Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold501
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1397941
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 110142 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:566740 original size:499 final size:498
Alignment explanation
Indices: 566070--566985 Score: 1532
Period size: 499 Copynumber: 1.8 Consensus size: 498
566060 GGTCACGATT
* * ** *
566070 TTTACAATCTTCACTATGTATACAACCTTTTGTGTATGTATTGGCATTTTTGGTGAAGTGGTTCT
1 TTTAAAATCTTCACTATATATACAACCTTTTGTGTAAATATTGGCATTTCTGGTGAAGTGGTTCT
* *
566135 TGAGAAGAAAATTTTTAAACATTTTTCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGGG
66 TGAGAAGAAAATTTTTAAAAATTTTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGGG
* *
566200 GCCCCAGTCTTGGTCCGAGGGTCACGATTTCTACAATTTAGAATCTTCATTATACAT-ACAAGCT
131 GCCCCAGTCTTGGTCCGAGGGTCACCATTTCTACAATTTAGAATCTTCACTATACATGA-AAGCT
* *
566264 TTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAACAACATTTTTTAAACATTTTCC
195 TTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAACAACATTTTTAAAAAATTTTCC
566329 -TAAGGTAT-TTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTCTTGGTCCGAGGGGCAC
260 AT-AGGT-TGTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTCTTGGTCCGAGGGGCAC
566392 GATTTTTACAATTTAAAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGT
323 GATTTTTACAATTTAAAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGT
566457 GCAGTGGTTCTTGAGAAGAAGATTTTTAAACATTTTCCTATGTATTTCTATGTTAAACTTTAAAC
388 GCAGTGGTTCTTGAGAAGAAGATTTTTAAACATTTTCCTATGTATTTCTATGTTAAACTTTAAAC
566522 CCCGCTTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
453 CCCGCTTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
* **
566568 TTTAAAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCTGTGGTTCT
1 TTTAAAATCTTCACTATATATACAACCTTTTGTGTAAATATTGGCATTTCTGGTGAAGTGGTTCT
* * *
566633 TGAGAAGAAGATTTTTAAAAAATTTTCCCTATGTTGTTCTATGTTAAACTTTGAACCCCGCCTGG
66 TGAGAAGAAAATTTTT-AAAAATTTTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGG
* * *
566698 GGCCCCAGTTTTGGTCCGAGGGTCACCATTTTTACAATTTAGAATCTTCACTATATATGAAAGCT
130 GGCCCCAGTCTTGGTCCGAGGGTCACCATTTCTACAATTTAGAATCTTCACTATACATGAAAGCT
* *
566763 TTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAAGAAGATTTTTAAAAAATTTTCC
195 TTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAACAACATTTTTAAAAAATTTTCC
* * *
566828 ATATGTTGTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTTTTGGTCCGAGGGTCACGA
260 ATAGGTTGTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTCTTGGTCCGAGGGGCACGA
*
566893 TTTTTACAATTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGC
325 TTTTTACAATTTAAAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGC
*
566958 TGTGGTTCTTGAGAAGAAGATTTTTAAA
390 AGTGGTTCTTGAGAAGAAGATTTTTAAA
566986 GACATGCACC
Statistics
Matches: 387, Mismatches: 27, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
498 73 0.19
499 312 0.81
500 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (498 bp):
TTTAAAATCTTCACTATATATACAACCTTTTGTGTAAATATTGGCATTTCTGGTGAAGTGGTTCT
TGAGAAGAAAATTTTTAAAAATTTTCCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGGG
GCCCCAGTCTTGGTCCGAGGGTCACCATTTCTACAATTTAGAATCTTCACTATACATGAAAGCTT
TTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCTTGAGAACAACATTTTTAAAAAATTTTCCA
TAGGTTGTTCTATGTTAAACTTTGAACCCCGCCTGGGGCCCCAGTCTTGGTCCGAGGGGCACGAT
TTTTACAATTTAAAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCA
GTGGTTCTTGAGAAGAAGATTTTTAAACATTTTCCTATGTATTTCTATGTTAAACTTTAAACCCC
GCTTGGGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
Found at i:566983 original size:167 final size:166
Alignment explanation
Indices: 566070--566990 Score: 1474
Period size: 167 Copynumber: 5.5 Consensus size: 166
566060 GGTCACGATT
* * * ** * *
566070 TTTACAATCTTCACTATGTATACAACCTTTTGTGTATGTATTGGCATTTTTGGTGAAGTGGTTCT
1 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
* * *
566135 TGAGAAGAAAATTTTT-AAACATTTTTCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGG
66 TGAGAAGAAGATTTTTAAAACA-TTTTCCTATGTTGTTCTATGTTAAACTTTGAACCCCGCCTGG
* *
566199 GGCCCCAGTCTTGGTCCGAGGGTCACGATTTCTACAA
130 GGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
* *
566236 TTTAGAATCTTCATTATACATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
1 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
* * * *
566301 TGAGAACAACATTTTTTAAACATTTTCCTAAGGTAT-TTCTATGTTAAACTTTGAACCCCGCCTG
66 TGAGAAGAAGATTTTTAAAACATTTTCCT-ATGT-TGTTCTATGTTAAACTTTGAACCCCGCCTG
* *
566365 GGGCCCCAGTCTTGGTCCGAGGGGCACGATTTTTACAA
129 GGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
*
566403 TTTAAAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
1 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
* *
566468 TGAGAAGAAGATTTTT-AAACATTTTCCTATGTAT-TTCTATGTTAAACTTTAAACCCCGCTTGG
66 TGAGAAGAAGATTTTTAAAACATTTTCCTATGT-TGTTCTATGTTAAACTTTGAACCCCGCCTGG
566531 GGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
130 GGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
* *
566568 TTTAAAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCTGTGGTTCT
1 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
*
566633 TGAGAAGAAGATTTTTAAAAAATTTTCCCTATGTTGTTCTATGTTAAACTTTGAACCCCGCCTGG
66 TGAGAAGAAGATTTTTAAAACATTTT-CCTATGTTGTTCTATGTTAAACTTTGAACCCCGCCTGG
*
566698 GGCCCCAGTTTTGGTCCGAGGGTCACCATTTTTACAA
130 GGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
566735 TTTAGAATCTTCACTATATATGA-AAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTC
1 TTTAGAATCTTCACTATATAT-ACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTC
*
566799 TTGAGAAGAAGATTTTTAAAAAATTTTCCATATGTTGTTCTATGTTAAACTTTGAACCCCGCCTG
65 TTGAGAAGAAGATTTTTAAAACATTTTCC-TATGTTGTTCTATGTTAAACTTTGAACCCCGCCTG
566864 GGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
129 GGGCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
*
566902 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCTGTGGTTCT
1 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
566967 TGAGAAGAAGATTTTTAAAGACAT
66 TGAGAAGAAGATTTTTAAA-ACAT
566991 GCACCCTAAA
Statistics
Matches: 709, Mismatches: 36, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
165 147 0.21
166 100 0.14
167 458 0.65
168 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (166 bp):
TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
TGAGAAGAAGATTTTTAAAACATTTTCCTATGTTGTTCTATGTTAAACTTTGAACCCCGCCTGGG
GCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
Found at i:567164 original size:4 final size:4
Alignment explanation
Indices: 567155--567192 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
567145 AAAGTTTACA
* *
567155 GACG GACG GACA GACA GACG GACG GACG GAC- GACG GAC
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GAC
567193 AACGGGTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 28 0.90
ACGTcount: A:0.32, C:0.26, G:0.42, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:567173 original size:16 final size:16
Alignment explanation
Indices: 567152--567192 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
567142 TGAAAAGTTT
567152 ACAGACGGACGGACAG
1 ACAGACGGACGGACAG
*
567168 ACAGACGGACGGACGG
1 ACAGACGGACGGACAG
567184 AC-GACGGAC
1 ACAGACGGAC
567193 AACGGGTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 7 0.29
16 17 0.71
ACGTcount: A:0.34, C:0.27, G:0.39, T:0.00
Consensus pattern (16 bp):
ACAGACGGACGGACAG
Found at i:567815 original size:11 final size:11
Alignment explanation
Indices: 567801--567831 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
567791 ACTAGAGTGG
567801 ACCCAGAGTAA
1 ACCCAGAGTAA
*
567812 ACCCAAAGTAA
1 ACCCAGAGTAA
567823 ACCCAGAGT
1 ACCCAGAGT
567832 GGACACAGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.29, G:0.16, T:0.10
Consensus pattern (11 bp):
ACCCAGAGTAA
Found at i:568012 original size:11 final size:11
Alignment explanation
Indices: 567996--568037 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
567986 GCAATTCTCG
567996 AGTAAACCCAA
1 AGTAAACCCAA
**
568007 AGTAAACCCCG
1 AGTAAACCCAA
568018 AGTAAACCCAA
1 AGTAAACCCAA
*
568029 AGTTAACCC
1 AGTAAACCC
568038 CGAGTGGACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.45, C:0.31, G:0.12, T:0.12
Consensus pattern (11 bp):
AGTAAACCCAA
Found at i:568049 original size:22 final size:22
Alignment explanation
Indices: 567994--568042 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
567984 AAGCAATTCT
567994 CGAGTAAACCCAAAGTAAACCC
1 CGAGTAAACCCAAAGTAAACCC
*
568016 CGAGTAAACCCAAAGTTAACCC
1 CGAGTAAACCCAAAGTAAACCC
568038 CGAGT
1 CGAGT
568043 GGACCCACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.31, G:0.16, T:0.12
Consensus pattern (22 bp):
CGAGTAAACCCAAAGTAAACCC
Found at i:568701 original size:26 final size:26
Alignment explanation
Indices: 568626--568709 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
568616 CATTGTTTAG
568626 TTCTCTTTATTTGCGTCCTATATTAC
1 TTCTCTTTATTTGCGTCCTATATTAC
* *
568652 TTCTCCTTAATTAGCGTCCTATATTAC
1 TTCT-CTTTATTTGCGTCCTATATTAC
568679 TTCTCTTTATTTGCGTCCTATATTAC
1 TTCTCTTTATTTGCGTCCTATATTAC
568705 TTCTC
1 TTCTC
568710 CCGTCAGGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
26 29 0.55
27 24 0.45
ACGTcount: A:0.17, C:0.25, G:0.07, T:0.51
Consensus pattern (26 bp):
TTCTCTTTATTTGCGTCCTATATTAC
Found at i:571648 original size:42 final size:42
Alignment explanation
Indices: 571590--571707 Score: 200
Period size: 42 Copynumber: 2.8 Consensus size: 42
571580 GGTCATAACT
* *
571590 CTCTAATCCATTATCTCAGGTGTTAATTTCACTGGTCACAAA
1 CTCTAACCCAATATCTCAGGTGTTAATTTCACTGGTCACAAA
*
571632 CTCTAACCCAATATCTCAGGTGTTAATTTCACAGGTCACAAA
1 CTCTAACCCAATATCTCAGGTGTTAATTTCACTGGTCACAAA
*
571674 CTCTAACCCAATATCTCAGGTGTAAATTTCACTG
1 CTCTAACCCAATATCTCAGGTGTTAATTTCACTG
571708 TTAATGCAGC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (42 bp):
CTCTAACCCAATATCTCAGGTGTTAATTTCACTGGTCACAAA
Found at i:571962 original size:10 final size:10
Alignment explanation
Indices: 571947--571977 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
571937 CACACGAGAC
571947 AATACAGGTA
1 AATACAGGTA
571957 AATACAGGTA
1 AATACAGGTA
571967 AATACAGGTA
1 AATACAGGTA
571977 A
1 A
571978 CAAAGAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.19
Consensus pattern (10 bp):
AATACAGGTA
Found at i:573507 original size:14 final size:16
Alignment explanation
Indices: 573476--573512 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
573466 TTTTGATTGA
573476 AAAAAAAATGTGCGGG
1 AAAAAAAATGTGCGGG
*
573492 AAAAAAAAT-TTC-GG
1 AAAAAAAATGTGCGGG
573506 AAAAAAA
1 AAAAAAA
573513 TTAGGCTCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.62, C:0.05, G:0.19, T:0.14
Consensus pattern (16 bp):
AAAAAAAATGTGCGGG
Found at i:573510 original size:15 final size:16
Alignment explanation
Indices: 573474--573512 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
573464 TTTTTTGATT
573474 GAAAAAAAAATGTGCG
1 GAAAAAAAAATGTGCG
* *
573490 GGAAAAAAAAT-TTCG
1 GAAAAAAAAATGTGCG
573505 GAAAAAAA
1 GAAAAAAA
573513 TTAGGCTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.62, C:0.05, G:0.21, T:0.13
Consensus pattern (16 bp):
GAAAAAAAAATGTGCG
Found at i:575957 original size:18 final size:18
Alignment explanation
Indices: 575934--576013 Score: 61
Period size: 18 Copynumber: 4.3 Consensus size: 18
575924 ATGCACACTG
*
575934 TGTGCTAACTGTGCACAT
1 TGTGCTAACTGTGCACAC
* * * **
575952 TGTGCTGATTTTTTACAC
1 TGTGCTAACTGTGCACAC
* *
575970 TGTGCTAACTGTCCACAT
1 TGTGCTAACTGTGCACAC
*
575988 TGTGCTGAGTCTGTGCACAC
1 TGTGCT-A-ACTGTGCACAC
576008 TGTGCT
1 TGTGCT
576014 CTGTACACTT
Statistics
Matches: 45, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
18 30 0.67
19 1 0.02
20 14 0.31
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (18 bp):
TGTGCTAACTGTGCACAC
Found at i:576712 original size:94 final size:95
Alignment explanation
Indices: 576551--576786 Score: 393
Period size: 94 Copynumber: 2.5 Consensus size: 95
