Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 218 of 226
Found at i:65176535 original size:3 final size:3
Alignment explanation
Indices: 65176529--65176577 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
65176519 AAAAGGGGAG
65176529 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
65176577 A
1 A
65176578 CTCCTCTGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:65179455 original size:49 final size:49
Alignment explanation
Indices: 65179392--65179501 Score: 159
Period size: 49 Copynumber: 2.2 Consensus size: 49
65179382 ACTTTACCTG
* **
65179392 AAAAAGAAG-AAACCAAGGTGAAAACCTGCAAAGGGCACCTTGAGTCCT
1 AAAAAAAAGAAAACCAAGGTGAAAACCTGCAAAGGGCACCTTGAGTCAA
* *
65179440 AAAAAAAAGAAAACCAAGGTGAAAACCTGCAAAGGGCGCTTTGAGTCAA
1 AAAAAAAAGAAAACCAAGGTGAAAACCTGCAAAGGGCACCTTGAGTCAA
65179489 AAAAAGAAAGAAA
1 AAAAA-AAAGAAA
65179502 GAAAAGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 8 0.15
49 40 0.73
50 7 0.13
ACGTcount: A:0.51, C:0.16, G:0.22, T:0.11
Consensus pattern (49 bp):
AAAAAAAAGAAAACCAAGGTGAAAACCTGCAAAGGGCACCTTGAGTCAA
Found at i:65179522 original size:16 final size:15
Alignment explanation
Indices: 65179499--65179528 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
65179489 AAAAAGAAAG
65179499 AAAGAAAAGAAAAAC
1 AAAGAAAAGAAAAAC
65179514 AAAGAAAAAGAAAAA
1 AAAG-AAAAGAAAAA
65179529 AAGAGAGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAC
Found at i:65179530 original size:19 final size:19
Alignment explanation
Indices: 65179487--65179530 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
65179477 GCTTTGAGTC
*
65179487 AAAAAAAGAAAGAAAGAAA
1 AAAAAAACAAAGAAAGAAA
* *
65179506 AGAAAAACAAAGAAA-AAG
1 AAAAAAACAAAGAAAGAAA
65179524 AAAAAAA
1 AAAAAAA
65179531 GAGAGGCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAACAAAGAAAGAAA
Found at i:65179665 original size:41 final size:42
Alignment explanation
Indices: 65179603--65179682 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 42
65179593 CCCAAAAAGG
*
65179603 GCAGCTCAAATTTTGATCAGAATGGGACATGAGGTGATCAGA
1 GCAGCTCAAATTTTGACCAGAATGGGACATGAGGTGATCAGA
* *
65179645 GCAGC-CAAATTTTGACCAGAATGGGGCATGTGGTGATC
1 GCAGCTCAAATTTTGACCAGAATGGGACATGAGGTGATC
65179683 TTGCTATACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 30 0.86
42 5 0.14
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (42 bp):
GCAGCTCAAATTTTGACCAGAATGGGACATGAGGTGATCAGA
Found at i:65180967 original size:89 final size:89
Alignment explanation
Indices: 65180840--65181020 Score: 231
Period size: 89 Copynumber: 2.0 Consensus size: 89
65180830 GTAGTGAAAC
* * * * *
65180840 AGATTGAAGACACCAGCCTCACCTCCCTGAGTTTGCAGC-AGAGCGGAGTAAAAATAGC-AGATC
1 AGATCGAAAACACCAGCCTCACCTCCCTGAGTTGGCAGCGA-AGCAGACTAAAAATAGCAAG-TC
* *
65180903 TTGTCTTTCTGTATTGGCAGCGAAGT
64 TTGTCTTCCTGTATTGCCAGCGAAGT
* * *
65180929 AGATCGAAAACACCAGCCTCACCTCCCTGAGTTGGCAGCGAAGTAGACTGAAGATAGCAAGTCTT
1 AGATCGAAAACACCAGCCTCACCTCCCTGAGTTGGCAGCGAAGCAGACTAAAAATAGCAAGTCTT
*
65180994 GTCTTCCTGTATTGCCAGTGAAGT
66 GTCTTCCTGTATTGCCAGCGAAGT
65181018 AGA
1 AGA
65181021 CTGAAGATTT
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 76 0.96
90 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (89 bp):
AGATCGAAAACACCAGCCTCACCTCCCTGAGTTGGCAGCGAAGCAGACTAAAAATAGCAAGTCTT
GTCTTCCTGTATTGCCAGCGAAGT
Found at i:65181520 original size:44 final size:43
Alignment explanation
Indices: 65181470--65181926 Score: 176
Period size: 44 Copynumber: 10.7 Consensus size: 43
65181460 AAATTAATCC
**
65181470 TATCTCTCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TAAAACCACAGATCT
*** *
65181514 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGTATCA-AG-TCT
1 TATCTCTCTGAAGTTGCAGTAGAGTAGATAAAACCACAGATCT
* * * * * * * *
65181555 TATCTCCCT-AAGTAGTAGTGGAGAAGACAGAAGA-AATCA-ATCC
1 TATCTCTCTGAAGTTGCAGTAGAGTAGATA-AA-ACCA-CAGATCT
* * *
65181598 TATCTCCCTGAAGTTGTAGTGGAGT-GAATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGTAG-A-TAAAACCACAGATCT
*** *
65181642 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCA-AG-TCT
1 TATCTCTCTGAAGTTGCAGTAGAGTAGATAAAACCACAGATCT
* ** * * * * *
65181683 TATCTCCCT-AAGCAGTAGTGGAGCAGACATAAGAA--ATTA-ATCC
1 TATCTCTCTGAAGTTGCAGTAGAGTAG--ATAA-AACCA-CAGATCT
* * * * *
65181726 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCAGAGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TAAAACCACAGATCT
* *** *
65181770 TATCTCTCTGAAGTTGCAGTAAAGTAGATCGCATCA-AG-TCT
1 TATCTCTCTGAAGTTGCAGTAGAGTAGATAAAACCACAGATCT
* ** * * * * * * *
65181811 TATCTC-CAT-AGGCAGTAGTGGAGCAGACAGAAGA-AATTA-ATCC
1 TATCTCTC-TGAAGTTGCAGTAGAGTAGATA-AA-ACCA-CAGATCT
* * *
65181854 TATCTCCCTGAAGTTGCAGTAAAGTGGATTAAAACCACAGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGTAGA-TAAAACCACAGATCT
65181898 TATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 TATCTCTCTGAAGTTGCAGTAGAGTAGAT
65181927 CGCATCAAGT
Statistics
Matches: 299, Mismatches: 81, Indels: 67
0.67 0.18 0.15
Matches are distributed among these distances:
40 38 0.13
41 35 0.12
42 13 0.04
43 58 0.19
44 152 0.51
45 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (43 bp):
TATCTCTCTGAAGTTGCAGTAGAGTAGATAAAACCACAGATCT
Found at i:65181730 original size:84 final size:84
Alignment explanation
Indices: 65181386--65181990 Score: 226
Period size: 84 Copynumber: 7.1 Consensus size: 84
65181376 CCACAGATCT
* * * * *
65181386 TATCTCTCTGAAGTTGCAGTAGAGTAGATTGCATTAAATCTTATCTCCCT-AAGCAGTAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCAAGTCTTATCTCCCTGAAGCAGTAGTGGAG
* *
65181450 CAGACAGAAGAAATTAATCC
66 CAGA-ATAAGAAATCAATCC
* * * * ** * *
65181470 TATCTCTCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TAGAATCA-AG-TCTTATCTCCCTGAAGCAGTAGTG
* * * *
65181535 GAGTAG-AT-CG-TATCAAGTCT
63 GAGCAGAATAAGAAATCAA-TCC
* * * * **
65181555 TATCTCCCT-AAGTAGTAGTGGAGAAGACAGA-AGAAATCAA-TCCTATCTCCCTGAAGTTGTAG
1 TATCTCTCTGAAGTTGCAGT--AG-AG-CAGATAG-AATCAAGTCTTATCTCCCTGAAGCAGTAG
* *
65181617 TGGAG-TGAATTAA-AACCA-CAGATCT
61 TGGAGCAGAA-TAAGAA--ATCA-ATCC
* * *
65181642 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCT-AAGCAGTAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCAAGTCTTATCTCCCTGAAGCAGTAGTGGAG
*
65181706 CAGACATAAGAAATTAATCC
66 CAGA-ATAAGAAATCAATCC
* * * * * * ** * *
65181726 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCAGAGATCTTATCTCTCTGAAGTTGCAGTA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TAGAATCA-AG-TCTTATCTCCCTGAAGCAGTAGTG
* * * * *
65181791 AAGTAG-AT-CG-CATCAAGTCT
63 GAGCAGAATAAGAAATCAA-TCC
* * * * * ** *
65181811 TATCTC-CATAGGCAGTAGTGGAGCAGA-CAGA-AGAAATTAA-TCCTATCTCCCTGAAGTTGCA
1 TATCTCTC-T--GAAGT--TGCAGTAGAGCAGATAG-AATCAAGTCTTATCTCCCTGAAGCAGTA
** ** * *
65181872 GTAAAGTGGATTAA-AACCA-CAGATCT
60 GTGGAGCAGAATAAGAA--ATCA-ATCC
* * *
65181898 TATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCT-AAGCAGTAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCAAGTCTTATCTCCCTGAAGCAGTAGTGGAG
*
65181962 CAGACAGAAGAAATCAATCC
66 CAGA-ATAAGAAATCAATCC
65181982 TATCTCTCT
1 TATCTCTCT
65181991 AAATTTACAG
Statistics
Matches: 378, Mismatches: 95, Indels: 96
0.66 0.17 0.17
Matches are distributed among these distances:
83 8 0.02
84 173 0.46
85 70 0.19
86 19 0.05
87 59 0.16
88 43 0.11
89 6 0.02
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (84 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATAGAATCAAGTCTTATCTCCCTGAAGCAGTAGTGGAG
CAGAATAAGAAATCAATCC
Found at i:65182306 original size:128 final size:128
Alignment explanation
Indices: 65181207--65182274 Score: 1616
Period size: 128 Copynumber: 8.3 Consensus size: 128
65181197 TTTAAGCCAC
* * *
65181207 CAATCCTATCTTCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
65181272 GCAGTAGAGTACATCGCATTAAGTCTTATCTCCCTAAGCAGTAGTGGAGAAGACAGAAGAAAT
66 GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * **
65181335 CAATCCAATCTCCCTAAAGTTATAGTGGAGCGGATTCAAAACCACAGATCTTATCTCTCTGAAGT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAACCACAGATCTTATCTCTCTGAAGT
* * *
65181400 TGCAGTAGAGTAGATTGCATTAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
65 TGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * *
65181464 TAATCCTATCTCTCTGAAGTTGCAGTAGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
65181529 GCAGTAGAGTAGATCGTATCAAGTCTTATCTCCCTAAGTAGTAGTGGAGAAGACAGAAGAAAT
66 GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * *
65181592 CAATCCTATCTCCCTGAAGTTGTAGTGGAGTGAATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
*
65181657 GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACATAAGAAAT
66 GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * * *
65181720 TAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACCAGAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * *
65181785 GCAGTAAAGTAGATCGCATCAAGTCTTATCTCCATAGGCAGTAGTGGAGCAGACAGAAGAAAT
66 GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* ** *
65181848 TAATCCTATCTCCCTGAAGTTGCAGTAAAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
65181913 GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
66 GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * * * *
65181976 CAATCCTATCTCTCTAAATTTACAGTGGAACGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
* * * *
65182041 GTAGTAAAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGATAGAAGAAAT
66 GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * * *
65182104 TAATCCTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAACCACAGATCTTACCTCTC-GAAAGT
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTG-AAGT
* * * *
65182168 TGCAGTAGAGTAGATCGCATCATGTATTATTTCCCTAAGCAGTAGTGGAGCAGACAAAAGAAAT
65 TGCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
