Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008359.1 Hibiscus syriacus cultivar Beakdansim tig00111098_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1252926
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:657596 original size:36 final size:36
Alignment explanation
Indices: 657381--657681 Score: 230
Period size: 37 Copynumber: 8.4 Consensus size: 36
657371 ATATGATTTT
* * *
657381 GTTTAAAAAAATATTTTGAAAATGTATATAATATTTA
1 GTTTTAAAAAATATTTTGAAAA-CTATATAATATATA
*
657418 GTTTTTTAAAAAATACCTTTGAAAACTATATAATATATAA
1 G--TTTTAAAAAATA-TTTTGAAAACTATATAATATAT-A
* *
657458 TTTTTAAAACAAT-TTTAGAAAACATATATAATATATA
1 GTTTTAAAA-AATATTTTGAAAAC-TATATAATATATA
*
657495 GTTTT-TAAAATCATTTTGAAAACTTATATAATATATA
1 GTTTTAAAAAAT-ATTTTGAAAAC-TATATAATATATA
**
657532 GTTTT--AAAATCATTTTGAAATTTATATAATATATA
1 GTTTTAAAAAAT-ATTTTGAAAACTATATAATATATA
657567 GTTTTAAAAAATATTTTTGAAAAC-ATAT-A-ATATA
1 GTTTTAAAAAATA-TTTTGAAAACTATATAATATATA
* * ** * *
657601 GGTTTCAAACGT-TTTTTAAAAC--TATAACATATA
1 GTTTTAAAAAATATTTTGAAAACTATATAATATATA
* * * *
657634 GTTTGAAAACAT-TTTT-AAAATTATATAATATATG
1 GTTTTAAAAAATATTTTGAAAACTATATAATATATA
* *
657668 GTTTTGAAATATAT
1 GTTTTAAAAAATAT
657682 ATTATATATA
Statistics
Matches: 218, Mismatches: 30, Indels: 34
0.77 0.11 0.12
Matches are distributed among these distances:
31 3 0.01
32 14 0.06
33 17 0.08
34 31 0.14
35 23 0.11
36 22 0.10
37 54 0.25
38 20 0.09
39 25 0.11
40 9 0.04
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (36 bp):
GTTTTAAAAAATATTTTGAAAACTATATAATATATA
Found at i:657622 original size:32 final size:32
Alignment explanation
Indices: 657580--657676 Score: 83
Period size: 32 Copynumber: 2.9 Consensus size: 32
657570 TTAAAAAATA
* *
657580 TTTTTGAAAACATATAATATAGGTTT-CAAAC
1 TTTTTTAAAACATATAATATAGGTTTGAAAAC
657611 GTTTTTTAAAAC-TATAACATATA-GTTTGAAAAC
1 -TTTTTTAAAACATAT-A-ATATAGGTTTGAAAAC
* *
657644 ATTTTTAAAATTATATAATATATGGTTTTGAAA
1 TTTTTTAAAA-CATATAATATA-GG-TTTGAAA
657677 TATATATTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
31 3 0.06
32 29 0.55
33 10 0.19
34 4 0.08
35 7 0.13
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (32 bp):
TTTTTTAAAACATATAATATAGGTTTGAAAAC
Found at i:657649 original size:33 final size:31
Alignment explanation
Indices: 657556--657665 Score: 89
Period size: 32 Copynumber: 3.3 Consensus size: 31
657546 TTGAAATTTA
*
657556 TATAATATATAGTTTTAAAAAATATTTTTGAAAAC
1 TATAA-ATATAG-TTTAAAACAT-TTTTT-AAAAC
* *
657591 -ATATAATATAGGTTTCAAACGTTTTTTAAAAC
1 TATA-AATATA-GTTTAAAACATTTTTTAAAAC
*
657623 TATAACATATAGTTTGAAAACA-TTTTTAAAAT
1 TATAA-ATATAGTTT-AAAACATTTTTTAAAAC
657655 TATATAATATA
1 TATA-AATATA
657666 TGGTTTTGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
32 28 0.44
33 18 0.29
34 15 0.24
35 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (31 bp):
TATAAATATAGTTTAAAACATTTTTTAAAAC
Found at i:657687 original size:22 final size:23
Alignment explanation
Indices: 657646--657700 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
657636 TTGAAAACAT
657646 TTTTAAAATTATATAATATATGG
1 TTTTAAAATTATATAATATATGG
* * *
657669 TTTTGAAATATATATTATATATAG
1 TTTTAAAAT-TATATAATATATGG
657693 TTTTAAAA
1 TTTTAAAA
657701 CAATTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
TTTTAAAATTATATAATATATGG
Found at i:657789 original size:7 final size:7
Alignment explanation
Indices: 657738--657785 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
657728 ATTATTTTAT
657738 TTTATTC
1 TTTATTC
657745 TTTATTC
1 TTTATTC
657752 TTTATTC
1 TTTATTC
657759 TTTATTC
1 TTTATTC
657766 TTTATTC
1 TTTATTC
* *
657773 TTTTTTA
1 TTTATTC
657780 TTTATT
1 TTTATT
657786 ATTTTTTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTATTC
Found at i:657790 original size:14 final size:14
Alignment explanation
Indices: 657738--657792 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
657728 ATTATTTTAT
*
657738 TTTATTCTTTATTC
1 TTTATTCTTTTTTC
*
657752 TTTATTCTTTATTC
1 TTTATTCTTTTTTC
*
657766 TTTATTCTTTTTTA
1 TTTATTCTTTTTTC
*
657780 TTTATTATTTTTT
1 TTTATTCTTTTTT
657793 TTGTTTTTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATTCTTTTTTC
Found at i:659048 original size:2 final size:2
Alignment explanation
Indices: 659043--659074 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
659033 GTTTTCTTTG
659043 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
659075 TATTCTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:664295 original size:164 final size:164
Alignment explanation
Indices: 663968--664782 Score: 853
Period size: 164 Copynumber: 5.0 Consensus size: 164
663958 ACTCAAGGCC
* * * * * *
663968 AGAAGGGCTATCTGTCACC-AAGACCTTCGAATTCGACTACGCTCAGCTCCAAGGCATATCATTT
1 AGAAGGGTTATCTG-C-CCAAAGACCCTCGAGTTCGATTACACTCAGCTCGAAGGCATATCATTT
** * * * * *
664032 ATAGTATAACTCAAGACTAAAAGGGTTATTTGCCAACAAAGACCTTCGAGTTCAACTACGCTCAG
64 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAG
* * *
664097 CTCTAAGGCATATCATTTTCAGCATAGCTTAAGTCG
129 CTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
664133 AGAAGGGTTATCTG-CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAAGGCATATCATTTG
1 AGAAGGGTTATCTGCCCAAAGACCCTCGAGTTCGATTACACTCAGC-TCGAAGGCATATCATTTG
* ** *
664197 CAGCATAACTCAAGACTAGAACAGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAAC
65 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGC
* **
664262 TCCAAGGCATATCATTTGTAGCATAGTTTAAGTCG
130 TCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* * * * * * * *
664297 AGAAGGGCTATCTG-CCAAATACCCTCGAGTTTGATTATACTCAACTTCGAGGGCACATCATTTA
1 AGAAGGGTTATCTGCCCAAAGACCCTCGAGTTCGATTACACTCAGC-TCGAAGGCATATCATTTG
* *
664361 CATCATAACTCAAGGCTAGAAGGGTTATCTGTAACCAA-AAA-ACCTTCGAGTTCGACTACGCTA
65 CAGCATAACTCAAGGCTAGAAGGGTTATCTG---CCAACAAAGACCTTCGAGTTCGACTACGCTC
*
664424 AGCTCCAAGGCATATCATTTGCAGCATAACTTAAATCG
127 AGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* * * *
664462 AGAAGGGTTATCTGCCCACCAAAAGACCTTCGAGTTTGACTACACTCAGCTCTAAGGCATATCAT
1 AGAAGGGTTATCTG--C-CC-AAAGACCCTCGAGTTCGATTACACTCAGCTCGAAGGCATATCAT
* * *
664527 TTGCAGCATAACTCAAGGCTAGAAGGGTTATCTG-C--CAAAGACCTTCGAGTTCGATTACACTT
62 TTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTC
* * * * * *
664589 AGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGGCT
127 AGC-TCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
* * * ** *
664628 AGTAGGGTTATCTGCCAACAAAGACCATTGAGTTCGATTATGCTCAGCTC-AACGGCACATCATT
1 AGAAGGGTTATCTGCC--CAAAGACCCTCGAGTTCGATTACACTCAGCTCGAA-GGCATATCATT
* * * * * *
664692 TGCGGAATAGCTCAAGGCTAGAAAGGCTATCTG---TCAAAGACCTTCGAGTTCGACTACGCTCA
63 TGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCA
* * *
664754 GCTCCAAGGCACATCATTTACAACATAAC
128 GCTCCAAGGCATATCATTTGCAGCATAAC
664783 CCAAGGCAAG
Statistics
Matches: 555, Mismatches: 78, Indels: 36
0.83 0.12 0.05
Matches are distributed among these distances:
162 2 0.00
163 50 0.09
164 281 0.51
165 104 0.19
166 44 0.08
167 4 0.01
169 46 0.08
170 24 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (164 bp):
AGAAGGGTTATCTGCCCAAAGACCCTCGAGTTCGATTACACTCAGCTCGAAGGCATATCATTTGC
AGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCT
CCAAGGCATATCATTTGCAGCATAACTTAAGTCG
Found at i:664553 original size:250 final size:244
Alignment explanation
Indices: 663987--664804 Score: 869
Period size: 250 Copynumber: 3.3 Consensus size: 244
663977 ATCTGTCACC
* * * * *
663987 AAGACCTTCGAATTCGACTACGCTCAGCTCCAAGGCATATCATTTATAGTATAACTCAAGACTAA
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAG
* * * * * * * * *
664052 AAGGGTTATTTGCCAACAAAGACCTTCGAGTTCAACTACGCTCAGC-TCTAAGGCATATCATTTT
66 AAGGGCTATCTG-C--CAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
* * * * * * *
664116 CAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC-AAAGACCCTCGAGTTCGATTACACTCAGCTT
128 CAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAAAAACCTTCGAGTTCGATTACGCTCAGC-T
*
664180 CGAAGGCATATCATTTGCAGCATAACTCAAGACTAGAACA-GTTATCTGCCAACA
192 CCAAGGCATATCATTTGCAGCATAACTCAA-ACTAGAA-AGGTTATCTGCCAACA
* ** ** * * *
664234 AAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATCATTTGTAGCATAGTTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAG
* * * * * *
664299 AAGGGCTATCTGCCAAATACCCTCGAGTTTGATTATACTCAACTTCGAGGGCACATCATTTACAT
66 AAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
* *
664364 CATAACTCAAGGCTAGAAGGGTTATCTGTAACCAAAAAACCTTCGAGTTCGACTACGCTAAGCTC
131 CATAACTCAAGGCTAGAAGGGTTATCTG---CCAAAAAACCTTCGAGTTCGATTACGCTCAGCTC
* * * *
664429 CAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCCACCAA
193 CAAGGCATATCATTTGCAGCATAACTCAAA-CTAGAAAGGTTATCTG-CCAAC-A
* * * *
664484 AAGACCTTCGAGTTTGACTACACTCAGCTCTAAGGCATATCATTTGCAGCATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAG
* * *
664549 AAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTTAGCTTCGAGGGCACATCATTTGCAG
66 AAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
* *
664614 CATAACTCAAGGCTAGTAGGGTTATCTGCCAACAAAGACCATT-GAGTTCGATTATGCTCAGCT-
131 CATAACTCAAGGCTAGAAGGGTTATCTGCCAA-AAA-ACC-TTCGAGTTCGATTACGCTCAGCTC
* * * * * * *
664677 CAACGGCACATCATTTGCGGAATAGCTCAAGGCTAGAAAGGCTATCTG---TCA
193 CAA-GGCATATCATTTGCAGCATAACTCAA-ACTAGAAAGGTTATCTGCCAACA
* * * *
664728 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTACAACATAACCCAAGGCAAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAG
664793 AAGGGCTATCTG
66 AAGGGCTATCTG
664805 TCAATAAAAT
Statistics
Matches: 476, Mismatches: 81, Indels: 31
0.81 0.14 0.05
Matches are distributed among these distances:
244 91 0.19
245 41 0.09
246 1 0.00
247 70 0.15
248 50 0.11
249 82 0.17
250 141 0.30
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (244 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAG
AAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGCCAAAAAACCTTCGAGTTCGATTACGCTCAGCTCCAA
GGCATATCATTTGCAGCATAACTCAAACTAGAAAGGTTATCTGCCAACA
Found at i:665588 original size:36 final size:36
Alignment explanation
Indices: 665431--665756 Score: 238
Period size: 36 Copynumber: 9.1 Consensus size: 36
665421 GATTTTTTAA
*
665431 AAAAACATTTTGAAAA-TATATATAATATATAGTTTTTT
1 AAAATCATTTTGAAAACT-TATATAATATATAG--TTTT
* * *
665469 AAAAAAT-ACCTTTGAAAAC-TATATAATAGATAATTTTT
1 --AAAATCA-TTTTGAAAACTTATATAATATAT-AGTTTT
*
665507 AAAA-CAATTTTAGAAAACATATATAATATATAGTTTTT
1 AAAATC-ATTTT-GAAAACTTATATAATATATAG-TTTT