576541 CCTGGATAAT
*
576551 CTTAACCTCCTGTCCTATGGTCTCTATGGTAGACTCCAGGGCCCGAGCTACCTGTATTTGTACCT
1 CTTAACCTCCTGTCCTATGGCCTCTATGGTAGACTCCAGGGCCCGAGCTACCTGTATTTGTACCT
*
576616 GTAGTTACCTGTGTGTA-TCAGTGTATTAC
66 GTAGTTACCTGTGTATATTCAGTGTATTAC
** * * * *
576645 CTTAACCTTTTGTCCTATGGCCTCTATGGTAGACTCAAGGGCCTGGGTTACCTGTATTTGTACCT
1 CTTAACCTCCTGTCCTATGGCCTCTATGGTAGACTCCAGGGCCCGAGCTACCTGTATTTGTACCT
576710 GTAGTTACCTGTGTATATTCAGTGTATTAC
66 GTAGTTACCTGTGTATATTCAGTGTATTAC
576740 CTTAACCTCCTGTCCTATGGCCTCTATGGTAGACTCCAGGGCCCGAG
1 CTTAACCTCCTGTCCTATGGCCTCTATGGTAGACTCCAGGGCCCGAG
576787 TTCCCCGCGC
Statistics
Matches: 128, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
94 74 0.58
95 54 0.42
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (95 bp):
CTTAACCTCCTGTCCTATGGCCTCTATGGTAGACTCCAGGGCCCGAGCTACCTGTATTTGTACCT
GTAGTTACCTGTGTATATTCAGTGTATTAC
Found at i:579261 original size:32 final size:32
Alignment explanation
Indices: 579220--579473 Score: 402
Period size: 32 Copynumber: 8.0 Consensus size: 32
579210 CCATAGAAGN
*
579220 GGCTAACCTTGGCTACATAAGTACAGAAACAT
1 GGCTAACCTTCGCTACATAAGTACAGAAACAT
*
579252 GGCTAACCTTCTCTACATAAGTACAGAAACAT
1 GGCTAACCTTCGCTACATAAGTACAGAAACAT
** * *
579284 TACTAACCTTGGCTACATAAGTACAGAAACGT
1 GGCTAACCTTCGCTACATAAGTACAGAAACAT
*
579316 TG-TAACCTTCGCTACATAAGTACAGAAACAT
1 GGCTAACCTTCGCTACATAAGTACAGAAACAT
579347 GGCTAACCTTCGCTACATAAGTACAGAAACAT
1 GGCTAACCTTCGCTACATAAGTACAGAAACAT
* *
579379 GACTAACCTTGGCTACATAAGTACAGAAACAT
1 GGCTAACCTTCGCTACATAAGTACAGAAACAT
*
579411 TGCTAACCTTCGCTACATAAGTACAGAAACAT
1 GGCTAACCTTCGCTACATAAGTACAGAAACAT
*
579443 GGCTAACCTTGGCTACATAAGTACAGAAACA
1 GGCTAACCTTCGCTACATAAGTACAGAAACA
579474 NNNNNNNNNN
Statistics
Matches: 203, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
31 28 0.14
32 175 0.86
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (32 bp):
GGCTAACCTTCGCTACATAAGTACAGAAACAT
Found at i:579386 original size:95 final size:96
Alignment explanation
Indices: 579221--579473 Score: 454
Period size: 95 Copynumber: 2.6 Consensus size: 96
579211 CATAGAAGNG
* * *
579221 GCTAACCTTGGCTACATAAGTACAGAAACATGGCTAACCTTCTCTACATAAGTACAGAAACATTA
1 GCTAACCTTCGCTACATAAGTACAGAAACATGGCTAACCTTCGCTACATAAGTACAGAAACATGA
*
579286 CTAACCTTGGCTACATAAGTACAGAAACGTT
66 CTAACCTTGGCTACATAAGTACAGAAACATT
579317 G-TAACCTTCGCTACATAAGTACAGAAACATGGCTAACCTTCGCTACATAAGTACAGAAACATGA
1 GCTAACCTTCGCTACATAAGTACAGAAACATGGCTAACCTTCGCTACATAAGTACAGAAACATGA
579381 CTAACCTTGGCTACATAAGTACAGAAACATT
66 CTAACCTTGGCTACATAAGTACAGAAACATT
*
579412 GCTAACCTTCGCTACATAAGTACAGAAACATGGCTAACCTTGGCTACATAAGTACAGAAACA
1 GCTAACCTTCGCTACATAAGTACAGAAACATGGCTAACCTTCGCTACATAAGTACAGAAACA
579474 NNNNNNNNNN
Statistics
Matches: 151, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
95 91 0.60
96 60 0.40
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (96 bp):
GCTAACCTTCGCTACATAAGTACAGAAACATGGCTAACCTTCGCTACATAAGTACAGAAACATGA
CTAACCTTGGCTACATAAGTACAGAAACATT
Found at i:579624 original size:32 final size:32
Alignment explanation
Indices: 579583--579680 Score: 178
Period size: 32 Copynumber: 3.1 Consensus size: 32
579573 NNNNNNNNNN
* *
579583 GCTACATAAGTACAGAAACACGGCTAACCTTG
1 GCTACATAAGTACAGAAACATGGCTAACCTTC
579615 GCTACATAAGTACAGAAACATGGCTAACCTTC
1 GCTACATAAGTACAGAAACATGGCTAACCTTC
579647 GCTACATAAGTACAGAAACATGGCTAACCTTC
1 GCTACATAAGTACAGAAACATGGCTAACCTTC
579679 GC
1 GC
579681 AGAAGCCCAG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (32 bp):
GCTACATAAGTACAGAAACATGGCTAACCTTC
Found at i:580795 original size:4 final size:4
Alignment explanation
Indices: 580786--580819 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
580776 TTCATGAATA
580786 TATT TATT TATT TATTT TATT TATTT TATT TATT
1 TATT TATT TATT TA-TT TATT TA-TT TATT TATT
580820 CTCATATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:580806 original size:9 final size:9
Alignment explanation
Indices: 580786--580819 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
580776 TTCATGAATA
580786 TATTTA-TT
1 TATTTATTT
580794 TATTTATTT
1 TATTTATTT
580803 TATTTATTT
1 TATTTATTT
580812 TATTTATT
1 TATTTATT
580820 CTCATATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.24
9 19 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TATTTATTT
Found at i:580806 original size:13 final size:12
Alignment explanation
Indices: 580786--580819 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
580776 TTCATGAATA
580786 TATTTATTTATT
1 TATTTATTTATT
580798 TATTTTATTTATTT
1 TA-TTTATTTA-TT
580812 TATTTATT
1 TATTTATT
580820 CTCATATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 14 0.70
14 4 0.20
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTATTTATT
Found at i:583566 original size:2 final size:2
Alignment explanation
Indices: 583551--583594 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
583541 TGACTTGCAT
*
583551 GA GA GA AA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
583592 GA G
1 GA G
583595 TTGAGTAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:584736 original size:21 final size:21
Alignment explanation
Indices: 584710--584778 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
584700 ACGCTTTGCC
584710 CGAAACGCTAAACGGTTTACA
1 CGAAACGCTAAACGGTTTACA
** ** *
584731 CGAAACGCTTCAC-AATCACA
1 CGAAACGCTAAACGGTTTACA
584751 CGAAACGCTAAACGGTTTACA
1 CGAAACGCTAAACGGTTTACA
584772 CGAAACG
1 CGAAACG
584779 TTTCTCGCAC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 15 0.41
21 22 0.59
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.16
Consensus pattern (21 bp):
CGAAACGCTAAACGGTTTACA
Found at i:594704 original size:42 final size:42
Alignment explanation
Indices: 594640--594722 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
594630 TCTGATATTG
*
594640 GCCCAACAGTGGGCCAATGTACGTAACATATGACCAACACTT
1 GCCCAACAGTGGGCCAAGGTACGTAACATATGACCAACACTT
* *
594682 GCCCAACCGTGGGCCACGGTACGTAACATATGACCAACACT
1 GCCCAACAGTGGGCCAAGGTACGTAACATATGACCAACACT
594723 GGCCAAATGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.17
Consensus pattern (42 bp):
GCCCAACAGTGGGCCAAGGTACGTAACATATGACCAACACTT
Found at i:595786 original size:72 final size:72
Alignment explanation
Indices: 595690--596219 Score: 791
Period size: 72 Copynumber: 7.3 Consensus size: 72
595680 TAAATTTACA
* ** *
595690 ACATTGACCCAATGTTAACCCAACGATGTGTTCCCAACTTAAATTGACTCTCAAGTTAATTGTGT
1 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTTAAATTGACTCTCAAGTTAATTGTGT
595755 TAAGTGT
66 TAAGTGT
* *
595762 ACATTGGCCGAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
1 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTTAAATTGACTCTCAAGTTAATTGTGT
595827 TAAGTGT
66 TAAGTGT
*
595834 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
1 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTTAAATTGACTCTCAAGTTAATTGTGT
595899 TAAGTGT
66 TAAGTGT
*
595906 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAAAC-TAACATTGACTCTCAAGTTAATTTT
1 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCC-AACTTAA-ATTGACTCTCAAGTTAATTGT
595970 GTTAAGTGT
64 GTTAAGTGT
* *
595979 ACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
1 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTTAAATTGACTCTCAAGTTAATTGTGT
596044 TAAGTGT
66 TAAGTGT
*
596051 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCCAAC-TAACATTGACTCTCAAGTAAATTGT
1 ACATTGGCCCAATGTTGGCCCAACGTTGTGTT-CCCAACTTAA-ATTGACTCTCAAGTTAATTGT
*
596115 GTCAAGTGT
64 GTTAAGTGT
*
596124 ACATTGGCCCAATGTTGGCCCAACGTTGCT-TTCCCAAC-TAACATTGACACTCAAGTTAGA-TG
1 ACATTGGCCCAATGTTGGCCCAACGTTG-TGTTCCCAACTTAA-ATTGACTCTCAAGTTA-ATTG
* *
596186 TGTCATGTGT
63 TGTTAAGTGT
** * *
596196 TTATTTGCACAATGTTGGCCCAAC
1 ACATTGGCCCAATGTTGGCCCAAC
596220 ATCGTTAAGC
Statistics
Matches: 428, Mismatches: 23, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
72 294 0.69
73 133 0.31
74 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (72 bp):
ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTTAAATTGACTCTCAAGTTAATTGTGT
TAAGTGT
Found at i:595839 original size:32 final size:32
Alignment explanation
Indices: 595801--595911 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
595791 GTTCCCAACT
595801 TACATTGACTCTCAAGTTAATTGTGTTAAGTG
1 TACATTGACTCTCAAGTTAATTGTGTTAAGTG
* *
595833 TACATTGGC-C-CAATGTTGGCCCAACGTTGTGTTCCCAACT-
1 TACATTGACTCTCAA-GTT-----AA--TTGTGTT---AAGTG
595873 TACATTGACTCTCAAGTTAATTGTGTTAAGTG
1 TACATTGACTCTCAAGTTAATTGTGTTAAGTG
595905 TACATTG
1 TACATTG
595912 GCCCAATGTT
Statistics
Matches: 61, Mismatches: 4, Indels: 28
0.66 0.04 0.30
Matches are distributed among these distances:
30 3 0.05
31 7 0.11
32 15 0.25
34 7 0.11
36 4 0.07
38 7 0.11
40 8 0.13
41 7 0.11
42 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (32 bp):
TACATTGACTCTCAAGTTAATTGTGTTAAGTG
Found at i:596018 original size:145 final size:144
Alignment explanation
Indices: 595690--596219 Score: 839
Period size: 145 Copynumber: 3.7 Consensus size: 144
595680 TAAATTTACA
** * *
595690 ACATTGACCCAATGTTAACCCAACGATGTGTTCCCAACTTAAATTGACTCTCAAGTTAATTGTGT
1 ACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
* *
595755 TAAGTGTACATTGGCCGAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTA
66 TAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTAACATTGACTCTCAAGTTA
595820 ATTGTGTTAAGTGT
131 ATTGTGTTAAGTGT
*
595834 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
1 ACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
595899 TAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAAACTAACATTGACTCTCAAGTT
66 TAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCC-AACTAACATTGACTCTCAAGTT
*
595964 AATTTTGTTAAGTGT
130 AATTGTGTTAAGTGT
595979 ACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
1 ACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
*
596044 TAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCCAACTAACATTGACTCTCAAGTA
66 TAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTT-CCCAACTAACATTGACTCTCAAGTT
*
596109 AATTGTGTCAAGTGT
130 AATTGTGTTAAGTGT
* * *
596124 ACATTGGCCCAATGTTGGCCCAACGTTGCT-TTCCCAACTAACATTGACACTCAAGTTAGA-TGT
1 ACATTGACCCAATGTTGGCCCAACGTTG-TGTTCCCAACTTACATTGACTCTCAAGTTA-ATTGT
* * ** * *
596187 GTCATGTGTTTATTTGCACAATGTTGGCCCAAC
64 GTTAAGTGTACATTGGCCCAATGTTGGCCCAAC
596220 ATCGTTAAGC
Statistics
Matches: 361, Mismatches: 21, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
144 101 0.28
145 255 0.71
146 5 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (144 bp):
ACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTAATTGTGT
TAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTAACATTGACTCTCAAGTTA
ATTGTGTTAAGTGT
Found at i:596071 original size:217 final size:217
Alignment explanation
Indices: 595690--596181 Score: 837
Period size: 217 Copynumber: 2.3 Consensus size: 217
595680 TAAATTTACA
* ** *
595690 ACATTGACCCAATGTTAACCCAACGATGTGTTCCCAACTTAA-ATTGACTCTCAAGTTAATTGTG
1 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAAC-TAACATTGACTCTCAAGTTAATTGTG
* *
595754 TTAAGTGTACATTGGCCGAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTT
65 TTAAGTGTACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTT
*
595819 AATTGTGTTAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTT-CCCAACTTACATTGACT
130 AATTGTGTTAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCCAACTAACATTGACT
* *
595883 CTCAAGTTAATTGTGTTAAGTGT
195 CTCAAGTAAATTGTGTCAAGTGT
*
595906 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAAACTAACATTGACTCTCAAGTTAATTTTG
1 ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCC-AACTAACATTGACTCTCAAGTTAATTGTG
595971 TTAAGTGTACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTT
65 TTAAGTGTACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTT
596036 AATTGTGTTAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCCAACTAACATTGACT
130 AATTGTGTTAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCCAACTAACATTGACT
596101 CTCAAGTAAATTGTGTCAAGTGT
195 CTCAAGTAAATTGTGTCAAGTGT
*
596124 ACATTGGCCCAATGTTGGCCCAACGTTGCT-TTCCCAACTAACATTGACACTCAAGTTA
1 ACATTGGCCCAATGTTGGCCCAACGTTG-TGTTCCCAACTAACATTGACTCTCAAGTTA
596182 GATGTGTCAT
Statistics
Matches: 261, Mismatches: 11, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
216 34 0.13
217 156 0.60
218 70 0.27
219 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (217 bp):
ACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCAACTAACATTGACTCTCAAGTTAATTGTGT
TAAGTGTACATTGACCCAATGTTGGCCCAACGTTGTGTTCCCAACTTACATTGACTCTCAAGTTA
ATTGTGTTAAGTGTACATTGGCCCAATGTTGGCCCAACGTTGTGTTCCCCAACTAACATTGACTC
TCAAGTAAATTGTGTCAAGTGT
Found at i:605360 original size:11 final size:12
Alignment explanation
Indices: 605332--605365 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
605322 CAACTAAACC
605332 CTGGGTTTACTTT
1 CTGGGTTTAC-TT
605345 CTGGGTTTAC-T
1 CTGGGTTTACTT
605356 CTGGGTTTAC
1 CTGGGTTTAC
605366 AAGAGTGGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.47
Consensus pattern (12 bp):
CTGGGTTTACTT
Found at i:605637 original size:2 final size:2
Alignment explanation
Indices: 605630--605658 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
605620 GCTTTTACAA
605630 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
605659 AACATCTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:605776 original size:2 final size:2
Alignment explanation
Indices: 605769--605829 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
605759 GTAATTACAG
605769 TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
605810 TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC
605830 AAAACTACAT
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:608979 original size:2 final size:2
Alignment explanation
Indices: 608972--609080 Score: 109
Period size: 2 Copynumber: 55.5 Consensus size: 2
608962 TCAGTTGTCC
608972 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* ** * **
609013 AG AG AG AG AG AG AG AT ACG -G TC AG AG AG AG AG AT ACG -G TC AG
1 AG AG AG AG AG AG AG AG A-G AG AG AG AG AG AG AG AG A-G AG AG AG
*
609055 AG AG AG AG AG A- AG AG AG GG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
609081 ATTCTCCGAA
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
1 4 0.04
2 85 0.96
ACGTcount: A:0.46, C:0.04, G:0.47, T:0.04
Consensus pattern (2 bp):
AG
Found at i:618394 original size:31 final size:32
Alignment explanation
Indices: 618376--618469 Score: 143
Period size: 32 Copynumber: 2.9 Consensus size: 32
618366 AATGACCGGG
*
618376 GGTCATTTTTCGACGTAGAATAATGACCCCCC
1 GGTCATTTTTCGACGTAGAAAAATGACCCCCC
* * *
618408 GGTCATTATTCTACGCAGAAAAATGACCCCCC
1 GGTCATTTTTCGACGTAGAAAAATGACCCCCC
*
618440 GGTCATTTTTCGTCGTAGAAAAATGACCCC
1 GGTCATTTTTCGACGTAGAAAAATGACCCC
618470 TTTGCCTGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (32 bp):
GGTCATTTTTCGACGTAGAAAAATGACCCCCC
Found at i:620070 original size:16 final size:16
Alignment explanation
Indices: 620051--620085 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
620041 TCACCGAGAC
620051 GAGGCATCACCTTTAT
1 GAGGCATCACCTTTAT
620067 GAGGCATCACCTTTAT
1 GAGGCATCACCTTTAT
620083 GAG
1 GAG
620086 ACCACCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (16 bp):
GAGGCATCACCTTTAT
Found at i:620093 original size:14 final size:16
Alignment explanation
Indices: 620051--620096 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
620041 TCACCGAGAC
*
620051 GAGGCATCACCTTTAT
1 GAGGCACCACCTTTAT
*
620067 GAGGCATCACCTTTAT
1 GAGGCACCACCTTTAT
620083 GA-G-ACCACCTTTAT
1 GAGGCACCACCTTTAT
620097 CATATTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 10 0.34
15 1 0.03
16 18 0.62
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (16 bp):
GAGGCACCACCTTTAT
Found at i:620426 original size:25 final size:25
Alignment explanation
Indices: 620388--620446 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
620378 CATTGAAACA
*
620388 TATGTTATTATATTG-AATAATATAG
1 TATGATATTATATTGTAA-AATATAG
* *
620413 TATGATATTGTATTGTAAAATATTG
1 TATGATATTATATTGTAAAATATAG
*
620438 TATCATATT
1 TATGATATT
620447 TGATAAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (25 bp):
TATGATATTATATTGTAAAATATAG
Found at i:620668 original size:15 final size:15
Alignment explanation
Indices: 620637--620715 Score: 54
Period size: 15 Copynumber: 5.1 Consensus size: 15
620627 ATATGATAAT
*
620637 ATATTATATTA-ACCA
1 ATATCATATTATA-CA
620652 ATATCATATTATACA
1 ATATCATATTATACA
* *
620667 ATATCGTATGATACGA
1 ATATCATATTATAC-A
* * *
620683 TATTTTATAATATTACA
1 -ATATCATATTA-TACA
620700 ATATCATA-TATACA
1 ATATCATATTATACA
620714 AT
1 AT
620716 TTCCTTTGAT
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
14 6 0.12
15 26 0.52
16 8 0.16
17 7 0.14
18 3 0.06
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (15 bp):
ATATCATATTATACA
Found at i:620972 original size:37 final size:33
Alignment explanation
Indices: 620945--621009 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
620935 CAAGAGTTTT
620945 CAAATGTAATTAATTAAATTACAATTAC-TTTG
1 CAAATGTAATTAATTAAATTACAATTACATTTG
*
620977 CAGATGTAATTAATTAAATTACAAATTACATTT
1 CAAATGTAATTAATTAAATTAC-AATTACATTT
621010 TCATCAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 21 0.70
33 6 0.20
34 3 0.10
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (33 bp):
CAAATGTAATTAATTAAATTACAATTACATTTG
Found at i:622079 original size:13 final size:13
Alignment explanation
Indices: 622061--622085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
622051 AATTACACTC
622061 AATTACCATTACA
1 AATTACCATTACA
622074 AATTACCATTAC
1 AATTACCATTAC
622086 CCCATCCCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTACCATTACA
Found at i:623285 original size:16 final size:17
Alignment explanation
Indices: 623257--623305 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
623247 ATACGGGGGG
* *
623257 GGGGGGCATTTTTCTGT
1 GGGGGTCATTTTTCTAT
623274 GGGGGTCATTTTTCTAT
1 GGGGGTCATTTTTCTAT
623291 GGGGGTCATTTTTCT
1 GGGGGTCATTTTTCT
623306 TCATGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.08, C:0.12, G:0.35, T:0.45
Consensus pattern (17 bp):
GGGGGTCATTTTTCTAT
Found at i:630107 original size:144 final size:144
Alignment explanation
Indices: 629916--630204 Score: 553
Period size: 144 Copynumber: 2.0 Consensus size: 144
629906 CAATCCCTCT
629916 CTTGCATACACTGCAGAAATGAGAGGTGTAAAGATGAGATGTTAATACAAGGAACAAAATAGAAA
1 CTTGCATACAC-GCAGAAATGAGAGGTGTAAAGATGAGATGTTAATACAAGGAACAAAATAGAAA
629981 AAATATAACAAAAATCAAAGTTGGTAACACTTTTGTATGAGATAATGAAAATAGTCAACATAATA
65 AAATATAACAAAAATCAAAGTTGGTAACACTTTTGTATGAGATAATGAAAATAGTCAACATAATA
630046 TAACATGAAGATAAG
130 TAACATGAAGATAAG
630061 NCTTGCATACA-GCAGAAATGAGAGGTGTAAAGATGAGATGTTAATACAAGGAACAAAATAGAAA
1 -CTTGCATACACGCAGAAATGAGAGGTGTAAAGATGAGATGTTAATACAAGGAACAAAATAGAAA
630125 AAATATAACAAAAATCAAAGTTGGTAACACTTTTGTATGAGATAATGAAAATAGTCAACATAATA
65 AAATATAACAAAAATCAAAGTTGGTAACACTTTTGTATGAGATAATGAAAATAGTCAACATAATA
630190 TAACATGAAGATAAG
130 TAACATGAAGATAAG
630205 AATAATATAT
Statistics
Matches: 143, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
144 133 0.93
146 10 0.07
ACGTcount: A:0.49, C:0.09, G:0.18, T:0.23
Consensus pattern (144 bp):
CTTGCATACACGCAGAAATGAGAGGTGTAAAGATGAGATGTTAATACAAGGAACAAAATAGAAAA
AATATAACAAAAATCAAAGTTGGTAACACTTTTGTATGAGATAATGAAAATAGTCAACATAATAT
AACATGAAGATAAG
Found at i:631084 original size:21 final size:21
Alignment explanation
Indices: 631059--631116 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
631049 TCAAATGATA
631059 ATGTCGACTTGTCAGATATTT
1 ATGTCGACTTGTCAGATATTT
* *
631080 ATGTCAACTTGTCAGATCTTT
1 ATGTCGACTTGTCAGATATTT
*
631101 ATGTTGACTTGTCAGA
1 ATGTCGACTTGTCAGA
631117 AAATAACCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (21 bp):
ATGTCGACTTGTCAGATATTT
Found at i:631232 original size:21 final size:21
Alignment explanation
Indices: 631208--631292 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
631198 AATATCATAT
631208 AAGTCGACATAAATATCTGAC
1 AAGTCGACATAAATATCTGAC
** * *
631229 AAGTTTACATAATTATCTGTC
1 AAGTCGACATAAATATCTGAC
*
631250 AAGTCGACAT-CATGATCTGAC
1 AAGTCGACATAAAT-ATCTGAC
** *
631271 AAGTTAACATAATTATCTGAC
1 AAGTCGACATAAATATCTGAC
631292 A
1 A
631293 GAAAAAATAA
Statistics
Matches: 49, Mismatches: 13, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 47 0.96
22 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (21 bp):
AAGTCGACATAAATATCTGAC
Found at i:631255 original size:42 final size:42
Alignment explanation
Indices: 631208--631289 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
631198 AATATCATAT
*
631208 AAGTCGACATAAAT-ATCTGACAAGTTTACATAATTATCTGTC
1 AAGTCGACAT-AATGATCTGACAAGTTAACATAATTATCTGTC
*
631250 AAGTCGACATCATGATCTGACAAGTTAACATAATTATCTG
1 AAGTCGACATAATGATCTGACAAGTTAACATAATTATCTG
631290 ACAGAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (42 bp):
AAGTCGACATAATGATCTGACAAGTTAACATAATTATCTGTC
Found at i:631431 original size:21 final size:21
Alignment explanation
Indices: 631393--631432 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
631383 ATGTCGTCTT
*
631393 GTCAAAAAATTATGTCGACAA
1 GTCAAAAAATTATATCGACAA
* *
631414 GTCAAATAATTGTATCGAC
1 GTCAAAAAATTATATCGAC
631433 TTAAAAGATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
GTCAAAAAATTATATCGACAA
Found at i:631521 original size:21 final size:21
Alignment explanation
Indices: 631497--631541 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
631487 TCGACTTAAA
* *
631497 AGATGATTATGTCGACTTGTC
1 AGATCATTATGTCGACTTCTC
*
631518 AGATCCTTATGTCGACTTCTC
1 AGATCATTATGTCGACTTCTC
631539 AGA
1 AGA
631542 AAATATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (21 bp):
AGATCATTATGTCGACTTCTC
Found at i:631644 original size:21 final size:21
Alignment explanation
Indices: 631618--631709 Score: 103
Period size: 21 Copynumber: 4.4 Consensus size: 21
631608 CGTGTATAAG
* *
631618 TGACAAGTCGACTTAAAGAAC
1 TGACAAGTCGACATAAAGATC
** **
631639 TGACAAGTAAACATAATTATC
1 TGACAAGTCGACATAAAGATC
*
631660 TGACAAGTCGACATCAAGATC
1 TGACAAGTCGACATAAAGATC
**
631681 TGACAAGTCGACATAATTATC
1 TGACAAGTCGACATAAAGATC
631702 TGACAAGT
1 TGACAAGT
631710 GGTGGCAGAT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (21 bp):
TGACAAGTCGACATAAAGATC
Found at i:631665 original size:42 final size:42
Alignment explanation
Indices: 631618--631709 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
631608 CGTGTATAAG
*
631618 TGACAAGTCGACTTAAAGAACTGACAAGTAAACATAATTATC
1 TGACAAGTCGACATAAAGAACTGACAAGTAAACATAATTATC
* * **
631660 TGACAAGTCGACATCAAGATCTGACAAGTCGACATAATTATC
1 TGACAAGTCGACATAAAGAACTGACAAGTAAACATAATTATC
631702 TGACAAGT
1 TGACAAGT
631710 GGTGGCAGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.24
Consensus pattern (42 bp):
TGACAAGTCGACATAAAGAACTGACAAGTAAACATAATTATC
Found at i:635012 original size:33 final size:33
Alignment explanation
Indices: 634887--635093 Score: 252
Period size: 33 Copynumber: 6.0 Consensus size: 33
634877 ACTGACTGCA
*
634887 ATGCCTGTTATTGTATAACAACAATGTCCATGCAATC
1 ATGCCTGTTATTGTATAACAACAAAGT-C---CAATC
*
634924 ATGCCTGTTAATTGTATAACAACAATGTCCAATC
1 ATGCCTGTT-ATTGTATAACAACAAAGTCCAATC
* **
634958 ATGCCTGTTTAATTGTTTAACAACAAAGTCCTTTC
1 ATGCCTG-TT-ATTGTATAACAACAAAGTCCAATC
* *
634993 ATACCTGTTATTGTATAACAACAATGTCCAATC
1 ATGCCTGTTATTGTATAACAACAAAGTCCAATC
*
635026 ATGCCTGTTATTGTATAACAACAAAGTTCAATC
1 ATGCCTGTTATTGTATAACAACAAAGTCCAATC
*
635059 ATGCCTGTTATATTGTTTAACAACAAAGTCCAATC
1 ATGCCTG-T-TATTGTATAACAACAAAGTCCAATC
635094 CTAGATCAGA
Statistics
Matches: 152, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
33 57 0.38
34 15 0.10
35 52 0.34
37 10 0.07
38 18 0.12
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (33 bp):
ATGCCTGTTATTGTATAACAACAAAGTCCAATC
Found at i:635015 original size:68 final size:66
Alignment explanation
Indices: 634887--635093 Score: 261
Period size: 68 Copynumber: 3.0 Consensus size: 66
634877 ACTGACTGCA
*