* * * *
65182232 CAATTCTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAACCA
1 CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
65182275 TGAATCTCGT
Statistics
Matches: 849, Mismatches: 89, Indels: 4
0.90 0.09 0.00
Matches are distributed among these distances:
127 1 0.00
128 732 0.86
129 116 0.14
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (128 bp):
CAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTT
GCAGTAGAGTAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAAT
Found at i:65182971 original size:27 final size:26
Alignment explanation
Indices: 65182907--65182971 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
65182897 ATAGATGTGA
* *
65182907 CTTTTTCATTTTTTTAATTTTTTCTT
1 CTTTTTCATTTATTCAATTTTTTCTT
* *
65182933 CTTTATTTATTTATTCATTTTTTTCTT
1 CTTT-TTCATTTATTCAATTTTTTCTT
65182960 CTTTTTACATTT
1 CTTTTT-CATTT
65182972 TGTACATGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (26 bp):
CTTTTTCATTTATTCAATTTTTTCTT
Found at i:65183770 original size:3 final size:3
Alignment explanation
Indices: 65183762--65183808 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
65183752 ATTAGCATTG
65183762 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
65183809 CACTATTTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:65184258 original size:6 final size:6
Alignment explanation
Indices: 65184247--65184275 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
65184237 CGCACCTATA
65184247 TATATC TATATC TATATC TATATC TATAT
1 TATATC TATATC TATATC TATATC TATAT
65184276 ATGTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (6 bp):
TATATC
Found at i:65184349 original size:19 final size:20
Alignment explanation
Indices: 65184327--65184364 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
65184317 TCTATGTATT
*
65184327 TTTTATATATAT-TACATAA
1 TTTTATATACATATACATAA
65184346 TTTTATATACATATACATA
1 TTTTATATACATATACATA
65184365 GATGTACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTATATACATATACATAA
Found at i:65189408 original size:30 final size:30
Alignment explanation
Indices: 65189372--65189432 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
65189362 CAAATTTCAG
* * *
65189372 GAGCCACACGGGTTGGGCACACGCCCTTGT
1 GAGCCACACGGGCTGGACACACGCCCATGT
65189402 GAGCCACACGGGCTGGACACACGCCCATGT
1 GAGCCACACGGGCTGGACACACGCCCATGT
65189432 G
1 G
65189433 CCAGCCCGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.34, G:0.33, T:0.13
Consensus pattern (30 bp):
GAGCCACACGGGCTGGACACACGCCCATGT
Found at i:65190106 original size:12 final size:12
Alignment explanation
Indices: 65190089--65190113 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65190079 ACTTGTAAAG
65190089 TTATTATATAAT
1 TTATTATATAAT
65190101 TTATTATATAAT
1 TTATTATATAAT
65190113 T
1 T
65190114 ATGTTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTATATAAT
Found at i:65203984 original size:9 final size:9
Alignment explanation
Indices: 65203956--65203985 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
65203946 TCTCTTTTCG
65203956 GTAGCATCT
1 GTAGCATCT
*
65203965 GAAGCATCT
1 GTAGCATCT
65203974 GTAGCATCT
1 GTAGCATCT
65203983 GTA
1 GTA
65203986 TCACTCTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (9 bp):
GTAGCATCT
Found at i:65206804 original size:13 final size:13
Alignment explanation
Indices: 65206788--65206812 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65206778 AGTATTCAAT
65206788 CCAACCCAATTAC
1 CCAACCCAATTAC
65206801 CCAACCCAATTA
1 CCAACCCAATTA
65206813 ATCATAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
CCAACCCAATTAC
Found at i:65206931 original size:9 final size:9
Alignment explanation
Indices: 65206911--65206977 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
65206901 GTAGTGATTC
*
65206911 AATTCAGTT
1 AATTCGGTT
*
65206920 AATTCGGGT
1 AATTCGGTT
65206929 AATTCGAG-T
1 AATTCG-GTT
65206938 AATTCGGTT
1 AATTCGGTT
65206947 AATTCGGTT
1 AATTCGGTT
*
65206956 AATTTGGTT
1 AATTCGGTT
65206965 AATTCGGTT
1 AATTCGGTT
65206974 AATT
1 AATT
65206978 TTTAACCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
8 1 0.02
9 50 0.96
10 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:65209620 original size:16 final size:16
Alignment explanation
Indices: 65209588--65209621 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
65209578 ATTGTTTTAG
*
65209588 TTATTTATTTAATTTT
1 TTATTTATTTAACTTT
*
65209604 TTATTTATTTAGCTTT
1 TTATTTATTTAACTTT
65209620 TT
1 TT
65209622 TTAACTTGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATTTATTTAACTTT
Found at i:65213127 original size:42 final size:42
Alignment explanation
Indices: 65213068--65213151 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
65213058 TATCCCTAAA
65213068 TTTCCTTTTATCTTCAATTTAGTCCCTACAAGATGAAAAACC
1 TTTCCTTTTATCTTCAATTTAGTCCCTACAAGATGAAAAACC
*
65213110 TTTCCTTTTGTCTTCAATTTAGTCCCTACAAGATGAAAAACC
1 TTTCCTTTTATCTTCAATTTAGTCCCTACAAGATGAAAAACC
65213152 ATAAACAACC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (42 bp):
TTTCCTTTTATCTTCAATTTAGTCCCTACAAGATGAAAAACC
Found at i:65213852 original size:18 final size:18
Alignment explanation
Indices: 65213829--65213871 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
65213819 CAATAGGTTT
65213829 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
65213847 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
65213865 TTAATTA
1 TTAATTA
65213872 CATGTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:65214667 original size:34 final size:32
Alignment explanation
Indices: 65214629--65214695 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 32
65214619 TTTTTTAAAT
65214629 AAATA-TCAAAAATTTATTTTAAAAATTAAAAAAA
1 AAATATTCAAAAA--TATTTT-AAAATTAAAAAAA
*
65214663 AAATATTTTAAAAATATTTTAAAATTAAAAAAA
1 AAATA-TTCAAAAATATTTTAAAATTAAAAAAA
65214696 TTTTAAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 13 0.43
34 11 0.37
36 6 0.20
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (32 bp):
AAATATTCAAAAATATTTTAAAATTAAAAAAA
Found at i:65214675 original size:11 final size:11
Alignment explanation
Indices: 65214661--65214767 Score: 81
Period size: 11 Copynumber: 10.4 Consensus size: 11
65214651 AAATTAAAAA
65214661 AAAAATATTTT
1 AAAAATATTTT
65214672 AAAAATATTTT
1 AAAAATATTTT
65214683 --AAA-A--TT
1 AAAAATATTTT
*
65214689 AAAAAAATTTT
1 AAAAATATTTT
*
65214700 AAAAGTATTTT
1 AAAAATATTTT
65214711 AAAAATATTTT
1 AAAAATATTTT
65214722 --AAA-A--TT
1 AAAAATATTTT
*
65214728 AAAAAAATTTT
1 AAAAATATTTT
65214739 AAAAAAAGTATTTT
1 --AAAAA-TATTTT
*
65214753 AAAAGTATTTT
1 AAAAATATTTT
65214764 AAAA
1 AAAA
65214768 TTAAAAAAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 26
0.72 0.05 0.24
Matches are distributed among these distances:
6 4 0.05
8 8 0.10
9 8 0.10
11 44 0.56
12 4 0.05
13 5 0.06
14 5 0.06
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:65214711 original size:39 final size:40
Alignment explanation
Indices: 65214660--65214777 Score: 193
Period size: 39 Copynumber: 2.9 Consensus size: 40
65214650 AAAATTAAAA
*
65214660 AAAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTT
65214700 -AAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTT
1 AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTT
*
65214739 AAAAAAAGTATTTTAAAAGTATTTTAAAATTAAAAAAAT
1 --AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAAT
65214778 AAAAAAAAAT
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
39 38 0.52
42 35 0.48
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (40 bp):
AAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTTT
Found at i:65217031 original size:15 final size:13
Alignment explanation
Indices: 65216997--65217030 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
65216987 TATACATTAT
*
65216997 TTATTTTATTTTC
1 TTATTTTATATTC
65217010 TTATTTTATATTC
1 TTATTTTATATTC
65217023 TTGATTTT
1 TT-ATTTT
65217031 TTTAGGCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (13 bp):
TTATTTTATATTC
Found at i:65220431 original size:112 final size:110
Alignment explanation
Indices: 65220201--65220625 Score: 543
Period size: 112 Copynumber: 3.9 Consensus size: 110
65220191 ATATTTGGCT
** * * * * *
65220201 ATTTGGTCAAATG-GAAAAATCGAAACCCAGCGCATTAGGGCACGTTTCCTTAAATTTCCAAACG
1 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCAAATTTCCAAACG
* ** * *
65220265 CAAAATATTATCTTACTTCG-AAATTTTTAAAAGGATATTTAGA-C
66 CAAAACATTGCCTTATTTTGAAAATTTTTAAAAGGATATTTA-ACC
* * *
65220309 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGACATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCAAATTT-CCAAAC
*
65220374 ACAAAACATTGCCTTATTTTGAAAATATTTTAAAAGGATATTTAACC
65 GCAAAACATTGCCTTATTTTGAAAAT-TTTTAAAAGGATATTTAACC
*
65220421 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCCAAAC
1 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCAAATTT-CCAAAC
*
65220486 GCAAAACATTGCCTTATTTTAAAAATTTTTAAAAGGATA-TTAAGCC
65 GCAAAACATTGCCTTATTTTGAAAATTTTTAAAAGGATATTTAA-CC
* * * *
65220532 ATTTGGTTGAACGAGAAAAATCGACACCCACCACCTTAGGGCACGTTTTCTCGAATTTCCAAATG
1 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCAAATTTCCAAACG
* * * *
65220597 CTAAATATTGCCTCATTTAGAAAATTTTT
66 CAAAACATTGCCTTATTTTGAAAATTTTT
65220626 CTTTTTTGAA
Statistics
Matches: 281, Mismatches: 30, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
108 11 0.04
109 36 0.13
110 55 0.20
111 74 0.26
112 105 0.37
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (110 bp):
ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCAAATTTCCAAACG
CAAAACATTGCCTTATTTTGAAAATTTTTAAAAGGATATTTAACC
Found at i:65221202 original size:3 final size:3
Alignment explanation
