATTAAACCC
1 TAATGGACTTACTATGCTAACAAGCCT-AATTATGAATTAAACCC
*
319296 TAATGGACTTACTATGCTAACAAGCCTAATTATTAATTAAACC
1 TAATGGACTTACTATGCTAACAAGCCTAATTATGAATTAAACC
319339 AAAATAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (44 bp):
TAATGGACTTACTATGCTAACAAGCCTAATTATGAATTAAACCC
Found at i:319654 original size:21 final size:21
Alignment explanation
Indices: 319628--319704 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
319618 TTTTTATCCA
319628 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
319649 AATGTATTGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* *
319670 AATGTATCGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
319691 AATGTATCGATACA
1 AATGTATCGATACA
319705 AGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:319787 original size:19 final size:21
Alignment explanation
Indices: 319741--319793 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
319731 TTTCAATAAT
*
319741 TTGTATCGATACATTCAGTAA
1 TTGTATCGATACATTAAGTAA
*
319762 ATGTATCGATACA-TAAGT-A
1 TTGTATCGATACATTAAGTAA
319781 TTGTATCGATACA
1 TTGTATCGATACA
319794 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (21 bp):
TTGTATCGATACATTAAGTAA
Found at i:319863 original size:13 final size:13
Alignment explanation
Indices: 319845--319871 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
319835 CATTTTTCGG
319845 TGTATCGATACAT
1 TGTATCGATACAT
319858 TGTATCGATACAT
1 TGTATCGATACAT
319871 T
1 T
319872 TATTCTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:319888 original size:34 final size:33
Alignment explanation
Indices: 319825--319891 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
319815 GCTAAGGAAA
319825 TGTATCGACACATTTTTCGGTGTATCGATACAT
1 TGTATCGACACATTTTTCGGTGTATCGATACAT
* **
319858 TGTATCGATACATTTATTCTTTGTATCGATACAT
1 TGTATCGACACATTT-TTCGGTGTATCGATACAT
319892 CTAGGAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGACACATTTTTCGGTGTATCGATACAT
Found at i:322297 original size:52 final size:52
Alignment explanation
Indices: 322228--322361 Score: 173
Period size: 52 Copynumber: 2.6 Consensus size: 52
322218 TTAAGTTTCT
**
322228 CAATTGTT-CACAATCGGGGATACTCCAACCCCGATTTTATTT-TTAAAACAC
1 CAATT-TTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
** *
322279 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* *
322332 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCACAATCGGGGATACTCCAACC
322362 TCGTTATTTC
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.03
51 6 0.09
52 47 0.67
53 15 0.21
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (52 bp):
CAATTTTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:322380 original size:28 final size:29
Alignment explanation
Indices: 322344--322420 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
322334 ATTTTTCACA
* * *
322344 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCTCGTTACCTCC
* *
322372 ATCGGGGATACTCCAACCCCATTACCTCC
1 ATCGGGGATACTCCAACCTCGTTACCTCC
*
322401 A-AGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
322421 GCTTTATTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
28 37 0.93
29 3 0.08
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCTCGTTACCTCC
Found at i:322468 original size:79 final size:77
Alignment explanation
Indices: 322376--322608 Score: 234
Period size: 79 Copynumber: 2.9 Consensus size: 77
322366 TATTTCATCG
* ** *
322376 GGGATACTCCAACCCCATTACCTCCAAGGGGATACTCCAACCTCGGCTTTATTTCCAAAATATTG
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACC-C-GATTTATTTCCAAAATATTG
*
322441 ATTTCTCATAATCA
64 ATTTCTCATAACCA
** * * *
322455 GGGATACTCCAACCCCGTTATTTCTTAGGGGATACTCCAATCCCGATTCTATTTTC-TAATCATC
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAA-CCCGATT-TATTTCCAAAAT-ATT
* * *
322519 GATTTTTCACAACCG
63 GATTTCTCATAACCA
* * *
322534 GGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTCCAAAATATTA
1 GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAA-CCCGAT-TTATTTCCAAAATATT-
*
322599 AATTTCTCAT
63 GATTTCTCAT
322609 CGGGAAATAT
Statistics
Matches: 123, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
78 6 0.05
79 104 0.85
80 13 0.11
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (77 bp):
GGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCGATTTATTTCCAAAATATTGAT
TTCTCATAACCA
Found at i:334949 original size:1 final size:1
Alignment explanation
Indices: 334945--335016 Score: 72
Period size: 1 Copynumber: 72.0 Consensus size: 1
334935 TTCCTTTTTC
* * * * * * * *
334945 AAAAAAAAAACAAAAAACAAAAAACAACAAAAAAACAAAAAAAACAAAAAAAACAAAAAAAAAGA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
335010 AAAAAAA
1 AAAAAAA
335017 GAGAAGAATC
Statistics
Matches: 55, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.89, C:0.10, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:334996 original size:36 final size:36
Alignment explanation
Indices: 334944--335015 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
334934 ATTCCTTTTT
*
334944 CAAAAAAAAAACAAAAAACAAAAAACAACAAAAAAA
1 CAAAAAAAAAACAAAAAACAAAAAAAAACAAAAAAA
*
334980 CAAAAAAAACAA-AAAAAACAAAAAAAAAGAAAAAAA
1 CAAAAAAAA-AACAAAAAACAAAAAAAAACAAAAAAA
335016 AGAGAAGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 31 0.94
37 2 0.06
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (36 bp):
CAAAAAAAAAACAAAAAACAAAAAAAAACAAAAAAA
Found at i:335018 original size:9 final size:9
Alignment explanation
Indices: 334944--335015 Score: 96
Period size: 9 Copynumber: 8.0 Consensus size: 9
334934 ATTCCTTTTT
334944 CAAAAAAAA
1 CAAAAAAAA
334953 -AACAAAAAA
1 CAA-AAAAAA
334962 CAAAAAACAA
1 CAAAAAA-AA
334972 C-AAAAAAA
1 CAAAAAAAA
334980 CAAAAAAAA
1 CAAAAAAAA
334989 CAAAAAAAA
1 CAAAAAAAA
334998 CAAAAAAAA
1 CAAAAAAAA
335007 -AGAAAAAAA
1 CA-AAAAAAA
335016 AGAGAAGAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
8 6 0.10
9 47 0.81
10 5 0.09
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:336238 original size:62 final size:60
Alignment explanation
Indices: 336086--336290 Score: 268
Period size: 61 Copynumber: 3.4 Consensus size: 60
336076 TTCGCCCTTT
*
336086 AGTCCTCAAAGAGCAGGACGCCTTCTCCGTTTAAAGCCCACACAAGTTGGT-GCTACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCC-TTTAAAGCCCACACAAGTTGGTGGC-ACTTTTC
* * *
336147 AATCCTCAAAGAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTT-AAAGCCCACACAAGTTGGTGGCAC-TTTTC
** * * **
336209 AGTCCTCAAAGAGCAGGGTGCCTTTTCCTTTTAAAGCCCACAGAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTTCTCC-TTTAAAGCCCACACAAGTTGGTGGCACTTTTC
336270 AGTCCTCAAAGAGCAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
336291 TCCCTCCTTT
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
60 3 0.02
61 68 0.54
62 51 0.41