634887 ATGCCTGTTATTGTATAACAACAATGTCCATGCAATCATGCCTGTTAATTGTATAACAACAATGT
1 ATGCCTGTTATTGTATAACAACAAAGT-C---CAATCATGCCTGTT-ATTGTATAACAACAATGT
634952 CCAATC
61 CCAATC
* ** *
634958 ATGCCTGTTTAATTGTTTAACAACAAAGTCCTTTCATACCTGTTATTGTATAACAACAATGTCCA
1 ATGCCTG-TT-ATTGTATAACAACAAAGTCCAATCATGCCTGTTATTGTATAACAACAATGTCCA
635023 ATC
64 ATC
* * *
635026 ATGCCTGTTATTGTATAACAACAAAGTTCAATCATGCCTGTTATATTGTTTAACAACAAAGTCCA
1 ATGCCTGTTATTGTATAACAACAAAGTCCAATCATGCCTG-T-TATTGTATAACAACAATGTCCA
635091 ATC
64 ATC
635094 CTAGATCAGA
Statistics
Matches: 120, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
66 26 0.22
67 3 0.03
68 54 0.45
69 11 0.09
71 7 0.06
72 3 0.03
73 16 0.13
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (66 bp):
ATGCCTGTTATTGTATAACAACAAAGTCCAATCATGCCTGTTATTGTATAACAACAATGTCCAAT
C
Found at i:635074 original size:101 final size:104
Alignment explanation
Indices: 634890--635089 Score: 327
Period size: 101 Copynumber: 1.9 Consensus size: 104
634880 GACTGCAATG
*
634890 CCTGTTATTGTATAACAACAATGTCCATGCAATCATGCCTGTTAATTGTATAACAACAATGTCCA
1 CCTGTTATTGTATAACAACAATGTCCA--CAATCATGCCTGTTAATTGTATAACAACAAAGTCCA
634955 ATCATGCCTGTTTAATTGTTTAACAACAAAGTCCTTTCATA
64 ATCATGCCTGTTTAATTGTTTAACAACAAAGTCCTTTCATA
*
634996 CCTGTTATTGTATAACAACAATGT-C-CAATCATGCCTGTT-ATTGTATAACAACAAAGTTCAAT
1 CCTGTTATTGTATAACAACAATGTCCACAATCATGCCTGTTAATTGTATAACAACAAAGTCCAAT
635058 CATGCCTG-TTATATTGTTTAACAACAAAGTCC
66 CATGCCTGTTTA-ATTGTTTAACAACAAAGTCC
635090 AATCCTAGAT
Statistics
Matches: 91, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
100 3 0.03
101 49 0.54
102 14 0.15
105 1 0.01
106 24 0.26
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (104 bp):
CCTGTTATTGTATAACAACAATGTCCACAATCATGCCTGTTAATTGTATAACAACAAAGTCCAAT
CATGCCTGTTTAATTGTTTAACAACAAAGTCCTTTCATA
Found at i:637466 original size:41 final size:39
Alignment explanation
Indices: 637370--637501 Score: 121
Period size: 41 Copynumber: 3.4 Consensus size: 39
637360 CCTGTACCAC
637370 CTACTGACAGATGTAGAGAGTGTAAGTAAAGAGCAAATA
1 CTACTGACAGATGTAGAGAGTGTAAGTAAAGAGCAAATA
* * * * *
637409 CTGA-TAGATCTG-TGTAGAAAGTGTAAGTATTATAGCAATTAA
1 CT-ACT-GA-CAGATGTAGAGAGTGTAAGTA-AAGAGCAAAT-A
*
637451 CTACTGACAGATGTAGAGAGTGTAAGTAAACAGC-AAT-
1 CTACTGACAGATGTAGAGAGTGTAAGTAAAGAGCAAATA
*
637488 -TACAGACAGATGTA
1 CTACTGACAGATGTA
637502 AAAATTGTAC
Statistics
Matches: 75, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
36 13 0.17
39 5 0.07
40 25 0.33
41 28 0.37
42 4 0.05
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (39 bp):
CTACTGACAGATGTAGAGAGTGTAAGTAAAGAGCAAATA
Found at i:637499 original size:36 final size:36
Alignment explanation
Indices: 637375--637501 Score: 110
Period size: 40 Copynumber: 3.3 Consensus size: 36
637365 ACCACCTACT
* * *
637375 GACAGATGTAGAGAGTGTAAGTAAAGAGCAAATACT
1 GACAGATGTAGAGAGTGTAAGTAAACAGCAATTACA
* * * *
637411 GATAGATCTGTGTAGAAAGTGTAAGTATTATAGCAATTAACTA
1 GACAGA----TGTAGAGAGTGTAAGTA-AACAGCAATT-AC-A
637454 CTGACAGATGTAGAGAGTGTAAGTAAACAGCAATTACA
1 --GACAGATGTAGAGAGTGTAAGTAAACAGCAATTACA
637492 GACAGATGTA
1 GACAGATGTA
637502 AAAATTGTAC
Statistics
Matches: 72, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
36 15 0.21
38 1 0.01
39 2 0.03
40 24 0.33
41 23 0.32
42 2 0.03
45 5 0.07
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (36 bp):
GACAGATGTAGAGAGTGTAAGTAAACAGCAATTACA
Found at i:640338 original size:146 final size:146
Alignment explanation
Indices: 639639--640306 Score: 1158
Period size: 146 Copynumber: 4.6 Consensus size: 146
639629 CTTTTGTAGA
639639 CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCA
1 CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCA
* * *
639704 TGACCTTGTCCCAAAGTCATTCTGACAAGGTCAAGGTCACTGGCAGAAAAAGTGCAAAATTCGTG
66 TGACCTTGACCCAAGGTCATTCTGGCAAGGTCAAGGTCACTGGCAGAAAAAGTGCAAAATTCGTG
639769 TCCGGCCCATATCTTT
131 TCCGGCCCATATCTTT
639785 CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCA
1 CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCA
*
639850 TGACCTTGACCCAAGGTCATTCTGGCAGGGTCAAGGTCACTGGCAGAAAAAGTGCAAAATTCGTG
66 TGACCTTGACCCAAGGTCATTCTGGCAAGGTCAAGGTCACTGGCAGAAAAAGTGCAAAATTCGTG
639915 TCCGGCCCATATCTTT
131 TCCGGCCCATATCTTT
639931 CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCA
1 CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCA
* *
639996 TGACCTTGACCCAAGGTCATTCTGGCAGGGTCAAGGTCACTGGCAGAAAAAATGCAAAATTCGTG
66 TGACCTTGACCCAAGGTCATTCTGGCAAGGTCAAGGTCACTGGCAGAAAAAGTGCAAAATTCGTG
*
640061 TCCGGTCCATATCTTT
131 TCCGGCCCATATCTTT
*
640077 CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAAGGTGTGTCA
1 CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCA
* *
640142 TGACCTTGTCCCAAGGTCATTCAGGCAAGGTCAAGGTCACTGGCAGAAAAAGTGCAAAATTCGTG
66 TGACCTTGACCCAAGGTCATTCTGGCAAGGTCAAGGTCACTGGCAGAAAAAGTGCAAAATTCGTG
* *
640207 TCCGGTCCATATCTTC
131 TCCGGCCCATATCTTT
* * * * * *
640223 CCTATTGAGAAGCATT-GAATGTTCTTACTTCACACAAATATTGCCTATGACCAAAGGGTGTGTC
1 CTTATGGAGAAACATTGGAA-GTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTC
640287 ATGACCTTGACCCAAGGTCA
65 ATGACCTTGACCCAAGGTCA
640307 ATTGAAGAAG
Statistics
Matches: 501, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
145 3 0.01
146 498 0.99
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (146 bp):
CTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGCTTATGACCTAAGGGTGTGTCA
TGACCTTGACCCAAGGTCATTCTGGCAAGGTCAAGGTCACTGGCAGAAAAAGTGCAAAATTCGTG
TCCGGCCCATATCTTT
Found at i:651707 original size:2 final size:2
Alignment explanation
Indices: 651700--651769 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
651690 CATCAAATAA
*
651700 AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
651742 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
651770 NNNNNNNNNN
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:658387 original size:2 final size:2
Alignment explanation
Indices: 658380--658431 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
658370 CATCAAATAA
*
658380 AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
658422 AG AG AG AG AG
1 AG AG AG AG AG
658432 CAACTTTCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:658977 original size:23 final size:23
Alignment explanation
Indices: 658906--658977 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
658896 TTTTAGCCCT
*
658906 ATGTAATTTTTGCCGTTCCACAC
1 ATGTAATTTTGGCCGTTCCACAC
* *
658929 ATATCATTTTGGCCGTTCCACAC
1 ATGTAATTTTGGCCGTTCCACAC
* *
658952 ATGTAATTTTGGCCTTTGCACAC
1 ATGTAATTTTGGCCGTTCCACAC
658975 ATG
1 ATG
658978 GAAACAGTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (23 bp):
ATGTAATTTTGGCCGTTCCACAC
Found at i:661691 original size:2 final size:2
Alignment explanation
Indices: 661684--661742 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
661674 GGGGATGGGG
*
661684 GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA G- GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
661725 GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA
661743 TGTATCACTA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:678373 original size:2 final size:2
Alignment explanation
Indices: 678366--678419 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
678356 TTTTAGCTCT
678366 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
678408 GA GA GA GA GA GA
1 GA GA GA GA GA GA
678420 TGCTTGCATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:680562 original size:135 final size:135
Alignment explanation
Indices: 680430--680712 Score: 328
Period size: 135 Copynumber: 2.1 Consensus size: 135
680420 ACTATCCAGT
* * *
680430 ACAAGAAACAGCAACA-ACAACAGAAAAAGA-GGC-C-CAACAGACAACAACAGCAGTTACAAAC
1 ACAAGAAACAACAACAGA-AA-AGAAAAAGACGCCTCTCAACAGACAACAACAGCAGTTAAAAAC
* *
680491 CAA-CAACTAATAGCCATGACGATTAAAACAACAAAACCATCGCCAAATACCTTGTCCAGTCTGA
64 CAATC-ACTAATAGCCATGACGACTAAAACAACAAAACCATCGCCAAATACCTTGTCCAGTCTAA
680555 TACATCCA
128 TACATCCA
* * *** * * *
680563 ACAAG-AACAACAACAGAAATGGAGTCGACTGCCTCTCAGCAGTCAACAACAGTAGTTAAAAACC
1 ACAAGAAACAACAACAGAAAAGAAAAAGAC-GCCTCTCAACAGACAACAACAGCAGTTAAAAACC
* * * *
680627 AATCACTTATAGCCGTGACGACTAAAACAACAAAACCATCGCCAAATACCTTGTCTAGTCTAATG
65 AATCACTAATAGCCATGACGACTAAAACAACAAAACCATCGCCAAATACCTTGTCCAGTCTAATA
680692 CATCCA
130 CATCCA
680698 ACAA-AAACAACAACA
1 ACAAGAAACAACAACA
680713 TCAAACATAA
Statistics
Matches: 126, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
131 4 0.03
132 11 0.09
133 8 0.06
134 1 0.01
135 101 0.80
136 1 0.01
ACGTcount: A:0.46, C:0.27, G:0.12, T:0.14
Consensus pattern (135 bp):
ACAAGAAACAACAACAGAAAAGAAAAAGACGCCTCTCAACAGACAACAACAGCAGTTAAAAACCA
ATCACTAATAGCCATGACGACTAAAACAACAAAACCATCGCCAAATACCTTGTCCAGTCTAATAC
ATCCA
Found at i:680736 original size:12 final size:12
Alignment explanation
Indices: 680696--680739 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
680686 CTAATGCATC
680696 CAACAAAAACAA
1 CAACAAAAACAA
*
680708 CAACATCAAACATAA
1 CAACA--AAA-ACAA
680723 CAACAAAAACAA
1 CAACAAAAACAA
680735 CAACA
1 CAACA
680740 GAAATGGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 13 0.48
13 3 0.11
14 3 0.11
15 8 0.30
ACGTcount: A:0.68, C:0.27, G:0.00, T:0.05
Consensus pattern (12 bp):
CAACAAAAACAA
Found at i:686154 original size:13 final size:13
Alignment explanation
Indices: 686136--686160 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
686126 TAGAATTTGC
686136 AAATAATTTTATA
1 AAATAATTTTATA
686149 AAATAATTTTAT
1 AAATAATTTTAT
686161 TACGTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATAATTTTATA
Found at i:691728 original size:30 final size:30
Alignment explanation
Indices: 691644--691739 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
691634 TGAGTTTTAG
* * * *
691644 GTATTATCTGAACTGTCTTTTGAGTTTATA
1 GTATTATATTAACTGTCTTTTGAATTTACA
* ** * * *
691674 GCAACATTTTAACTATCTTCTGAATTTACA
1 GTATTATATTAACTGTCTTTTGAATTTACA
*
691704 GTATTATATTAACTGTCTTTTGAATTAACA
1 GTATTATATTAACTGTCTTTTGAATTTACA
691734 GTATTA
1 GTATTA
691740 GCTCAAGTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.46
Consensus pattern (30 bp):
GTATTATATTAACTGTCTTTTGAATTTACA
Found at i:691882 original size:23 final size:22
Alignment explanation
Indices: 691864--691905 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
691854 ATAAAGTATC
691864 ATTAAAAATGAATTTAAAGTAA
1 ATTAAAAATGAATTTAAAGTAA
* *
691886 ATTTAGAATGAATTTAAAGT
1 ATTAAAAATGAATTTAAAGT
691906 TAACTGTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (22 bp):
ATTAAAAATGAATTTAAAGTAA
Found at i:692334 original size:4 final size:4
Alignment explanation
Indices: 692296--692353 Score: 73
Period size: 4 Copynumber: 14.8 Consensus size: 4
692286 ATCACATTTT
* * * *
692296 GTCC GT-C GTCC GTCT GTCC GTCT GTCT GTCT GTCC GTCC GTCC GTCC
1 GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC GTCC
692343 GTCC GTCC GTC
1 GTCC GTCC GTC
692354 TGTAAACTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 3 0.06
4 46 0.94
ACGTcount: A:0.00, C:0.41, G:0.26, T:0.33
Consensus pattern (4 bp):
GTCC
Found at i:692723 original size:20 final size:19
Alignment explanation
Indices: 692677--692725 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
692667 CCTACTAAAC
*
692677 AGAGAACTCTAAACATGCT
1 AGAGAACTCTAAACATCCT
*
692696 AAAGAACTCTAGAGA-ATCCT
1 AGAGAACTCTA-A-ACATCCT
692716 AGAGAACTCT
1 AGAGAACTCT
692726 GGGATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.40
20 14 0.56
21 1 0.04
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (19 bp):
AGAGAACTCTAAACATCCT
Found at i:696758 original size:65 final size:65
Alignment explanation
Indices: 696667--696850 Score: 255
Period size: 72 Copynumber: 2.8 Consensus size: 65
696657 ACGTTGTCTG
* *
696667 TTAATTTTACAGCATCAACTGCACAAACCTTTTTTAGGGACAGTATTATTAGAAATAATGTTCAA
1 TTAAGTTTACAGCATCAACTGAACAAACCTTTTTTAGGGACAGTATTATTAGAAATAATGTTCAA
696732 TTAAGTTTACAGCATCAACTGAACAAACCTTTTTTAGTGACAGTACTAGGTATTATTAGAAATAA
1 TTAAGTTTACAGCATCAACTGAACAAACCTTTTTTAG-G---G-AC-A-GTATTATTAGAAATAA