Indices: 65221194--65221224 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
65221184 ATATACAAGC
65221194 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
65221225 TGAAATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:65222204 original size:44 final size:44
Alignment explanation
Indices: 65222151--65222251 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
65222141 CCTCGATCTA
* * *
65222151 CTCCGCTACTGCTGAGGAAGGCAAGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTGAGGAAGACAAGATCTACCATCTTCGACCTG
* * * *
65222195 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
1 CTCCACTACTGCTGAGGAAGACAAGATCTACCATCTTCGACCTG
*
65222239 CTCCACTATTGCT
1 CTCCACTACTGCT
65222252 TAGGGAGATA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTGAGGAAGACAAGATCTACCATCTTCGACCTG
Found at i:65222252 original size:44 final size:43
Alignment explanation
Indices: 65222175--65222351 Score: 203
Period size: 44 Copynumber: 4.0 Consensus size: 43
65222165 AGGAAGGCAA
65222175 GATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAG
1 GATCTACCATC-TTGACCTGCTCCACTACTGCTTAGGGAGATAG
*
65222219 GATCTACCATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAG
1 GATCTACCATCTT-GACCTGCTCCACTACTGCTTAGGGAGATAG
***** * * * *
65222263 GA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAG
1 GATCTACCATCTT-GACCTGCTCCACTACTGCTTAGGGAGATAG
* *
65222306 GATCTACCATCTTTATCCTGCCCCACTACTGCTTAGGGAGATAG
1 GATCTACCATCTTGA-CCTGCTCCACTACTGCTTAGGGAGATAG
65222350 GA
1 GA
65222352 CTGGTGGCTT
Statistics
Matches: 108, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
43 35 0.32
44 73 0.68
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.29
Consensus pattern (43 bp):
GATCTACCATCTTGACCTGCTCCACTACTGCTTAGGGAGATAG
Found at i:65222297 original size:43 final size:43
Alignment explanation
Indices: 65222192--65222384 Score: 181
Period size: 44 Copynumber: 4.4 Consensus size: 43
65222182 CATCTTTGAC
***** ** *
65222192 CTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAAT
*
65222236 CTGCTCCACTATTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
* * ***** *
65222279 CTGCTTCACTACTGCTTAGGAAGATAGGATCTACCATCTT-TAT
1 CTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAAT
*
65222322 CCTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
1 -CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
*
65222366 CTGCTTCACTACTGCTTAG
1 CTGCTCCACTACTGCTTAG
65222385 ATAAGATTCG
Statistics
Matches: 117, Mismatches: 29, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
43 56 0.48
44 61 0.52
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (43 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
Found at i:65222337 original size:175 final size:175
Alignment explanation
Indices: 65222017--65222338 Score: 425
Period size: 175 Copynumber: 1.8 Consensus size: 175
65222007 TTGATGCGAT
*
65222017 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGG
* * * * *
65222082 AGATAGGACTGGTGGCTTTAATTTGCTTCCTACTACCTTGGAAAGATAAGATTTGCCGTCCTCGA
66 AGATAGGACTGGTGGCTTAAATCTGCTTCCTACTACCTTGGAAAGATAAGATCTACCATCCTCGA
* *
65222147 TCTACTCCGCTACTGCTGAGGAAGGCAAGATCTACCATCTTTGAC
131 TCTACCCCACTACTGCTGAGGAAGGCAAGATCTACCATCTTTGAC
* * * * * *
65222192 CTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTGCTCCACTATTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGG
* * *
65222257 AGATAGGACTGGTGGCTTAAATCTGCTTCACTACT-GCTTAGG-AAGATAGGATCTACCAT-CTT
66 AGATAGGACTGGTGGCTTAAATCTGCTTC-CTACTACCTT-GGAAAGATAAGATCTACCATCCTC
* *
65222319 TATCCTGCCCCACTACTGCT
129 GAT-CTACCCCACTACTGCT
65222339 TAGGGAGATA
Statistics
Matches: 125, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
174 4 0.03
175 114 0.91
176 7 0.06
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (175 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAGGG
AGATAGGACTGGTGGCTTAAATCTGCTTCCTACTACCTTGGAAAGATAAGATCTACCATCCTCGA
TCTACCCCACTACTGCTGAGGAAGGCAAGATCTACCATCTTTGAC
Found at i:65222339 original size:87 final size:87
Alignment explanation
Indices: 65221977--65222384 Score: 335
Period size: 87 Copynumber: 4.7 Consensus size: 87
65221967 TTTCTTCTGT
* * * * * *
65221977 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAT-GC---GATCTGCTCCACTACTGCTTAGGG
1 CTGCCCCACTACTGCTTAGGGAGATAGGAC-TGGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
* * *
65222038 AGATAAGATCTACAATCTTCAAC
65 AGATAGGATCTACCATCTTCGAC
* * * * * * *
65222061 CTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTTAATTTGCTTC-CTACTACCTT-GGA
1 CTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACT-GCTTAGG-
* * * * * *
65222124 AAGATAAGATTTGCCGTCCTCGAT
64 AAGATAGGATCTACCATCTTCGAC
* * * * * ** * ***** ** * * *
65222148 CTACTCCGCTACTGCTGAGGAAGGCAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGG
1 CTGCCCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGA
65222213 AGATAGGATCTACCATCTTCGAC
65 AGATAGGATCTACCATCTTCGAC
* *
65222236 CTGCTCCACTATTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
*
65222301 GATAGGATCTACCATCTT-TATC
66 GATAGGATCTACCATCTTCGA-C
65222323 CTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAG
1 CTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAG
65222385 ATAAGATTCG
Statistics
Matches: 252, Mismatches: 62, Indels: 17
0.76 0.19 0.05
Matches are distributed among these distances:
83 3 0.01
84 28 0.11
86 8 0.03
87 153 0.61
88 53 0.21
89 7 0.03
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (87 bp):
CTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATAGGATCTACCATCTTCGAC
Found at i:65222566 original size:86 final size:86
Alignment explanation
Indices: 65222457--65223390 Score: 1600
Period size: 86 Copynumber: 10.9 Consensus size: 86
65222447 AGTCTGGTCT
* *
65222457 GCTGTTAACGCAGGAAGGCAAGATCTGTTTCTTTAACCAACTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
65222522 GCTTTGTTTTCGATCTACTTC
66 GCTTTGTTTTCGATCTGCTTC
* * *
65222543 GCTGTTAACACAAGAAGGCAAGATCAGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
**
65222608 GCTTTGTTTTTTATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
*
65222629 GCTGTTAACGCAGGAAGGCAAGATCAGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
* *
65222694 GCTTTGTTTTTGATCTACTTC
66 GCTTTGTTTTCGATCTGCTTC
*
65222715 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGTTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
* *
65222780 GCTTTGTTTTTGATCTGTTTC
66 GCTTTGTTTTCGATCTGCTTC
*
65222801 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCTATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
65222866 GCTTTGTTTTCAATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
** *
65222887 GCTGTTAACGCAGGAAGGCAAGATCTATTTCTTTAACCAGCTCCACTGCAACTGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
65222952 GCTTTGTTTTCGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
* *
65222973 GCTGTTAACGCAGGAAGGCAAGATCTGTTTCTTTAACCAGCTCCACTGCAACCTATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
65223038 GCTTTGTTTTCGATCTGCTCC
66 GCTTTGTTTTCGATCTGCTTC
*
65223059 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGTTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
65223124 GCTTTGTTTTCGATTTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
65223145 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
65223210 GCTTTGTTTTCGATCTGTTTC
66 GCTTTGTTTTCGATCTGCTTC
* * *
65223231 GCTGTTAACGC-GGAAGGCAAGATCTGTTTCTTTAACTAGCTCCACTGCAACCGATGGAGGAAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
65223295 GCTTTGTTTTCGATCTGCTTC
66 GCTTTGTTTTCGATCTGCTTC
65223316 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
*
65223381 GCTTTATTTT
66 GCTTTGTTTT
65223391 TAATCTTCAC
Statistics
Matches: 801, Mismatches: 46, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
85 81 0.10
86 720 0.90
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (86 bp):
GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
GCTTTGTTTTCGATCTGCTTC
Found at i:65222605 original size:43 final size:43
Alignment explanation
Indices: 65222472--65223380 Score: 235
Period size: 43 Copynumber: 21.2 Consensus size: 43
65222462 TAACGCAGGA
* *
65222472 AGGCAAGATCTGTTTCTTTAACCAACTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * * * * * *
65222515 AGGCAAGGCTTTG-TT-TTCGATCTA-CTTCGCTGTTAACAC-AAGA
1 AGGCAA-GATCTGCTTCTT-TAACCAGCTCCACTG-CAAC-CGATGG
*
65222558 AGGCAAGATCAGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * * * *
65222601 AGGCAAGGCTTTG-TT-TTTTATCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG
*
65222643 AAGGCAAGATCAGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * * *
65222687 AGGCAAGGCTTTG-TT-TTTGATCTA-CTTCGCTGTTAA-CGCA-GG
1 AGGCAA-GATCTGCTTCTTT-AACCAGCTCCACTG-CAACCG-ATGG
*
65222729 AAGGCAAGATCTGCTTCTTTAACCAGTTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * * * * *
65222773 AGGCAAGGCTTTG-TT-TTTGATCTGTTTCGCTGTTAA-CGCA-GG
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG
*
65222815 AAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCTATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * * * * * * *
65222859 AGGCAAGGCTTTG-TT-TTCAATCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG
** *
65222901 AAGGCAAGATCTATTTCTTTAACCAGCTCCACTGCAACTGATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * ** * * * * *
65222945 AGGCAAGGCTTTG-TT-TTCGATCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG
* *
65222987 AAGGCAAGATCTGTTTCTTTAACCAGCTCCACTGCAACCTATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * ** * * * *
65223031 AGGCAAGGCTTTG-TT-TTCGATCTGCTCCGCTGTTAA-CGCA-GG
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG
*
65223073 AAGGCAAGATCTGCTTCTTTAACCAGTTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * ** *** * * *