63 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (60 bp):
AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:336369 original size:55 final size:55
Alignment explanation
Indices: 336303--336657 Score: 466
Period size: 55 Copynumber: 6.3 Consensus size: 55
336293 CCTCCTTTCG
* * * * *
336303 CCTTTTTGTCCTCAAAGAGTAGGATGCCTTTCAAAGCCCACACGAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
336358 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTCTACTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA
** * * *
336419 -CTTCCAAGTCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-TTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
336474 --TTTTCGAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 CCTTTT--AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA
*
336529 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
336584 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
336639 CTTTTTAGTCCTCAAAGAG
1 CCTTTTAGTCCTCAAAGAG
336658 TAGGGTACAC
Statistics
Matches: 267, Mismatches: 20, Indels: 26
0.85 0.06 0.08
Matches are distributed among these distances:
54 4 0.01
55 209 0.78
56 3 0.01
57 4 0.01
60 4 0.01
61 43 0.16
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (55 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:336559 original size:26 final size:26
Alignment explanation
Indices: 336529--336616 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
336519 GTTGGTGGCA
336529 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * ** *
336555 CCTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
*
336584 CCTTTTAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
336610 CCTTTCA
1 CCTTTCA
336617 AAGCCCACAC
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 6 0.14
28 6 0.14
29 9 0.21
30 3 0.07
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:337489 original size:13 final size:13
Alignment explanation
Indices: 337471--337495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
337461 TCCAATAATT
337471 TGTATCGATACAA
1 TGTATCGATACAA
337484 TGTATCGATACA
1 TGTATCGATACA
337496 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:339980 original size:52 final size:52
Alignment explanation
Indices: 339913--340046 Score: 180
Period size: 52 Copynumber: 2.6 Consensus size: 52
339903 TTAAGTTTCT
* * *
339913 CAATTATTCACAATCGAGGATACTCCAACCCCGGTTTTATTTTC-AAAACAC
1 CAATTTTTCACAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
** * * *
339964 CAATTTTCTTTCAATCGGGGATACTGCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTT-TCACAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
340017 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTTCACAATCGAGGATACTCCAACC
340047 TCGTTATTTC
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
51 6 0.09
52 48 0.71
53 14 0.21
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (52 bp):
CAATTTTTCACAATCGAGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:340080 original size:28 final size:30
Alignment explanation
Indices: 340029--340103 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 30
340019 ATTTTTCACA
*
340029 ATCGAGGATACTCCAA-CCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCTCGTTACTTTC
*
340057 ATCGGGGATACTCCAACCCT-GTTACCTTTG
1 ATCGGGGATACTCCAACCCTCGTTA-CTTTC
340087 A--GGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
340104 CGGCTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 35 0.83
29 3 0.07
30 4 0.10
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCTCGTTACTTTC
Found at i:340193 original size:79 final size:76
Alignment explanation
Indices: 340057--340293 Score: 219
Period size: 79 Copynumber: 3.0 Consensus size: 76
340047 TCGTTATTTC
* * *
340057 ATCGGGGATACTCCAACCCTGTTACCTTTGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCTGTTA-TTTTCAGGGGATACTCCAA-CCC-GATTTATTTCCAAAAT
340122 ATTGATTTCTCATA
63 ATTGATTTCTCATA
* * *
340136 ATCGGGGATACTCCAACCCTGTTATTTCTCAGGGGATACTCCATTCCCGATTCTATTTTC-TAAT
1 ATCGGGGATACTCCAACCCTGTTATTT-TCAGGGGATACTCCA-ACCCGATT-TATTTCCAAAAT
* * *
340200 CATCGATTTTTCACA
63 -ATTGATTTCTCATA
* * *
340215 A-CTGGGGATACTCCAACTC-GATTATTTTCAAGGGGATACTCCAACCCCATTATTATCTCCAAA
1 ATC-GGGGATACTCCAACCCTG-TTATTTTC-AGGGGATACTCCAACCCGA-T-TTATTTCCAAA
*
340278 ATATTAAATTTCTCAT
61 ATATT-GATTTCTCAT
340294 CGGGAAATAT
Statistics
Matches: 128, Mismatches: 19, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
78 16 0.12
79 101 0.79
80 11 0.09
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.34
Consensus pattern (76 bp):
ATCGGGGATACTCCAACCCTGTTATTTTCAGGGGATACTCCAACCCGATTTATTTCCAAAATATT
GATTTCTCATA
Found at i:344463 original size:22 final size:22
Alignment explanation
Indices: 344433--344477 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
344423 CTTATTGGAA
344433 AAGGAAATTGGAGATTAAACAC
1 AAGGAAATTGGAGATTAAACAC
* *
344455 AAGGCAATTGGAGATTCAACAC
1 AAGGAAATTGGAGATTAAACAC
344477 A
1 A
344478 CTTGTGTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.18
Consensus pattern (22 bp):
AAGGAAATTGGAGATTAAACAC
Found at i:345890 original size:22 final size:22
Alignment explanation
Indices: 345862--345904 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
345852 CTTATTGGAG
*
345862 AGGGCAATTGGAGGTTAAACAT
1 AGGGCAATTGGAGATTAAACAT
345884 AGGGCAATTGGAGATTAAACA
1 AGGGCAATTGGAGATTAAACA
345905 CACTTCTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (22 bp):
AGGGCAATTGGAGATTAAACAT
Found at i:347247 original size:24 final size:24
Alignment explanation
Indices: 347212--347262 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
347202 TCAAAGAGAA
* *
347212 AGAAGAAGAGATAAGAGGGATGAT
1 AGAAGAAGAGATAAGAGAGATAAT
*
347236 AGAAGCAA-AGATAGGAGAGATAAT
1 AGAAG-AAGAGATAAGAGAGATAAT
347260 AGA
1 AGA
347263 GAGAGGAGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.53, C:0.02, G:0.33, T:0.12
Consensus pattern (24 bp):
AGAAGAAGAGATAAGAGAGATAAT
Found at i:351616 original size:32 final size:32
Alignment explanation
Indices: 351567--351662 Score: 117
Period size: 36 Copynumber: 2.9 Consensus size: 32
351557 CCTTACAACA
351567 CTATC-TTTCAAGGCTAAGATAGAAACCTC-C-
1 CTATCTTTTCAAGGCTAAGATAG-AACCTCTCT
351597 CTATCTTTTCACAGGCTAAGATAGAACCTTTCTCT
1 CTATCTTTTCA-AGGCTAAGATAGAACC--TCTCT
351632 CTATCTTTTTCAAAGGCTAAGATAGAACCTC
1 CTATC-TTTTC-AAGGCTAAGATAGAACCTC
351663 ACAATCACTA
Statistics
Matches: 58, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
30 5 0.09
31 9 0.16
32 12 0.21
33 2 0.03
34 3 0.05
35 5 0.09
36 21 0.36
37 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (32 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCTCT
Found at i:352721 original size:56 final size:56
Alignment explanation
Indices: 352635--352747 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