*
665545 AAAATCATTTTGAAAACTTATATAATAAATAGTTTT
1 AAAATCATTTTGAAAACTTATATAATATATAGTTTT
*
665581 AAAATCATTTTG-AAATTTATATAATATATAGTTTT
1 AAAATCATTTTGAAAACTTATATAATATATAGTTTT
*
665616 AAAAAACATTTTTGAAAAC--ATAT-A-ATATAGTTTT
1 -AAAATCA-TTTTGAAAACTTATATAATATATAGTTTT
* * *
665650 AAAA-CGTTTTTGAAAAC---TATAACATATAGTTTG
1 AAAATC-ATTTTGAAAACTTATATAATATATAGTTTT
* * *
665683 AAAA-CTTTTTTAAAA-TTATATAATATATGGTTTT
1 AAAATCATTTTGAAAACTTATATAATATATAGTTTT
**
665717 GAAAAT-ATCTTTG-AAA-TATATATTTTATATAGTTTT
1 -AAAATCAT-TTTGAAAACT-TATATAATATATAGTTTT
665753 AAAA
1 AAAA
665757 CAATTATATT
Statistics
Matches: 240, Mismatches: 24, Indels: 49
0.77 0.08 0.16
Matches are distributed among these distances:
31 3 0.01
32 21 0.09
33 18 0.08
34 23 0.10
35 35 0.15
36 51 0.21
37 32 0.13
38 31 0.13
39 13 0.05
40 13 0.05
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (36 bp):
AAAATCATTTTGAAAACTTATATAATATATAGTTTT
Found at i:665687 original size:33 final size:31
Alignment explanation
Indices: 665528--665709 Score: 107
Period size: 32 Copynumber: 5.3 Consensus size: 31
665518 AGAAAACATA
* *
665528 TATAATATATAGTTTTTAAAATCATTTTGAAAAC
1 TATAA-ATATAG--TTTAAAAACTTTTTGAAAAC
* *
665562 TTATATAATAAATAGTTTTAAAATCATTTTGAAATTTA-
1 -TATA-AAT--ATAG-TTTAAAAACTTTTTGAAA---AC
665600 TATAATATATAGTTTTAAAAAACATTTTTGAAAAC
1 TATAA-ATATAG-TTT-AAAAAC-TTTTTGAAAAC
*
665635 -ATATAATATAGTTTTAAAACGTTTTTGAAAAC
1 TATA-AATATAGTTTAAAAAC-TTTTTGAAAAC
* * *
665667 TATAACATATAGTTTGAAAACTTTTTTAAAAT
1 TATAA-ATATAGTTTAAAAACTTTTTGAAAAC
665699 TATATAATATA
1 TATA-AATATA
665710 TGGTTTTGAA
Statistics
Matches: 126, Mismatches: 7, Indels: 31
0.77 0.04 0.19
Matches are distributed among these distances:
32 35 0.28
33 21 0.17
34 10 0.08
35 15 0.12
36 26 0.21
37 18 0.14
39 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (31 bp):
TATAAATATAGTTTAAAAACTTTTTGAAAAC
Found at i:665737 original size:34 final size:33
Alignment explanation
Indices: 665448--665756 Score: 171
Period size: 35 Copynumber: 8.7 Consensus size: 33
665438 TTTTGAAAAT
**
665448 ATATATAATATATAGTTTTTTAAAAAATACCTTTGAAA
1 ATATATAATATATAG--TTTT--AAAATATTTTTG-AA
* * * *
665486 ACTATATAATAGATAATTTTTAAAACAATTTTAGAAAA
1 A-TATATAATATAT-AGTTTTAAAA-TATTTTTG--AA
665524 CATATATAATATATAGTTTTTAAAATCA-TTTTGAAA
1 -ATATATAATATATAG-TTTTAAAAT-ATTTTTG-AA
*
665560 ACTTATATAATAAATAGTTTTAAAATCA-TTTTGAA
1 A--TATATAATATATAGTTTTAAAAT-ATTTTTGAA
*
665595 ATTTATATAATATATAGTTTTAAAAAACATTTTTGAA
1 A--TATATAATATATAGTTTT--AAAATATTTTTGAA
* **
665632 A-ACAT-ATAATATAGTTTTAAAACGTTTTTGAA
1 ATATATAAT-ATATAGTTTTAAAATATTTTTGAA
* * *
665664 A-ACTATAACATATAGTTTGAAAACT-TTTTTAAA
1 ATA-TATAATATATAGTTTTAAAA-TATTTTTGAA
* *
665697 ATTATATAATATATGGTTTTGAAAATATCTTTGAA
1 A-TATATAATATATAGTTTT-AAAATATTTTTGAA
*
665732 ATATATATTTTATATAGTTTTAAAA
1 ATATATA--ATATATAGTTTTAAAA
665757 CAATTATATT
Statistics
Matches: 221, Mismatches: 28, Indels: 47
0.75 0.09 0.16
Matches are distributed among these distances:
32 15 0.07
33 25 0.11
34 34 0.15
35 38 0.17
36 34 0.15
37 34 0.15
38 28 0.13
39 12 0.05
40 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (33 bp):
ATATATAATATATAGTTTTAAAATATTTTTGAA
Found at i:665816 original size:24 final size:25
Alignment explanation
Indices: 665789--665848 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
665779 AGTATATTAT
665789 TTTATT-TTATTTTATTCTTTTTTA
1 TTTATTATTATTTTATTCTTTTTTA
* * * *
665813 TTTATTCTT-TTTTTTTGTTTTTTG
1 TTTATTATTATTTTATTCTTTTTTA
665837 TTT-TTATTATTT
1 TTTATTATTATTT
665849 ATTTAATCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 4 0.13
24 24 0.80
25 2 0.07
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (25 bp):
TTTATTATTATTTTATTCTTTTTTA
Found at i:665826 original size:15 final size:15
Alignment explanation
Indices: 665793--665825 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
665783 TATTATTTTA
665793 TTTTATTTTATTCTT
1 TTTTATTTTATTCTT
665808 TTTTA-TTTATTCTT
1 TTTTATTTTATTCTT
665822 TTTT
1 TTTT
665826 TTTGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTATTCTT
Found at i:667221 original size:16 final size:16
Alignment explanation
Indices: 667200--667234 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
667190 TCATTTTCTT
667200 ATTTTTTATTTATTTA
1 ATTTTTTATTTATTTA
667216 ATTTTTTATTTATTTA
1 ATTTTTTATTTATTTA
667232 ATT
1 ATT
667235 ATATATATAT
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:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTATTTATTTA
Found at i:667239 original size:2 final size:2
Alignment explanation
Indices: 667234--667286 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
667224 TTTATTTAAT
667234 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
667276 TA TA TA TA TA T
1 TA TA TA TA TA T
667287 TCCCTTAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:668378 original size:31 final size:31
Alignment explanation
Indices: 668340--668415 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 31
668330 AAAAAACATT
* ** *
668340 AGTTTTGGTCACTTACGTTATTGTTTTATTA
1 AGTTTTGGTCACTTACATTATCATTTTATCA
668371 AGTTTTGGTCACTTACATTATCATTTTATCA
1 AGTTTTGGTCACTTACATTATCATTTTATCA
668402 AGTTTTGGTCACTT
1 AGTTTTGGTCACTT
668416 CGACGTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.21, C:0.13, G:0.14, T:0.51
Consensus pattern (31 bp):
AGTTTTGGTCACTTACATTATCATTTTATCA
Found at i:673764 original size:125 final size:127
Alignment explanation
Indices: 673603--673845 Score: 391
Period size: 125 Copynumber: 1.9 Consensus size: 127
673593 TATTTATATA
*
673603 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAA-TAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * *
673668 TTAGCACATGATCATGACACGTGTCATTGGTGACACGTGTTACCACCTAATTATATATATGCT
65 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATATATATGCT
673731 ATCAATTTGGTCCT-AA-AAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGT
1 ATCAATTTGGTCCTAAATAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGT
* * * *
673794 TAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
673846 GAAGAAAATT
Statistics
Matches: 107, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
125 91 0.85
127 2 0.02
128 14 0.13
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (127 bp):
ATCAATTTGGTCCTAAATAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGT
TAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATATATATGCT
Found at i:674204 original size:28 final size:27
Alignment explanation
Indices: 674173--674235 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
674163 AGTTGATACA
*
674173 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
674201 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
674229 ATATTTT
1 ATATTTT
674236 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:674336 original size:16 final size:18
Alignment explanation
Indices: 674315--674348 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
674305 ATTTCTTATT
674315 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
674331 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
674349 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:674497 original size:20 final size:20
Alignment explanation
Indices: 674472--674510 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
674462 TACCTTAAAT
674472 TGAAGTATTTTAGAATTTAA
1 TGAAGTATTTTAGAATTTAA
674492 TGAAGTATTTTAGAATTTA
1 TGAAGTATTTTAGAATTTA
674511 GGGTTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (20 bp):
TGAAGTATTTTAGAATTTAA
Found at i:674747 original size:29 final size:29
Alignment explanation
Indices: 674695--674752 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
674685 GCAAGCGGAA
* *
674695 TAAATGTTGGGGGACTGTATTGCAAGTTT
1 TAAATGTTGGGGGACTGAAATGCAAGTTT
674724 TAAATGTTGGGGGACCT-AAATGCAAGTTT
1 TAAATGTTGGGGGA-CTGAAATGCAAGTTT
674753 CAGAAATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (29 bp):
TAAATGTTGGGGGACTGAAATGCAAGTTT
Found at i:675188 original size:35 final size:35
Alignment explanation
Indices: 675141--675226 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
675131 AAAACAGTCA
* * *
675141 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* * * *
675176 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
675211 TCAATTAAATTCTAAA
1 TCAATTTAATTCTAAA
675227 ATACTTCAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:675220 original size:21 final size:21
Alignment explanation
Indices: 675195--675237 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
675185 TTCTAAACCC
675195 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
675216 TAAATTCTAAAATACTTCAAT
1 TAAATTCTAAAATACTTCAAT
675237 T
1 T
675238 TAAGGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTCTAAAATACTTCAAT
Found at i:675389 original size:16 final size:18
Alignment explanation
Indices: 675357--675390 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
675347 TATTAATGTA
675357 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
675375 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
675391 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:676058 original size:130 final size:130
Alignment explanation
Indices: 675855--676102 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
675845 AATTTTCTTC
* * *
675855 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
675920 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * * *
675985 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
676050 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGAT
676103 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:677537 original size:17 final size:17
Alignment explanation
Indices: 677515--677547 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
677505 ATGTTTATTT
*
677515 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
677532 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
677548 TGTTATCTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:677771 original size:3 final size:3
Alignment explanation
Indices: 677763--677797 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
677753 ATTATTTGTA
677763 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
677798 AATTTATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:679883 original size:24 final size:22
Alignment explanation