696797 TGTTCAA
59 TGTTCAA
* *
696804 TTAAGTTTACAGCATCAACTGAACTAA-CTTTTTCA-GGACAGTATTAT
1 TTAAGTTTACAGCATCAACTGAACAAACCTTTTTTAGGGACAGTATTAT
696851 AAGATATTAT
Statistics
Matches: 108, Mismatches: 4, Indels: 16
0.84 0.03 0.12
Matches are distributed among these distances:
63 7 0.06
64 1 0.01
65 37 0.34
66 2 0.02
69 2 0.02
70 2 0.02
71 8 0.07
72 49 0.45
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (65 bp):
TTAAGTTTACAGCATCAACTGAACAAACCTTTTTTAGGGACAGTATTATTAGAAATAATGTTCAA
Found at i:700669 original size:21 final size:21
Alignment explanation
Indices: 700643--700690 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
700633 TTAAAATGAT
*
700643 CTTTGACCTTTCACATAAGAC
1 CTTTGACCTTTCACAGAAGAC
700664 CTTTGACCTTTCACAGAAGAC
1 CTTTGACCTTTCACAGAAGAC
700685 CTTTGA
1 CTTTGA
700691 ACCACATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (21 bp):
CTTTGACCTTTCACAGAAGAC
Found at i:711311 original size:168 final size:167
Alignment explanation
Indices: 711137--711942 Score: 1207
Period size: 168 Copynumber: 4.9 Consensus size: 167
711127 ACATGTGTGG
*
711137 GAGTAGAGAAGAAGATTTTCTTAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACCC
1 GAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACCC
* * * * *
711202 TAGAGCATGAACACCTAACAAAGGTGTCATGAATTTCACAATTTTA-GTAGAGAGCCTCATGGAC
66 TAGAGCCTGAAC-CCTAACAAAGGGGTCATGAATTTCACAA-TTAAGGTAGAGGGCTTCATGGAC
*
711266 ATCATAATCATGCATTTAGTTTTTAACAAATATATATAA
129 ATCATAATCATGCATTTAGTTTTTAACAAATATATATGA
*
711305 GAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATCGGCCCCACCC
1 GAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACCC
* ** *
711370 TAGAGCCTGAACCCCTGACCGAGGGGTCGTGAATTTCACAATTAAGGTAGAGGGCTTCATGGACA
66 TAGAGCCTGAA-CCCTAACAAAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGACA
* *
711435 TCATAAACATGCATTTAGTTTTTAACAAATATATATGG
130 TCATAATCATGCATTTAGTTTTTAACAAATATATATGA
*
711473 GAGTAGAGAAGAAGATTTTCTAAGATTTAATATATTTTTACTATTTGGCCATATTGGCCCCACCC
1 GAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACCC
* ** *
711538 TAGAGCCTGAACCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGACAT
66 TAGAGCCTGAACCCTAACAAAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGACAT
711603 CATAATCATGC----A----TT----AATATATATGA
131 CATAATCATGCATTTAGTTTTTAACAAATATATATGA
*
711628 GAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGGCCCCACCC
1 GAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACCC
* *
711693 TAGAGCATGAACACCTAACAAAGGGGTCATGAATTTCACAATTAAGGTTGAGGGCTTCATGGACA
66 TAGAGCCTGAAC-CCTAACAAAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGACA
*
711758 TCATTATCATGCATTTAGTTTTTAACAAATATATATGA
130 TCATAATCATGCATTTAGTTTTTAACAAATATATATGA
*
711796 TAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACCC
1 GAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACCC
*
711861 TAGAGCCTGAACCC---C--TGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGACAT
66 TAGAGCCTGAACCCTAACAAAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGACAT
* *
711921 CATAACCATGCATTCAGTTTTT
131 CATAATCATGCATTTAGTTTTT
711943 TCCTCACATG
Statistics
Matches: 585, Mismatches: 38, Indels: 36
0.89 0.06 0.05
Matches are distributed among these distances:
155 84 0.14
156 58 0.10
159 2 0.00
160 1 0.00
162 62 0.11
163 1 0.00
164 3 0.01
167 66 0.11
168 307 0.52
169 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (167 bp):
GAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCACCC
TAGAGCCTGAACCCTAACAAAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGACAT
CATAATCATGCATTTAGTTTTTAACAAATATATATGA
Found at i:711735 original size:323 final size:323
Alignment explanation
Indices: 711134--711934 Score: 1200
Period size: 323 Copynumber: 2.5 Consensus size: 323
711124 CCCACATGTG
*
711134 TGGGAGTAGAGAAGAAGATTTTCTTAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCA
1 TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCA
* ** * * *
711199 CCCTAGAGCATGAACACCTAACAAAGGTGTCATGAATTTCACAATTTTA-GTAGAGAGCCTCATG
66 CCCTAGAGCCTGAAC-CCT-ACCCAGGGGTCATGAATTTCACAA-TTTAGGTAGAGGGCTTCATG
711263 GACATCATAATCATGCATTTAGTTTTTAACAAATATATATAAGAGTAGAGAAGAAGATTTTCTAA
128 GACATCATAATCATGC----A----TT---AAATATATATAAGAGTAGAGAAGAAGATTTTCTAA
* * * * **
711328 GATTTAATACATTTTTACTATTTGGCCATATCGGCCCCACCCTAGAGCCTGAACCCCTGACCGAG
182 GATTTAATACATTTTTACTATATGGCCATATCGGCCCCACCCTAGAGCATGAACACCTAACAAAG
*
711393 GGGTCGTGAATTTCACAATTAAGGTAGAGGGCTTCATGGACATCATAAACATGCATTTAGTTTTT
247 GGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGACATCATAAACATGCATTTAGTTTTT
711458 AACAAATATATA
312 AACAAATATATA
*
711470 TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATATATTTTTACTATTTGGCCATATTGGCCCCA
1 TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCA
711535 CCCTAGAGCCTGAACCCTGACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGA
66 CCCTAGAGCCTGAACCCT-ACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGA
*
711600 CATCATAATCATGCATT-AATATATATGAGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATT
130 CATCATAATCATGCATTAAATATATATAAGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATT
*
711664 TTTACTATATGGCCATATTGGCCCCACCCTAGAGCATGAACACCTAACAAAGGGGTCATGAATTT
195 TTTACTATATGGCCATATCGGCCCCACCCTAGAGCATGAACACCTAACAAAGGGGTCATGAATTT
* * *
711729 CACAATTAAGGTTGAGGGCTTCATGGACATCATTATCATGCATTTAGTTTTTAACAAATATATA
260 CACAATTAAGGTAGAGGGCTTCATGGACATCATAAACATGCATTTAGTTTTTAACAAATATATA
**
711793 TGATAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCA
1 TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCA
* *
711858 CCCTAGAGCCTGAA--C--CCCTGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATGGAC
66 CCCTAGAGCCTGAACCCTACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGAC
*
711919 ATCATAACCATGCATT
131 ATCATAATCATGCATT
711935 CAGTTTTTTC
Statistics
Matches: 437, Mismatches: 27, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
318 59 0.14
321 1 0.00
323 240 0.55
327 2 0.00
331 1 0.00
334 4 0.01
335 53 0.12
336 77 0.18
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (323 bp):
TGGGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGGCCCCA
CCCTAGAGCCTGAACCCTACCCAGGGGTCATGAATTTCACAATTTAGGTAGAGGGCTTCATGGAC
ATCATAATCATGCATTAAATATATATAAGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTT
TTACTATATGGCCATATCGGCCCCACCCTAGAGCATGAACACCTAACAAAGGGGTCATGAATTTC
ACAATTAAGGTAGAGGGCTTCATGGACATCATAAACATGCATTTAGTTTTTAACAAATATATA
Found at i:712007 original size:162 final size:164
Alignment explanation
Indices: 711620--711985 Score: 481
Period size: 162 Copynumber: 2.2 Consensus size: 164
711610 ATGCATTAAT
* * *
711620 ATATATGAGAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATATGGCCATATTGG
1 ATATATGATAGTAGAGAAGAAGATTTTCTAAAATTTAATA-ATTTTTACTATTTGGCCATATTGG
*
711685 CCCCACCCTAGAGCATGAACACCTAACAAAGGGGTCATGAATTTCACAATTAAGGTTGAGGGCTT
65 CCCCACCCTAGAGCATGAACACC--AC-AAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTT
* * * *
711750 CATGGACATCATTATCATGCATTTAGTTTTTAACAAAT
127 CATGGACATCATAACCATGCATTCAGTTTTTAACAAAC
*
711788 ATATATGATAGTAGAGAAGAAGATTTTCTAAGATTTAATACATTTTTACTATTTGGCCATATTGG
1 ATATATGATAGTAGAGAAGAAGATTTTCTAAAATTTAATA-ATTTTTACTATTTGGCCATATTGG
* *
711853 CCCCACCCTAGAGCCTGAAC-CC-C-TGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCAT
65 CCCCACCCTAGAGCATGAACACCACAAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCAT
** **
711915 GGACATCATAACCATGCATTCAGTTTTTTCCTCAC
130 GGACATCATAACCATGCATTCAGTTTTTAACAAAC
* *
711950 ATGTGTGGA-AGTAGAGAAGAAGATTTT-TGAAAATTT
1 ATATAT-GATAGTAGAGAAGAAGATTTTCT-AAAATTT
711986 GGCTTTTTTT
Statistics
Matches: 180, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
161 1 0.01
162 92 0.51
163 2 0.01
164 1 0.01
167 2 0.01
168 82 0.46
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (164 bp):
ATATATGATAGTAGAGAAGAAGATTTTCTAAAATTTAATAATTTTTACTATTTGGCCATATTGGC
CCCACCCTAGAGCATGAACACCACAAGGGGTCATGAATTTCACAATTAAGGTAGAGGGCTTCATG
GACATCATAACCATGCATTCAGTTTTTAACAAAC
Found at i:712157 original size:7 final size:7
Alignment explanation
Indices: 712147--712191 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
712137 AAAATTGTTA
712147 ACGCACG
1 ACGCACG
712154 ACGCACG
1 ACGCACG
*
712161 GCGCACG
1 ACGCACG
712168 ACGCACG
1 ACGCACG
*
712175 ACGCACA
1 ACGCACG
712182 ACGCACG
1 ACGCACG
712189 ACG
1 ACG
712192 ACGGACGAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.29, C:0.42, G:0.29, T:0.00
Consensus pattern (7 bp):
ACGCACG
Found at i:719036 original size:84 final size:84
Alignment explanation
Indices: 718895--719065 Score: 290
Period size: 84 Copynumber: 2.0 Consensus size: 84
718885 CAATATCTGA
* *
718895 AATTTATAAAGGTTAGATTTAAAGCTGACTTAAAATAATAGGGTAGTATATCGTTCAAATTAGTC
1 AATTTATAAAGGTTAGATTTAAAGCTGACTTAAAATAAAAGGGTAGCATATCGTTCAAATTAGTC
718960 TTTTAAAATATATTTTCAT
66 TTTTAAAATATATTTTCAT
*
718979 AATTTATAAAGGTTAGATTTATAA-CTGACTTAAAATAAAAGGGTAGCATATCGTTCAAATTGGT
1 AATTTATAAAGGTTAGATTTA-AAGCTGACTTAAAATAAAAGGGTAGCATATCGTTCAAATTAGT
*
719043 TTTTTAAAATATATTTTCAT
65 CTTTTAAAATATATTTTCAT
719063 AAT
1 AAT
719066 ATAAAACAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
84 80 0.98
85 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (84 bp):
AATTTATAAAGGTTAGATTTAAAGCTGACTTAAAATAAAAGGGTAGCATATCGTTCAAATTAGTC
TTTTAAAATATATTTTCAT
Found at i:719924 original size:14 final size:14
Alignment explanation
Indices: 719905--719934 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
719895 TTTGTTTTAA
719905 AAAGTAGTTTGTAT
1 AAAGTAGTTTGTAT
719919 AAAGTAGTTTGTAT
1 AAAGTAGTTTGTAT
719933 AA
1 AA
719935 TCCCATCAGT
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:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (14 bp):
AAAGTAGTTTGTAT
Found at i:721093 original size:2 final size:2
Alignment explanation
Indices: 721086--721134 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
721076 TCAAACACAG
721086 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
721128 GA GA GA G
1 GA GA GA G
721135 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:722672 original size:2 final size:2
Alignment explanation
Indices: 722665--722692 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
722655 NNNNNNNNNN
722665 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
722693 AACTGGTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:734912 original size:9 final size:9
Alignment explanation
Indices: 734898--734926 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
734888 AAAAATCACT
734898 TAGAAATAG
1 TAGAAATAG
734907 TAGAAATAG
1 TAGAAATAG
734916 TAGAAATAG
1 TAGAAATAG
734925 TA
1 TA
734927 AACTGTCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (9 bp):
TAGAAATAG
Found at i:735881 original size:2 final size:2
Alignment explanation
Indices: 735874--735916 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
735864 CTTTCTTCAG
735874 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
735916 T
1 T
735917 GTGTGTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:738259 original size:16 final size:17
Alignment explanation
Indices: 738222--738259 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
738212 TGTTGAAAAA
738222 TTTAAAGAAGAAAAATT
1 TTTAAAGAAGAAAAATT
* *
738239 GTTAAAGAA-AACAATT
1 TTTAAAGAAGAAAAATT
738255 TTTAA
1 TTTAA
738260 TAAATGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.55, C:0.03, G:0.11, T:0.32
Consensus pattern (17 bp):
TTTAAAGAAGAAAAATT
Found at i:739725 original size:142 final size:142
Alignment explanation
Indices: 739468--739757 Score: 571
Period size: 142 Copynumber: 2.0 Consensus size: 142
739458 ATCTACAAGA
739468 GCAAAACATTCGTATTCATAAGATACTCTGATAAACATCTCATGCTTAGAATTGTCTTTTTCACT
1 GCAAAACATTCGTATTCATAAGATACTCTGATAAACATCTCATGCTTAGAATTGTCTTTTTCACT
739533 TTGTCTCAATTTTCATTACAAACAAGATATCTGTGAGCCAATGCTCACTAGTGATACCCCCGCTC
66 TTGTCTCAATTTTCATTACAAACAAGATATCTGTGAGCCAATGCTCACTAGTGATACCCCCGCTC
739598 TGATGTGAATAT
131 TGATGTGAATAT
*