352625 ATGATCTTAG
*
352635 CAATTATCTCAAGGTCGTTGATCATTCATACTCTCTGTTTCATCAAAGATCGTAAC
1 CAATTATCTCAAGGTCGTTGATCAATCATACTCTCTGTTTCATCAAAGATCGTAAC
*
352691 CAATTATCTCAAGGTCGTTGATCAATCATACTCTTTGTTTCATCAAAGATCGTAAC
1 CAATTATCTCAAGGTCGTTGATCAATCATACTCTCTGTTTCATCAAAGATCGTAAC
352747 C
1 C
352748 TATAATATGA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (56 bp):
CAATTATCTCAAGGTCGTTGATCAATCATACTCTCTGTTTCATCAAAGATCGTAAC
Found at i:356981 original size:32 final size:34
Alignment explanation
Indices: 356937--357027 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 34
356927 CAACACTAGC
356937 TTTC-AAGGCTAAGATAGAAACCTC-C-CTATC-T
1 TTTCAAAGGCTAAGATAG-AACCTCTCTCTATCTT
**
356968 TTTCACGGGCTAAGATAGAACCTTTCTCTCTATCTT
1 TTTCAAAGGCTAAGATAGAACC--TCTCTCTATCTT
357004 TTTCAAAGGCTAAGATAGAACCTC
1 TTTCAAAGGCTAAGATAGAACCTC
357028 ATAATCACTT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
31 8 0.16
32 11 0.22
33 2 0.04
34 3 0.06
35 5 0.10
36 21 0.42
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (34 bp):
TTTCAAAGGCTAAGATAGAACCTCTCTCTATCTT
Found at i:357529 original size:26 final size:22
Alignment explanation
Indices: 357470--357512 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
357460 TTAAATAGTG
357470 TGAACAGTGATGTATCGATACA
1 TGAACAGTGATGTATCGATACA
357492 TGAACAGTGATGTATCGATAC
1 TGAACAGTGATGTATCGATAC
357513 TTTGATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (22 bp):
TGAACAGTGATGTATCGATACA
Found at i:357610 original size:10 final size:10
Alignment explanation
Indices: 357591--357621 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
357581 GTATCGATAC
357591 ATGAACAGTG
1 ATGAACAGTG
*
357601 ATGAATAGTG
1 ATGAACAGTG
357611 ATGAACAGTG
1 ATGAACAGTG
357621 A
1 A
357622 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:361675 original size:21 final size:22
Alignment explanation
Indices: 361638--361696 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
361628 ATCATTCCAA
361638 AAAAAAATCAAAGAAAAAGTTGAC
1 AAAAAAAT-AAA-AAAAAGTTGAC
*
361662 -AAAAAAT-AAAAAAAGTTGGC
1 AAAAAAATAAAAAAAAGTTGAC
361682 AAAAAAATAAAAAAA
1 AAAAAAATAAAAAAA
361697 GAATCATAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 10 0.31
21 9 0.28
22 6 0.19
23 7 0.22
ACGTcount: A:0.73, C:0.05, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAAAAATAAAAAAAAGTTGAC
Found at i:361676 original size:20 final size:21
Alignment explanation
Indices: 361651--361697 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
361641 AAAATCAAAG
361651 AAAAAGTTGAC-AAAAAATAA
1 AAAAAGTTGACAAAAAAATAA
*
361671 AAAAAGTTGGCAAAAAAATAA
1 AAAAAGTTGACAAAAAAATAA
361692 AAAAAG
1 AAAAAG
361698 AATCATAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.70, C:0.04, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAAAGTTGACAAAAAAATAA
Found at i:367793 original size:16 final size:16
Alignment explanation
Indices: 367772--367802 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
367762 ATATATGCTC
367772 ATTGTATCGATACATA
1 ATTGTATCGATACATA
367788 ATTGTATCGATACAT
1 ATTGTATCGATACAT
367803 GAAGAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
ATTGTATCGATACATA
Found at i:376540 original size:20 final size:20
Alignment explanation
Indices: 376501--376611 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
376491 TATGCTTTGC
* *
376501 ATCGATACATGC-TCATTGT
1 ATCGATACATACGTAATTGT
376520 ATCGATACATACGTAATTGT
1 ATCGATACATACGTAATTGT
*
376540 ATCGATACAT-CAT-ATTAGT
1 ATCGATACATACGTAATT-GT
* * * *
376559 AGTAGATACCCTAAGTGAAATGT
1 A-TCGATA-CATACGT-AATTGT
*
376582 ATCGATACATGAAG-AATTGT
1 ATCGATACAT-ACGTAATTGT
376602 ATCGATACAT
1 ATCGATACAT
376612 TATGCCCAAC
Statistics
Matches: 73, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.04
19 16 0.22
20 36 0.49
21 4 0.05
22 9 0.12
23 3 0.04
24 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (20 bp):
ATCGATACATACGTAATTGT
Found at i:379255 original size:14 final size:13
Alignment explanation
Indices: 379233--379265 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
379223 TCCGTAAAGG
379233 AAATTTTTTT-AA
1 AAATTTTTTTGAA
379245 AATATTTTTTTGAA
1 AA-ATTTTTTTGAA
379259 AAATTTT
1 AAATTTT
379266 GGAAATCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 13 0.68
14 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
AAATTTTTTTGAA
Found at i:379794 original size:13 final size:13
Alignment explanation
Indices: 379776--379817 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
379766 CAAGACTCAA
379776 TTTATTATTATTT
1 TTTATTATTATTT
*
379789 TTTATTTTTATTT
1 TTTATTATTATTT
*
379802 TTT-TCATTATTT
1 TTTATTATTATTT
379814 TTTA
1 TTTA
379818 CGTATGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTATTATTT
Found at i:380802 original size:32 final size:32
Alignment explanation
Indices: 380748--380808 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
380738 TGACAAAACA
*
380748 GAAAAAAGAAAAAAATACAAAACAACAGCAGT
1 GAAAAAAGAAAAAAAAACAAAACAACAGCAGT
* *
380780 GAAAAAA-AAAAAGAAAAGAAAACAGCAGC
1 GAAAAAAGAAAAA-AAAACAAAACAACAGC
380809 TACGAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.03
Consensus pattern (32 bp):
GAAAAAAGAAAAAAAAACAAAACAACAGCAGT
Found at i:381091 original size:14 final size:13
Alignment explanation
Indices: 381072--381112 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
381062 GCAGCTAAAG
* *
381072 AAAAAAAAATAGC
1 AAAAAAAAAAAAC
381085 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
381098 AAAAAAAACAAAAC
1 AAAAAAAA-AAAAC
381112 A
1 A
381113 TGCCAGGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:382021 original size:3 final size:3
Alignment explanation
Indices: 382007--382043 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
381997 AACAATAAAT
*
382007 TAA TAC TAA TAA TAA TAA TAA TAA -AA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
382044 ATAAATTCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
2 4 0.13
3 26 0.87
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:382041 original size:16 final size:18
Alignment explanation
Indices: 382014--382048 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
382004 AATTAATACT
382014 AATAATAATAAT-AATAA
1 AATAATAATAATAAATAA
382031 AATAA-AATAATAAATAA
1 AATAATAATAATAAATAA
382048 A
1 A
382049 TTCTTTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAATAATAATAAATAA
Found at i:383130 original size:157 final size:157
Alignment explanation
Indices: 382442--383580 Score: 952
Period size: 157 Copynumber: 7.3 Consensus size: 157
382432 GGGATATCAT
* * * * * * *
382442 ATACTTTTACATCGAGGGTAT-CCCTTAGGGGTATTTTGGTAATTTTTTA-AAATCGAGTCTTAG
1 ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTTTTAGAACT-AACTCCTAG
* * * * ** * *