Indices: 679856--679913 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
679846 ATTATATGAC
*
679856 TATATATTTATTTATATTGTATAG
1 TATATATATA-TTATATT-TATAG
* *
679880 TATATATATATTATGTTTATAT
1 TATATATATATTATATTTATAG
679902 TATATAATATAT
1 TATAT-ATATAT
679914 ACATACCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 9 0.30
23 12 0.40
24 9 0.30
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TATATATATATTATATTTATAG
Found at i:679902 original size:29 final size:28
Alignment explanation
Indices: 679856--679914 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
679846 ATTATATGAC
* *
679856 TATATATTTATTTATATTGTATAGTATA
1 TATATATTTATTTATATTATATAATATA
*
679884 TATATATTATGTTTATATTATATAATATA
1 TATATATT-TATTTATATTATATAATATA
679913 TA
1 TA
679915 CATACCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (28 bp):
TATATATTTATTTATATTATATAATATA
Found at i:679995 original size:2 final size:2
Alignment explanation
Indices: 679985--680062 Score: 62
Period size: 2 Copynumber: 41.5 Consensus size: 2
679975 TATATTCACG
* *
679985 TA TA T- TA TA TA GCA TA TT TA TA T- TA TA T- TA TA T- TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
680024 TA TA TA TA TA TA T- TA TA TCA T- TA TA TA TA CA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T
680063 TATTACATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
1 7 0.11
2 51 0.84
3 3 0.05
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (2 bp):
TA
Found at i:680010 original size:5 final size:5
Alignment explanation
Indices: 680002--680041 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
679992 TATAGCATAT
680002 TTATA TTATA TTATA TTATA -TATA -TATA TATATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA T-TATA TTATA T
680042 CATTATATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.24
5 20 0.61
6 5 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTATA
Found at i:680035 original size:19 final size:18
Alignment explanation
Indices: 679845--680075 Score: 122
Period size: 18 Copynumber: 12.3 Consensus size: 18
679835 AGTATAAACG
* *
679845 TATTATATGACTATATATT
1 TATTATAT-ATTATATATA
*
679864 TATT-TATATTGTATAGTA
1 TATTATATATTATATA-TA
* *
679882 TA-TATATATTATGTTTA
1 TATTATATATTATATATA
679899 TATTATATA--ATATATA
1 TATTATATATTATATATA
* *
679915 CA-TACCATATTATATACTA
1 TATTA-TATATTATATA-TA
*
679934 TA--ATATACTATATGATA
1 TATTATATATTATAT-ATA
679951 TAGTGGGTATATATTATGCCATTATA
1 TA-T---TATATATTAT---A-TATA
*
679977 TATTCACGTATATTATATAGCA
1 TATT-A--TATATTATATA-TA
679999 TATT-TATATTATAT-TA
1 TATTATATATTATATATA
680015 TATTATATATATATATATA
1 TATTATATAT-TATATATA
680034 TATTATATCATTATATATA
1 TATTATAT-ATTATATATA
* *
680053 CATTATATATTAT-TACA
1 TATTATATATTATATATA
680070 TATTAT
1 TATTAT
680076 TTATGACACA
Statistics
Matches: 167, Mismatches: 19, Indels: 54
0.70 0.08 0.22
Matches are distributed among these distances:
15 2 0.01
16 14 0.08
17 36 0.22
18 47 0.28
19 32 0.19
20 2 0.01
21 2 0.01
22 7 0.04
23 9 0.05
25 9 0.05
26 6 0.04
27 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.49
Consensus pattern (18 bp):
TATTATATATTATATATA
Found at i:680067 original size:21 final size:23
Alignment explanation
Indices: 680008--680072 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 23
679998 ATATTTATAT
*
680008 TATATTATATTATATATATATATA
1 TATATTATATTAT-TATATATACA
*
680032 TATATTATATCATTATATATACA
1 TATATTATATTATTATATATACA
*
680055 T-TA-TATATTATTACATAT
1 TATATTATATTATTATATAT
680073 TATTTATGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 13 0.35
22 2 0.05
23 10 0.27
24 12 0.32
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTATATTATTATATATACA
Found at i:687006 original size:2 final size:2
Alignment explanation
Indices: 686999--687029 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
686989 GTAAATTAAG
686999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
687030 AAGTTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:687137 original size:31 final size:31
Alignment explanation
Indices: 687046--687117 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
687036 AAAAACTAAT
* * *
687046 AATAAAATATATCTT-TAAAAGTTTAGATAAA
1 AATAAAATATATATTCTTAAA-TTTAAATAAA
687077 AATAAAATATATATTCTTAAATTTAAATAAA
1 AATAAAATATATATTCTTAAATTTAAATAAA
687108 AATAAAATAT
1 AATAAAATAT
687118 TTTTTAAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 33 0.89
32 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (31 bp):
AATAAAATATATATTCTTAAATTTAAATAAA
Found at i:696734 original size:31 final size:31
Alignment explanation
Indices: 696707--696781 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
696697 CGGGGCCGTG
696707 GGGCCTACCTAAGAACACATCT-AGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
696738 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
696769 GAGCCTACCTAAG
1 GGGCCTACCTAAG
696782 CACATTAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.28, C:0.32, G:0.27, T:0.13
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:696765 original size:62 final size:63
Alignment explanation
Indices: 696660--696781 Score: 142
Period size: 62 Copynumber: 2.0 Consensus size: 63
696650 CCCTAAGGGA
* * ** *
696660 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
696723 ACATC-TAGGGCC-GCAGGGCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAG
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAG
696782 CACATTAGAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
61 1 0.02
62 41 0.82
63 8 0.16
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:696948 original size:32 final size:31
Alignment explanation
Indices: 696912--696988 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
696902 CGGGGCCGTG
*
696912 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
696944 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
696975 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
696989 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:696971 original size:63 final size:63
Alignment explanation
Indices: 696865--696988 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
696855 CCCTAAGGGA
* * ** *
696865 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
696928 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAGA
696989 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:697865 original size:7 final size:7
Alignment explanation
Indices: 697853--697911 Score: 118
Period size: 7 Copynumber: 8.4 Consensus size: 7
697843 GTCAAAGAAA
697853 GTCAACG
1 GTCAACG
697860 GTCAACG
1 GTCAACG
697867 GTCAACG
1 GTCAACG
697874 GTCAACG
1 GTCAACG
697881 GTCAACG
1 GTCAACG
697888 GTCAACG
1 GTCAACG
697895 GTCAACG
1 GTCAACG
697902 GTCAACG
1 GTCAACG
697909 GTC
1 GTC
697912 GGGTCGGGTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:697931 original size:22 final size:22
Alignment explanation
Indices: 697903--697965 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
697893 CGGTCAACGG
697903 TCAACGGTCGGGTCGGGTCGGA
1 TCAACGGTCGGGTCGGGTCGGA
* *
697925 TCAACGGTCGGGTCTGGTCGGG
1 TCAACGGTCGGGTCGGGTCGGA
*
697947 TCAACAGTCGGGTCGGGTC
1 TCAACGGTCGGGTCGGGTC
697966 AGACCGGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.13, C:0.24, G:0.43, T:0.21
Consensus pattern (22 bp):
TCAACGGTCGGGTCGGGTCGGA
Found at i:697999 original size:28 final size:27
Alignment explanation
Indices: 697962--698050 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 27
697952 AGTCGGGTCG
* * *
697962 GGTCAGACCGGTCAAACCGATTCAGACC
1 GGTCAAACCGGTCAAACCG-GTCAAACC
*
697990 GGTCAAACCGGTTGAAACCGGTCAAACC
1 GGTCAAACCGG-TCAAACCGGTCAAACC
* *
698018 GGTCAGAACCGGTTGAAAACCCGTCAAACC
1 GGTCA-AACCGG-T-CAAACCGGTCAAACC
698048 GGT
1 GGT
698051 TTTCCAGCAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
28 21 0.40
29 15 0.29
30 16 0.31
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.15
Consensus pattern (27 bp):
GGTCAAACCGGTCAAACCGGTCAAACC
Found at i:698007 original size:10 final size:9
Alignment explanation
Indices: 697962--698050 Score: 79
Period size: 9 Copynumber: 9.3 Consensus size: 9
697952 AGTCGGGTCG
*
697962 GGTCAGACC
1 GGTCAAACC
697971 GGTCAAACC
1 GGTCAAACC
* *
697980 GATTCAGACC
1 G-GTCAAACC
697990 GGTCAAACC
1 GGTCAAACC
*
697999 GGTTGAAACC
1 GG-TCAAACC
698009 GGTCAAACC
1 GGTCAAACC
698018 GGTCAGAACC
1 GGTCA-AACC
*
698028 GGTTGAAAACC
1 GG-T-CAAACC
*
698039 CGTCAAACC
1 GGTCAAACC
698048 GGT
1 GGT
698051 TTTCCAGCAG
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
9 35 0.55
10 22 0.34
11 6 0.09
12 1 0.02
ACGTcount: A:0.30, C:0.29, G:0.26, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:698019 original size:19 final size:19
Alignment explanation
Indices: 697968--698030 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
697958 GTCGGGTCAG
* *
697968 ACCGGTCAAACCGATTCAG
1 ACCGGTCAAACCGGTTCAA
*
697987 ACCGGTCAAACCGGTTGAA
1 ACCGGTCAAACCGGTTCAA
698006 ACCGGTCAAACCGG-TCAGA
1 ACCGGTCAAACCGGTTCA-A
698025 ACCGGT
1 ACCGGT
698031 TGAAAACCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
18 2 0.05
19 37 0.95
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.14
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:698049 original size:20 final size:21
Alignment explanation
Indices: 698013--698051 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
698003 GAAACCGGTC
*
698013 AAACCGGTCAGAACCGGTTGA
1 AAACCCGTCAGAACCGGTTGA
698034 AAACCCGTCA-AACCGGTT
1 AAACCCGTCAGAACCGGTT
698052 TTCCAGCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.15
Consensus pattern (21 bp):
AAACCCGTCAGAACCGGTTGA
Found at i:704282 original size:32 final size:31
Alignment explanation
Indices: 704199--704330 Score: 83
Period size: 31 Copynumber: 4.2 Consensus size: 31
704189 AAAACGTTAC
704199 CCTAAGGAACATCTTAGGGCC-TGAGAGCCTA
1 CCTAA-GAACATCTTAGGGCCGTGAGAGCCTA
* * * * *
704230 CCCAAGATAGAT-TTCGGGGCCGTGGGGGCCTA
1 CCTAAGA-ACATCTT-AGGGCCGTGAGAGCCTA
* *
704262 CCTAAGACACATCTTAGGGCCG-CAGGGCCTA
1 CCTAAGA-ACATCTTAGGGCCGTGAGAGCCTA
** * * *
704293 CCCGAGAATAATCTCAGGGCCG-CAGAGCCTA
1 CCTAAGAA-CATCTTAGGGCCGTGAGAGCCTA
704324 CCTAAGA
1 CCTAAGA
704331 GTCACATTAG
Statistics
Matches: 78, Mismatches: 18, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
30 5 0.06
31 48 0.62
32 23 0.29
33 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.28, T:0.17
Consensus pattern (31 bp):
CCTAAGAACATCTTAGGGCCGTGAGAGCCTA