65223117 AGGCAAGGCTTTG-TT-TTCGATTTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG
65223159 AAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * ** * * * * * * *
65223203 AGGCAAGGCTTTG-TT-TTCGATCTGTTTCGCTGTTAACGCG--GA
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAAC-CGATGG
* *
65223245 AGGCAAGATCTGTTTCTTTAACTAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
* * * ** * * * * *
65223288 AGGAAAGGCTTTG-TT-TTCGATCTGCTTCGCTGTTAA-CGCA-GG
1 AGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-CAACCG-ATGG
65223330 AAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
65223374 AGGCAAG
1 AGGCAAG
65223381 GCTTTATTTT
Statistics
Matches: 589, Mismatches: 196, Indels: 162
0.62 0.21 0.17
Matches are distributed among these distances:
41 6 0.01
42 180 0.31
43 240 0.41
44 163 0.28
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (43 bp):
AGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGG
Found at i:65224620 original size:7 final size:7
Alignment explanation
Indices: 65224608--65224647 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
65224598 TTAGCCTCTC
65224608 CATTTTT
1 CATTTTT
65224615 CA-TTTT
1 CATTTTT
65224621 CATTTTT
1 CATTTTT
65224628 CATTTTT
1 CATTTTT
*
65224635 CA-TTCT
1 CATTTTT
65224641 CATTTTT
1 CATTTTT
65224648 TTTTCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 11 0.38
7 18 0.62
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (7 bp):
CATTTTT
Found at i:65224626 original size:13 final size:14
Alignment explanation
Indices: 65224608--65224647 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 14
65224598 TTAGCCTCTC
65224608 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
65224621 CATTTTTCATTTTT
1 CATTTTTCATTTTT
*
65224635 CA-TTCTCATTTTT
1 CATTTTTCATTTTT
65224648 TTTTCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:65224631 original size:20 final size:20
Alignment explanation
Indices: 65224608--65224647 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
65224598 TTAGCCTCTC
*
65224608 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTCTCATTTTT
65224628 CATTTTTCATTCTCATTTTT
1 CATTTTTCATTCTCATTTTT
65224648 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.68
Consensus pattern (20 bp):
CATTTTTCATTCTCATTTTT
Found at i:65229052 original size:112 final size:110
Alignment explanation
Indices: 65228819--65229243 Score: 543
Period size: 112 Copynumber: 3.9 Consensus size: 110
65228809 ATATTTGGCT
** * * * * * **
65228819 ATTTGGTCAAATG-GAAAAATCGAAACCCAGCGCATTAGGGCACATTTCCTTAAATTTCCAAACG
1 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACG
* ** * * **
65228883 CAAAATATTATCTTACTTCG-AAATTTTTAAAAGGATATTTAGTC
66 CAAAACATTGCCTTATTTTGAAAATTTTTAAAAGGATATTTAACC
*
65228927 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTT-CCAAAC
*
65228992 ACAAAACATTGCCTTATTTTGAAAATATTTTAAAAGGATATTTAACC
65 GCAAAACATTGCCTTATTTTGAAAAT-TTTTAAAAGGATATTTAACC
*
65229039 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTT-CCAAAC
65229104 GCAAAACATTGCCTTATTTT-ACAAATTTTTAAAAGGATA-TTAAGCC
65 GCAAAACATTGCCTTATTTTGA-AAATTTTTAAAAGGATATTTAA-CC
* *
65229150 ATTTGGTTGAACGAGAAAAATCGACACCCACCACCTTAGGGCACGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACG
* * * * *
65229215 CTAAATATTGCCTCATTTAGAAAAATTTT
66 CAAAACATTGCCTTATTTTGAAAATTTTT
65229244 CTTTTTTGAA
Statistics
Matches: 283, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
108 11 0.04
109 36 0.13
110 54 0.19
111 76 0.27
112 106 0.37
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (110 bp):
ATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTGAAAATTTTTAAAAGGATATTTAACC
Found at i:65232225 original size:24 final size:24
Alignment explanation
Indices: 65232197--65232248 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
65232187 TTAGTAAGTC
* *
65232197 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
65232221 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
65232245 AAAT
1 AAAT
65232249 CTTCTGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:65233972 original size:24 final size:24
Alignment explanation
Indices: 65233932--65233989 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
65233922 ATATGGAAAG
* *
65233932 AAAT-AAAAATATTTTATATTAAT
1 AAATAAAAAATATATTATACTAAT
*
65233955 AAATAAAAAATATATTATGCTAAT
1 AAATAAAAAATATATTATACTAAT
*
65233979 AAATAATAAAT
1 AAATAAAAAAT
65233990 TTTCTAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATAAAAAATATATTATACTAAT
Found at i:65234458 original size:42 final size:42
Alignment explanation
Indices: 65234364--65234446 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
65234354 AAGCTCGAGC
** *
65234364 TCAAGTTCGA-TCTTGAGTATGAAAATTGATAAACAAGTTTAA
1 TCAAGTTCGAGT-TTGAGTACAAAAATTGATAAACAAGCTTAA
*
65234406 TCAAGTTCGAGTTTGAGTACAAAAATTGATAAATAAGCTTA
1 TCAAGTTCGAGTTTGAGTACAAAAATTGATAAACAAGCTTA
65234447 TTTGAATTCG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.33
Consensus pattern (42 bp):
TCAAGTTCGAGTTTGAGTACAAAAATTGATAAACAAGCTTAA
Found at i:65242410 original size:24 final size:23
Alignment explanation
Indices: 65242383--65242440 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
65242373 AAAGAGAAAT
*
65242383 GTATGTATTTTTGAAATATTAATG
1 GTATATATTTTTGAAA-ATTAATG
*
65242407 GTATATTTTTTTTGAAAATTAATG
1 GTATA-TATTTTTGAAAATTAATG
*
65242431 CTATATATTT
1 GTATATATTT
65242441 AATGTACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.14
24 15 0.52
25 10 0.34
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (23 bp):
GTATATATTTTTGAAAATTAATG
Found at i:65258289 original size:18 final size:18
Alignment explanation
Indices: 65258241--65258309 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 18
65258231 CCTAACTACT
* *
65258241 GTATACGTGAACAGTATC
1 GTATACGTGAATAGTGTC
*
65258259 GTATATGTGAATAGTGTC
1 GTATACGTGAATAGTGTC
*
65258277 GTATACGTAAATAGTG-C
1 GTATACGTGAATAGTGTC
*
65258294 TGTATACATGAATAGT
1 -GTATACGTGAATAGT
65258310 ACCGTAAACG
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 1 0.02
18 42 0.98
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (18 bp):
GTATACGTGAATAGTGTC
Found at i:65262192 original size:3 final size:3
Alignment explanation
Indices: 65262186--65262236 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
65262176 AAAAGAGAGA
* *
65262186 AAG AAG AAG -AG GAG AAG GAG AAG AAG AAG AAG -AG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
65262232 AAG AA
1 AAG AA
65262237 AGTTTATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:65262211 original size:20 final size:20
Alignment explanation
Indices: 65262186--65262236 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
65262176 AAAAGAGAGA
* *
65262186 AAGAAGAAGAGGAGAAGGAG
1 AAGAAGAAGAAGAGAAGAAG
65262206 AAGAAGAAGAAGAGAAGAAG
1 AAGAAGAAGAAGAGAAGAAG
65262226 AAGAAGAAGAA
1 AAGAAGAAGAA
65262237 AGTTTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
AAGAAGAAGAAGAGAAGAAG
Found at i:65262227 original size:17 final size:17
Alignment explanation
Indices: 65262178--65262235 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
65262168 GAGAAAAAAA
65262178 AAGAGAGAA-AGAAGAAG
1 AAGA-AGAAGAGAAGAAG
*
65262195 -AGGAGAAG-G-AGAAG
1 AAGAAGAAGAGAAGAAG
65262209 AAGAAGAAGAGAAGAAG
1 AAGAAGAAGAGAAGAAG
65262226 AAGAAGAAGA
1 AAGAAGAAGA
65262236 AAGTTTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 5 0.14
15 12 0.34
16 3 0.09
17 15 0.43
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (17 bp):
AAGAAGAAGAGAAGAAG
Found at i:65262420 original size:19 final size:19
Alignment explanation
Indices: 65262398--65262458 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
65262388 TATAGTTTAG
65262398 ATTAGAATTTTGTATGAAT
1 ATTAGAATTTTGTATGAAT
* *
65262417 ATTATAATTTTTTTATGAAT
1 ATTAGAA-TTTTGTATGAAT
*
65262437 ATT-GTAATGTTGTATGAAT
1 ATTAG-AATTTTGTATGAAT
65262456 ATT
1 ATT
65262459 GTAATTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (19 bp):
ATTAGAATTTTGTATGAAT
Found at i:65262554 original size:22 final size:20
Alignment explanation
Indices: 65262405--65262567 Score: 106
Period size: 19 Copynumber: 8.0 Consensus size: 20
65262395 TAGATTAGAA
65262405 TTTTGTATGAATATTATAAT
1 TTTTGTATGAATATTATAAT
* *
65262425 TTTTTTATGAATATTGTAA-
1 TTTTGTATGAATATTATAAT
* *
65262444 TGTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
65262464 TATTT-TAT--A-ATTA-AAT
1 T-TTTGTATGAATATTATAAT
* **
65262480 TTGTATTTATAGTTTTGGATTAGTAAT
1 TT-T-TGTAT-G-AAT--ATTA-TAAT
*
65262507 TTTTGTATGAATATTGTAA-
1 TTTTGTATGAATATTATAAT
65262526 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTAT-AA-T
*
65262548 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
65262568 AATATTATAG
Statistics
Matches: 113, Mismatches: 13, Indels: 34
0.71 0.08 0.21
Matches are distributed among these distances:
15 1 0.01
16 5 0.04
17 4 0.04
18 4 0.04
19 33 0.29
20 27 0.24
21 7 0.06
22 16 0.14
23 1 0.01
24 1 0.01
25 8 0.07
26 1 0.01
27 5 0.04
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
TTTTGTATGAATATTATAAT
Found at i:65262558 original size:41 final size:40
Alignment explanation
Indices: 65262403--65262567 Score: 162
Period size: 41 Copynumber: 4.1 Consensus size: 40
65262393 TTTAGATTAG
65262403 AATTTTGTATGAATATTATAATTTTTT-TATGAATATTGT
1 AATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
* * * *
65262442 AATGTTGTATGAATATTGTAATTATTTTATAATTAA-ATTTGT
1 AATTTTGTATGAATATTATAATT-TTTTGT-ATGAATA-TTGT
* *
65262484 -ATTTATAGTTTTG--GATTAGTAA-TTTTTGTATGAATATTGT
1 AATTT-T-G-TATGAATATTA-TAATTTTTTGTATGAATATTGT
65262524 AATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATTTTGTATGAATATTAT-AATTTTTTGTATGAATATTGT
65262565 AAT
1 AAT
65262568 AATATTATAG