382505 GTCTTCATCGAG-TCAGCTTTTATG-TCGAAGATAGATATTTAGGATGGGCTCA-CCCATTTTAT
65 GTCGTCACCGAGTTC-GCTTTTATGAT-GAAGGTTGGCATTTAGGATAGGTTCATCCC-TTTTAT
* *
382567 -TGTCCTTTTTAAGTCCTTTAAGGG-TACCGAG
127 GAGT-CTTTTTAAGTCCTTT-AGGGTTGCCGAG
* * * * * * * * *
382598 ATACTTTCACGTCGAAGATAT-CACATAGGGGTATTTTCGTAATTTTTTAGAA-TCAGTCCTAGG
1 ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTTTTAGAACTAACTCCTAGG
** ** * * * * *
382661 TTATCACCGAG-TCTGCTTTTATGCCGAATGTGGGTATTTAGGATAGGTTTA-CTGCTTTTATG-
66 TCGTCACCGAGTTC-GCTTTTATGATGAAGGTTGGCATTTAGGATAGGTTCATC-CCTTTTATGA
* *
382723 GTCCTTTTTAAGTTCTTTAGGGGTAT-CTG-G
129 GT-CTTTTTAAGTCCTTTA-GGGT-TGCCGAG
* * * ** * * * *
382753 ATACTTTCACGTCGAAGGTAT-CCCCTAGAGGCATTTTCATAGTTTTTTAGAA-TCGAGTCTTAG
1 ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTTTTAGAACT-AACTCCTAG
** * * * * *
382816 GTTATCA-CTAGATTCGCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCA-CCCCTTTAT-A
65 GTCGTCACCGAG-TTCGCTTTTATGATGAAGGTTGGCATTTAGGATAGGTTCATCCCTTTTATGA
* * * ***
382878 ATCCTTTTTAAGTCTTTTAGGGGT-ATTAG
129 GT-CTTTTTAAGTCCTTTAGGGTTGCCGAG
* * *
382907 GTACTTTTACATTGAAGGTATACCTCTAGGGGCATTTTGGTAATTTTTTAGAACTAACTCCTAGG
1 ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTTTTAGAACTAACTCCTAGG
* *
382972 TCGTCACCGAGTTCGCTTTTATGATGAAGGTTGGCATTTAGGATAGGTTCATCACTTTTTTTGAG
66 TCGTCACCGAGTTCGCTTTTATGATGAAGGTTGGCATTTAGGATAGGTTCATC-CCTTTTATGAG
383037 TCTTTTTAAGTCCTTTAGGGTTGCCGAG
130 TCTTTTTAAGTCCTTTAGGGTTGCCGAG
** ** *
383065 ATACTTTTATGTCGAAGGTATACCTTTAGGGGCAGTTTGGTAA-TTTTTAGAACTAACTCCTAGG
1 ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTTTTAGAACTAACTCCTAGG
* * * * *
383129 TCATCACCGGGTTTGCTTTTATGCCT-AAGGTGGGCATTTAGGATAGGTTCATCCCTTTTTATGA
66 TCGTCACCGAGTTCGCTTTTATG-ATGAAGGTTGGCATTTAGGATAGGTTCATCCC-TTTTATGA
* *
383193 GTCTTTTTAAGTCCTTTAGGATTGTCGAG
129 GTCTTTTTAAGTCCTTTAGGGTTGCCGAG
* * *
383222 ATACTTTTACATCGAAGGTATACCCTTAGGGTCATTTTGGTAATTTTCTAGAACTAACTCCTAGG
1 ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTTTTAGAACTAACTCCTAGG
* * * * * * *
383287 TTGTAACCGGGTTTGCTTTTGTGATGATGG-TGGACATTTAGGATAGGTTTATCCCTTTTATGAG
66 TCGTCACCGAGTTCGCTTTTATGATGAAGGTTGG-CATTTAGGATAGGTTCATCCCTTTTATGAG
* * *
383351 TATTTTTAAGTCCTTTAGGGTTGCTGTG
130 TCTTTTTAAGTCCTTTAGGGTTGCCGAG
* *
383379 ATACTTTTACATCGAAGGTATACCCCTAGGGGTATTTTGGTAATTTTTTAGAACCAACTCCTAGG
1 ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTTTTAGAACTAACTCCTAGG
* * ** *
383444 TCTTCACC-AGGTCTGCTTTTATG-CCAAAGTTGGGCATTTAGGATAGGTTCATCCCTTTTAT-A
66 TCGTCACCGAGTTC-GCTTTTATGATGAAGGTT-GGCATTTAGGATAGGTTCATCCCTTTTATGA
*
383506 GTCTTTTTTAAGTCCTTTAGCGGTAT--CAAG
129 GTC-TTTTTAAGTCCTTTAG-GGT-TGCCGAG
* ** *
383536 -TACTTTTACGTCGAAGGTA-ACCCCTAAAGGCATTTTTGTAATTTT
1 ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTT
383581 CTTTTAACTT
Statistics
Matches: 821, Mismatches: 132, Indels: 61
0.81 0.13 0.06
Matches are distributed among these distances:
153 2 0.00
154 22 0.03
155 241 0.29
156 126 0.15
157 320 0.39
158 109 0.13
159 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.40
Consensus pattern (157 bp):
ATACTTTTACATCGAAGGTATACCCCTAGGGGCATTTTGGTAATTTTTTAGAACTAACTCCTAGG
TCGTCACCGAGTTCGCTTTTATGATGAAGGTTGGCATTTAGGATAGGTTCATCCCTTTTATGAGT
CTTTTTAAGTCCTTTAGGGTTGCCGAG
Found at i:384510 original size:20 final size:20
Alignment explanation
Indices: 384485--384538 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
384475 CTACCACTGT
* *
384485 TTGTATTGATACATGGT-ACA
1 TTGTATAGATACATGATGA-A
384505 TTGTATAGATACATGATGAA
1 TTGTATAGATACATGATGAA
*
384525 TTGTATCGATACAT
1 TTGTATAGATACAT
384539 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (20 bp):
TTGTATAGATACATGATGAA
Found at i:389686 original size:37 final size:37
Alignment explanation
Indices: 389636--389709 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
389626 ATCGACACTA
389636 AACTCTATAGGTCTATGATAGGTTCTTTGTTATATCT
1 AACTCTATAGGTCTATGATAGGTTCTTTGTTATATCT
389673 AACTCTATAGGTCTATGATAGGTTCTTTGTTATATCT
1 AACTCTATAGGTCTATGATAGGTTCTTTGTTATATCT
389710 TACTGTAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (37 bp):
AACTCTATAGGTCTATGATAGGTTCTTTGTTATATCT
Found at i:393413 original size:20 final size:20
Alignment explanation
Indices: 393360--393413 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
393350 CTACCACTGT
* *
393360 TTGTATCGATACAAGGTACA
1 TTGTATCGATACATGATACA
393380 TTGTATCGATACATGATGA-A
1 TTGTATCGATACATGAT-ACA
393400 TTGTATCGATACAT
1 TTGTATCGATACAT
393414 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATACA
Found at i:400974 original size:28 final size:28
Alignment explanation
Indices: 400927--401004 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
400917 CTCTATTCCC
**
400927 TTCTTGTTGATTTCT-CTTCCTTTGTTAT
1 TTCTTGTTGATTT-TGCTTCCTTTGAGAT
* *
400955 TTCTTGTTGATTTTGTTTCCCTTGAGAT
1 TTCTTGTTGATTTTGCTTCCTTTGAGAT
*
400983 TTCTTGTTAATTTTGCTTCCTT
1 TTCTTGTTGATTTTGCTTCCTT
401005 GATCTTTCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.09, C:0.17, G:0.13, T:0.62
Consensus pattern (28 bp):
TTCTTGTTGATTTTGCTTCCTTTGAGAT
Found at i:413078 original size:20 final size:19
Alignment explanation
Indices: 412990--413080 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 19
412980 ACCCTAGAAA
* *
412990 GTATCGATACATATCCAAAT
1 GTATCGATACATA-CTAATT
413010 GTATCGATACATTATGCT--TT
1 GTATCGATACA-TA--CTAATT
* *
413030 GTATCGATACATGCTCATT
1 GTATCGATACATACTAATT
* *
413049 TTATCTATACATACTTAATT
1 GTATCGATACATAC-TAATT
413069 GTATCGATACAT
1 GTATCGATACAT
413081 GAAATTGGCA
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.04
19 14 0.25
20 37 0.66
21 2 0.04
22 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.40
Consensus pattern (19 bp):
GTATCGATACATACTAATT
Found at i:421406 original size:19 final size:20
Alignment explanation
Indices: 421382--421434 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
421372 ACATTATGCT
* *
421382 TTGTATCGATACATGC-TCG
1 TTGTATCGATACATACTTAG
*
421401 TTGTATCGCTACATACTTAG
1 TTGTATCGATACATACTTAG
*
421421 TTGTATTGATACAT
1 TTGTATCGATACAT
421435 TAAATTGGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATACTTAG
Found at i:425013 original size:181 final size:182
Alignment explanation
Indices: 424675--425021 Score: 507
Period size: 181 Copynumber: 1.9 Consensus size: 182
424665 TATTTTGAAA
* * *
424675 AATACTAAACAAATTTTCTTGCCTCAAAAATAGTATTTCAAAATGAATATTCATACTTAAAATAT
1 AATACTAAACAAATTTTCATGCATCAAAAATAGTATTTCAAAATGAATAATCATACTTAAAATAT
*
424740 TTTTTAAACAAGAATAAATGTTTTTCAAGCCAAGAAAAACCCCTTTACAAGTTCAAGTTTAAATG
66 TTTTGAAACAAGAATAAATGTTTTTCAAGCCAAGAAAAACCCCTTTACAAGTTCAAGTTTAAATG
* * *
424805 TATCGATGCATTCATGTAATGTATCAATACATTTGTTGGTAGGTTTCAAATG
131 TATCGATACATTAATGTAATATATCAATACATTTGTTGGTAGGTTTCAAATG