Found at i:704293 original size:31 final size:31
Alignment explanation
Indices: 704255--704330 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
704245 GGGGCCGTGG
* *
704255 GGGCCTACCTAAGACA-CATCTTAGGGCCGCA
1 GGGCCTACCTAAGA-ATAATCTCAGGGCCGCA
**
704286 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAATAATCTCAGGGCCGCA
*
704317 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
704331 GTCACATTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
30 1 0.03
31 36 0.97
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAATAATCTCAGGGCCGCA
Found at i:705199 original size:7 final size:7
Alignment explanation
Indices: 705183--705213 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
705173 GTCAAAGAAA
*
705183 GTCAATG
1 GTCAACG
705190 GTCAACG
1 GTCAACG
705197 GTCAACG
1 GTCAACG
705204 GTCAACG
1 GTCAACG
705211 GTC
1 GTC
705214 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:705220 original size:5 final size:5
Alignment explanation
Indices: 705210--705272 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
705200 AACGGTCAAC
* *
705210 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
705259 GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTC
705273 AAACCGGTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 42 0.84
7 8 0.16
ACGTcount: A:0.06, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:705229 original size:22 final size:22
Alignment explanation
Indices: 705203--705274 Score: 144
Period size: 22 Copynumber: 3.3 Consensus size: 22
705193 AACGGTCAAC
705203 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
705225 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
705247 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
705269 GGTCAA
1 GGTCAA
705275 ACCGGTTTCC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.11, C:0.22, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:707435 original size:85 final size:86
Alignment explanation
Indices: 707330--707500 Score: 335
Period size: 85 Copynumber: 2.0 Consensus size: 86
707320 AAATAAAATT
707330 GGAGCGAAAAAACAAATGAAATTTTAAGCCAAAATTTTGAGAAACTGACCAGGAAATTATGGTAG
1 GGAGCGAAAAAACAAATGAAATTTTAAGCCAAAATTTTGAGAAACTGACCAGGAAATTATGGTAG
707395 AAGATCTAGTCTTCCAGGAGA
66 AAGATCTAGTCTTCCAGGAGA
707416 GGAGCG-AAAAACAAATGAAATTTTAAGCCAAAATTTTGAGAAACTGACCAGGAAATTATGGTAG
1 GGAGCGAAAAAACAAATGAAATTTTAAGCCAAAATTTTGAGAAACTGACCAGGAAATTATGGTAG
707480 AAGATCTAGTCTTCCAGGAGA
66 AAGATCTAGTCTTCCAGGAGA
707501 TGACTTCAAC
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 79 0.93
86 6 0.07
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (86 bp):
GGAGCGAAAAAACAAATGAAATTTTAAGCCAAAATTTTGAGAAACTGACCAGGAAATTATGGTAG
AAGATCTAGTCTTCCAGGAGA
Found at i:720604 original size:19 final size:19
Alignment explanation
Indices: 720576--720624 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
720566 TTAACTTTTT
720576 CTTTTATCTTTCATTATTAA
1 CTTTTATCTTTCATT-TTAA
*
720596 -TTTTCTCTTTCATTTTAA
1 CTTTTATCTTTCATTTTAA
*
720614 CTTTTACCTTT
1 CTTTTATCTTT
720625 TCTCTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (19 bp):
CTTTTATCTTTCATTTTAA
Found at i:726345 original size:251 final size:248
Alignment explanation
Indices: 725901--726399 Score: 955
Period size: 251 Copynumber: 2.0 Consensus size: 248
725891 TTGCTTATGT
725901 GCTAGATTCAATCATGTCCTAAGGAATCACATTTACTAGCTGTTAAGAATCTTTAGATACCTTAA
1 GCTAGATTCAATCATGTCCTAAGGAATCACATTTACTAGCTGTTAAGAATCTTTAGATACCTTAA
725966 AGACACTCCTAGTTTAGGACTTGGTATCCTAGAGACTCTAGCTTTAGCTTGCATGCTTTTTCTGA
66 AGACACTCCTAGTTTAGGACTTGGTATCCTAGAGACTCTAGCTTTAGCTTGCATGCTTTTTCTGA
726031 TGCGGATTATGGAGGATGCAAATTAGATAGGAAAAGCACCTCCGGTACTGCCAATTCCCTTGGAA
131 TGCGGATTATGGAGGATGCAAATTAGATAGGAAAAGCACCTCCGGTACTGCCAATTCCCTTGGAA
726096 ATATGCTAATTTCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACC
196 ATATGCTAATTTCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACC
726149 GCTAGATTCAATCATGTCCTAAGGAATCACATTTACTAGCTGTTAAGAGAATCTTTAGATACCTT
1 GCTAGATTCAATCATGTCCTAAGGAATCACATTTACTAGCTGTT-A-AGAATCTTTAGATACCTT
726214 AAAGACACTCCTAGTTTAGGACTTTGGTATCCTAGAGACTCTAGCTTTAGCTTGCATGCTTTTTC
64 AAAGACACTCCTAGTTTAGGAC-TTGGTATCCTAGAGACTCTAGCTTTAGCTTGCATGCTTTTTC
726279 TGATGCGGATTATGGAGGATGCAAATTAGATAGGAAAAGCACCTCCGGTACTTGCCAATT-CCTT
128 TGATGCGGATTATGGAGGATGCAAATTAGATAGGAAAAGCACCTCCGGTAC-TGCCAATTCCCTT
726343 GGAAATATGCTAATTTCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACC
192 GGAAATATGCTAATTTCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACC
726400 ACTGAAGTCG
Statistics
Matches: 247, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
248 44 0.18
249 1 0.00
250 40 0.16
251 154 0.62
252 8 0.03
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (248 bp):
GCTAGATTCAATCATGTCCTAAGGAATCACATTTACTAGCTGTTAAGAATCTTTAGATACCTTAA
AGACACTCCTAGTTTAGGACTTGGTATCCTAGAGACTCTAGCTTTAGCTTGCATGCTTTTTCTGA
TGCGGATTATGGAGGATGCAAATTAGATAGGAAAAGCACCTCCGGTACTGCCAATTCCCTTGGAA
ATATGCTAATTTCTTGGTTTTCAAAGAAACAAAATTGTGTTGCATTATCTACC
Found at i:727780 original size:21 final size:21
Alignment explanation
Indices: 727756--727795 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
727746 ACCGTCAACC
*
727756 AAATCCACTTCCAAATCCTCA
1 AAATCCAATTCCAAATCCTCA
*
727777 AAATCCAATTCCTAATCCT
1 AAATCCAATTCCAAATCCT
727796 AATCCCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATCCAATTCCAAATCCTCA
Found at i:731294 original size:65 final size:65
Alignment explanation
Indices: 731161--731320 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 65
731151 TGCACTAAGA
* *
731161 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGTTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCAATGCATAGTTG
* * *
731225 GTGCATCGATGTATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCAATGCATAGT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCAATGCATAGT
731288 AT-
64 -TG
731290 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
731321 CAATTTATTC
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
64 28 0.33
65 53 0.62
66 4 0.05
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCAATGCATAGTTG
Found at i:731368 original size:65 final size:63
Alignment explanation
Indices: 731161--731361 Score: 203
Period size: 65 Copynumber: 3.1 Consensus size: 63
731151 TGCACTAAGA
* * *
731161 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCA-GAGTGCATCGATGCATGGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTC-AATTAACTATGAGTGCATCGATGCATGGTT
* * * * * *
731224 GGTGCATCGATGTATCAAATGCATTCGATGTTTTC-ATAAAACTCTGAGTGCATCAATGCATAGT
1 -GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAT-TAACTATGAGTGCATCGATGCATGGT
731288 AT
63 -T
*
731290 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCTATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA-TTA-ACTATGAGTGCATCGATGCATGG-T
731353 T
63 T
731354 GATGCATC
1 G-TGCATC
731362 AGTGCATCAC
Statistics
Matches: 112, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
63 4 0.04
64 47 0.42
65 60 0.54
66 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATTAACTATGAGTGCATCGATGCATGGTT
Found at i:734025 original size:23 final size:22
Alignment explanation
Indices: 733996--734077 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 22
733986 GCATGGCCTC
*
733996 GTGCATCGATACACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
734018 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
734040 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
734063 GATGCATCGATGCAC
1 G-TGCATCGATGCAC
734078 TGTTAAGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 15 0.32
22 2 0.04
23 18 0.38
24 12 0.26
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:740007 original size:65 final size:64
Alignment explanation
Indices: 739874--740031 Score: 203
Period size: 65 Copynumber: 2.5 Consensus size: 64
739864 TGCACTAAGA
* * *
739874 GTGCATCGATGTATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTACATCGATGCATGGTTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTACATCGATGCATAGTAG
* * * *
739938 GTGCATCGATGCATCAAATGCATTAGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAGC-CAGAGTACATCGATGCATAGT
740001 AG
63 AG
*
740003 GTGCATCGATACATGAAATGCATTCGATG
1 GTGCATCGATGCATGAAATGCATTCGATG
740032 CTTAATTTAT
Statistics
Matches: 81, Mismatches: 10, Indels: 5
0.84 0.10 0.05
Matches are distributed among these distances:
64 27 0.33
65 51 0.63
66 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATAGCCAGAGTACATCGATGCATAGTAG
Found at i:740071 original size:65 final size:65
Alignment explanation
Indices: 739917--740075 Score: 178
Period size: 65 Copynumber: 2.4 Consensus size: 65
739907 AAAATAGCCA
* * * * *
739917 GAGTACATCGATGCATGGTTGGTGCATCGATGCATCAAATGCATTAGATGTTTTCATAAAACTCT
1 GAGTGCATCGATGCATGGTTGGTGCATCGATACATCAAATGCATTAGATGTCTTAATAAAACTAT
* * * * * **
739982 GAGTGCATCGATGCATAGTAGGTGCATCGATACATGAAATGCATTCGATG-CTTAATTTATTCTA
1 GAGTGCATCGATGCATGGTTGGTGCATCGATACATCAAATGCATTAGATGTCTTAA-TAAAACTA
740046 T
65 T
740047 G-GTGCATCGATGCATGGATTGGTGCATCG
1 GAGTGCATCGATGCATGG-TTGGTGCATCG
740076 GTGCATCACT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
64 18 0.23
65 60 0.77
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (65 bp):
GAGTGCATCGATGCATGGTTGGTGCATCGATACATCAAATGCATTAGATGTCTTAATAAAACTAT
Found at i:741657 original size:40 final size:41
Alignment explanation
Indices: 741577--741659 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 41
741567 CCATCCAATC
* * *
741577 TTTAGGTTGCTAGATCGAATTCCCACTAGATGCAATAATGG
1 TTTAAGTTGCTAGATCGAATTCACACTAGATGCAAGAATGG
*
741618 TTTAAGTTGCTGGATCGAA-TCACACTAGATGCAAGAATGG
1 TTTAAGTTGCTAGATCGAATTCACACTAGATGCAAGAATGG
741658 TT
1 TT
741660 GTAGTTATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
40 21 0.55
41 17 0.45
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (41 bp):
TTTAAGTTGCTAGATCGAATTCACACTAGATGCAAGAATGG
Found at i:750213 original size:2 final size:2
Alignment explanation
Indices: 750206--750282 Score: 145
Period size: 2 Copynumber: 38.5 Consensus size: 2
750196 TCTCTTGTGC
750206 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
750248 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
750283 GACAAAACTT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 73 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:750426 original size:29 final size:29