Statistics
Matches: 101, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
38 3 0.03
39 23 0.23
40 19 0.19
41 36 0.36
42 13 0.13
43 4 0.04
44 3 0.03
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (40 bp):
AATTTTGTATGAATATTATAATTTTTTGTATGAATATTGT
Found at i:65262650 original size:49 final size:49
Alignment explanation
Indices: 65262516--65262728 Score: 304
Period size: 49 Copynumber: 4.3 Consensus size: 49
65262506 TTTTTGTATG
* *
65262516 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
*
65262565 AATAATAT-TATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AAT-AT-TGTA-A-TTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* * *
65262617 AATTTTGTAATTTTGTATGAATATTA-TATTTTTTTGTATGAATGTTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
* *
65262665 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
65262714 AATATTGTAATTTTG
1 AATATTGTAATTTTG
65262729 CAATTTTTAT
Statistics
Matches: 145, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
48 43 0.30
49 52 0.36
50 6 0.04
51 5 0.03
52 39 0.27
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
AATATTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGT
Found at i:65262689 original size:19 final size:19
Alignment explanation
Indices: 65262665--65262722 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 19
65262655 TGAATGTTGT
65262665 AATATTATAATTTTGTATG
1 AATATTATAATTTTGTATG
**
65262684 AATATTGCAATTTTTTTGTATG
1 AATATT---ATAATTTTGTATG
* *
65262706 AATATTGTAATATTGTA
1 AATATTATAATTTTGTA
65262723 ATTTTGCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.43
22 17 0.57
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTATAATTTTGTATG
Found at i:65262693 original size:97 final size:99
Alignment explanation
Indices: 65262516--65262728 Score: 358
Period size: 97 Copynumber: 2.2 Consensus size: 99
65262506 TTTTTGTATG
*
65262516 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTTT
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTG--ATAATATTATAATTT
65262581 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
64 TGTATGAATATTGCAATTTTTTTGTATGAATATTGT
* * *
65262617 AATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATGTTG-TAATATTATAATTTTG
1 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTTG
65262680 TATGAATATTGCAATTTTTTTGTATGAATATTGT
66 TATGAATATTGCAATTTTTTTGTATGAATATTGT
65262714 AATATTGTAATTTTG
1 AATATTGTAATTTTG
65262729 CAATTTTTAT
Statistics
Matches: 107, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
97 63 0.59
100 18 0.17
101 26 0.24
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (99 bp):
AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTTG
TATGAATATTGCAATTTTTTTGTATGAATATTGT
Found at i:65265931 original size:6 final size:6
Alignment explanation
Indices: 65265912--65265976 Score: 103
Period size: 6 Copynumber: 10.8 Consensus size: 6
65265902 AGAATGTAGT
* *
65265912 TCTGCC TCTCGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
*
65265960 CCTGGC TCTGGC TCTGG
1 TCTGGC TCTGGC TCTGG
65265977 TGCATGATGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.00, C:0.37, G:0.31, T:0.32
Consensus pattern (6 bp):
TCTGGC
Found at i:65267630 original size:16 final size:15
Alignment explanation
Indices: 65267599--65267640 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
65267589 ACAAAATCAA
*
65267599 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
65267614 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
65267630 ATAAAAATTAA
1 ATAAAAGTTAA
65267641 ATAAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:65267805 original size:38 final size:38
Alignment explanation
Indices: 65267751--65267824 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
65267741 TAAAAAACCC
*
65267751 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTAAATTTTTTTATAATT
*
65267789 AAACTTTTAATGAAATGATTTTAAATTTTTTTATAA
1 AAACTTTTAATAAAATGATTTTAAATTTTTTTATAA
65267825 ACTTTATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (38 bp):
AAACTTTTAATAAAATGATTTTAAATTTTTTTATAATT
Found at i:65268072 original size:30 final size:27
Alignment explanation
Indices: 65268020--65268246 Score: 203
Period size: 22 Copynumber: 9.1 Consensus size: 27
65268010 ATATCCTCAC
*
65268020 ATTACAATATTCATGCAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
65268047 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
*
65268069 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
65268096 ATTACAACATTCATACAAAA--A-AAT
1 ATTACAATATTCATACAAAATTACAAT
*
65268120 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAT
65268144 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
*
65268166 ATTGCAATATTCATACAAAACTATA-ATATT
1 ATTACAATATTCATACAAAA-T-TACA-A-T
65268196 ATTACAATATTCATAC-AAA--A-AAT
1 ATTACAATATTCATACAAAATTACAAT
*
65268219 -TTATAATATTCATAC-AAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
65268244 ATT
1 ATT
65268247 CATACAAAAA
Statistics
Matches: 170, Mismatches: 7, Indels: 47
0.76 0.03 0.21
Matches are distributed among these distances:
21 14 0.08
22 48 0.28
23 13 0.08
24 11 0.06
25 8 0.05
26 10 0.06
27 47 0.28
28 1 0.01
29 3 0.02
30 15 0.09
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:65268088 original size:49 final size:49
Alignment explanation
Indices: 65267972--65268246 Score: 332
Period size: 49 Copynumber: 5.6 Consensus size: 49
65267962 TTTATAAACT
* *
65267972 AATTACAATATTCATACAAAAAATTGCAATATTACAATATATCCT-C----A
1 AATTACAATATTCATAC--AAAATTACAATATTACAATAT-TCATACAAAAA
* *
65268019 CATTACAATATTCATGCAAAATTACAATATTACAATATTCATACAAAAA
1 AATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
* *
65268068 AATTACAATATTCATACAAAATTATAATATTACAACATTCATACAAAAA
1 AATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
* *
65268117 AA-TATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAA
1 AATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
*
65268165 AATTGCAATATTCATACAAAACTATA-ATATTATTACAATATTCATACAAAAA
1 AATTACAATATTCATACAAAA-T-TACA-A-TATTACAATATTCATACAAAAA
* *
65268217 ATTTATAATATTCATAC-AAATTACAATATT
1 AATTACAATATTCATACAAAATTACAATATT
65268247 CATACAAAAA
Statistics
Matches: 199, Mismatches: 18, Indels: 21
0.84 0.08 0.09
Matches are distributed among these distances:
44 3 0.02
45 21 0.11
47 15 0.08
48 48 0.24
49 67 0.34
50 4 0.02
51 6 0.03
52 35 0.18
ACGTcount: A:0.52, C:0.14, G:0.01, T:0.32
Consensus pattern (49 bp):
AATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAA
Found at i:65268127 original size:29 final size:27
Alignment explanation
Indices: 65268020--65268216 Score: 111
Period size: 27 Copynumber: 7.8 Consensus size: 27
65268010 ATATCCTCAC
* * * *
65268020 ATTACAATATTCATGCAAAATTACAAT
1 ATTACAACATTCATACAAAAATATAAT
*
65268047 ATTACAATATTCATAC--AAA-A-AA-
1 ATTACAACATTCATACAAAAATATAAT
* *
65268069 ATTACAATATTCATACAAAATTATAAT
1 ATTACAACATTCATACAAAAATATAAT
65268096 ATTACAACATTCATAC-AAAA-A-AAT
1 ATTACAACATTCATACAAAAATATAAT
* * * *
65268120 A-T--AATATTCATACAAAATTACAAA
1 ATTACAACATTCATACAAAAATATAAT
*
65268144 ATTACAATATTCATAC--AAA-A-AA-
1 ATTACAACATTCATACAAAAATATAAT
* * *
65268166 ATTGCAATATTCATACAAAACTATAATATT
1 ATTACAACATTCATACAAAA--AT-ATAAT
*
65268196 ATTACAATATTCATACAAAAA
1 ATTACAACATTCATACAAAAA
65268217 ATTTATAATA
Statistics
Matches: 139, Mismatches: 12, Indels: 37
0.74 0.06 0.20
Matches are distributed among these distances:
21 10 0.07
22 34 0.24
23 6 0.04
24 13 0.09
25 7 0.05
26 6 0.04
27 41 0.29
28 2 0.01
29 1 0.01
30 19 0.14
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (27 bp):
ATTACAACATTCATACAAAAATATAAT
Found at i:65268148 original size:97 final size:101
Alignment explanation
Indices: 65268025--65268242 Score: 347
Period size: 97 Copynumber: 2.2 Consensus size: 101
65268015 CTCACATTAC
* *
65268025 AATATTCATGCAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAA-
1 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAC
65268089 T-T-ATAATATTACAACATTCATACAAAAAA-ATAT
66 TATAATAATATTACAACATTCATACAAAAAATATAT
*
65268122 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAC
1 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAC
* * *
65268187 TATAATATTATTACAATATTCATACAAAAAATTTAT
66 TATAATAATATTACAACATTCATACAAAAAATATAT
65268223 AATATTCATAC-AAATTACAA
1 AATATTCATACAAAATTACAA
65268243 TATTCATACA
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
97 61 0.55
98 1 0.01
99 1 0.01
100 34 0.31
101 14 0.13
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (101 bp):
AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAC
TATAATAATATTACAACATTCATACAAAAAATATAT
Found at i:65268226 original size:22 final size:22
Alignment explanation
Indices: 65268197--65268358 Score: 93
Period size: 20 Copynumber: 7.9 Consensus size: 22
65268187 TATAATATTA
65268197 TTACAATATTCATACAAAAAAT
1 TTACAATATTCATACAAAAAAT
*
65268219 TTATAATATTCATAC---AAA-
1 TTACAATATTCATACAAAAAAT
65268237 TTACAATATTCATACAAAAAA-
1 TTACAATATTCATACAAAAAAT
* * * * *
65268258 TTACTA-ATCCAAAACTATAAA-
1 TTACAATATTC-ATACAAAAAAT
* *
65268279 -TACAA-ATTTAATTATAAAATAA-
1 TTACAATA-TTCA-TACAAAA-AAT
*
65268301 TTACAATATTCATAC--AACA-
1 TTACAATATTCATACAAAAAAT
65268320 TTACAATATTCATA-AAAAAA-
1 TTACAATATTCATACAAAAAAT
*
65268340 TTATAATATTCATACAAAA
1 TTACAATATTCATACAAAA
65268359 TTCTAATCTA
Statistics
Matches: 109, Mismatches: 19, Indels: 25
0.71 0.12 0.16
Matches are distributed among these distances:
18 14 0.13
19 18 0.17
20 27 0.25
21 23 0.21
22 18 0.17
23 8 0.07
24 1 0.01
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (22 bp):
TTACAATATTCATACAAAAAAT
Found at i:65268246 original size:18 final size:18
Alignment explanation
Indices: 65268196--65268254 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