* * * **
424857 AATATTAAACAAATTTTCATGCATTAGAAATAGTATTTCAAAATGAATAATCATACTTGGAATAT
1 AATACTAAACAAATTTTCATGCATCAAAAATAGTATTTCAAAATGAATAATCATACTTAAAATAT
* * * * * *
424922 TTTTGAGACAAGATTAAA-GTTTTTCAAGCCGAGAAAAACCCCTTTACAAGTTTAGGTTTAAATT
66 TTTTGAAACAAGAATAAATGTTTTTCAAGCCAAGAAAAACCCCTTTACAAGTTCAAGTTTAAATG
**
424986 TATTTATACATTAATGTAATATATCAATACATTTGT
131 TATCGATACATTAATGTAATATATCAATACATTTGT
425022 CGGCAATACC
Statistics
Matches: 145, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
181 73 0.50
182 72 0.50
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (182 bp):
AATACTAAACAAATTTTCATGCATCAAAAATAGTATTTCAAAATGAATAATCATACTTAAAATAT
TTTTGAAACAAGAATAAATGTTTTTCAAGCCAAGAAAAACCCCTTTACAAGTTCAAGTTTAAATG
TATCGATACATTAATGTAATATATCAATACATTTGTTGGTAGGTTTCAAATG
Found at i:427269 original size:26 final size:26
Alignment explanation
Indices: 427230--427284 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
427220 GGACAAGCCA
* *
427230 TATATAGTTGGAAAGCTTATTCAATC
1 TATATAGTTAGAAACCTTATTCAATC
* *
427256 TATATGGTTAGAAACCTTATTCAGTC
1 TATATAGTTAGAAACCTTATTCAATC
427282 TAT
1 TAT
427285 TTTAATCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (26 bp):
TATATAGTTAGAAACCTTATTCAATC
Found at i:431378 original size:11 final size:11
Alignment explanation
Indices: 431353--431392 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
431343 TCATCCAAAG
*
431353 AAAATAAAGAA
1 AAAAAAAAGAA
431364 AAAAAAGAAGGAA
1 AAAAAA-AA-GAA
431377 AAAAAAAAGAA
1 AAAAAAAAGAA
431388 AAAAA
1 AAAAA
431393 GATAGTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 13 0.50
12 4 0.15
13 9 0.35
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:431482 original size:28 final size:28
Alignment explanation
Indices: 431448--431519 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
431438 TTCTTCTTTA
* *
431448 TTGATTTCTTTTCCTTTGAAATTTCTTG
1 TTGATTTCATTTCCTTTCAAATTTCTTG
*
431476 CTT-ATTTCATTTCCTTTCATATTTCTTG
1 -TTGATTTCATTTCCTTTCAAATTTCTTG
*
431504 TTGATTTCACTTCCTT
1 TTGATTTCATTTCCTT
431520 GATCTTTCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.05
28 34 0.89
29 2 0.05
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (28 bp):
TTGATTTCATTTCCTTTCAAATTTCTTG
Found at i:432286 original size:11 final size:11
Alignment explanation
Indices: 432270--432294 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
432260 TGAGTTCACA
432270 AATTTTTGATT
1 AATTTTTGATT
432281 AATTTTTGATT
1 AATTTTTGATT
432292 AAT
1 AAT
432295 GAGAAAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
AATTTTTGATT
Found at i:435370 original size:58 final size:58
Alignment explanation
Indices: 435268--435384 Score: 144
Period size: 58 Copynumber: 2.0 Consensus size: 58
435258 GATGATTAAA
*** * *
435268 GCTTGGAGCCCAATTTGTATGTCCAAGAACAGAGAAGCCTAATTTGCATGTATTCATG
1 GCTTGGAGCCCAATTCACATGTCCAAGAACAGAGAAGCCCAATTTGCATATATTCATG
** * * *
435326 GCTTGGAGCCCAATTCACATGTCCAAGAAGTGTGGAGCCCAATTTGCATATATTTATG
1 GCTTGGAGCCCAATTCACATGTCCAAGAACAGAGAAGCCCAATTTGCATATATTCATG
435384 G
1 G
435385 GCCTATTGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 49 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (58 bp):
GCTTGGAGCCCAATTCACATGTCCAAGAACAGAGAAGCCCAATTTGCATATATTCATG
Found at i:438725 original size:8 final size:8
Alignment explanation
Indices: 438708--438776 Score: 54
Period size: 8 Copynumber: 8.8 Consensus size: 8
438698 CAAATGCTAG
438708 TTTTTT-T
1 TTTTTTAT
438715 TTTTTTA-
1 TTTTTTAT
438722 TTTTTTAT
1 TTTTTTAT
438730 TTTTTGTAT
1 TTTTT-TAT
438739 TCTTTTT-T
1 T-TTTTTAT
* * *
438747 CTTCTTCT
1 TTTTTTAT
*
438755 TTTTTTCT
1 TTTTTTAT
*
438763 TTTTTTCT
1 TTTTTTAT
438771 TTTTTT
1 TTTTTT
438777 GAAGAAACTA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
7 17 0.32
8 27 0.51
9 5 0.09
10 4 0.08
ACGTcount: A:0.04, C:0.09, G:0.01, T:0.86
Consensus pattern (8 bp):
TTTTTTAT
Found at i:449831 original size:40 final size:40
Alignment explanation
Indices: 449787--449914 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
449777 AAATGAATGC
*
449787 AATGCATGAAATGTTTCTTAAGTTTCACATGAAGGTATGA
1 AATGCATGAAATGTTTCTTAAGTTTCACATGAAAGTATGA
* ** ** * * *
449827 AATGCATG-AAGGCAT-GAAAGTAGT-ACAATGAAATGAATGC
1 AATGCATGAAATGTTTCTTAAGT-TTCAC-ATGAAA-GTATGA
*
449867 AACGCATGAAATGTTTCTTAAGTTTCACATGAAAGTATGA
1 AATGCATGAAATGTTTCTTAAGTTTCACATGAAAGTATGA
449907 AATGCATG
1 AATGCATG
449915 TATGCATGAA
Statistics
Matches: 63, Mismatches: 19, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
38 6 0.10
39 10 0.16
40 30 0.48
41 11 0.17
42 6 0.10
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (40 bp):
AATGCATGAAATGTTTCTTAAGTTTCACATGAAAGTATGA
Found at i:449868 original size:80 final size:80
Alignment explanation
Indices: 449758--449924 Score: 280
Period size: 80 Copynumber: 2.1 Consensus size: 80
449748 TGGAATGCAT
* *
449758 GCATGAAAGCAATACAATGAAATGAATGCAATGCATGAAATGTTTCTTAAGTTTCACATGAAGGT
1 GCATGAAAGCAATACAATGAAATGAATGCAACGCATGAAATGTTTCTTAAGTTTCACATGAAAGT
449823 ATGAAATGCATGAAG
66 ATGAAATGCATGAAG
* *
449838 GCATGAAAGTAGTACAATGAAATGAATGCAACGCATGAAATGTTTCTTAAGTTTCACATGAAAGT
1 GCATGAAAGCAATACAATGAAATGAATGCAACGCATGAAATGTTTCTTAAGTTTCACATGAAAGT
* *
449903 ATGAAATGCATGTAT
66 ATGAAATGCATGAAG
449918 GCATGAA
1 GCATGAA
449925 GGCACGAAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.27
Consensus pattern (80 bp):
GCATGAAAGCAATACAATGAAATGAATGCAACGCATGAAATGTTTCTTAAGTTTCACATGAAAGT
ATGAAATGCATGAAG
Found at i:450012 original size:18 final size:18
Alignment explanation
Indices: 449978--450015 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
449968 TTTTTTATTT
449978 TTGATTTTTTGATTTTTTA
1 TTGATTTTTTGA-TTTTTA
449997 TTGATTTTTTTG-TTTTTA
1 TTGA-TTTTTTGATTTTTA
450015 T
1 T
450016 ATCGAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.13, C:0.00, G:0.11, T:0.76
Consensus pattern (18 bp):
TTGATTTTTTGATTTTTA
Found at i:451027 original size:14 final size:14
Alignment explanation
Indices: 451008--451037 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
450998 ATTTTTAGAA
451008 TGTATCGATACATT
1 TGTATCGATACATT
451022 TGTATCGATACATT
1 TGTATCGATACATT
451036 TG
1 TG
451038 GAAAGCCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (14 bp):
TGTATCGATACATT
Found at i:456679 original size:19 final size:19
Alignment explanation
Indices: 456655--456691 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
456645 AGATTAGAAT
456655 GAAACTAGGTGATGAGTGG
1 GAAACTAGGTGATGAGTGG
456674 GAAACTAGGTGATGAGTG
1 GAAACTAGGTGATGAGTG
456692 AAAAACTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.22
Consensus pattern (19 bp):
GAAACTAGGTGATGAGTGG
Found at i:456697 original size:19 final size:19
Alignment explanation