Alignment explanation
Indices: 750384--750441 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
750374 GTGTTGGCCG
*
750384 TAGGTCGCCATGTCTTCCGGGCGACCTAC
1 TAGGTCGCCATGTCTTCCCGGCGACCTAC
*
750413 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGTCTTCCCGGCGACCTAC
750442 AAGAGATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGTCTTCCCGGCGACCTAC
Found at i:750503 original size:14 final size:14
Alignment explanation
Indices: 750484--750526 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
750474 CGCTGGGCAT
750484 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
750498 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
750512 CCGAAGCCATCCGA
1 CCGAGGCCATCCGA
750526 C
1 C
750527 AGCATCCGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.23, C:0.44, G:0.26, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:750511 original size:10 final size:10
Alignment explanation
Indices: 750498--750565 Score: 59
Period size: 10 Copynumber: 6.4 Consensus size: 10
750488 GGCCATCCGA
750498 CCGAGGCCAT
1 CCGAGGCCAT
750508 CCGACCGAAGCCAT
1 CCGA--G--GCCAT
*
750522 CCGACAG-CAT
1 CCGA-GGCCAT
750532 CCGAGGCCAT
1 CCGAGGCCAT
750542 CCGAGAG-CAT
1 CCGAG-GCCAT
750552 CCGAGGCCAT
1 CCGAGGCCAT
750562 CCGA
1 CCGA
750566 CCGAGGCCAT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
9 2 0.04
10 34 0.69
11 2 0.04
12 1 0.02
13 1 0.02
14 9 0.18
ACGTcount: A:0.25, C:0.40, G:0.26, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:750540 original size:20 final size:20
Alignment explanation
Indices: 750480--750566 Score: 93
Period size: 20 Copynumber: 4.0 Consensus size: 20
750470 AACACGCTGG
750480 GCATCCGAGGCCATCCGACCGA
1 GCATCCGAGGCCATCCGA-C-A
750502 GGCCATCCGACCGAAGCCATCCGACA
1 -G-CATCCGA--G--GCCATCCGACA
*
750528 GCATCCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGACA
750548 GCATCCGAGGCCATCCGAC
1 GCATCCGAGGCCATCCGAC
750567 CGAGGCCATC
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
20 28 0.49
22 1 0.02
23 1 0.02
24 14 0.25
25 1 0.02
26 2 0.04
27 1 0.02
28 9 0.16
ACGTcount: A:0.24, C:0.40, G:0.26, T:0.09
Consensus pattern (20 bp):
GCATCCGAGGCCATCCGACA
Found at i:750618 original size:33 final size:33
Alignment explanation
Indices: 750580--750651 Score: 117
Period size: 33 Copynumber: 2.2 Consensus size: 33
750570 GGCCATCTGA
*
750580 AACGAGCTATGCGAGGGCATCCGAGGGCAACCG
1 AACGAGCTATGCGAGGGAATCCGAGGGCAACCG
*
750613 AACGAGCTATGCGAGGGAATCCGAGGGCTACCG
1 AACGAGCTATGCGAGGGAATCCGAGGGCAACCG
*
750646 AGCGAG
1 AACGAG
750652 AGTAGGTCGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.38, T:0.10
Consensus pattern (33 bp):
AACGAGCTATGCGAGGGAATCCGAGGGCAACCG
Found at i:750688 original size:29 final size:29
Alignment explanation
Indices: 750655--750710 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
750645 GAGCGAGAGT
*
750655 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
750684 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
750711 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:755859 original size:37 final size:37
Alignment explanation
Indices: 755818--755933 Score: 87
Period size: 37 Copynumber: 3.1 Consensus size: 37
755808 TCTCTCTTTT
755818 TATTTAGACCCTTAATATTGCATTTTACTCAATTTAG
1 TATTTAGACCCTTAATATTGCATTTTACTCAATTTAG
* * ** *** **
755855 TATTTTGA---TTGCAATTATTTGTAAATT-CTTTCTTTTT
1 TATTTAGACCCTT--AA-TA-TTGCATTTTACTCAATTTAG
755892 TATTTAGACCCTTAATATTGCATTTTACTCAATTTAG
1 TATTTAGACCCTTAATATTGCATTTTACTCAATTTAG
755929 TATTT
1 TATTT
755934 TGATTGCAAT
Statistics
Matches: 53, Mismatches: 18, Indels: 16
0.61 0.21 0.18
Matches are distributed among these distances:
34 2 0.04
36 8 0.15
37 33 0.62
38 8 0.15
40 2 0.04
ACGTcount: A:0.27, C:0.13, G:0.08, T:0.53
Consensus pattern (37 bp):
TATTTAGACCCTTAATATTGCATTTTACTCAATTTAG
Found at i:755900 original size:74 final size:74
Alignment explanation
Indices: 755814--755964 Score: 302
Period size: 74 Copynumber: 2.0 Consensus size: 74
755804 ATACTCTCTC
755814 TTTTTATTTAGACCCTTAATATTGCATTTTACTCAATTTAGTATTTTGATTGCAATTATTTGTAA
1 TTTTTATTTAGACCCTTAATATTGCATTTTACTCAATTTAGTATTTTGATTGCAATTATTTGTAA
755879 ATTCTTTCT
66 ATTCTTTCT
755888 TTTTTATTTAGACCCTTAATATTGCATTTTACTCAATTTAGTATTTTGATTGCAATTATTTGTAA
1 TTTTTATTTAGACCCTTAATATTGCATTTTACTCAATTTAGTATTTTGATTGCAATTATTTGTAA
755953 ATTCTTTCT
66 ATTCTTTCT
755962 TTT
1 TTT
755965 CATCAATTCC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.25, C:0.12, G:0.08, T:0.55
Consensus pattern (74 bp):
TTTTTATTTAGACCCTTAATATTGCATTTTACTCAATTTAGTATTTTGATTGCAATTATTTGTAA
ATTCTTTCT
Found at i:756540 original size:95 final size:95
Alignment explanation
Indices: 756373--756607 Score: 454
Period size: 95 Copynumber: 2.5 Consensus size: 95
756363 ATATATTATT
756373 ATGC-ATAACCAGAAGCATCAATGTCTGAAACATAGTTTCCATCATAATCATAACCAGAAGCATA
1 ATGCAATAACCAGAAGCATCAATGTCTGAAACATAGTTTCCATCATAATCATAACCAGAAGCATA
756437 TAGTCTTTCCTTGTGTTTTCTTTTCTATAA
66 TAGTCTTTCCTTGTGTTTTCTTTTCTATAA
*
756467 ATGCAATAACCAGAAGCATCAATGTCTGAAACATAGTTTCCATCATAATCATAACCAGAAGCATC
1 ATGCAATAACCAGAAGCATCAATGTCTGAAACATAGTTTCCATCATAATCATAACCAGAAGCATA
756532 TAGTCTTTCCTTGTGTTTTCTTTTCTATAA
66 TAGTCTTTCCTTGTGTTTTCTTTTCTATAA
756562 ATGCAATAACCAGAAGCATCAATGTCTGAAACATAGTTTCCATCAT
1 ATGCAATAACCAGAAGCATCAATGTCTGAAACATAGTTTCCATCAT
756608 GTTCACTCGT
Statistics
Matches: 139, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
94 4 0.03
95 135 0.97
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (95 bp):
ATGCAATAACCAGAAGCATCAATGTCTGAAACATAGTTTCCATCATAATCATAACCAGAAGCATA
TAGTCTTTCCTTGTGTTTTCTTTTCTATAA
Found at i:757885 original size:36 final size:35
Alignment explanation
Indices: 757804--757939 Score: 181
Period size: 35 Copynumber: 3.9 Consensus size: 35
757794 AGATGAACAA
* *
757804 TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
* *
757839 TTGAATCGAAAGTGCCCATGCTT-CTTTCCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTT-CGTTC-AC
*
757875 TTGAATCGAAAGTACCGATGCTTCCTTTCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
757910 TTGAATCGAAAGT---GATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
757940 TTCTTATTCA
Statistics
Matches: 91, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
32 17 0.19
34 3 0.03
35 40 0.44
36 27 0.30
37 4 0.04
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCAC
Found at i:757920 original size:71 final size:68
Alignment explanation
Indices: 757804--757944 Score: 212
Period size: 71 Copynumber: 2.0 Consensus size: 68
757794 AGATGAACAA
* *
757804 TTGAATCGAAAGTGCTGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGCCCATGCTT-CTTTCC
1 TTGAATCGAAAGTACCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTG---ATGCTTCCTTT-C
757868 GTTCTTC
62 GTTCTTC
*
757875 TTGAATCGAAAGTACCGATGCTTCCTTTCGTTCACTTGAATCGAAAGTGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTACCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGATGCTTCCTTTCGTTC
757940 TTC
66 TTC
757943 TT
1 TT
757945 ATTCACCTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
68 16 0.24
69 4 0.06
71 46 0.70
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (68 bp):
TTGAATCGAAAGTACCGATGCTTCCTTCCGTTCACTTGAATCGAAAGTGATGCTTCCTTTCGTTC
TTC
Found at i:759018 original size:21 final size:21
Alignment explanation
Indices: 758992--759031 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
758982 AGCTCACCAA
758992 CTTCTATTAACAGACTAACCC
1 CTTCTATTAACAGACTAACCC
759013 CTTCTATTAACAGACTAAC
1 CTTCTATTAACAGACTAAC
759032 TACCTAGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.30, G:0.05, T:0.30
Consensus pattern (21 bp):
CTTCTATTAACAGACTAACCC
Found at i:762598 original size:127 final size:127
Alignment explanation
Indices: 762372--762627 Score: 512
Period size: 127 Copynumber: 2.0 Consensus size: 127
762362 GAACAAAACT
762372 GCGTAGTCTTCGGAGATGTTGAGAAGAGCACGTAGATCGGCCTCGGCTTTCTCGATAATGGAACG
1 GCGTAGTCTTCGGAGATGTTGAGAAGAGCACGTAGATCGGCCTCGGCTTTCTCGATAATGGAACG
762437 GAAATCTTTCCCGCGGTGGCTCATTTCCATGACGCTCATGCCAGATCCGCGCCAGTTGTAGA
66 GAAATCTTTCCCGCGGTGGCTCATTTCCATGACGCTCATGCCAGATCCGCGCCAGTTGTAGA
762499 GCGTAGTCTTCGGAGATGTTGAGAAGAGCACGTAGATCGGCCTCGGCTTTCTCGATAATGGAACG
1 GCGTAGTCTTCGGAGATGTTGAGAAGAGCACGTAGATCGGCCTCGGCTTTCTCGATAATGGAACG
762564 GAAATCTTTCCCGCGGTGGCTCATTTCCATGACGCTCATGCCAGATCCGCGCCAGTTGTAGA
66 GAAATCTTTCCCGCGGTGGCTCATTTCCATGACGCTCATGCCAGATCCGCGCCAGTTGTAGA
762626 GC
1 GC
762628 TCGGTCTGGG
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 129 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (127 bp):
GCGTAGTCTTCGGAGATGTTGAGAAGAGCACGTAGATCGGCCTCGGCTTTCTCGATAATGGAACG
GAAATCTTTCCCGCGGTGGCTCATTTCCATGACGCTCATGCCAGATCCGCGCCAGTTGTAGA
Found at i:768250 original size:2 final size:2
Alignment explanation
Indices: 768243--768270 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
768233 TCTAACCATA
768243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
768271 TATTCTTTCA
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):
AT
Found at i:768301 original size:18 final size:19
Alignment explanation
Indices: 768241--768303 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
768231 TATCTAACCA
*
768241 TAATATATAT-ATA-TATA
1 TAATATATATAATATTATT
* *
768258 TATATATATATATTATTCTT
1 TA-ATATATATAATATTATT
*
768278 TCATAT-TATAATATTATT
1 TAATATATATAATATTATT
768296 TAATATAT
1 TAATATAT
768304 CAAATGTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
17 2 0.06
18 23 0.66
19 7 0.20
20 3 0.09
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATATATATAATATTATT
Found at i:768923 original size:158 final size:155
Alignment explanation
Indices: 768514--768903 Score: 505
Period size: 158 Copynumber: 2.5 Consensus size: 155
768504 AAAAAATAAT
* * * * * *
768514 AATTG-AAGTTACATATGTATTCTACTGTGATATATGAGTATGTGGTTCAAATTTGGTAAAAAAA
1 AATTGAAAG-TACACATGTATTCTACTATGGTTTAGGAGTATGTGGTTCAAATTTGGTAAAAAGA
* ** * * *
768578 AGCTTAAAATAAATCACAGATTGAAGCAATAAGGAGATTGTGAAAAATTAAAGGACTAAATTTAA
65 A-CTTAAAATAAATGACA-ATTGAATAAATAAGGAGATTATAAAAAATTAAAGGACTAAATTGAA
* *
768643 AAATAATAAATTTGTTATCAGAAAGAGG
128 AAATAATAAATTTATTATCAAAAAGAGG
* * *
768671 AATTGAAAGTACACATGTATTCTACTAAGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAAACG
1 AATTGAAAGTACACATGTATTCTACTATGGTTTAGGAGTATGTGGTTCAAATTTGGT-AAAAA-G
*