739610 NCAAAACATTCGTATTCATAAGATACTCTGATAAACATCTCATGCTTAGAATTGTCTTTTTCACT
1 GCAAAACATTCGTATTCATAAGATACTCTGATAAACATCTCATGCTTAGAATTGTCTTTTTCACT
739675 TTGTCTCAATTTTCATTACAAACAAGATATCTGTGAGCCAATGCTCACTAGTGATACCCCCGCTC
66 TTGTCTCAATTTTCATTACAAACAAGATATCTGTGAGCCAATGCTCACTAGTGATACCCCCGCTC
739740 TGATGTGAATAT
131 TGATGTGAATAT
739752 GCAAAA
1 GCAAAA
739758 TAAGCAAAGT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 146 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (142 bp):
GCAAAACATTCGTATTCATAAGATACTCTGATAAACATCTCATGCTTAGAATTGTCTTTTTCACT
TTGTCTCAATTTTCATTACAAACAAGATATCTGTGAGCCAATGCTCACTAGTGATACCCCCGCTC
TGATGTGAATAT
Found at i:740356 original size:331 final size:333
Alignment explanation
Indices: 739754--740713 Score: 1456
Period size: 331 Copynumber: 2.9 Consensus size: 333
739744 GTGAATATGC
* * * * * * *
739754 AAAATAAGCAAAGTCGA-CATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCCAC
1 AAAATAAACAAAGTC-ATCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCAC
* * *
739818 AATATAGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
65 AATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
739883 AAATCTTTGA-GGAAAATTTGTTTGAAAATTTTGGCT-AAAATAAACAAAGTAC-TCATTTAACA
130 AAATCTTTGACGG-AAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGT-CGTCATTTAACA
*
739945 GGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATACGGCATGCCTTAACAAACACTGT
193 GGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGT
* * * *
740010 GTAAAAATTTCAAGCATCTGCGATAAATAGCTGTTGAGAAATCTTTGATGGAAATTTGTTTGAAA
258 GTATAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAA
740075 ATTTTGGCT-A
323 ATTTTGGCTAA
* *
740085 AAAATAAACAAAGTCATCATTTCACAGGAAGTTTGACGTCCGATTGATTCAAAAATATATCCCAC
1 AAAATAAACAAAGTCATCATTTAACAGGAAG-TTGACGTCCGATTGATACAAAAATATATCCCAC
740150 AATATGGCATGCCTATACAAATAGTGTGTTAAAA-TTCAAGCATCTGCGATAAATAGTTGCTGAG
65 AATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
*
740214 AAATCTTAGACGGAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTCGTCATTTAACAGG
130 AAATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTCGTCATTTAACAGG
* *
740279 AAGTTGACG-CCGATTGGTACAAAAATATATCCCACGATATGGCATGCC-TATACAAATATTGTG
195 AAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTA-ACAAACACTGTG
740342 TATAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
259 TATAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
*
740407 TTTTGGTTAA
324 TTTTGGCTAA
* * * *
740417 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGA-ACAAAAATATAGCCCAC
1 AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATT-GATACAAAAATATATCCCAC
* * *
740481 GATATGGCATGCCTATACAAATACTGTG-TACAAATTTCAAGCATCTGCGATAAACAGTTGCTGA
65 AATATGGCATGCCTATACAAATAGTGTGTTA-AAATTTCAAGCATCTGCGATAAATAGTTGCTGA
* * * *
740545 GAATTCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAGTCGTCATTTAACA
129 GAAATCTTTGACGGAAATTTGTTTGAAAATTTTGGCT-AAAAATAAACAAAGTCGTCATTTAACA
*
740610 GGAAGTTGGCGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGT
193 GGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGT
*
740675 GT-TAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
258 GTAT-AAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
740714 TAAATGCGAC
Statistics
Matches: 576, Mismatches: 39, Indels: 25
0.90 0.06 0.04
Matches are distributed among these distances:
330 5 0.01
331 260 0.45
332 188 0.33
333 37 0.06
334 84 0.15
335 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (333 bp):
AAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
ATATGGCATGCCTATACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
AATCTTTGACGGAAATTTGTTTGAAAATTTTGGCTAAAAATAAACAAAGTCGTCATTTAACAGGA
AGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGTGTA
TAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAATT
TTGGCTAA
Found at i:740525 original size:167 final size:166
Alignment explanation
Indices: 739754--740713 Score: 1423
Period size: 167 Copynumber: 5.8 Consensus size: 166
739744 GTGAATATGC
* * * * * * * *
739754 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * *
739819 ATATAGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
66 ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
*
739884 AATCTTTGAGGAAAATTTGTTTGAAAATTTTGGCT-
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
739919 AAAATAAACAAAGTAC-TCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * * *
739983 GATACGGCATGCCT-TAACAAACACTGTGTAAAAATTTCAAGCATCTGCGATAAATAGCTGTTGA
65 GATATGGCATGCCTAT-ACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGA
* *
740047 GAAATCTTTGATGGAAATTTGTTTGAAAATTTTGGCTA
129 GAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* * * *
740085 AAAATAAACAAAGTCATCATTTCACAGGAAGTTTGACGTCCGATTGATTCAAAAATATATCCCAC
1 AAAATAAACAAAGTCGTCATTTAACAGGAAG-TTGACGTCCGATTGGTACAAAAATATATCCCAC
* * *
740150 AATATGGCATGCCTATACAAATAGTGTGTTAAAA-TTCAAGCATCTGCGATAAATAGTTGCTGAG
65 GATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
* *
740214 AAATCTTAGACGGAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
740251 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACG-CCGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
*
740315 ATATGGCATGCCTATACAAATATTGTG-TATAAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
66 ATATGGCATGCCTATACAAATACTGTGTTA-AAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
*
740379 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-A
* * * *
740417 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCTGATTGGAACAAAAATATAGCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* *
740482 ATATGGCATGCCTATACAAATACTGTG-TACAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
66 ATATGGCATGCCTATACAAATACTGTGTTA-AAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
* *
740546 AATTCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-A
* *
740584 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGGCGTCCGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* *
740649 ATATGGCATGCCT-TAACAAACACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAG
66 ATATGGCATGCCTAT-ACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAG
740713 A
130 A
740714 TAAATGCGAC
Statistics
Matches: 729, Mismatches: 54, Indels: 22
0.91 0.07 0.03
Matches are distributed among these distances:
163 2 0.00
164 53 0.07
165 214 0.29
166 159 0.22
167 298 0.41
168 3 0.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (166 bp):
AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
ATATGGCATGCCTATACAAATACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
Found at i:740746 original size:4 final size:4
Alignment explanation
Indices: 740744--740799 Score: 76
Period size: 4 Copynumber: 14.0 Consensus size: 4
740734 GTTACGGACG
* * * *
740744 GACA GACA GACA GACG GACA GACA GACA GACA TACA GACG GACG GACA
1 GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA GACA
740792 GACA GACA
1 GACA GACA
740800 CACAAGGGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.45, C:0.25, G:0.29, T:0.02
Consensus pattern (4 bp):
GACA
Found at i:742258 original size:120 final size:121
Alignment explanation
Indices: 741999--742267 Score: 318
Period size: 120 Copynumber: 2.3 Consensus size: 121
741989 ATGTACGGTT
* * * ** *
741999 AAAATTTGAACATTTTTTTTTATATATTTTATTACGGAGTTTGCCTTTTAATTTTACATATGATG
1 AAAATTTGAATATTTTTTTTTAAATATTTTAATACAAAGTTTGCCTTTCAATTTTACATATGATG
* * **
742064 GTTTAAACCATAAAATATCTATTAGTAAAGAAAAACTTCAAAATATGCAAGGGGCGTG
66 ATTTAAACCATAAAATATCTATTAGAAAAGAAAAAAATCAAAATA--CAAGGGGCGTG
* **
742122 AAAATTTGAATA---TTTTTCAAATATTTTAATACAAAGTTTGCCTTTCAATTTTTTATATGATG
1 AAAATTTGAATATTTTTTTTTAAATATTTTAATACAAAGTTTGCCTTTCAATTTTACATATGATG
* *
742184 ATTTTAACCATAATATATCTATTAGAAAAGAAAAAAAATC-AAA-A-AAGGGGCGTG
66 ATTTAAACCATAAAATATCTATTAGAAAAG-AAAAAAATCAAAATACAAGGGGCGTG
*
742238 AAAATGTGAATATTTTTTTTT-AATATTTTA
1 AAAATTTGAATATTTTTTTTTAAATATTTTA
742268 TACGAAACTT
Statistics
Matches: 125, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
116 21 0.17
118 9 0.07
119 6 0.05
120 71 0.57
121 7 0.06
123 11 0.09
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (121 bp):
AAAATTTGAATATTTTTTTTTAAATATTTTAATACAAAGTTTGCCTTTCAATTTTACATATGATG
ATTTAAACCATAAAATATCTATTAGAAAAGAAAAAAATCAAAATACAAGGGGCGTG
Found at i:761751 original size:18 final size:18
Alignment explanation
Indices: 761716--761754 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
761706 ATCAGCCGTT
*
761716 GTGGTTGTTGGAGTTGCA
1 GTGGTTGTTGGAGCTGCA
761734 GTGGTTGTT-GATGCTGCA
1 GTGGTTGTTGGA-GCTGCA
761752 GTG
1 GTG
761755 CTTGGGGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.10, C:0.08, G:0.44, T:0.38
Consensus pattern (18 bp):
GTGGTTGTTGGAGCTGCA
Found at i:761790 original size:36 final size:36
Alignment explanation
Indices: 761738--762041 Score: 349
Period size: 36 Copynumber: 8.1 Consensus size: 36
761728 GTTGCAGTGG
* *
761738 TTGTTGATGCTGCAGTGCTTGGGGGAGCCGTTGTGC
1 TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
* *
761774 TTGTGGATGCTGCAGTGCTTGGAGGAGCCGTTGTGC
1 TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
761810 TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
1 TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
* *
761846 TTGTAGATGCTGCAGTGCTTGCTGCGGTGCTTGGAGGAGCCGTTGTGC
1 TTGTGGATGCTGCA--G--TGCT----TG---GG-GGAGCCGTGGTGC
* *
761894 TTGTGAATGCTGCTGTGCTTGGGGGAGCCGTGGTGC
1 TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
* *
761930 TTGTAGATGCTGCTGTGCTTGGGGGAGCCGTGGTGC
1 TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
*
761966 TTGTGGATGCTGCTGTGCTTGGGGGAGCCGTGGTGC
1 TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
* * * *
762002 TTGTGGATGGTGCTGTGGTTTGGGGAGGCCGTGGT-C
1 TTGTGGATGCTGCAGTGCTTGGGGGA-GCCGTGGTGC
762038 TTGT
1 TTGT
762042 TGGNNNNNNN
Statistics
Matches: 239, Mismatches: 16, Indels: 26
0.85 0.06 0.09
Matches are distributed among these distances:
36 190 0.79
37 10 0.04
38 1 0.00
40 6 0.03
44 6 0.03
46 1 0.00
47 2 0.01
48 23 0.10
ACGTcount: A:0.08, C:0.16, G:0.44, T:0.32
Consensus pattern (36 bp):
TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
Found at i:761863 original size:18 final size:18
Alignment explanation
Indices: 761730--761866 Score: 91
Period size: 18 Copynumber: 7.6 Consensus size: 18
761720 TTGTTGGAGT
* *
761730 TGCAGTGGTTGTTGATGC
1 TGCAGTGCTTGTGGATGC
*
761748 TGCAGTGCTTGGGGGA-GC
1 TGCAGTGCTT-GTGGATGC
* **
761766 CGTTGTGCTTGTGGATGC
1 TGCAGTGCTTGTGGATGC
*
761784 TGCAGTGCTTGGAGGA-GC
1 TGCAGTGCTT-GTGGATGC
* **
761802 CGTTGTGCTTGTGGATGC
1 TGCAGTGCTTGTGGATGC
*
761820 TGCAGTGCTTGGGGGA-GC
1 TGCAGTGCTT-GTGGATGC
* ** *
761838 CGTGGTGCTTGTAGATGC
1 TGCAGTGCTTGTGGATGC
761856 TGCAGTGCTTG
1 TGCAGTGCTTG
761867 CTGCGGTGCT
Statistics
Matches: 86, Mismatches: 27, Indels: 12
0.69 0.22 0.10
Matches are distributed among these distances:
17 11 0.13
18 64 0.74
19 11 0.13
ACGTcount: A:0.10, C:0.16, G:0.42, T:0.31
Consensus pattern (18 bp):
TGCAGTGCTTGTGGATGC
Found at i:761888 original size:48 final size:48
Alignment explanation
Indices: 761817--761914 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 48
761807 TGCTTGTGGA
*
761817 TGCTGCAGTGCTTGGGGGAGCCGTGGTGCTTGT-AGATGCTGCAGTGCT
1 TGCTGCAGTGCTTGGAGGAGCCGTGGTGCTTGTGA-ATGCTGCAGTGCT
* * *
761865 TGCTGCGGTGCTTGGAGGAGCCGTTGTGCTTGTGAATGCTGCTGTGCT
1 TGCTGCAGTGCTTGGAGGAGCCGTGGTGCTTGTGAATGCTGCAGTGCT
761913 TG
1 TG
761915 GGGGAGCCGT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 44 0.98
49 1 0.02
ACGTcount: A:0.09, C:0.18, G:0.41, T:0.32
Consensus pattern (48 bp):
TGCTGCAGTGCTTGGAGGAGCCGTGGTGCTTGTGAATGCTGCAGTGCT
Found at i:761895 original size:18 final size:18
Alignment explanation
Indices: 761872--762004 Score: 76
Period size: 18 Copynumber: 7.4 Consensus size: 18
761862 GCTTGCTGCG
761872 GTGCTTGGAGGAGCCGTT
1 GTGCTTGGAGGAGCCGTT
* *
761890 GTGCTTGTGA--ATGCTGCT
1 GTGCTTG-GAGGA-GCCGTT
* *
761908 GTGCTTGGGGGAGCCGTG
1 GTGCTTGGAGGAGCCGTT