Indices: 456656--456699 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
456646 GATTAGAATG
**
456656 AAACTAGGTGATGAGTGGG
1 AAACTAGGTGATGAGTGAA
456675 AAACTAGGTGATGAGTGAA
1 AAACTAGGTGATGAGTGAA
456694 AAACTA
1 AAACTA
456700 CCTTTAAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.32, T:0.20
Consensus pattern (19 bp):
AAACTAGGTGATGAGTGAA
Found at i:461943 original size:20 final size:20
Alignment explanation
Indices: 461914--461967 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
461904 TTTTACCTAG
*
461914 ATGTAGCGATACATTATTCA
1 ATGTATCGATACATTATTCA
*
461934 ATGTATCGATACATTATTTA
1 ATGTATCGATACATTATTCA
461954 ATGTATCGATACAT
1 ATGTATCGATACAT
461968 GCAGACAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:462766 original size:9 final size:9
Alignment explanation
Indices: 462752--462782 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
462742 TTTTAGGATT
462752 ATTTTGATG
1 ATTTTGATG
462761 ATTTTGATG
1 ATTTTGATG
462770 ATTTTGATG
1 ATTTTGATG
462779 ATTT
1 ATTT
462783 GAAGTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
ATTTTGATG
Found at i:468897 original size:6 final size:6
Alignment explanation
Indices: 468865--468913 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
468855 GTCAAAAGTA
* *
468865 AAAATAC AAAAA- AAAACC AATAAC AAAAAC AAAAAC AAAAA- AAAAAC
1 AAAA-AC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
468912 AA
1 AA
468914 GCAAAAAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 9 0.25
6 23 0.64
7 4 0.11
ACGTcount: A:0.82, C:0.14, G:0.00, T:0.04
Consensus pattern (6 bp):
AAAAAC
Found at i:470403 original size:32 final size:32
Alignment explanation
Indices: 470195--470766 Score: 530
Period size: 32 Copynumber: 18.3 Consensus size: 32
470185 AATTCTTCAA
* * *
470195 ATCTCTCTTCTCAAAGTCCACGACTTAGTGGC
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
*
470227 ATCTCTTTTGT--AAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
* * * * *
470257 ATATCTTTT-T-TAAGTCCACGAGTCAATTGC
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
* *
470287 A--TCTTTTCTTCAAAGTCCACGACTTAGTGGC
1 ATCTCTTTTC-TCCAAGTCCACGACTCAGTGGC
*
470318 AATCTC---T-TCAAAGTCCACGACTCAGTGGC
1 -ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
470347 AATCTC--TTC-CCAAAGTCCACGACTCAGTGGC
1 -ATCTCTTTTCTCC-AAGTCCACGACTCAGTGGC
* *
470378 ATCTCTTTTCTCCAAGTCCATGACTCAATGGC
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
* *
470410 ATCTCTTTTCTCCAAGTCCATGACTCAATGGC
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
* *
470442 A--TCTTTTCTTCAAAGTCCACAACTCAGTGGC
1 ATCTCTTTTC-TCCAAGTCCACGACTCAGTGGC
* * *
470473 ATCCCTTTTCT--AAATCCACGACTTAGTGGC
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
470503 ATC-CTTTTCTTCCAAGTCCACGACTCAGTGGC
1 ATCTCTTTTC-TCCAAGTCCACGACTCAGTGGC
*** *
470535 AT-AAATTTCTTCCAAGTCCATGACTCAGTGGC
1 ATCTCTTTTC-TCCAAGTCCACGACTCAGTGGC
* *
470567 ATCTC-TTTC-CAAAGTCCACGACTTAGTGGC
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
*
470597 A--TCTTTTCTTCTAAGTCCACGACTCAGTGGC
1 ATCTCTTTTC-TCCAAGTCCACGACTCAGTGGC
* *
470628 ATCTCTTTTCTCCAAGTCCACGACTCAATGGT
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
470660 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
1 ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
* * *
470692 A--TCTTTTCTTCAAAGTCCACAACTCCGTGGC
1 ATCTCTTTTC-TCCAAGTCCACGACTCAGTGGC
**
470723 ATCT-TTTTCCTTTTAAGTCCACGACTCAGTGGC
1 ATCTCTTTT-C-TCCAAGTCCACGACTCAGTGGC
*
470756 AATCGCTTTTC
1 -ATCTCTTTTC
470767 AAAGTCCACA
Statistics
Matches: 459, Mismatches: 49, Indels: 62
0.81 0.09 0.11
Matches are distributed among these distances:
28 8 0.02
29 38 0.08
30 104 0.23
31 94 0.20
32 169 0.37
33 36 0.08
34 6 0.01
35 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (32 bp):
ATCTCTTTTCTCCAAGTCCACGACTCAGTGGC
Found at i:470504 original size:125 final size:125
Alignment explanation
Indices: 470205--470787 Score: 647
Period size: 125 Copynumber: 4.7 Consensus size: 125
470195 ATCTCTCTTC
* * * * *
470205 TCAAAGTCCACGACTTAGTGGCATCTCTTTTGTAAGTCCACGACTCAGTGGCATATCTTTT-T-T
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAATCCACGACTCAGTGGCATCTCTTTTCTCC
* * * *
470268 AAGTCCACGAGTCAATTGCA-TCTTTTCTTCAAAGTCCACGACTTAGTGGCAATC---TCT
66 AAGTCCACGACTCAATGGCATTCTTTTCTTCCAAGTCCACGACTCAGTGGC-ATCTTTTCT
* *
470325 TCAAAGTCCACGACTCAGTGGCAATCTC-TTCCCAAAGTCCACGACTCAGTGGCATCTCTTTTCT
1 TCAAAGTCCACGACTCAGTGGC-ATCTCTTTTCTAAA-TCCACGACTCAGTGGCATCTCTTTTCT
* * *
470389 CCAAGTCCATGACTCAATGGCATCTCTTTTC-TCCAAGTCCATGACTCAATGGCATCTTTTCT
64 CCAAGTCCACGACTCAATGGCAT-TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCT
* * *
470451 TCAAAGTCCACAACTCAGTGGCATCCCTTTTCTAAATCCACGACTTAGTGGCATC-CTTTTCTTC
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAATCCACGACTCAGTGGCATCTCTTTTC-TC
* *** *
470515 CAAGTCCACGACTCAGTGGCATAAATTTCTTCCAAGTCCATGACTCAGTGGCATCTCTTTC-
65 CAAGTCCACGACTCAATGGCATTCTTTTCTTCCAAGTCCACGACTCAGTGGCATCT-TTTCT
* * *
470576 -CAAAGTCCACGACTTAGTGGCATCTTTTCTTCTAAGTCCACGACTCAGTGGCATCTCTTTTCTC
1 TCAAAGTCCACGACTCAGTGGCATCTCTT-TTCTAAATCCACGACTCAGTGGCATCTCTTTTCTC
*
470640 CAAGTCCACGACTCAATGGTATCTCTTTTC-TCCAAGTCCACGACTCAGTGGCATCTTTTCT
65 CAAGTCCACGACTCAATGGCAT-TCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCT
* * * *
470701 TCAAAGTCCACAACTCCGTGGCATCT-TTTTCCTTTTAAGTCCACGACTCAGTGGCAATCGC-TT
1 TCAAAGTCCACGACTCAGTGGCATCTCTTTT-C---TAAATCCACGACTCAGTGGC-ATCTCTTT
* * *
470764 T-TCAAAGTCCACAACTCTATGGCA
61 TCTCCAAGTCCACGACTCAATGGCA
470788 CCCTTTTAAG
Statistics
Matches: 395, Mismatches: 45, Indels: 39
0.82 0.09 0.08
Matches are distributed among these distances:
120 25 0.06
121 29 0.07
122 1 0.00
123 20 0.05
124 58 0.15
125 150 0.38
126 66 0.17
127 19 0.05
128 23 0.06
129 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (125 bp):
TCAAAGTCCACGACTCAGTGGCATCTCTTTTCTAAATCCACGACTCAGTGGCATCTCTTTTCTCC
AAGTCCACGACTCAATGGCATTCTTTTCTTCCAAGTCCACGACTCAGTGGCATCTTTTCT
Found at i:470642 original size:250 final size:246
Alignment explanation
Indices: 470205--470787 Score: 744
Period size: 250 Copynumber: 2.3 Consensus size: 246
470195 ATCTCTCTTC
* * * * * *
470205 TCAAAGTCCACGACTTAGTGGCATCTCTTTTGTAAGTCCACGACTCAGTGGCATATCTTTTTTAA
1 TCAAAGTCCACAACTCAGTGGCATCCCTTTTCTAAATCCACGACTCAGTGGCATACCTTTTTTAA
* * ** *
470270 GTCCACGAGTCAATTGCATCTTTTCTTCAAAGTCCACGACTTAGTGGCAATCTCTTCAAAGTCCA
66 GTCCACGACTCAATGGCATAATTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCAAAGTCCA
*
470335 CGACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTCTTTTCTCCAAGTCCATG
131 CGACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTCTTTTCTCCAAGTCCACG
*
470400 ACTCAATGGCATCTCTTTTCTCCAAGTCCATGACTCAATGGCATCTTTTCT
196 ACTCAATGGCATCTCTTTTCTCCAAGTCCACGACTCAATGGCATCTTTTCT
*