768736 AACTTAAAATAAATGACAATTTGAATAAATAAGGAGATTATAAAAAATTGAAGGACTAAATTGAA
64 AACTTAAAATAAATGACAA-TTGAATAAATAAGGAGATTATAAAAAATTAAAGGACTAAATTGAA
*
768801 AAATGAA-ACATTTATTATCAAAAAGAGG
128 AAAT-AATAAATTTATTATCAAAAAGAGG
*
768829 AATTGAAAGTACACATGTATTCTACTATGGTTTAGGAGTATGTGGTTCATATTTGGTAGAAAATG
1 AATTGAAAGTACACATGTATTCTACTATGGTTTAGGAGTATGTGGTTCAAATTTGGTA-AAAA-G
768894 AACTTAAAAT
64 AACTTAAAAT
768904 GAAGGAGGAA
Statistics
Matches: 203, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
157 47 0.23
158 152 0.75
159 4 0.02
ACGTcount: A:0.44, C:0.07, G:0.18, T:0.30
Consensus pattern (155 bp):
AATTGAAAGTACACATGTATTCTACTATGGTTTAGGAGTATGTGGTTCAAATTTGGTAAAAAGAA
CTTAAAATAAATGACAATTGAATAAATAAGGAGATTATAAAAAATTAAAGGACTAAATTGAAAAA
TAATAAATTTATTATCAAAAAGAGG
Found at i:769394 original size:28 final size:27
Alignment explanation
Indices: 769358--769456 Score: 141
Period size: 26 Copynumber: 3.7 Consensus size: 27
769348 TAAAATAATC
* * *
769358 TCTTTTCCCCGTTTGTCTCTGCGTATCT
1 TCTTCTCCCC-TTTGCCTCTGTGTATCT
769386 TCTTCT-CCCTTTGCCTCTGTGTATCT
1 TCTTCTCCCCTTTGCCTCTGTGTATCT
769412 TCTTCTCCCC-TTGCCTCTGTGTATCT
1 TCTTCTCCCCTTTGCCTCTGTGTATCT
769438 TCTTCTCCCC-TTGCCTCTG
1 TCTTCTCCCCTTTGCCTCTG
769457 CGAAAAATTC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
26 56 0.84
27 6 0.09
28 5 0.07
ACGTcount: A:0.03, C:0.37, G:0.12, T:0.47
Consensus pattern (27 bp):
TCTTCTCCCCTTTGCCTCTGTGTATCT
Found at i:769403 original size:26 final size:26
Alignment explanation
Indices: 769374--769458 Score: 143
Period size: 26 Copynumber: 3.3 Consensus size: 26
769364 CCCCGTTTGT
*
769374 CTCTGCGTATCTTCTTCTCCCTTTGC
1 CTCTGCGTATCTTCTTCTCCCCTTGC
*
769400 CTCTGTGTATCTTCTTCTCCCCTTGC
1 CTCTGCGTATCTTCTTCTCCCCTTGC
*
769426 CTCTGTGTATCTTCTTCTCCCCTTGC
1 CTCTGCGTATCTTCTTCTCCCCTTGC
769452 CTCTGCG
1 CTCTGCG
769459 AAAAATTCAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.04, C:0.39, G:0.13, T:0.45
Consensus pattern (26 bp):
CTCTGCGTATCTTCTTCTCCCCTTGC
Found at i:769507 original size:16 final size:16
Alignment explanation
Indices: 769486--769523 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
769476 CCTGGTAAGA
769486 TTTCTTCTCCTCTCCC
1 TTTCTTCTCCTCTCCC
769502 TTTCTTCTCCTCTCCC
1 TTTCTTCTCCTCTCCC
769518 TTTCTT
1 TTTCTT
769524 TACAAGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (16 bp):
TTTCTTCTCCTCTCCC
Found at i:780583 original size:113 final size:113
Alignment explanation
Indices: 780381--780600 Score: 395
Period size: 113 Copynumber: 1.9 Consensus size: 113
780371 AAGTCAGTGT
*
780381 TTAAAGTTTTAAGCTTAACCCTTGTGGTAGCTTTTGCGTGTTATCTTCATCATTATTAAACATAT
1 TTAAAGTTTTAAGCTTAACCCTTGTGGTAGCTTTTGCGTATTATCTTCATCATTATTAAACATAT
*
780446 ACATCCCTCTTCATTCTATCCCCATCTCATATACTGTCTCAACTATGC
66 ACATCCCTCTTCATTCTATACCCATCTCATATACTGTCTCAACTATGC
*
780494 TTAAAGTTTTAAGCTTAACCCTTGTGGTAGTTTTTGCGTATTATCTTCATCATTATTAAACATAT
1 TTAAAGTTTTAAGCTTAACCCTTGTGGTAGCTTTTGCGTATTATCTTCATCATTATTAAACATAT
* *
780559 ATATCCCTCTTTATTCTATACCCATCTCATATACTGTCTCAA
66 ACATCCCTCTTCATTCTATACCCATCTCATATACTGTCTCAA
780601 ATATTTTTCT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 102 1.00
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (113 bp):
TTAAAGTTTTAAGCTTAACCCTTGTGGTAGCTTTTGCGTATTATCTTCATCATTATTAAACATAT
ACATCCCTCTTCATTCTATACCCATCTCATATACTGTCTCAACTATGC
Found at i:783699 original size:19 final size:19
Alignment explanation
Indices: 783675--783713 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
783665 AGATTTGCCT
783675 GCAGGTAAATATTTCTGTA
1 GCAGGTAAATATTTCTGTA
783694 GCAGGTAAATATTTCTGTA
1 GCAGGTAAATATTTCTGTA
783713 G
1 G
783714 TGATTGTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
GCAGGTAAATATTTCTGTA
Found at i:788082 original size:30 final size:30
Alignment explanation
Indices: 787907--788065 Score: 275
Period size: 30 Copynumber: 5.3 Consensus size: 30
787897 GAAGGACCTA
* * *
787907 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
787936 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
787966 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
787996 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
788026 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
788056 TCCATAGGTC
1 TCCAGAGGTC
788066 CCGAAGAACC
Statistics
Matches: 125, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 16 0.13
30 109 0.87
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:788082 original size:90 final size:90
Alignment explanation
Indices: 787907--788090 Score: 271
Period size: 90 Copynumber: 2.0 Consensus size: 90
787897 GAAGGACCTA
787907 TCCAGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGA
1 TCCAGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGA
* * *
787972 GGTCATAAAGATCCTCGGT-AACTG
66 GGTCACAAAGAACCTAGGTAAACTG
* * * *
787996 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAT
1 TCCAGAGGTCACAAAGA-CCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAG
* *
788061 AGGTCCCGAAGAACCTAGGTAAACTG
65 AGGTCACAAAGAACCTAGGTAAACTG
788087 TCCA
1 TCCA
788091 TATGTCTCGA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
89 16 0.19
90 59 0.70
91 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (90 bp):
TCCAGAGGTCACAAAGACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGA
GGTCACAAAGAACCTAGGTAAACTG
Found at i:788089 original size:31 final size:31
Alignment explanation
Indices: 788051--788115 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
788041 GATCCTCGGT
*
788051 AACTGTCCATAGGTCCCG-AAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAAG-ACATAGGTA
* *
788082 AACTGTCCATATGTCTCGAAAGACATAGGTA
1 AACTGTCCATAGGTCCCGAAAGACATAGGTA
788113 AAC
1 AAC
788116 CCTCGACTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAAGACATAGGTA
Found at i:793036 original size:30 final size:30
Alignment explanation
Indices: 792801--793019 Score: 404
Period size: 30 Copynumber: 7.3 Consensus size: 30
792791 GAAGGACCTA
* *
792801 TCCAGAGGTCACAAAGA-CCCCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
792830 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
792860 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
792890 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
792920 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
792950 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
792980 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
*
793010 TCCATAGGTC
1 TCCAGAGGTC
793020 CCGAAGAACC
Statistics
Matches: 186, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
29 16 0.09
30 170 0.91
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:793468 original size:15 final size:14
Alignment explanation
Indices: 793448--793477 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
793438 TATGTATGTG
793448 TAAACATATATCTTA
1 TAAACATATAT-TTA
793463 TAAACATATATTTA
1 TAAACATATATTTA
793477 T
1 T
793478 GAATCTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAACATATATTTA
Found at i:808290 original size:69 final size:69
Alignment explanation
Indices: 808206--808639 Score: 229
Period size: 69 Copynumber: 6.3 Consensus size: 69
808196 TGTTTTTGAT
* *
808206 TCTGTTCCGAGCACCCCTGCAAATGCAGGTGATATGGTCAACGGGAAGAGCTTATCTATTTTTGC
1 TCTGTTCCAAGCACCCCTGCAAATGCAGGTGATATGGTCAACGGGAAGAGCTCATCTATTTTTGC
808271 AGAC
66 AGAC
** * * * *
808275 TCTGTTCCAAGCACCCCTGCTTATGCAGGTGATATGTTCAAGGGGAAGGGCTCATCTGTTTTTGC
1 TCTGTTCCAAGCACCCCTGCAAATGCAGGTGATATGGTCAACGGGAAGAGCTCATCTATTTTTGC
*
808340 AGAT
66 AGAC
* ** ** * * * *
808344 TCTGTTCCAAGCACTCCTGCCTATGC-GGACA-ACTTGTTCAA-GGGTCAGAGTTCATCCT-TGT
1 TCTGTTCCAAGCACCCCTGCAAATGCAGGTGATA--TGGTCAACGGG-AAGAGCTCAT-CTATTT
*
808405 TTGCAGAT
62 TTGCAGAC
* ** * * * * * * *
808413 TCTGTTCCAAGCACTCCTGCCTATGC-GGATAACATGTTCAA-GGGTCATAGTTCATCCT-TGTT
1 TCTGTTCCAAGCACCCCTGCAAATGCAGG-TGATATGGTCAACGGG-AAGAGCTCAT-CTATTTT
*
808475 TGCAGAT
63 TGCAGAC
* ** * * * * * *
808482 TCTGTTCCAAGCACTCCTGCCTATGCAGATAACT-TGTTCAAGGGGAAGA-CTTCATCCATATTT
1 TCTGTTCCAAGCACCCCTGCAAATGCAGGTGA-TATGGTCAACGGGAAGAGC-TCATCTATTTTT
*
808545 GCAGAT
64 GCAGAC
* ** * * * * * * * * * *
808551 TCTGTTCCAAGCACTCCTGCCTATTCAGATAACATGTTCAAGGGGCAGAGGTCGTCTCTTTTTGC
1 TCTGTTCCAAGCACCCCTGCAAATGCAGGTGATATGGTCAACGGGAAGAGCTCATCTATTTTTGC
*
808616 GGAC
66 AGAC
*
808620 TCTGTTCCGAGCACCCCTGC
1 TCTGTTCCAAGCACCCCTGC
808640 TTATCATCAT
Statistics
Matches: 313, Mismatches: 39, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
67 1 0.00
68 7 0.02
69 297 0.95
70 7 0.02
71 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (69 bp):
TCTGTTCCAAGCACCCCTGCAAATGCAGGTGATATGGTCAACGGGAAGAGCTCATCTATTTTTGC
AGAC
Found at i:808422 original size:138 final size:136
Alignment explanation
Indices: 808243--808639 Score: 465
Period size: 138 Copynumber: 2.9 Consensus size: 136
808233 GGTGATATGG
* * * * * * *
808243 TCAACGGGAAGAGCTT-ATCTATTTTTGCAGACTCTGTTCCAAGCACCCCTGCTTATGCAGGTGA
1 TCAAGGGGAAGA-CTTCATCCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGGTAA
* * *
808307 TATGTTCAAGGGGAAGGGCTCATCTGTTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCGG
65 CATGTTCAAGGGGCAGGG-TCATCT-TTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAG
808372 ACAACTTGT
128 ACAACTTGT
** * * *
808381 TCAAGGGTCAGAGTTCATCCTTGTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGC-GGATAA
1 TCAAGGGGAAGACTTCATCCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGG-TAA
* * * *
808445 CATGTTCAAGGGTCATAGTTCATCCTTGTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAG
65 CATGTTCAAGGGGCA-GGGTCAT-CTTTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAG
*
808510 ATAACTTGT
128 ACAACTTGT
* *
808519 TCAAGGGGAAGACTTCATCCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATTCAGATAAC
1 TCAAGGGGAAGACTTCATCCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGGTAAC
* * * * *
808584 ATGTTCAAGGGGCAGAGGTCGTCTCTTTTTGCGGACTCTGTTCCGAGCACCCCTGC
66 ATGTTCAAGGGGCAG-GGTCATCT-TTTTTGCAGATTCTGTTCCAAGCACTCCTGC
808640 TTATCATCAT
Statistics
Matches: 217, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
137 6 0.03
138 207 0.95
139 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (136 bp):
TCAAGGGGAAGACTTCATCCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGGTAAC
ATGTTCAAGGGGCAGGGTCATCTTTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGACA
ACTTGT
Found at i:808558 original size:207 final size:207