65268186 CTATAATATT
65268196 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC---AA
*
65268217 ATTTATAATATTCATACAA
1 A-TTACAATATTCATACAA
65268236 ATTACAATATTCATACAA
1 ATTACAATATTCATACAA
65268254 A
1 A
65268255 AAATTACTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 17 0.49
19 3 0.09
21 1 0.03
22 14 0.40
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (18 bp):
ATTACAATATTCATACAA
Found at i:65268324 original size:19 final size:19
Alignment explanation
Indices: 65268299--65268360 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
65268289 ATTATAAAAT
65268299 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* *
65268318 CATTACAATATTCATAAAAA
1 AATTACAATATTCAT-ACAA
*
65268338 AATTATAATATTCATACAA
1 AATTACAATATTCATACAA
65268357 AATT
1 AATT
65268361 CTAATCTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 21 0.57
20 16 0.43
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:65268923 original size:21 final size:20
Alignment explanation
Indices: 65268890--65268928 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
65268880 AAAAATCAGT
*
65268890 AAATATTAGTAATAAATTAC
1 AAATATTACTAATAAATTAC
*
65268910 AAATATTAACTAATTAATT
1 AAATATT-ACTAATAAATT
65268929 TTAATAGGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
AAATATTACTAATAAATTAC
Found at i:65274302 original size:13 final size:13
Alignment explanation
Indices: 65274284--65274322 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
65274274 TATACATCAT
65274284 TTATTTTTTTTTC
1 TTATTTTTTTTTC
* *
65274297 TTATTTTCTATTC
1 TTATTTTTTTTTC
65274310 TTGATTTTTTTTT
1 TT-ATTTTTTTTT
65274323 AGGGTACAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (13 bp):
TTATTTTTTTTTC
Found at i:65282578 original size:3 final size:3
Alignment explanation
Indices: 65282570--65282612 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
65282560 ATAGTAATGG
65282570 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
65282613 CATAATTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:65287972 original size:20 final size:19
Alignment explanation
Indices: 65287949--65288041 Score: 80
Period size: 20 Copynumber: 4.8 Consensus size: 19
65287939 CAAAACTAGA
65287949 TTATGATTTTTTTTTAGTTT
1 TTATGA-TTTTTTTTAGTTT
* * *
65287969 TTAT-AATTTTCTAAGTTT
1 TTATGATTTTTTTTAGTTT
* * *
65287987 TAATAATTTTTTTTGGATTT
1 TTATGATTTTTTTTAG-TTT
*
65288007 TAATGATTTTTTTTAGTTT
1 TTATGATTTTTTTTAGTTT
*
65288026 TTAAGTATTTTTTTTA
1 TTATG-ATTTTTTTTA
65288042 CTTAATTTTG
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
18 13 0.22
19 14 0.24
20 31 0.53
ACGTcount: A:0.23, C:0.01, G:0.09, T:0.68
Consensus pattern (19 bp):
TTATGATTTTTTTTAGTTT
Found at i:65292725 original size:23 final size:23
Alignment explanation
Indices: 65292691--65292734 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
65292681 TAGATTATAA
65292691 CATGTCTGCAAAAGGTTTTTTCT
1 CATGTCTGCAAAAGGTTTTTTCT
*
65292714 CATGTCTTCAAAAGGTTTTTT
1 CATGTCTGCAAAAGGTTTTTT
65292735 TTTTTAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (23 bp):
CATGTCTGCAAAAGGTTTTTTCT
Found at i:65300335 original size:42 final size:42
Alignment explanation
Indices: 65300254--65300336 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
65300244 AAGTTTGATC
** * *
65300254 TTGAGTATGAAAATTGATAAACAAGTTTAATCGAGTTCGAGT
1 TTGAGTACAAAAATTGATAAACAAGCTTAATCGAATTCGAGT
*
65300296 TTGAGTACAAAAATTGATAAATAAGCTTATAT-GAATTCGAG
1 TTGAGTACAAAAATTGATAAACAAGCTTA-ATCGAATTCGAG
65300337 CTCGAGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (42 bp):
TTGAGTACAAAAATTGATAAACAAGCTTAATCGAATTCGAGT
Found at i:65301384 original size:23 final size:24
Alignment explanation
Indices: 65301332--65301385 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
65301322 CCGTCCAACA
*
65301332 TTTTTAATGATTAGATATAATATG
1 TTTTTAATGATGAGATATAATATG
* *
65301356 TCTTTAAT-ATGAG-TATGAATATT
1 TTTTTAATGATGAGATAT-AATATG
65301379 TTTTTAA
1 TTTTTAA
65301386 AAAAGGTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 3 0.12
23 15 0.60
24 7 0.28
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (24 bp):
TTTTTAATGATGAGATATAATATG
Found at i:65308202 original size:25 final size:25
Alignment explanation
Indices: 65308164--65308211 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
65308154 AATGTACTTA
65308164 TTTTTGAAATATTAATGGTATATTT
1 TTTTTGAAATATTAATGGTATATTT
*
65308189 TTTTGTGAAA-ATTAATTGTATAT
1 TTTT-TGAAATATTAATGGTATAT
65308212 ATTTAATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (25 bp):
TTTTTGAAATATTAATGGTATATTT
Found at i:65308713 original size:167 final size:167
Alignment explanation
Indices: 65308494--65308828 Score: 670
Period size: 167 Copynumber: 2.0 Consensus size: 167
65308484 GGTTCTTAAA
65308494 GGATCATATCTTAATACCCATATACGAATGTGCATTAGATAAAAGTATTGGATACGAGTACTTAA
1 GGATCATATCTTAATACCCATATACGAATGTGCATTAGATAAAAGTATTGGATACGAGTACTTAA
65308559 AAAACAATTTCGATGCAACATTTCTTTTAGATATTGAATATTTTTGTATATTTTGAAGCTCATTT
66 AAAACAATTTCGATGCAACATTTCTTTTAGATATTGAATATTTTTGTATATTTTGAAGCTCATTT
65308624 TTGTTTTGCTCATGGATATTAGGGAACCAAACAAGAT
131 TTGTTTTGCTCATGGATATTAGGGAACCAAACAAGAT
65308661 GGATCATATCTTAATACCCATATACGAATGTGCATTAGATAAAAGTATTGGATACGAGTACTTAA
1 GGATCATATCTTAATACCCATATACGAATGTGCATTAGATAAAAGTATTGGATACGAGTACTTAA
65308726 AAAACAATTTCGATGCAACATTTCTTTTAGATATTGAATATTTTTGTATATTTTGAAGCTCATTT
66 AAAACAATTTCGATGCAACATTTCTTTTAGATATTGAATATTTTTGTATATTTTGAAGCTCATTT
65308791 TTGTTTTGCTCATGGATATTAGGGAACCAAACAAGAT
131 TTGTTTTGCTCATGGATATTAGGGAACCAAACAAGAT
65308828 G
1 G
65308829 CTCAATTTGA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
167 168 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (167 bp):
GGATCATATCTTAATACCCATATACGAATGTGCATTAGATAAAAGTATTGGATACGAGTACTTAA
AAAACAATTTCGATGCAACATTTCTTTTAGATATTGAATATTTTTGTATATTTTGAAGCTCATTT
TTGTTTTGCTCATGGATATTAGGGAACCAAACAAGAT
Found at i:65312155 original size:29 final size:28
Alignment explanation
Indices: 65312122--65312181 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
65312112 AATGGCCAGC
* *
65312122 CATGCTACTATTATGTTTTTGTTAAAGTG
1 CATGCTACTATGATGATTTTGTT-AAGTG
*
65312151 CATGCTACTATGATGATTTTGTTGAGTG
1 CATGCTACTATGATGATTTTGTTAAGTG
65312179 CAT
1 CAT
65312182 ACAGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.23, C:0.12, G:0.20, T:0.45
Consensus pattern (28 bp):
CATGCTACTATGATGATTTTGTTAAGTG
Found at i:65315857 original size:13 final size:13
Alignment explanation
Indices: 65315839--65315872 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
65315829 TATACATTAT
*
65315839 TTATTTTATTTTC
1 TTATTTTATGTTC
65315852 TTATTTTATGTTC
1 TTATTTTATGTTC
65315865 TTGATTTT
1 TT-ATTTT
65315873 TTTAGGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (13 bp):
TTATTTTATGTTC
Found at i:65319020 original size:39 final size:41
Alignment explanation
Indices: 65318932--65319027 Score: 108
Period size: 39 Copynumber: 2.4 Consensus size: 41
65318922 CGTTTGGACA
* ** *
65318932 AAAAACGCCACTAAAAATCAAGCATTAGTGGCGCTTTTAGG
1 AAAAACGCCGCTAAAAATCAAGCATTACCGACGCTTTTAGG
* *
65318973 -AAAGCGCCGCTAAAAAT-AAGCATTACCGACG-TTTTTGG
1 AAAAACGCCGCTAAAAATCAAGCATTACCGACGCTTTTAGG
*
65319011 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
65319028 ACCTAAGCCC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
38 6 0.13
39 25 0.54
40 15 0.33
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCAAGCATTACCGACGCTTTTAGG
Found at i:65319128 original size:41 final size:41
Alignment explanation
Indices: 65319060--65319257 Score: 281
Period size: 41 Copynumber: 4.9 Consensus size: 41
65319050 TTTTGACCTA
* * *** * *
65319060 TCAGGTCTTTAGCGGCATTTAAAAAAAAACGCCGCTAATGT
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
65319101 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
65319142 TCAGATCTTTAGCGGCGATTTTG-AAAAGCGCCGCTAATGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
65319182 TCAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATTC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
65319223 TCAGAGCTTTAGCGGCGTTTTTGAGAAAGCGCCGC
1 TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
65319258 AAAAATATTT
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 39 0.27
41 105 0.73
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (41 bp):
TCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:65319201 original size:81 final size:81
Alignment explanation
Indices: 65319084--65319257 Score: 285
Period size: 81 Copynumber: 2.1 Consensus size: 81
65319074 GCATTTAAAA
* * *
65319084 AAAAACGCCGCTAATGTTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGATC
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGC
65319149 TTTAGCGGCGATTTTG
66 TTTAGCGGCGATTTTG
* *
65319165 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATTCTCAGAGC
1 AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGC
*
65319230 TTTAGCGGCGTTTTTG
66 TTTAGCGGCGATTTTG
65319246 AGAAAGCGCCGC
1 A-AAAGCGCCGC
65319258 AAAAATATTT
Statistics
Matches: 86, Mismatches: 6, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
81 76 0.88
82 10 0.12
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (81 bp):
AAAAGCGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAGC
TTTAGCGGCGATTTTG
Found at i:65319396 original size:26 final size:26
Alignment explanation
Indices: 65319351--65319401 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
65319341 TAAATGGATA
** *
65319351 AATTTGAAATAATGACACATAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
65319377 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
65319402 AATATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:65319813 original size:62 final size:63