470451 TCAAAGTCCACAACTCAGTGGCATCCCTTTTCTAAATCCACGACTTAGTGGCAT-CCTTTTCTTC
1 TCAAAGTCCACAACTCAGTGGCATCCCTTTTCTAAATCCACGACTCAGTGGCATACCTTTT-TT-
* * *
470515 CAAGTCCACGACTCAGTGGCATAAATTTCTTCCAAGTCCATGACTCAGTGGC-ATCTCTTTCCAA
64 -AAGTCCACGACTCAATGGCAT-AATTTCTTCAAAGTCCACGACTCAGTGGCAATCTC-TT-CAA
* * * *
470579 AGTCCACGACTTAGTGGC-ATCTTTTCTTCTAAGTCCACGACTCAGTGGCATCTCTTTTCTCCAA
125 AGTCCACGACTCAGTGGCAATCTCTTC-CCAAAGTCCACGACTCAGTGGCATCTCTTTTCTCCAA
* *
470643 GTCCACGACTCAATGGTATCTCTTTTCTCCAAGTCCACGACTCAGTGGCATCTTTTCT
189 GTCCACGACTCAATGGCATCTCTTTTCTCCAAGTCCACGACTCAATGGCATCTTTTCT
* * *
470701 TCAAAGTCCACAACTCCGTGGCAT-CTTTTTCCTTTTAAGTCCACGACTCAGTGGCA-ATCGCTT
1 TCAAAGTCCACAACTCAGTGGCATCCCTTTT-C---TAAATCCACGACTCAGTGGCATA-C-CTT
** * *
470764 TTCAAAGTCCACAACTCTATGGCA
60 TTTTAAGTCCACGACTCAATGGCA
470788 CCCTTTTAAG
Statistics
Matches: 291, Mismatches: 32, Indels: 22
0.84 0.09 0.06
Matches are distributed among these distances:
245 5 0.02
246 50 0.17
248 23 0.08
249 38 0.13
250 133 0.46
252 17 0.06
253 19 0.07
254 1 0.00
255 5 0.02
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (246 bp):
TCAAAGTCCACAACTCAGTGGCATCCCTTTTCTAAATCCACGACTCAGTGGCATACCTTTTTTAA
GTCCACGACTCAATGGCATAATTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCAAAGTCCA
CGACTCAGTGGCAATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTCTTTTCTCCAAGTCCACG
ACTCAATGGCATCTCTTTTCTCCAAGTCCACGACTCAATGGCATCTTTTCT
Found at i:470838 original size:27 final size:27
Alignment explanation
Indices: 470731--471213 Score: 183
Period size: 27 Copynumber: 16.0 Consensus size: 27
470721 GCATCTTTTT
* * *
470731 CCTTTTAAGTCCACGACTCAGTGGCAATC
1 CCTTTTAAGCCCACAACTCTGTGGC-A-C
* * *
470760 GCTTTTCAAAGTCCACAACTCTATGGCAC
1 CCTTTT--AAGCCCACAACTCTGTGGCAC
*
470789 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCTGTGGCAC
* *
470816 CCTTTTAAGCCCACAAGTTTGTGGCACTC
1 CCTTTTAAGCCCACAACTCTGTGGCA--C
* *
470845 TTTTTCCTTTTAAACCCACAACTATGTGGCATTC
1 -----CCTTTTAAGCCCACAACTCTGTGGCA--C
* *
470879 TTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 -----CCTTTTAAGCCCACAACTCTGTGGCAC
470911 CCTTTTAAGCCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCTGTGGCAC
* * *
470938 TCTTTTTCCTTTAGAGCCGACAACTCCGTGGCACTC
1 -C-----CTTTTA-AGCCCACAACTCTGTGGCA--C
*
470974 TTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 -----CCTTTTAAGCCCACAACTCTGTGGCAC
471006 CCTTTTAAGCCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCTGTGGCAC
* * *
471033 TTTTTTTCTTTTTAAGCCTACAACTCCGTGGCATTC
1 -------CCTTTTAAGCCCACAACTCTGTGGCA--C
* * * *
471069 TTTTTCCTTTTATGTCCACAACTCCGTGGTAC
1 -----CCTTTTAAGCCCACAACTCTGTGGCAC
* * *
471101 CCTTTTAAGTCCACAACTCCGAGGCACC
1 CCTTTTAAGCCCACAACTCTGTGGCA-C
* * * *
471129 TTGTTCCTTTTAAGTCCATAACTCCGTGGCAT
1 -----CCTTTTAAGCCCACAACTCTGTGGCAC
* *
471161 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCTGTGGCAC
* *
471188 CCTTTTAAGTCCACAACTCCGTGGCA
1 CCTTTTAAGCCCACAACTCTGTGGCA
471214 TCTTTCTCCT
Statistics
Matches: 374, Mismatches: 43, Indels: 76
0.76 0.09 0.15
Matches are distributed among these distances:
27 168 0.45
28 2 0.01
29 12 0.03
30 1 0.00
31 16 0.04
32 3 0.01
33 29 0.08
34 134 0.36
35 5 0.01
36 2 0.01
40 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCTGTGGCAC
Found at i:470854 original size:34 final size:34
Alignment explanation
Indices: 470816--471106 Score: 288
Period size: 34 Copynumber: 9.0 Consensus size: 34
470806 TCTGTGGCAC
* *
470816 CCTTTTAAGCCCACAAGTTTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* * *
470850 CCTTTTAAACCCACAACTATGTGGCATTCTTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* *
470884 CCTTTTAAGTCCACAACTCCGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
470911 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* *
470945 CC-TTTAGAGCCGACAACTCCGTGGCACTCTTTTT
1 CCTTTTA-AGCCCACAACTCTGTGGCACTCTTTTT
*
470979 CCTTTTAAGTCCACAACTCTGTGGCA--C-----
1 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
*
471006 CCTTTTAAGCCCACAACTCTGTGGCACTTTTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* * * *
471040 CTTTTTAAGCCTACAACTCCGTGGCATTCTTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
* * * * *
471074 CCTTTTATGTCCACAACTCCGTGGTACCCTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTT
471107 AAGTCCACAA
Statistics
Matches: 212, Mismatches: 29, Indels: 32
0.78 0.11 0.12
Matches are distributed among these distances:
27 49 0.23
29 1 0.00
32 2 0.01
33 4 0.02
34 152 0.72
35 4 0.02
ACGTcount: A:0.19, C:0.31, G:0.13, T:0.37
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTT
Found at i:470864 original size:61 final size:62
Alignment explanation
Indices: 470789--471246 Score: 264
Period size: 61 Copynumber: 7.4 Consensus size: 62
470779 TCTATGGCAC
* * **
470789 CCTTTTAAGTCCACAACTCTGTGGCAC-CCTTTTAAGCCCACAAGTTTGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
470850 CCTTTTAAACCCACAACTATGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA--C--
1 CCTTTTAAGCCCACAACTCTGTGGCA--C----TCCTTTTAAGCCCACAACTCCGTGGCACTCTT
470911 ---
60 TTT
* *
470911 CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTTAGAGCCGACAACTCCGTGGCACTCTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTC-----CTTTTA-AGCCCACAACTCCGTGGCACTCTT
470976 TTT
60 TTT
* * *
470979 CCTTTTAAGTCCACAACTCTGTGGCAC-CCTTTTAAGCCCACAACTCTGTGGCACTTTTTTT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * * * *
471040 CTTTTTAAGCCTACAACTCCGTGGCATTCTTTTTCCTTTTATGTCCACAACTCCGTGGTA--C--
1 CCTTTTAAGCCCACAACTCTGTGGCA--C----TCCTTTTAAGCCCACAACTCCGTGGCACTCTT
471101 ---
60 TTT
* * * * *
471101 CCTTTTAAGTCCACAACTCCGAGGCACCTTGTTCCTTTTAAGTCCATAACTCCGTGGCA------
1 CCTTTTAAGCCCACAACTCTGTGGCA-C----TCCTTTTAAGCCCACAACTCCGTGGCACTCTTT
471160 -T
61 TT
* * * *
471161 CCTTTTAAGTCCACAACTCCGTGGCAC-CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTCT
1 CCTTTTAAGCCCACAACTCTGTGGCACTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
471221 CCTTTTAAGCCCGCAAGTCAGTGGCA
1 CCTTTTAAGCCCACAACTCTGTGGCA
471247 ACCTTCAAAA
Statistics
Matches: 322, Mismatches: 41, Indels: 69
0.75 0.09 0.16
Matches are distributed among these distances:
54 25 0.08
55 2 0.01
59 2 0.01
60 81 0.25
61 132 0.41
62 5 0.02
63 3 0.01
66 1 0.00
67 1 0.00
68 70 0.22
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.34
Consensus pattern (62 bp):
CCTTTTAAGCCCACAACTCTGTGGCACTCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:470901 original size:95 final size:95
Alignment explanation
Indices: 470789--471246 Score: 603
Period size: 95 Copynumber: 4.9 Consensus size: 95
470779 TCTATGGCAC
* * *
470789 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAAGTTTGTGGCACTCTTTTTCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTT
* **