Alignment explanation
Indices: 808266--808639 Score: 520
Period size: 207 Copynumber: 1.8 Consensus size: 207
808256 CTTATCTATT
* * * *
808266 TTTGCAGACTCTGTTCCAAGCACCCCTGCTTATGCAGGTGATATGTTCAAGGGGAAGGGCTCATC
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCAGATAATATGTTCAAGGGGAAGGACTCATC
** * * * * *
808331 TGTTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCGGACAACTTGTTCAAGGGTCAGAGTT
66 CATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGACAACATGTTCAAGGGGCAGAGGT
* *
808396 CATC-CTTGTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCGGATAACATGTTCAAGGGTCA
131 CATCTCTT-TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACATGTTCAAGGGTCA
808460 TAGTTCATCCTTG
195 TAGTTCATCCTTG
* *
808473 TTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACT-TGTTCAAGGGGAA-GACTTCA
1 TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCAGATAA-TATGTTCAAGGGGAAGGAC-TCA
* *
808536 TCCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATTCAGATAACATGTTCAAGGGGCAGAG
64 TCCATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGACAACATGTTCAAGGGGCAGAG
* * *
808601 GTCGTCTCTTTTTGCGGACTCTGTTCCGAGCACCCCTGC
129 GTCATCTCTTTTTGCAGACTCTGTTCCAAGCACCCCTGC
808640 TTATCATCAT
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
206 2 0.01
207 138 0.96
208 4 0.03
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (207 bp):
TTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCAGATAATATGTTCAAGGGGAAGGACTCATC
CATATTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGACAACATGTTCAAGGGGCAGAGGT
CATCTCTTTTTGCAGACTCTGTTCCAAGCACCCCTGCCTATGCGGATAACATGTTCAAGGGTCAT
AGTTCATCCTTG
Found at i:816142 original size:20 final size:19
Alignment explanation
Indices: 816117--816164 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
816107 CTTTAAATCA
*
816117 TTTTCAAAATTTCATTTTAT
1 TTTTCAAAATTTAATTTT-T
*
816137 TTTTCAAATTTTAATTTTT
1 TTTTCAAAATTTAATTTTT
*
816156 CTTTCAAAA
1 TTTTCAAAA
816165 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTCAAAATTTAATTTTT
Found at i:817093 original size:260 final size:260
Alignment explanation
Indices: 816632--817150 Score: 860
Period size: 260 Copynumber: 2.0 Consensus size: 260
816622 TCCATTGAAG
* * *
816632 TATTGAGGCCTATCGATCAGTTGGGAGTTTTTCATGTGTAACTAGTCGGAGGTGGAAGTCATCTA
1 TATTGAGGCCTATCGATCAGTTGGGAGTTTTCCATGTGGAACTAGTCAGAGGTGGAAGTCATCTA
* * *
816697 CTCGGTTGCGTAGATAATTGATAGAGCTTTTTCAAGGATCGTCTCAAGGTTGTTAGACATTTTAA
66 CTCGGTTGCGTAGAGAATTGATAGAGCTTCTTCAAGGATCGTCTCAAGGTTGTTAGACATTCTAA
* *
816762 TGAGTTAAGCTCTGATACCAATTGTTGGAATTTATGAAGCTCAATTGACAACCGAAAATGTTTGC
131 TGAGTCAAGCTCTGATACCAATTGTTGGAATTTATAAAGCTCAATTGACAACCGAAAATGTTTGC
*
816827 CAAGAGGGGTTGAGTTGGTTGTTGAATTTAGGGAGTAAAGAGATTAAAAGGATAGGCAAATTTGT
196 CAAGAGGGGTTGAGTTGGTTGTTGAATTTAGGGAGTAAAGAGATTAAAAGGATAGGAAAATTTGT
* *
816892 TATTGAGGCCTATCGATCAGTTGGGAGTTTTCCATGTGGAGCTTGTCAGAGGTGGAAGTCATCTA
1 TATTGAGGCCTATCGATCAGTTGGGAGTTTTCCATGTGGAACTAGTCAGAGGTGGAAGTCATCTA
* * *
816957 CTCGGTTGCGTCGAGAATTGATAGAGCTTCTTCAATGATCGTCTCAAGGTTGTTAGACCTTCTAA
66 CTCGGTTGCGTAGAGAATTGATAGAGCTTCTTCAAGGATCGTCTCAAGGTTGTTAGACATTCTAA
* *
817022 TGAGTCAAGCTCTGATACCAATTGTTAGG-ATTTATAAAGCTCAATTGGCAACCGAAAATGTTTT
131 TGAGTCAAGCTCTGATACCAATTGTT-GGAATTTATAAAGCTCAATTGACAACCGAAAATGTTTG
* *
817086 TCAAGAGGGGTTGAGTTGGTTGTTGAATTTAGGGAGTAAAGAGATTAAAATGATAGGAAAATTTG
195 CCAAGAGGGGTTGAGTTGGTTGTTGAATTTAGGGAGTAAAGAGATTAAAAGGATAGGAAAATTTG
817151 CACATCGATT
Statistics
Matches: 240, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
260 238 0.99
261 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (260 bp):
TATTGAGGCCTATCGATCAGTTGGGAGTTTTCCATGTGGAACTAGTCAGAGGTGGAAGTCATCTA
CTCGGTTGCGTAGAGAATTGATAGAGCTTCTTCAAGGATCGTCTCAAGGTTGTTAGACATTCTAA
TGAGTCAAGCTCTGATACCAATTGTTGGAATTTATAAAGCTCAATTGACAACCGAAAATGTTTGC
CAAGAGGGGTTGAGTTGGTTGTTGAATTTAGGGAGTAAAGAGATTAAAAGGATAGGAAAATTTGT
Found at i:819627 original size:16 final size:16
Alignment explanation
Indices: 819606--819637 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
819596 AATAAATAAG
819606 CGAACATAAACGAACA
1 CGAACATAAACGAACA
819622 CGAACATAAACGAACA
1 CGAACATAAACGAACA
819638 AAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:819731 original size:16 final size:16
Alignment explanation
Indices: 819707--819767 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
819697 TAATAAATAA
819707 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
819723 ACAAACATAAACGAAC
1 ACGAACATAAACGAAC
*
819739 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
819755 ACGAACATAAACG
1 ACGAACATAAACG
819768 TTGGAGACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.57, C:0.23, G:0.11, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:821338 original size:24 final size:24
Alignment explanation
Indices: 821277--821338 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
821267 TATTAGGTTA
*
821277 AACATAAATGAACGCACATAAACG
1 AACATAACTGAACGCACATAAACG
* *
821301 AACATAACTAAACGCATATAAACG
1 AACATAACTGAACGCACATAAACG
*
821325 AACATAACCGAACG
1 AACATAACTGAACG
821339 TTCACGAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAACTGAACGCACATAAACG
Found at i:824716 original size:14 final size:14
Alignment explanation
Indices: 824699--824725 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
824689 ATATTAAATA
824699 ATAAATATAATTAT
1 ATAAATATAATTAT
824713 ATAAATATAATTA
1 ATAAATATAATTA
824726 AAAAATAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAAATATAATTAT
Found at i:824978 original size:16 final size:16
Alignment explanation
Indices: 824953--824983 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
824943 CTTCTATTTT
*
824953 TTTTTTGAGTTCAAGC
1 TTTTTCGAGTTCAAGC
824969 TTTTTCGAGTTCAAG
1 TTTTTCGAGTTCAAG
824984 TTTCAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.48
Consensus pattern (16 bp):
TTTTTCGAGTTCAAGC
Found at i:825775 original size:21 final size:21
Alignment explanation
Indices: 825746--825807 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
825736 GGTCGGGTAT
*
825746 ATATATTTAAATTAATATATA
1 ATATTTTTAAATTAATATATA
*
825767 ATATTTTTAATTTAA-AT-TA
1 ATATTTTTAAATTAATATATA
*
825786 A-ATTATTAATATTATATATATA
1 ATATTTTTAA-ATTA-ATATATA
825808 TATAATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 7 0.21
19 6 0.18
20 3 0.09
21 15 0.45
22 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTTTTAAATTAATATATA
Found at i:836398 original size:51 final size:51
Alignment explanation
Indices: 836322--836425 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
836312 CTTCTCCTTC
836322 GCGAAGCCTGCCCCAGCGAAGGAACCATGAGATCTGCTAAATCGGTCTCGT
1 GCGAAGCCTGCCCCAGCGAAGGAACCATGAGATCTGCTAAATCGGTCTCGT
836373 GCGAAGCCTGCCCCAGCGAAGGAACCATGAGATCTGCTAAATCGGTCTCGT
1 GCGAAGCCTGCCCCAGCGAAGGAACCATGAGATCTGCTAAATCGGTCTCGT
836424 GC
1 GC
836426 CGGAGCAGGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (51 bp):
GCGAAGCCTGCCCCAGCGAAGGAACCATGAGATCTGCTAAATCGGTCTCGT
Found at i:836592 original size:7 final size:7
Alignment explanation
Indices: 836580--836638 Score: 118
Period size: 7 Copynumber: 8.4 Consensus size: 7
836570 GTAAAGATAA
836580 TTATCTT
1 TTATCTT
836587 TTATCTT
1 TTATCTT
836594 TTATCTT
1 TTATCTT
836601 TTATCTT
1 TTATCTT
836608 TTATCTT
1 TTATCTT
836615 TTATCTT
1 TTATCTT
836622 TTATCTT
1 TTATCTT
836629 TTATCTT
1 TTATCTT
836636 TTA
1 TTA
836639 ACTGTCTCTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 52 1.00
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATCTT
Found at i:838760 original size:64 final size:63
Alignment explanation
Indices: 838692--838892 Score: 212
Period size: 65 Copynumber: 3.1 Consensus size: 63
838682 TGCACTAAAA
* * *
838692 GTGCATCTATGCATGAAATGCATTCGGTGTTTCAAAATAGCCAGAGTGCATCGATGTATGGTTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATA-CCAGAGTGCATCGATGCATGGTTG
* * *
838756 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACTCTGAGTGCATCGATGCATAGTA
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAC-CAGAGTGCATCGATGCATGGT-
838820 T-
62 TG
* * *
838821 GTGCATCGGTGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA--AATACCA-GAGTGCATCGATGCATGG-T
838884 TG
62 TG
838886 GTGCATC
1 GTGCATC
838893 ACTCTGAAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 45 0.39
65 61 0.53
66 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATACCAGAGTGCATCGATGCATGGTTG
Found at i:840437 original size:15 final size:15
Alignment explanation
Indices: 840417--840446 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
840407 ATTTTCATTC
840417 TAATTATATAACCCA
1 TAATTATATAACCCA
*
840432 TAATTATCTAACCCA
1 TAATTATATAACCCA
840447 AAATGGAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.23, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATTATATAACCCA
Found at i:842964 original size:259 final size:258
Alignment explanation
Indices: 842494--843019 Score: 930
Period size: 259 Copynumber: 2.0 Consensus size: 258
842484 GCAAACACTA
842494 AACATAATGTCCGGTCTACTTGCAGTTAGATAAAGCAAAGAACCAATCATTGACATATATATTTA
1 AACATAATGTCCGGTCTACTTGCAGTTAGATAAAGCAAAGAACCAATCATTGACATATATATTTA
842559 ACATCCACACATTTACCTCCTTCATCTATGTCAAGCTTTGTTGATGAGCTCATTGGGTGTCATGT
66 ACATCCACACATTTACCTCCTTCATCTATGTCAAGCTTTGTTGATGAGCTCATTGGGTGTCATGT
842624 GGCTTCCCTTTTCCAGTCTGAACTTCTTGAGCATCTTTGACGTACTTAGCTTGATTGATAAAGAT
131 GGCTTCCCTTTTCCAGTCTGAACTTCTTGAGCATCTTTGACGTACTTAGCTTGATTGATAAAGAT
*
842689 GCCATCTTTTTTTTCTTGATTTGGAGTCCCAAG-AAAATGAGATCT-CCCCATCATGCTCATCTC
196 GCCA--TTCTTTTTCTTGATTTGGAGTCCCAAGAAAAATGAGATCTCCCCCATCATGCTCATCTC
842752 AACATAATGTCCGGTCTACTTGCAGTTAGATAAAGCAAAGAACCAATCATTGACATATATAATTT
1 AACATAATGTCCGGTCTACTTGCAGTTAGATAAAGCAAAGAACCAATCATTGACATATAT-ATTT
842817 AACATCCACACATTTACCTCCTTCATCTATGTCAAGCTTTGTTGATGAGCTCATTGGAGTGTCAT
65 AACATCCACACATTTACCTCCTTCATCTATGTCAAGCTTTGTTGATGAGCTCATTGG-GTGTCAT
842882 GTGGCTTCCCATTTTCCAGTCTGAACTTCTTGAGCACGTCTTTGACGTACTTAGCTTGATTGATA
129 GTGGCTTCCC-TTTTCCAGTCTGAACTTCTTGAGCA--TCTTTGACGTACTTAGCTTGATTGATA
*
842947 AAGATGCCATCTTTTCTTTTCTTGATTTGGAGTCCCAAGAAAAATGAGATCTCCCCCATCATGCT
191 AAGATGCCA--TTCT-TTTTCTTGATTTGGAGTCCCAAGAAAAATGAGATCTCCCCCATCATGCT
843012 CATCTC
253 CATCTC
843018 AA
1 AA
843020 ATTCACTTTG
Statistics
Matches: 260, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
258 60 0.23
259 61 0.23
260 17 0.07
261 25 0.10
263 42 0.16