Alignment explanation
Indices: 65319747--65319876 Score: 165
Period size: 62 Copynumber: 2.1 Consensus size: 63
65319737 TCGATGTCAA
* * * *
65319747 GTTAGGCTTTAGGGTTTAGATTAATTAGTGTGTTTT-AATTT-TTTATGAAATAAGGTTTAGGG
1 GTTAGGCATTAGAGTTTAGATTAATTAATGT-TTTTGAATTTATATATGAAATAAGGTTTAGGG
* * * *
65319809 GTTAGGGATTCGAGTTTAGATTAATTAATGTTTTTGAATTTATATATTAGATAAGGTTTAGGG
1 GTTAGGCATTAGAGTTTAGATTAATTAATGTTTTTGAATTTATATATGAAATAAGGTTTAGGG
65319872 GTTAG
1 GTTAG
65319877 TAGTTTAGGT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
61 4 0.07
62 31 0.53
63 23 0.40
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (63 bp):
GTTAGGCATTAGAGTTTAGATTAATTAATGTTTTTGAATTTATATATGAAATAAGGTTTAGGG
Found at i:65320065 original size:21 final size:21
Alignment explanation
Indices: 65320018--65320065 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
65320008 GTAAAAGAGG
65320018 GGTT-AGAGGTTAGAGGTTAA
1 GGTTAAGAGGTTAGAGGTTAA
*
65320038 GAATTAAGA-GTTAGAGGTTAAA
1 G-GTTAAGAGGTTAGAGGTT-AA
65320060 GGTTAA
1 GGTTAA
65320066 TGGCTTGGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
20 1 0.04
21 16 0.70
22 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.29
Consensus pattern (21 bp):
GGTTAAGAGGTTAGAGGTTAA
Found at i:65325245 original size:35 final size:36
Alignment explanation
Indices: 65325206--65325278 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 36
65325196 TTTAATTGTG
65325206 TTATTAATTTATTAT-TTTAAATTTTAAAGCTAA-AT
1 TTATTAATTTATTATATTT-AATTTTAAAGCTAAGAT
* * *
65325241 TTATTAATTTTTTATATTTAGTTTTAAAGTTAAGAT
1 TTATTAATTTATTATATTTAATTTTAAAGCTAAGAT
65325277 TT
1 TT
65325279 TCATAGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
35 26 0.79
36 7 0.21
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (36 bp):
TTATTAATTTATTATATTTAATTTTAAAGCTAAGAT
Found at i:65325470 original size:42 final size:42
Alignment explanation
Indices: 65325411--65325729 Score: 119
Period size: 43 Copynumber: 7.5 Consensus size: 42
65325401 AATATTTTTT
* * * * *
65325411 TAAAGGTTATGTTTTTAGCGGCGTT-TTTGCTAGAAGTGTCGC
1 TAAAGGTTATGTCTTTAGCAGCGTTCGTGGCTA-AAGCGTCGC
65325453 TAAAGGTTTAT-TCTTTAGCAGCGTTCGTGGCTAAAGCGTCGC
1 TAAAGG-TTATGTCTTTAGCAGCGTTCGTGGCTAAAGCGTCGC
* * * * **
65325495 TAAAGCTCACGATCTTTAGC-GACGTTTGTATCTAAAGCG-CTGC
1 TAAAGGTTATG-TCTTTAGCAG-CGTTCGTGGCTAAAGCGTC-GC
* * * * * * *
65325538 TAAAGATTACGATCTTTAACGGCGTTTGTGGCTAAAGCGCCGT
1 TAAAGGTTATG-TCTTTAGCAGCGTTCGTGGCTAAAGCGTCGC
* * * * * * *
65325581 TAAAGGTCACGATCTTTAGCGGCGTTTGT-GATAAAAACGCCGC
1 TAAAGGTTATG-TCTTTAGCAGCGTTCGTGGCT-AAAGCGTCGC
* * * * * * * * * *
65325624 TAAATGTCAAGATTTTTAGCGGCATTTGTGGCAAAAGCGCCGT
1 TAAAGGTTATG-TCTTTAGCAGCGTTCGTGGCTAAAGCGTCGC
* * ** *
65325667 TAAAGGTTATGTTCTTTAGCGGCGTTTGT-TATAAAAGCGCCGC
1 TAAAGGTTATG-TCTTTAGCAGCGTTCGTGGCT-AAAGCGTCGC
*
65325710 TAAAGGTCATGATCTTTAGC
1 TAAAGGTTATG-TCTTTAGC
65325730 GGCATTTTTT
Statistics
Matches: 223, Mismatches: 43, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
41 2 0.01
42 35 0.16
43 183 0.82
44 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TAAAGGTTATGTCTTTAGCAGCGTTCGTGGCTAAAGCGTCGC
Found at i:65325530 original size:43 final size:43
Alignment explanation
Indices: 65325485--65325732 Score: 248
Period size: 43 Copynumber: 5.8 Consensus size: 43
65325475 GTTCGTGGCT
* * * *
65325485 AAAGCGTCGCTAAAGCTCACGATCTTTAGCGACGTTTGTATCT
1 AAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTGTATCA
* * * * ** *
65325528 AAAGCGCTGCTAAAGATTACGATCTTTAACGGCGTTTGTGGCT
1 AAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTGTATCA
*
65325571 AAAGCGCCGTTAAAGGTCACGATCTTTAGCGGCGTTTGTGAT-A
1 AAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTGT-ATCA
* * * * * **
65325614 AAAACGCCGCTAAATGTCAAGATTTTTAGCGGCATTTGTGGCA
1 AAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTGTATCA
* * * *
65325657 AAAGCGCCGTTAAAGGTTATGTTCTTTAGCGGCGTTTGTTAT-A
1 AAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTG-TATCA
*
65325700 AAAGCGCCGCTAAAGGTCATGATCTTTAGCGGC
1 AAAGCGCCGCTAAAGGTCACGATCTTTAGCGGC
65325733 ATTTTTTCAC
Statistics
Matches: 165, Mismatches: 37, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
43 164 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCACGATCTTTAGCGGCGTTTGTATCA
Found at i:65325733 original size:86 final size:86
Alignment explanation
Indices: 65325464--65325736 Score: 323
Period size: 86 Copynumber: 3.2 Consensus size: 86
65325454 AAAGGTTTAT
* * * * * * * *
65325464 TCTTTAGCAGCGTTCGTGGCTAAAGCGTCGCTAAAGCTCACGATCTTTAGCGACGTTTG-TATCT
1 TCTTTAGCGGCATTTGTGGCTAAAGCGCCGTTAAAGGTCACGATCTTTAGCGGCGTTTGTTAT-A
* * * *
65325528 AAAGCGCTGCTAAAGATTACGA
65 AAAGCGCCGCTAAAGGTCATGA
* * *
65325550 TCTTTAACGGCGTTTGTGGCTAAAGCGCCGTTAAAGGTCACGATCTTTAGCGGCGTTTGTGATAA
1 TCTTTAGCGGCATTTGTGGCTAAAGCGCCGTTAAAGGTCACGATCTTTAGCGGCGTTTGTTATAA
* * *
65325615 AAACGCCGCTAAATGTCAAGA
66 AAGCGCCGCTAAAGGTCATGA
* * * * *
65325636 TTTTTAGCGGCATTTGTGGCAAAAGCGCCGTTAAAGGTTATGTTCTTTAGCGGCGTTTGTTATAA
1 TCTTTAGCGGCATTTGTGGCTAAAGCGCCGTTAAAGGTCACGATCTTTAGCGGCGTTTGTTATAA
65325701 AAGCGCCGCTAAAGGTCATGA
66 AAGCGCCGCTAAAGGTCATGA
65325722 TCTTTAGCGGCATTT
1 TCTTTAGCGGCATTT
65325737 TTTCACATAA
Statistics
Matches: 159, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
86 157 0.99
87 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (86 bp):
TCTTTAGCGGCATTTGTGGCTAAAGCGCCGTTAAAGGTCACGATCTTTAGCGGCGTTTGTTATAA
AAGCGCCGCTAAAGGTCATGA
Found at i:65329144 original size:15 final size:15
Alignment explanation
Indices: 65329126--65329155 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65329116 CAATAATAAT
*
65329126 TAAATGTATTTGCCA
1 TAAATGTATTAGCCA
65329141 TAAATGTATTAGCCA
1 TAAATGTATTAGCCA
65329156 CATCAAATTT
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:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (15 bp):
TAAATGTATTAGCCA
Found at i:65336028 original size:9 final size:9
Alignment explanation
Indices: 65336014--65336069 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
65336004 TTTTCAGTAG
65336014 CATCTGTAT
1 CATCTGTAT
*
65336023 CATCTGTAC
1 CATCTGTAT
*
65336032 CATCGGTAT
1 CATCTGTAT
* *
65336041 CATCAGTAG
1 CATCTGTAT
*
65336050 CATCTGTGT
1 CATCTGTAT
65336059 CATCTGTAT
1 CATCTGTAT
65336068 CA
1 CA
65336070 CTCTCTGCAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (9 bp):
CATCTGTAT
Found at i:65344797 original size:27 final size:27
Alignment explanation
Indices: 65344767--65344822 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
65344757 TGGCATTGAT
*
65344767 GTTCTCATTAAAAAATCTCTTATAAAA
1 GTTCTCATTAAAAAATCTCTCATAAAA
*
65344794 GTTCTCATTAAAAAATCTCTCATAGAA
1 GTTCTCATTAAAAAATCTCTCATAAAA
65344821 GT
1 GT
65344823 CGATGAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (27 bp):
GTTCTCATTAAAAAATCTCTCATAAAA
Found at i:65344807 original size:14 final size:14
Alignment explanation
Indices: 65344767--65344807 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
65344757 TGGCATTGAT
65344767 GTTCTCATTAAAAA
1 GTTCTCATTAAAAA
*
65344781 -ATCTC-TTATAAAA
1 GTTCTCATTA-AAAA
65344794 GTTCTCATTAAAAA
1 GTTCTCATTAAAAA
65344808 ATCTCTCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 3 0.14
13 8 0.36
14 8 0.36
15 3 0.14
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (14 bp):
GTTCTCATTAAAAA
Found at i:65344814 original size:15 final size:15
Alignment explanation
Indices: 65344769--65344816 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
65344759 GCATTGATGT
65344769 TCTCATTAAAAAATC
1 TCTCATTAAAAAATC
* *
65344784 TCTTA-T-AAAAGT-
1 TCTCATTAAAAAATC
65344796 TCTCATTAAAAAATC
1 TCTCATTAAAAAATC
65344811 TCTCAT
1 TCTCAT
65344817 AGAAGTCGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 4 0.15
13 6 0.23
14 6 0.23
15 10 0.38
ACGTcount: A:0.42, C:0.19, G:0.02, T:0.38
Consensus pattern (15 bp):
TCTCATTAAAAAATC
Found at i:65347599 original size:9 final size:9
Alignment explanation
Indices: 65347571--65347600 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
65347561 TCTCTTTTCG
65347571 GTAGCATCT
1 GTAGCATCT
*
65347580 GAAGCATCT
1 GTAGCATCT
65347589 GTAGCATCT
1 GTAGCATCT
65347598 GTA
1 GTA
65347601 TCACTCTCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (9 bp):
GTAGCATCT
Found at i:65355991 original size:15 final size:16
Alignment explanation
Indices: 65355971--65356000 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
65355961 GCTACCAACA
65355971 AGTATAG-TAGTTGTG
1 AGTATAGATAGTTGTG
65355986 AGTATAGATAGTTGT
1 AGTATAGATAGTTGT
65356001 TCTTCACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (16 bp):
AGTATAGATAGTTGTG
Found at i:65361217 original size:61 final size:60
Alignment explanation
Indices: 65361113--65361246 Score: 196
Period size: 61 Copynumber: 2.2 Consensus size: 60
65361103 GGTGGATTCC
* *
65361113 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGGAATTA
1 GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCA
** * **
65361173 GCACTTAGCAACCACCAAATGGGTCGGGGAGTCAGCACTTAGCAACCCCTCGGGGGAATCA
1 GCACTTAGCAACCACC-AATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCA
65361234 GCACTTAGCAACC
1 GCACTTAGCAACC
65361247 CCCTTTCACA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
60 16 0.24
61 50 0.76
ACGTcount: A:0.31, C:0.30, G:0.25, T:0.15
Consensus pattern (60 bp):
GCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTCGGGGGAATCA
Found at i:65361288 original size:43 final size:42
Alignment explanation
Indices: 65361227--65361441 Score: 214
Period size: 43 Copynumber: 5.5 Consensus size: 42
65361217 ACCCCTCGGG
65361227 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCC-TTCACATTTAAAATACGGT
* **