470854 TTAAACCCACAACTATGTGGCATTCTTTTT
66 TTAAGCCCACAACTCCGTGGCATTCTTTTT
470884 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCC-T
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTT
* *
470948 TTAGAGCCGACAACTCCGTGGCACTCTTTTT
66 TTA-AGCCCACAACTCCGTGGCATTCTTTTT
* * *
470979 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTTTTTTTCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTT
*
471044 TTAAGCCTACAACTCCGTGGCATTCTTTTT
66 TTAAGCCCACAACTCCGTGGCATTCTTTTT
* * * * * *
471074 CCTTTTATGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCCGAGGCAC-CTTGTTCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTT
* *
471138 TTAAGTCCATAACTCCGTGGCA-------T
66 TTAAGCCCACAACTCCGTGGCATTCTTTTT
* * *
471161 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-TCTTTCTCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTT
* * *
471225 TTAAGCCCGCAAGTCAGTGGCA
66 TTAAGCCCACAACTCCGTGGCA
471247 ACCTTCAAAA
Statistics
Matches: 325, Mismatches: 35, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
87 76 0.23
94 30 0.09
95 215 0.66
96 4 0.01
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.34
Consensus pattern (95 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTT
TTAAGCCCACAACTCCGTGGCATTCTTTTT
Found at i:471152 original size:60 final size:60
Alignment explanation
Indices: 471042--471213 Score: 214
Period size: 60 Copynumber: 3.0 Consensus size: 60
471032 CTTTTTTTCT
* * * *
471042 TTTTAAG-CCTACAACTCCGTGGCATTCTTTTTCCTTTTATGTCCACAACTCCGTGGTACCC
1 TTTTAAGTCC-ACAACTCCGTGGCA-CCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
471103 TTTTAAGTCCACAACTCCGAGGCACCTTGTTCCTTTTAAGTCCATAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCC
471163 TTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCCGTGGCA
1 TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA
471214 TCTTTCTCCT
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
54 25 0.25
59 1 0.01
60 53 0.52
61 20 0.20
62 2 0.02
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.33
Consensus pattern (60 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:471245 original size:60 final size:54
Alignment explanation
Indices: 471074--471251 Score: 131
Period size: 60 Copynumber: 3.1 Consensus size: 54
471064 CATTCTTTTT
* * * * * * *
471074 CCTTTTATGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCCGAGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCAGTGGCA------A
* * * *
471134 CCTTTTAAGTCCATAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCAGTGGCAA
* *
471188 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCTTTTAAGCCCGCAAGTCAGTGGCAA
1 CCTTTTAAGTCCACAACTCCGTGGCA------TCCTTTTAAGCCCACAACTCAGTGGCAA
471248 CCTT
1 CCTT
471252 CAAAAGCACA
Statistics
Matches: 100, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
54 25 0.25
60 75 0.75
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (54 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGCCCACAACTCAGTGGCAA
Found at i:471245 original size:87 final size:87
Alignment explanation
Indices: 471073--471251 Score: 252
Period size: 87 Copynumber: 2.1 Consensus size: 87
471063 GCATTCTTTT
* *
471073 TCCTTTTATGTCCACAACTCCGTGGTACCCTTTTAAGTCCACAACTCCGAGGCACCTTGTTCCTT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGAGGCACCTTGTTCCTT
* * *
471138 TTAAGTCCATAACTCCGTGGCA
66 TTAAGCCCACAACTCAGTGGCA
* *
471160 TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTT-TCTCCT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGAGGCACCTTGT-TCCT
* *
471224 TTTAAGCCCGCAAGTCAGTGGCA
65 TTTAAGCCCACAACTCAGTGGCA
*
471247 ACCTT
1 TCCTT
471252 CAAAAGCACA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 1 0.01
87 80 0.99
ACGTcount: A:0.21, C:0.33, G:0.15, T:0.31
Consensus pattern (87 bp):
TCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGAGGCACCTTGTTCCTT
TTAAGCCCACAACTCAGTGGCA
Found at i:471279 original size:28 final size:29
Alignment explanation
Indices: 471244--471301 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
471234 CAAGTCAGTG
*
471244 GCAACC-TTCAAAAG-CACATAAGTTGGT
1 GCAACCTTTCAAAAGCCACACAAGTTGGT
471271 GCAAGCCTTTCAAAAGCCCACACAAGTTGGT
1 GCAA-CCTTTCAAAAG-CCACACAAGTTGGT
471302 AACATCTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 4 0.15
28 2 0.08
29 8 0.31
31 12 0.46
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (29 bp):
GCAACCTTTCAAAAGCCACACAAGTTGGT
Found at i:471476 original size:87 final size:87
Alignment explanation
Indices: 471319--472204 Score: 1144
Period size: 87 Copynumber: 9.9 Consensus size: 87
471309 TCTTCTAAGT
* * * ** *
471319 CCAATGTCGTTGGCCTTGAATCGGCGCATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCT
* *
471384 TGAATCAGTACATTGGGACAAGC
65 TGAATCAGCACATTGGCACAAGC
*
471407 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT-TTCTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT-TAAGACCAATGTCGCTGGCCT
* *
471471 TGAATCAACACATTAGCACAAGC
65 TGAATCAGCACATTGGCACAAGC
** * *
471494 CCAATATCGCAAGCCTTAAATCAACATATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCT
* *
471559 TGAATCAGGACATTGGCATAAGC
65 TGAATCAGCACATTGGCACAAGC
* * *
471582 CCAATATCGCTGGCCTTGAATTAACATATTGGCACCTTATCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
471647 GAATCAGCACATTGGCACAAGA
66 GAATCAGCACATTGGCACAAGC
* *
471669 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
471734 GAATCAGCACGTTGGCATAAGC
66 GAATCAGCACATTGGCACAAGC
* *
471756 CCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTGTCTTTAAGACCAATGTCACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACCAATGTCGCTGGCCT
*
471821 TGAATCAGCACATTGCCACAAGC
65 TGAATCAGCACATTGGCACAAGC
* *
471844 CCAATATTGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
*
471909 GAATCAGCACATTGGCAAAAGC
66 GAATCAGCACATTGGCACAAGC
* * * *
471931 CAAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTCTTTAAGACCAATGTCTCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
471996 CAATCAGCACATTGGCACAAGT
66 GAATCAGCACATTGGCACAAGC
* * * * *
472018 CCAGTATGGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATGTCACTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGACCAATGTCGCTGG
* **
472083 CCTTGAATCAGTACATTGGCAACTTTATTTTTAAAT
62 CCTTGAATCAGCACATTGGC-AC---------AAGC
* *
472119 CCAATATTGTTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGACCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAGACCAATGTCGCTGG
472184 CCTTGAATCAGCACATTGGCA
62 CCTTGAATCAGCACATTGGCA
472205 TCTTCAGCTT
Statistics
Matches: 703, Mismatches: 76, Indels: 26
0.87 0.09 0.03
Matches are distributed among these distances:
86 2 0.00
87 390 0.55
88 189 0.27
89 2 0.00
91 37 0.05
92 2 0.00
100 3 0.00
101 78 0.11
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGC
Done.