264 23 0.09
265 12 0.05
266 20 0.08
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.35
Consensus pattern (258 bp):
AACATAATGTCCGGTCTACTTGCAGTTAGATAAAGCAAAGAACCAATCATTGACATATATATTTA
ACATCCACACATTTACCTCCTTCATCTATGTCAAGCTTTGTTGATGAGCTCATTGGGTGTCATGT
GGCTTCCCTTTTCCAGTCTGAACTTCTTGAGCATCTTTGACGTACTTAGCTTGATTGATAAAGAT
GCCATTCTTTTTCTTGATTTGGAGTCCCAAGAAAAATGAGATCTCCCCCATCATGCTCATCTC
Found at i:845959 original size:117 final size:117
Alignment explanation
Indices: 845740--845960 Score: 250
Period size: 117 Copynumber: 1.9 Consensus size: 117
845730 TTTCAAATCA
* * *
845740 AAATTTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTATTCAAGAGTTT
1 AAATTTCCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTATTCAACAGTTT
* * *
845805 ATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTCGTTTAAATTG
66 ATATTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTCGTTTAAATTG
* * * * *
845857 AAATTTCCTTTTTCAA-AGTTTTCAGATTTTAGTTTTGAAAGCTCTAACTCCTTTTTCAACA-TT
1 AAATTTCCTTTTTCAATA-CTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTATTCAACAGTT
* * * **
845920 TCATATTGTTTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
65 T-ATATTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
845961 ATCAATTTTA
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
116 4 0.05
117 77 0.91
118 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.47
Consensus pattern (117 bp):
AAATTTCCTTTTTCAATACTTTCAAATTTCAGTTTTGAAAGCTCTAAATCCTTATTCAACAGTTT
ATATTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTCGTTTAAATTG
Found at i:847475 original size:65 final size:64
Alignment explanation
Indices: 847277--847486 Score: 180
Period size: 65 Copynumber: 3.2 Consensus size: 64
847267 TGCACTAAGA
* * * * *
847277 GTGCACCGATGCATAAAATGCATTCGATGATTCA-AAATAGC-CAGAGTGCATCGATGCATGGTT
1 GTGCATCGGTGCATCAAATGCATTCGATGTTTCATAAA-A-CTCTGAGTGCATCGATGCATGGTT
847340 G
64 G
* * *
847341 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAACTCTGAGTACATCGATGCATAGTAT
1 GTGCATCGGTGCATCAAATGCATTCGATG-TTTCATAAAACTCTGAGTGCATCGATGCATGGT-T
847406 -
64 G
* ** ** *
847406 GTGCATCGGTGCATGAAATTTATTCGATG-TTCA-ATTTATTCCATG-GTGCATCGATGCATGGA
1 GTGCATCGGTGCATCAAATGCATTCGATGTTTCATA-AAACT-C-TGAGTGCATCGATGCATGG-
847468 TTG
62 TTG
847471 GTGCATCGGTGCATCA
1 GTGCATCGGTGCATCA
847487 CTCTGAAAAA
Statistics
Matches: 121, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
62 1 0.01
63 6 0.05
64 44 0.36
65 66 0.55
66 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (64 bp):
GTGCATCGGTGCATCAAATGCATTCGATGTTTCATAAAACTCTGAGTGCATCGATGCATGGTTG
Found at i:851914 original size:29 final size:29
Alignment explanation
Indices: 851867--851982 Score: 155
Period size: 28 Copynumber: 4.1 Consensus size: 29
851857 ACCCGACCCA
* *
851867 GTGACATTCTGTGATTTTTTGTGAAAAAT
1 GTGACATTCTGGGAATTTTTGTGAAAAAT
851896 GTGACATTCTGGGAATTTTTGTG-AAAAT
1 GTGACATTCTGGGAATTTTTGTGAAAAAT
** * *
851924 AAGACATTCTGGGAA-TTTTGTAAAAAAA
1 GTGACATTCTGGGAATTTTTGTGAAAAAT
*
851952 GTGACATTCTGGGAATTTTGGTGAAAAAT
1 GTGACATTCTGGGAATTTTTGTGAAAAAT
851981 GT
1 GT
851983 ATTTTGTGAA
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
27 6 0.08
28 35 0.47
29 33 0.45
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (29 bp):
GTGACATTCTGGGAATTTTTGTGAAAAAT
Found at i:853833 original size:18 final size:18
Alignment explanation
Indices: 853810--853859 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
853800 AAAAATGAGT
853810 GCTAGACGTGGACGTCGA
1 GCTAGACGTGGACGTCGA
853828 GCTAGACGTGGACGTCGA
1 GCTAGACGTGGACGTCGA
* *
853846 ACTAGCCGTGGACG
1 GCTAGACGTGGACG
853860 AGGTCGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.16
Consensus pattern (18 bp):
GCTAGACGTGGACGTCGA
Found at i:859209 original size:28 final size:29
Alignment explanation
Indices: 859143--859279 Score: 174
Period size: 28 Copynumber: 4.8 Consensus size: 29
859133 GACCCGACCC
*
859143 AGTGACATTCTGGGAATTTTTGTAAAAAA
1 AGTGACATTCTGGGAATTTTTGTGAAAAA
*
859172 AGGTAACATTCTGGGAATTTTTGTG-AAAA
1 A-GTGACATTCTGGGAATTTTTGTGAAAAA
*
859201 TGTGACATTCTGGGAA-TTTTGTGAAAAA
1 AGTGACATTCTGGGAATTTTTGTGAAAAA
*
859229 AATGACAATT-TGGGAATTATTT-TGAAAAA
1 AGTGAC-ATTCTGGGAATT-TTTGTGAAAAA
*
859258 AGTGACATTTTGGGAATTTTTG
1 AGTGACATTCTGGGAATTTTTG
859280 AATGTGGACT
Statistics
Matches: 94, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.07
28 34 0.36
29 29 0.31
30 24 0.26
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (29 bp):
AGTGACATTCTGGGAATTTTTGTGAAAAA
Found at i:859252 original size:58 final size:56
Alignment explanation
Indices: 859143--859281 Score: 167
Period size: 58 Copynumber: 2.4 Consensus size: 56
859133 GACCCGACCC
*
859143 AGTGACATTCTGGGAATTTTTGTAAAAAAAGGTAACATTCTGGGAATTTTTGTGAAAA
1 AGTGACATTCTGGGAATTTTTG-AAAAAAAGGTAACATTCTGGGAATTTTTG-AAAAA
* *
859201 TGTGACATTCTGGGAATTTTGTGAAAAAAA--TGACAATT-TGGGAATTATTTTGAAAAA
1 AGTGACATTCTGGGAATTTT-TGAAAAAAAGGTAAC-ATTCTGGGAA-T-TTTTGAAAAA
*
859258 AGTGACATTTTGGGAATTTTTGAA
1 AGTGACATTCTGGGAATTTTTGAA
859282 TGTGGACTAT
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
56 13 0.18
57 26 0.36
58 31 0.43
59 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (56 bp):
AGTGACATTCTGGGAATTTTTGAAAAAAAGGTAACATTCTGGGAATTTTTGAAAAA
Found at i:859255 original size:29 final size:28
Alignment explanation
Indices: 859145--859281 Score: 106
Period size: 29 Copynumber: 4.8 Consensus size: 28
859135 CCCGACCCAG
859145 TGAC-ATTCTGGGAATTTT-TGTAAAAAAA
1 TGACAATT-TGGGAATTTTGTG-AAAAAAA
* **
859173 GGTA-ACATTCTGGGAATTTTTGTG-AAAATG
1 TG-ACA-ATT-TGGGAA-TTTTGTGAAAAAAA
859203 TGAC-ATTCTGGGAATTTTGTGAAAAAAA
1 TGACAATT-TGGGAATTTTGTGAAAAAAA
* *
859231 TGACAATTTGGGAATTATTTTGAAAAAAG
1 TGACAATTTGGGAATT-TTGTGAAAAAAA
*
859260 TGACATTTTGGGAATTTT-TGAA
1 TGACAATTTGGGAATTTTGTGAA
859282 TGTGGACTAT
Statistics
Matches: 91, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
27 11 0.12
28 29 0.32
29 30 0.33
30 15 0.16
31 4 0.04
32 2 0.02
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (28 bp):
TGACAATTTGGGAATTTTGTGAAAAAAA
Found at i:860245 original size:63 final size:63
Alignment explanation
Indices: 860162--860283 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 63
860152 CTAATGTGAC
* ** * *
860162 TCTTAGGTAGGCTCTGCGGCCCTGAGATC-ATTCTCGGGTAGGCCCTGC-GGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTA-TCTCGGGTAGGCCCT-CAGGCCCTAAGATGTGT
* *
860225 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTTGGGTAGGCTCTCAGGCCCTAAGAT
1 TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGAT
860284 ATTCCCTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
62 1 0.02
63 48 0.96
64 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.29, T:0.25
Consensus pattern (63 bp):
TCTTAGGTAGGCCCCACGGCCCCGAAATCTATCTCGGGTAGGCCCTCAGGCCCTAAGATGTGT
Found at i:860355 original size:26 final size:26
Alignment explanation
Indices: 860302--860355 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
860292 AGGGTAACTC
* *
860302 TTTTATGGGATTTACTGCAGTATAAT
1 TTTTATGAGATTTACTGCACTATAAT
* *
860328 TTTTATGAGATTTACTGGACTATGAT
1 TTTTATGAGATTTACTGCACTATAAT
860354 TT
1 TT
860356 GTTTAGTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (26 bp):
TTTTATGAGATTTACTGCACTATAAT
Found at i:866731 original size:20 final size:20
Alignment explanation
Indices: 866687--866731 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
866677 ATTTTGGATT
866687 TTTTTTATTTTTTTATTTAA
1 TTTTTTATTTTTTTATTTAA
* *
866707 CTTTTTATTTTATTT-TTTAG
1 TTTTTTATTTT-TTTATTTAA
866727 TTTTT
1 TTTTT
866732 ACGAACTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTTTATTTTTTTATTTAA
Found at i:873972 original size:3 final size:3
Alignment explanation
Indices: 873964--873993 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
873954 GCCGAATTTC
873964 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
873994 TTTTTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:881062 original size:2 final size:2
Alignment explanation
Indices: 881055--881087 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
881045 TAAGTGCAAT
881055 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
881088 TTACTCATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:882115 original size:3 final size:3
Alignment explanation
Indices: 882107--882171 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
882097 GTTATTGTAT
*
882107 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
882155 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
882172 TATGTACAGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:882667 original size:12 final size:12
Alignment explanation
Indices: 882650--882675 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
882640 TATTATAATT
882650 TTATTTAAATAA
1 TTATTTAAATAA
882662 TTATTTAAATAA
1 TTATTTAAATAA
882674 TT
1 TT
882676 TTGGTATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATTTAAATAA
Found at i:888068 original size:101 final size:99
Alignment explanation
Indices: 887944--888144 Score: 312
Period size: 101 Copynumber: 2.0 Consensus size: 99
887934 TTTATCAATA
* *
887944 TATTTTTATATTAATATTGATGATATTTAGTTCTCATAGTTGATAATGATATTTGTTTGTATATA
1 TATTTTTATATTAATATTGATGATATTTAGTTATCATAGTTGATAATAATATTTGTTTGTATATA
* *
888009 TTATTTTTCTAAAAAGAAAGTTCTTTGATTGAATTT
66 -T-TTTTTATAAAAAAAAAGTTCTTTGATTGAATTT
* * *
888045 TATTTTTATGTTAATATTGATGATATTTAGTTATCATCGTTGATAATAATATTTGTTTGTATCTA
1 TATTTTTATATTAATATTGATGATATTTAGTTATCATAGTTGATAATAATATTTGTTTGTATATA
*
888110 TTTTTTATAAAAAAAAAGTTTTTTGATTGAATTT
66 TTTTTTATAAAAAAAAAGTTCTTTGATTGAATTT
888144 T
1 T
888145 TAACATTTTC
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
99 31 0.34
100 1 0.01
101 60 0.65
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.53
Consensus pattern (99 bp):
TATTTTTATATTAATATTGATGATATTTAGTTATCATAGTTGATAATAATATTTGTTTGTATATA
TTTTTTATAAAAAAAAAGTTCTTTGATTGAATTT
Found at i:888818 original size:20 final size:20
Alignment explanation
Indices: 888795--888858 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
888785 TAGTATTTAG
888795 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
888815 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
888835 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
888854 TTAAA
1 ATAAA
888859 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Done.