* * *
761926 GTGCTTGTA-GATGCTGCT
1 GTGCTTGGAGGA-GCCGTT
* *
761944 GTGCTTGGGGGAGCCGTG
1 GTGCTTGGAGGAGCCGTT
* * *
761962 GTGCTT-GTGGATGCTGCT
1 GTGCTTGGAGGA-GCCGTT
* *
761980 GTGCTTGGGGGAGCCGTG
1 GTGCTTGGAGGAGCCGTT
761998 GTGCTTG
1 GTGCTTG
762005 TGGATGGTGC
Statistics
Matches: 83, Mismatches: 24, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
17 8 0.10
18 66 0.80
19 9 0.11
ACGTcount: A:0.08, C:0.17, G:0.45, T:0.31
Consensus pattern (18 bp):
GTGCTTGGAGGAGCCGTT
Found at i:761896 original size:84 final size:79
Alignment explanation
Indices: 761781--762018 Score: 328
Period size: 84 Copynumber: 3.0 Consensus size: 79
761771 TGCTTGTGGA
*
761781 TGCTGCAGTGCTTGGAGGAGCCGTTGTGCTTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGC
1 TGCTGC-GTGCTTGGAGGAGCCGTTGTGCTTGTGGATGCTGCTGTGCTTGGGGGAGCCGTGGTGC
761846 TTGTAGATGCTGCAGTG
65 TTGTAGATGCTGC--TG
*
761863 CTTGCTGCGGTGCTTGGAGGAGCCGTTGTGCTTGTGAATGCTGCTGTGCTTGGGGGAGCCGTGGT
1 --TGCTGC-GTGCTTGGAGGAGCCGTTGTGCTTGTGGATGCTGCTGTGCTTGGGGGAGCCGTGGT
761928 GCTTGTAGATGCTGCTG
63 GCTTGTAGATGCTGCTG
*
761945 TGCT---TG---GG-GGAGCCGTGGTGCTTGTGGATGCTGCTGTGCTTGGGGGAGCCGTGGTGCT
1 TGCTGCGTGCTTGGAGGAGCCGTTGTGCTTGTGGATGCTGCTGTGCTTGGGGGAGCCGTGGTGCT
* *
762003 TGTGGATGGTGCTG
66 TGTAGATGCTGCTG
762017 TG
1 TG
762019 GTTTGGGGAG
Statistics
Matches: 147, Mismatches: 7, Indels: 12
0.89 0.04 0.07
Matches are distributed among these distances:
72 62 0.42
73 2 0.01
76 2 0.01
80 4 0.03
82 2 0.01
84 75 0.51
ACGTcount: A:0.08, C:0.17, G:0.44, T:0.31
Consensus pattern (79 bp):
TGCTGCGTGCTTGGAGGAGCCGTTGTGCTTGTGGATGCTGCTGTGCTTGGGGGAGCCGTGGTGCT
TGTAGATGCTGCTG
Found at i:761930 original size:120 final size:120
Alignment explanation
Indices: 761745--761986 Score: 394
Period size: 120 Copynumber: 2.0 Consensus size: 120
761735 TGGTTGTTGA
* * *
761745 TGCTGCAGTGCTTGGGGGAGCCGTTGTGCTTGTGGATGCTGCAGTGCTTGGAGGAGCCGTTGTGC
1 TGCTGCAGTGCTTGGAGGAGCCGTTGTGCTTGTGAATGCTGCAGTGCTTGGAGGAGCCGTGGTGC
*
761810 TTGTGGATGCTGCAGTGCTTGGGGGAGCCGTGGTGCTTGTAGATGCTGCAGTGCT
66 TTGTAGATGCTGCAGTGCTTGGGGGAGCCGTGGTGCTTGTAGATGCTGCAGTGCT
* * *
761865 TGCTGCGGTGCTTGGAGGAGCCGTTGTGCTTGTGAATGCTGCTGTGCTTGGGGGAGCCGTGGTGC
1 TGCTGCAGTGCTTGGAGGAGCCGTTGTGCTTGTGAATGCTGCAGTGCTTGGAGGAGCCGTGGTGC
* * *
761930 TTGTAGATGCTGCTGTGCTTGGGGGAGCCGTGGTGCTTGTGGATGCTGCTGTGCT
66 TTGTAGATGCTGCAGTGCTTGGGGGAGCCGTGGTGCTTGTAGATGCTGCAGTGCT
761985 TG
1 TG
761987 GGGGAGCCGT
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 112 1.00
ACGTcount: A:0.09, C:0.17, G:0.43, T:0.31
Consensus pattern (120 bp):
TGCTGCAGTGCTTGGAGGAGCCGTTGTGCTTGTGAATGCTGCAGTGCTTGGAGGAGCCGTGGTGC
TTGTAGATGCTGCAGTGCTTGGGGGAGCCGTGGTGCTTGTAGATGCTGCAGTGCT
Found at i:762434 original size:18 final size:18
Alignment explanation
Indices: 762411--762626 Score: 138
Period size: 18 Copynumber: 12.0 Consensus size: 18
762401 NNNNNNCGTT
762411 GTGCTTGTAGATGCTGCA
1 GTGCTTGTAGATGCTGCA
** * **
762429 GTGCTTGGGGGA-GCCGTT
1 GTGCTT-GTAGATGCTGCA
* *
762447 GTACTTGTAGATGCGGCA
1 GTGCTTGTAGATGCTGCA
* ** **
762465 GTGCTCGGGGGA-GCTGTG
1 GTGCT-TGTAGATGCTGCA
762483 GTGCTTGTAGATGCTGCA
1 GTGCTTGTAGATGCTGCA
*
762501 GTGCTTGCT-GATGCTTCA
1 GTGCTTG-TAGATGCTGCA
* *
762519 GTACTTATAGATGCTGCA
1 GTGCTTGTAGATGCTGCA
* *
762537 GTGCTTGCT-GATGCTTCG
1 GTGCTTG-TAGATGCTGCA
* *
762555 GTACTTATAGATGCTGCA
1 GTGCTTGTAGATGCTGCA
*
762573 GTGCTTGCT-GATGCTTCA
1 GTGCTTG-TAGATGCTGCA
* *
762591 GTACTTATAGATGCTGCA
1 GTGCTTGTAGATGCTGCA
762609 GTGCTTGCT-GATGCTGCA
1 GTGCTTG-TAGATGCTGCA
762627 TTACCTGTGG
Statistics
Matches: 144, Mismatches: 43, Indels: 22
0.69 0.21 0.11
Matches are distributed among these distances:
17 9 0.06
18 125 0.87
19 10 0.07
ACGTcount: A:0.16, C:0.19, G:0.33, T:0.33
Consensus pattern (18 bp):
GTGCTTGTAGATGCTGCA
Found at i:762454 original size:36 final size:36
Alignment explanation
Indices: 762407--762507 Score: 157
Period size: 36 Copynumber: 2.8 Consensus size: 36
762397 NNNNNNNNNN
762407 CGTTGTGCTTGTAGATGCTGCAGTGCTTGGGGGAGC
1 CGTTGTGCTTGTAGATGCTGCAGTGCTTGGGGGAGC
* * *
762443 CGTTGTACTTGTAGATGCGGCAGTGCTCGGGGGAGC
1 CGTTGTGCTTGTAGATGCTGCAGTGCTTGGGGGAGC
* *
762479 TGTGGTGCTTGTAGATGCTGCAGTGCTTG
1 CGTTGTGCTTGTAGATGCTGCAGTGCTTG
762508 CTGATGCTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.12, C:0.17, G:0.41, T:0.31
Consensus pattern (36 bp):
CGTTGTGCTTGTAGATGCTGCAGTGCTTGGGGGAGC
Found at i:762530 original size:36 final size:36
Alignment explanation
Indices: 762490--762623 Score: 259
Period size: 36 Copynumber: 3.7 Consensus size: 36
762480 GTGGTGCTTG
762490 TAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTA
1 TAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTA
*
762526 TAGATGCTGCAGTGCTTGCTGATGCTTCGGTACTTA
1 TAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTA
762562 TAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTA
1 TAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTA
762598 TAGATGCTGCAGTGCTTGCTGATGCT
1 TAGATGCTGCAGTGCTTGCTGATGCT
762624 GCATTACCTG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 96 1.00
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (36 bp):
TAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTA
Found at i:762530 original size:72 final size:72
Alignment explanation
Indices: 762411--762623 Score: 247
Period size: 72 Copynumber: 3.0 Consensus size: 72
762401 NNNNNNCGTT
** * *
762411 GTGCTTGTAGATGCTGCAGTGCTTGGGGGA-GCCGTT--GTACTTGTAGATGCGGCAGTGCTCGG
1 GTGCTTGTAGATGCTGCAGTGCTT-GCTGATG-C-TTCAGTACTTATAGATGCTGCAGTGCT-GG
*
762473 GGGA-GCTGT-G
62 CGGATGCT-TCG
* *
762483 GTGCTTGTAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTATAGATGCTGCAGTGCTTGCTGA
1 GTGCTTGTAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTATAGATGCTGCAGTGCTGGCGGA
762548 TGCTTCG
66 TGCTTCG
* * * *
762555 GTACTTATAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTATAGATGCTGCAGTGCTTGCTGA
1 GTGCTTGTAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTATAGATGCTGCAGTGCTGGCGGA
762620 TGCT
66 TGCT
762624 GCATTACCTG
Statistics
Matches: 127, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
70 2 0.02
71 8 0.06
72 117 0.92
ACGTcount: A:0.15, C:0.18, G:0.33, T:0.33
Consensus pattern (72 bp):
GTGCTTGTAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTATAGATGCTGCAGTGCTGGCGGA
TGCTTCG
Found at i:762653 original size:18 final size:18
Alignment explanation
Indices: 762629--762724 Score: 174
Period size: 18 Copynumber: 5.3 Consensus size: 18
762619 ATGCTGCATT
762629 ACCTGTGGATACTTCAGA
1 ACCTGTGGATACTTCAGA
*
762647 GCCTGTGGATACTTCAGA
1 ACCTGTGGATACTTCAGA
*
762665 ACCTGTAGATACTTCAGA
1 ACCTGTGGATACTTCAGA
762683 ACCTGTGGATACTTCAGA
1 ACCTGTGGATACTTCAGA
762701 ACCTGTGGATACTTCAGA
1 ACCTGTGGATACTTCAGA
762719 ACCTGT
1 ACCTGT
762725 AGATGCCTCA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 74 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (18 bp):
ACCTGTGGATACTTCAGA
Found at i:762662 original size:72 final size:72
Alignment explanation
Indices: 762490--762663 Score: 197
Period size: 72 Copynumber: 2.4 Consensus size: 72
762480 GTGGTGCTTG
* * * * * *
762490 TAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTATAGATGCTGCAGTGCTTGCTGATGCTTCG
1 TAGATACTGCAGAGCCTGCTGATACTTCAGTACTTATAGATGCTGCAGTGCTTGCTGATGCTGCA
*
762555 GTACTTA
66 GTACCTA
* * * *
762562 TAGATGCTGCAGTGCTTGCTGATGCTTCAGTACTTATAGATGCTGCAGTGCTTGCTGATGCTGCA
1 TAGATACTGCAGAGCCTGCTGATACTTCAGTACTTATAGATGCTGCAGTGCTTGCTGATGCTGCA
* *
762627 TTACCTG
66 GTACCTA
* *
762634 TGGATACTTCAGAGCCTG-TGGATACTTCAG
1 TAGATACTGCAGAGCCTGCT-GATACTTCAG
762664 AACCTGTAGA
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
71 1 0.01
72 89 0.99
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.34
Consensus pattern (72 bp):
TAGATACTGCAGAGCCTGCTGATACTTCAGTACTTATAGATGCTGCAGTGCTTGCTGATGCTGCA
GTACCTA
Found at i:772312 original size:165 final size:165
Alignment explanation
Indices: 772003--772400 Score: 428
Period size: 165 Copynumber: 2.4 Consensus size: 165
771993 GATCCGTGCA
* * * * *
772003 TAGTAATCTCACAAACTGTAGCATTATAGTTCTCGAGAAGAA-CTTTTTAAAAACATTTTCAATA
1 TAGTTATCTCACAAACTGAAGCATTATAGTTCTCGAGAAAAAGATTTTT--AAACATTTTCCATA
* * * *
772067 TATCTTTCTATGTTAAACTTTGAACCCCTTTTGGGGCCACAGTATTAGTCCAGTGCTAAAGTTTT
64 TATATTTCTATGCTAAACTTTGAACACCTCTTGGGGCCACAGTATTAGTCCAGTGCTAAAGTTTT
* * * *
772132 AATTATTTGGAATCTACATTATTTAAGGATGCTTGCC
129 AATAATTTCGAATCTACACTATTTAAGGATGCTTACC
* * * * * *
772169 TAGTTATCTCACAAGCTGAAGCATTATAGTTCCCTAGAAAAAGATTTTTCAACATTTTCCCTCTA
1 TAGTTATCTCACAAACTGAAGCATTATAGTTCTCGAGAAAAAGATTTTTAAACATTTTCCATATA
* ** **
772234 TATTTCTATGCTAAACTTTGAACACCTCTTGGGGCCCCAGTATTAGATTGAG-G-TCACGGCTTT
66 TATTTCTATGCTAAACTTTGAACACCTCTTGGGGCCACAGTATTAG-TCCAGTGCT-AAAG-TTT
* * *
772297 T-ATAATTTCGAATCTACACTATTTGAGGGTGCTTACG
128 TAATAATTTCGAATCTACACTATTTAAGGATGCTTACC
* * * *
772334 TAGTTATCTGACAAATTGATGCATTGTAGTTCTCGA-AAAGAAGATTTTTAAACATTTTCCATAT
1 TAGTTATCTCACAAACTGAAGCATTATAGTTCTCGAGAAA-AAGATTTTTAAACATTTTCCATAT
772398 ATA
65 ATA
772401 CCGGTACTTC
Statistics
Matches: 190, Mismatches: 37, Indels: 11
0.80 0.16 0.05
Matches are distributed among these distances:
164 4 0.02
165 138 0.73
166 43 0.23
167 5 0.03
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (165 bp):
TAGTTATCTCACAAACTGAAGCATTATAGTTCTCGAGAAAAAGATTTTTAAACATTTTCCATATA
TATTTCTATGCTAAACTTTGAACACCTCTTGGGGCCACAGTATTAGTCCAGTGCTAAAGTTTTAA
TAATTTCGAATCTACACTATTTAAGGATGCTTACC
Found at i:773167 original size:166 final size:165
Alignment explanation
Indices: 772956--773371 Score: 697
Period size: 166 Copynumber: 2.5 Consensus size: 165
772946 GGTCACGATT
* * ** * *
772956 TTTACAATCTTCACTATATATACAACCTTTTGTGTATGTATTGGCATTTTTGGTGAAGTGGTTCT
1 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
* *
773021 TGAGAAGAAGATTTTTAAACATTTTTCATATGTAGTTCTATGTTAAATTTTGATCCCCGCCTGGG
66 TGAGAAGAAGATTTTTAAACA-TTTTCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGGG
773086 GCCCCAGTTTTGGTCCAAGGGTCACGATTTTTACAA
130 GCCCCAGTTTTGGTCCAAGGGTCACGATTTTTACAA
* *
773122 TTTAGAATCTTCATTATACATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
1 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
* *
773187 TGAGAAGAAGATTTTTTAAACATTTTCCTATGTATTTCTATGTTAAACTTTGAACCCCGCCTGGG
66 TGAGAAGAAGA-TTTTTAAACATTTTCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGGG
*
773252 GCCCCAGTTTTGGTCCGAGGGTCACGATTTTTACAA
130 GCCCCAGTTTTGGTCCAAGGGTCACGATTTTTACAA
773288 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
1 TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
773353 TGAGAAGAAGATTTTTAAA
66 TGAGAAGAAGATTTTTAAA
773372 GACATGCACC
Statistics
Matches: 234, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
165 8 0.03
166 216 0.92
167 10 0.04
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (165 bp):
TTTAGAATCTTCACTATATATACAAGCTTTTGTGTAAATATTGGCATTTCTGGTGCAGTGGTTCT
TGAGAAGAAGATTTTTAAACATTTTCATATGTAGTTCTATGTTAAACTTTGAACCCCGCCTGGGG
CCCCAGTTTTGGTCCAAGGGTCACGATTTTTACAA
Found at i:774760 original size:4 final size:4
Alignment explanation
Indices: 774751--774798 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
774741 AGTTGCGTCT
* * * * *
774751 ACAG ACAG ACGG ACAG ACGG ACGG ACAG ACAG ACGG ACAG ACGG ACAG
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG
774799 GGTGAAACCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.40, C:0.25, G:0.35, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:774767 original size:8 final size:8
Alignment explanation
Indices: 774754--774798 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
774744 TGCGTCTACA
774754 GACAGACG
1 GACAGACG
774762 GACAGACG
1 GACAGACG
* *
774770 GACGGACA
1 GACAGACG
774778 GACAGACG
1 GACAGACG
774786 GACAGACG
1 GACAGACG
774794 GACAG
1 GACAG
774799 GGTGAAACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.38, C:0.24, G:0.38, T:0.00
Consensus pattern (8 bp):
GACAGACG
Found at i:774768 original size:12 final size:12
Alignment explanation
Indices: 774751--774792 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
774741 AGTTGCGTCT
774751 ACAGACAGACGG
1 ACAGACAGACGG
*
774763 ACAGACGGACGG
1 ACAGACAGACGG
774775 ACAGACAGACGG
1 ACAGACAGACGG
774787 ACAGAC
1 ACAGAC
774793 GGACAGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.40, C:0.26, G:0.33, T:0.00
Consensus pattern (12 bp):
ACAGACAGACGG
Found at i:775759 original size:18 final size:18
Alignment explanation
Indices: 775736--775777 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
775726 CCAACTGATG
*
775736 TATTATTACTATCACTAT
1 TATTATTAATATCACTAT
*
775754 TATTATTAATATTACTAT
1 TATTATTAATATCACTAT
775772 TATTAT
1 TATTAT
775778 CATTATTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (18 bp):
TATTATTAATATCACTAT
Found at i:775760 original size:6 final size:6
Alignment explanation
Indices: 775736--775795 Score: 57
Period size: 6 Copynumber: 10.0 Consensus size: 6
775726 CCAACTGATG
* * * * * *
775736 TATTAT TACTAT CACTAT TATTAT TAATAT TACTAT TATTAT CATTAT
1 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
*
775784 TATCAT TATTAT
1 TATTAT TATTAT
775796 AATCATTTGA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (6 bp):
TATTAT
Found at i:776015 original size:4 final size:4
Alignment explanation
Indices: 776006--776051 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
775996 ATACAATACA
* *
776006 GACG GACG GACA GACA GACG GACG GACG GACG GACG GAC- GACG GAC
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GAC
776052 AACGGGTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 3 0.08
4 36 0.92
ACGTcount: A:0.30, C:0.26, G:0.43, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:776020 original size:12 final size:12
Alignment explanation
Indices: 776003--776056 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
775993 ACAATACAAT
776003 ACAGACGGACGG
1 ACAGACGGACGG
*
776015 ACAGACAGACGG
1 ACAGACGGACGG
*
776027 ACGGACGGACGG
1 ACAGACGGACGG
*
776039 ACGGAC-GACGG
1 ACAGACGGACGG
776050 ACA-ACGG
1 ACAGACGG
776057 GTGATCAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 2 0.05
11 8 0.22
12 27 0.73
ACGTcount: A:0.33, C:0.26, G:0.41, T:0.00
Consensus pattern (12 bp):
ACAGACGGACGG
Found at i:777113 original size:11 final size:11
Alignment explanation
Indices: 777091--777121 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
777081 GTTTTTTATC
777091 TTCCTGGTAGGT
1 TTCCT-GTAGGT
777103 TTCCTGTAGGT
1 TTCCTGTAGGT
777114 TTCCTGTA
1 TTCCTGTA
777122 TAAAATCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.10, C:0.19, G:0.26, T:0.45
Consensus pattern (11 bp):
TTCCTGTAGGT
Found at i:779637 original size:13 final size:13
Alignment explanation
Indices: 779619--779644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
779609 TGACAAGCAA
779619 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
779632 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
779645 GAGACATNTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:779752 original size:32 final size:32
Alignment explanation
Indices: 779711--779804 Score: 152
Period size: 32 Copynumber: 2.9 Consensus size: 32
779701 TTCAGGCAAA
779711 GGGGTCATTTTTCTACGTAGAATAATGACCGG
1 GGGGTCATTTTTCTACGTAGAATAATGACCGG
*
779743 GGGGTCATTTTTCTGCGTAGAATAATGACCGG
1 GGGGTCATTTTTCTACGTAGAATAATGACCGG
* * *
779775 GGGGTCATTATTCTACGTCGAAAAATGACC
1 GGGGTCATTTTTCTACGTAGAATAATGACC
779805 CCCGGTCATT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (32 bp):
GGGGTCATTTTTCTACGTAGAATAATGACCGG
Found at i:780105 original size:32 final size:32
Alignment explanation
Indices: 780064--780141 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
780054 TTTTCGACGT
*
780064 AGAATAATGACCCCCCGGTCATTAATCTACGC
1 AGAAAAATGACCCCCCGGTCATTAATCTACGC
* *
780096 AGAAAAATGACCCCCCGGTCATTATTCTACGT
1 AGAAAAATGACCCCCCGGTCATTAATCTACGC
*
780128 AGAAAAATCACCCC
1 AGAAAAATGACCCC
780142 TTTGCCTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.21
Consensus pattern (32 bp):
AGAAAAATGACCCCCCGGTCATTAATCTACGC
Found at i:781075 original size:22 final size:22
Alignment explanation
Indices: 781050--781091 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
781040 TCCTTCCCAA
*
781050 CTTCGCACTCTGGCCTTCGCAT
1 CTTCGCACTCTCGCCTTCGCAT
*
781072 CTTCGCACTTTCGCCTTCGC
1 CTTCGCACTCTCGCCTTCGC
781092 CTTTTTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.07, C:0.43, G:0.17, T:0.33
Consensus pattern (22 bp):
CTTCGCACTCTCGCCTTCGCAT
Found at i:782111 original size:25 final size:25
Alignment explanation
Indices: 782064--782117 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
782054 AAACATGTGT
*
782064 TATTATATTGTATGATATAGTATGA
1 TATTATATTGTATGATATAGTATCA
*
782089 TATTGTATTGTATGATACT-GTATCA
1 TATTATATTGTATGATA-TAGTATCA
782114 TATT
1 TATT
782118 TGATAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (25 bp):
TATTATATTGTATGATATAGTATCA
Found at i:782385 original size:97 final size:98
Alignment explanation
Indices: 782267--782447 Score: 242
Period size: 97 Copynumber: 1.9 Consensus size: 98
782257 ATAATATATT
* * * *
782267 TTACAACATCATTAAATACAATTTTATGTAATTATTATGTTTAT-C-ATATAAACCAATATCATA
1 TTACAACATCATTAAATACAATTTCATGTAA-TATAAT-TTTATACTACAGAAACCAATATCATA
*
782330 TTATACAATAGTGTATGATACGATTTTGTATAATA
64 TTATACAATACTGTATGATACGATTTTGTATAATA
* * * *
782365 TTACAATATCATT-TATACAATTTCATTTGATATAATTTTATACTACAGAAACCAATATCATATT
1 TTACAACATCATTAAATACAATTTCATGTAATATAATTTTATACTACAGAAACCAATATCATATT
782429 ATACAATACTGTATGATAC
66 ATACAATACTGTATGATAC
782448 AATATCATAG
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
95 5 0.07
96 6 0.08
97 49 0.68
98 12 0.17
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (98 bp):
TTACAACATCATTAAATACAATTTCATGTAATATAATTTTATACTACAGAAACCAATATCATATT
ATACAATACTGTATGATACGATTTTGTATAATA
Found at i:782489 original size:20 final size:22
Alignment explanation
Indices: 782449--782494 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
782439 GTATGATACA
782449 ATATCATAGAATATACAATATT
1 ATATCATAGAATATACAATATT
*
782471 ATATCATAG-A-ATGCAATATT
1 ATATCATAGAATATACAATATT
782491 ATAT
1 ATAT
782495 TTTGCAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.57
21 1 0.04
22 9 0.39
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.37
Consensus pattern (22 bp):
ATATCATAGAATATACAATATT
Found at i:790292 original size:28 final size:28
Alignment explanation
Indices: 790268--790357 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
790258 TGACACCTTC
*
790268 CTATTGTGTATATCTGAATCACACCTGT
1 CTATTGTGTATACCTGAATCACACCTGT
* * *
790296 CTATTGTGTTTACCTAAATGACACCTGT
1 CTATTGTGTATACCTGAATCACACCTGT
790324 CTATTAG-GTATACCTGAATCACACCTGT
1 CTATT-GTGTATACCTGAATCACACCTGT
790352 CTATTG
1 CTATTG
790358 AGTACCGCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.02
28 52 0.96
29 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (28 bp):
CTATTGTGTATACCTGAATCACACCTGT
Found at i:793187 original size:28 final size:28
Alignment explanation
Indices: 793147--793218 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
793137 ACGATATACA
**
793147 TGTACCTGAATCACACATGTCTATTGTG
1 TGTACCTGAATCACACATGTCTATCATG
*
793175 TGTACCTGAATCACACATGTCTCTCATG
1 TGTACCTGAATCACACATGTCTATCATG
793203 TGTACCTGAATCACAC
1 TGTACCTGAATCACAC
793219 CTTTACCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (28 bp):
TGTACCTGAATCACACATGTCTATCATG
Found at i:794336 original size:15 final size:15
Alignment explanation
Indices: 794282--794332 Score: 75
Period size: 15 Copynumber: 3.3 Consensus size: 15
794272 AAAAAGTGTG
794282 AGTAATCAAACAGGA
1 AGTAATCAAACAGGA
794297 AGTAATACAAAACAGGA
1 AGTAAT-C-AAACAGGA
*
794314 AGTAGTCAAACAGGA
1 AGTAATCAAACAGGA
794329 AGTA
1 AGTA
794333 GTCATCACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 18 0.55
16 2 0.06
17 13 0.39
ACGTcount: A:0.53, C:0.12, G:0.22, T:0.14
Consensus pattern (15 bp):
AGTAATCAAACAGGA
Found at i:794880 original size:30 final size:30
Alignment explanation
Indices: 794846--795074 Score: 347
Period size: 30 Copynumber: 8.0 Consensus size: 30
794836 CAGAGGGCAA
794846 CAGGTAACTCAAACAGTCTCTACAGGACAT
1 CAGGTAACTCAAACAGTCTCTACAGGACAT
794876 CAGGTAACTCAAACAGTCTCTACAGGACAT
1 CAGGTAACTCAAACAGTCTCTACAGGACAT
794906 CAGGTAACTCAAACAGTCTCTACAGGACAT
1 CAGGTAACTCAAACAGTCTCTACAGGACAT
*
794936 ----TAACGACAAACAG-------AGGAC-T
1 CAGGTAAC-TCAAACAGTCTCTACAGGACAT
794955 GCAGGTAACTCAAACAGTCTCTACAGGACAT
1 -CAGGTAACTCAAACAGTCTCTACAGGACAT
794986 CAGGTAACTCAAACAGTCTCTACAGGACAT
1 CAGGTAACTCAAACAGTCTCTACAGGACAT
795016 CAGGTAACTCAAACAGTCTCTACAGGACAT
1 CAGGTAACTCAAACAGTCTCTACAGGACAT
795046 CAGGTAACTCAAACAGTCTCTACAGGACA
1 CAGGTAACTCAAACAGTCTCTACAGGACA
795075 CCAACGACAA
Statistics
Matches: 183, Mismatches: 2, Indels: 28
0.86 0.01 0.13
Matches are distributed among these distances:
19 1 0.01
20 5 0.03
23 7 0.04
24 4 0.02
26 4 0.02
27 7 0.04
30 154 0.84
31 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (30 bp):
CAGGTAACTCAAACAGTCTCTACAGGACAT
Found at i:794999 original size:110 final size:110
Alignment explanation
Indices: 794801--795047 Score: 449
Period size: 110 Copynumber: 2.2 Consensus size: 110
794791 GAGAAGGAGA
* *
794801 AACTGAAACAGTCTCTACAGGACATCAACGACAAACAGAGGGCAACAGGTAACTCAAACAGTCTC
1 AACTCAAACAGTCTCTACAGGACATCAACGACAAACAGAGGACAACAGGTAACTCAAACAGTCTC
794866 TACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
66 TACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
* **
794911 AACTCAAACAGTCTCTACAGGACATTAACGACAAACAGAGGACTGCAGGTAACTCAAACAGTCTC
1 AACTCAAACAGTCTCTACAGGACATCAACGACAAACAGAGGACAACAGGTAACTCAAACAGTCTC
794976 TACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
66 TACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
795021 AACTCAAACAGTCTCTACAGGACATCA
1 AACTCAAACAGTCTCTACAGGACATCA
795048 GGTAACTCAA
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 131 1.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (110 bp):
AACTCAAACAGTCTCTACAGGACATCAACGACAAACAGAGGACAACAGGTAACTCAAACAGTCTC
TACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
Found at i:795098 original size:140 final size:140
Alignment explanation
Indices: 794846--795127 Score: 528
Period size: 140 Copynumber: 2.0 Consensus size: 140
794836 CAGAGGGCAA
794846 CAGGTAACTCAAACAGTCTCTACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
1 CAGGTAACTCAAACAGTCTCTACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
**
794911 AACTCAAACAGTCTCTACAGGACATTAACGACAAACAGAGGACTGCAGGTAACTCAAACAGTCTC
66 AACTCAAACAGTCTCTACAGGACACCAACGACAAACAGAGGACTGCAGGTAACTCAAACAGTCTC
794976 TACAGGACAT
131 TACAGGACAT
794986 CAGGTAACTCAAACAGTCTCTACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
1 CAGGTAACTCAAACAGTCTCTACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
*
795051 AACTCAAACAGTCTCTACAGGACACCAACGACAAACAGAGGACTGCAGGTAACTCAAACAGTCTT
66 AACTCAAACAGTCTCTACAGGACACCAACGACAAACAGAGGACTGCAGGTAACTCAAACAGTCTC
*
795116 TACAGGGCAT
131 TACAGGACAT
795126 CA
1 CA
795128 ACGACAAACA
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 138 1.00
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.18
Consensus pattern (140 bp):
CAGGTAACTCAAACAGTCTCTACAGGACATCAGGTAACTCAAACAGTCTCTACAGGACATCAGGT
AACTCAAACAGTCTCTACAGGACACCAACGACAAACAGAGGACTGCAGGTAACTCAAACAGTCTC
TACAGGACAT
Found at i:795114 original size:50 final size:50
Alignment explanation
Indices: 795046--795183 Score: 222
Period size: 50 Copynumber: 2.8 Consensus size: 50
795036 TACAGGACAT
* *
795046 CAGGTAACTCAAACAGTCTCTACAGGACACCAACGACAAACAGAGGACTG
1 CAGGTAACTCAAACAGTCTCTACAGGACATCAACGACAAACAGAGGACGG
* *
795096 CAGGTAACTCAAACAGTCTTTACAGGGCATCAACGACAAACAGAGGACGG
1 CAGGTAACTCAAACAGTCTCTACAGGACATCAACGACAAACAGAGGACGG
* *
795146 CAGGTAACTCAAACAGTCTCTATAGGATATCAACGACA
1 CAGGTAACTCAAACAGTCTCTACAGGACATCAACGACA
795184 GCAGGTAACA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.15
Consensus pattern (50 bp):
CAGGTAACTCAAACAGTCTCTACAGGACATCAACGACAAACAGAGGACGG
Done.