65361270 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-AGGTA-GG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
65361303 GGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCT-TCACATTTAAAATACGGT
* *
65361346 GGAATCAGCACTTAGCAA-CCAC--CA-A--T-AATTA-GG-
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
*
65361379 GGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACAGT
1 GGAATCAGCACTTAGCAACCCCC-TTCACATTTAAAATACGGT
*
65361422 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
65361442 ACCAATGAAT
Statistics
Matches: 140, Mismatches: 12, Indels: 40
0.73 0.06 0.21
Matches are distributed among these distances:
33 36 0.26
34 10 0.07
35 7 0.05
36 2 0.01
37 4 0.03
38 4 0.03
39 4 0.03
40 2 0.01
41 7 0.05
42 9 0.06
43 55 0.39
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.21
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGT
Found at i:65361312 original size:33 final size:33
Alignment explanation
Indices: 65361261--65361474 Score: 133
Period size: 33 Copynumber: 5.8 Consensus size: 33
65361251 TTCACATTTA
65361261 AAATACGGTGGAATCAGCACTTAGCAACCACCAAT
1 AAATA-GG-GGAATCAGCACTTAGCAACCACCAAT
** *
65361296 AGGTAGGGGAATCAGCACTTAGCAACCCCCTCTCACATTT
1 AAATAGGGGAATCAGCACTTAGCAA---CCAC-CA-A--T
65361336 AAAATACGGTGGAATCAGCACTTAGCAACCACCAAT
1 -AAATA-GG-GGAATCAGCACTTAGCAACCACCAAT
* *
65361372 AATTAGGGGAATCAGCACTTAGCAACCCCCTTTCACATTT
1 AAATAGGGGAATCAGCACTTAGCAA-CCAC---CA-A--T
65361412 AAAATACAGTGGG-ATCAGCACTTAGCAACCACCAAT
1 -AAAT--AG-GGGAATCAGCACTTAGCAACCACCAAT
* * **
65361448 GAATCGGGGAATCAGCACACAGCAACC
1 AAATAGGGGAATCAGCACTTAGCAACC
65361475 CCTTTATATG
Statistics
Matches: 143, Mismatches: 14, Indels: 46
0.70 0.07 0.23
Matches are distributed among these distances:
32 3 0.02
33 52 0.36
34 7 0.05
35 10 0.07
36 5 0.03
37 4 0.03
38 4 0.03
39 4 0.03
40 5 0.03
41 6 0.04
42 5 0.03
43 35 0.24
44 3 0.02
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (33 bp):
AAATAGGGGAATCAGCACTTAGCAACCACCAAT
Found at i:65361324 original size:76 final size:76
Alignment explanation
Indices: 65361225--65361476 Score: 409
Period size: 76 Copynumber: 3.3 Consensus size: 76
65361215 CAACCCCTCG
65361225 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
*
65361290 ACCAATAGGTA
66 ACCAATAGATA
*
65361301 GGGGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
65361366 ACCAATA-ATTA
66 ACCAATAGA-TA
* *
65361377 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACAGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
*
65361442 ACCAAT-GAATC
66 ACCAATAG-ATA
**
65361453 GGGGAATCAGCACACAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
65361477 TTTATATGCA
Statistics
Matches: 165, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
76 164 0.99
77 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (76 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
ACCAATAGATA
Found at i:65365407 original size:13 final size:13
Alignment explanation
Indices: 65365389--65365415 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65365379 CATATGTTGT
65365389 AAATCTTATTTGC
1 AAATCTTATTTGC
65365402 AAATCTTATTTGC
1 AAATCTTATTTGC
65365415 A
1 A
65365416 GATTCATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
AAATCTTATTTGC
Found at i:65366008 original size:25 final size:25
Alignment explanation
Indices: 65365966--65366014 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
65365956 TCAAAAGCTA
* *
65365966 CGACAAATGCTTGGAGTTTGCAAGG
1 CGACAAATGCTAGGAGTTAGCAAGG
65365991 CGACAAATGC-AGGAAGTTAGCAAG
1 CGACAAATGCTAGG-AGTTAGCAAG
65366015 ATTTTTTAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (25 bp):
CGACAAATGCTAGGAGTTAGCAAGG
Found at i:65370401 original size:18 final size:18
Alignment explanation
Indices: 65370378--65370420 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
65370368 CAATAGGTTT
65370378 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
65370396 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAATTTAAA
65370414 TTAATTA
1 TTAATTA
65370421 CATGTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:65370538 original size:13 final size:13
Alignment explanation
Indices: 65370503--65370531 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
65370493 AATTATTCTC
65370503 ATCCTAGTTGGAA
1 ATCCTAGTTGGAA
65370516 ATCCTAGTTGGAA
1 ATCCTAGTTGGAA
65370529 ATC
1 ATC
65370532 TAAGTTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (13 bp):
ATCCTAGTTGGAA
Found at i:65373665 original size:4 final size:4
Alignment explanation
Indices: 65373656--65373702 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
65373646 GTTTTGGATA
65373656 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
65373703 AACTGTTGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:65375822 original size:27 final size:25
Alignment explanation
Indices: 65375771--65375818 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
65375761 AATGTATGTA
65375771 TTTTTGAAATATTAATGGTATATTT
1 TTTTTGAAATATTAATGGTATATTT
65375796 TTTTGTGAAA-ATTAATGGTATAT
1 TTTT-TGAAATATTAATGGTATAT
65375819 ATTTAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (25 bp):
TTTTTGAAATATTAATGGTATATTT
Found at i:65379633 original size:18 final size:18
Alignment explanation
Indices: 65379610--65379652 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
65379600 CAATAGGTTT
65379610 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
65379628 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
65379646 TTAATTA
1 TTAATTA
65379653 CATGTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:65385279 original size:153 final size:153
Alignment explanation
Indices: 65384865--65385258 Score: 528
Period size: 153 Copynumber: 2.6 Consensus size: 153
65384855 ACTAAGGGAC
* * * * * *
65384865 TGCAATCTTTGTGAAGGAGATATTCCA-CGTGATATTTCTGGTCTATCCTGTTTGGAA-AAACTT
1 TGCACTCTTGGTGAAGCAGATATT-CATAGTGATATTTCTGGTCTATCCTCTTT-GAATAATCTT
* **
65384928 GATCTTAGTGGTAACAATTTCATCAGCATGCCTGCATCTCTTACTCGACTCTTGAAGCTTGCAAA
64 GATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCAAAGCTTGCAAA
65384993 TCTTATATTGTCAAATTGCAACATG
129 TCTTATATTGTCAAATTGCAACATG
* * * * *
65385018 TGCACTTTTGGTGAAGCAGATACTCATAGTGATATTTCTGGTCTATCCTCTTTGAGTTATCTTAA
1 TGCACTCTTGGTGAAGCAGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGAATAATCTTGA
**
65385083 TCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCAAAGCTT-CATGTT
66 TCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCAAAGCTTGCA-AAT
* *
65385147 CTTGA-CTTGTCAAATTGCAACGTG
130 CTT-ATATTGTCAAATTGCAACATG
*
65385171 TGCACTCTTGGTGAAGCAGATATTCATAGTGATCTTTCTGGTCTATCCTCTTT-AATAAGTCTTG
1 TGCACTCTTGGTGAAGCAGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGAATAA-TCTTG
*
65385235 ATCTTAGTGGTAATAATTTCATCA
65 ATCTTAGTGGTAACAATTTCATCA
65385259 CCATTCCTTT
Statistics
Matches: 211, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
152 9 0.04
153 201 0.95
154 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (153 bp):
TGCACTCTTGGTGAAGCAGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGAATAATCTTGA
TCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCAAAGCTTGCAAATC
TTATATTGTCAAATTGCAACATG
Found at i:65389897 original size:16 final size:16
Alignment explanation
Indices: 65389876--65389914 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
65389866 ATTTTGTTAC
*
65389876 AACAATTATTACAATT
1 AACAATTAATACAATT
65389892 AACAATTAATACAATT
1 AACAATTAATACAATT
*
65389908 AATAATT
1 AACAATT
65389915 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:65389939 original size:16 final size:16
Alignment explanation
Indices: 65389918--65389959 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
65389908 AATAATTTGA
*
65389918 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
65389934 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
65389950 TAGTTTTAAT
1 TAATTTTAAT
65389960 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:65397584 original size:5 final size:5
Alignment explanation
Indices: 65397576--65397601 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
65397566 AATAATCAAG
65397576 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
65397602 AAAATTTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:65420395 original size:100 final size:100
Alignment explanation
Indices: 65420222--65420421 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
65420212 TATAAGAGTT
65420222 ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
1 ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
*
65420287 TTAAACTTGTACGCAAAGATAAGCTGACATATTAG
66 TTAAACTTGTACACAAAGATAAGCTGACATATTAG
*
65420322 ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAATAAAACTAAC
1 ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
65420387 TTAAACTTGTACACAAAGATAAGCTGACATATTAG
66 TTAAACTTGTACACAAAGATAAGCTGACATATTAG
65420422 CTATTACATC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (100 bp):
ACAAAAGTAATTTGTCAGTTACCTAATGGTTAACTGCTCCCACTAAATACATAAACAAAACTAAC
TTAAACTTGTACACAAAGATAAGCTGACATATTAG
Found at i:65422023 original size:16 final size:15
Alignment explanation
Indices: 65421989--65422027 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
65421979 CCATCCATAT
*
65421989 TTAATTTT-TTTAGA
1 TTAATTTTATTTAAA
65422003 TTAATTTTATTTAAAA
1 TTAATTTTATTT-AAA
65422019 TTAATTTTA
1 TTAATTTTA
65422028 AATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 3 0.14
16 11 0.50
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTAATTTTATTTAAA
Found at i:65435130 original size:7 final size:7
Alignment explanation
Indices: 65435118--65435149 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
65435108 AAAATATTTT
65435118 TATTTAA
1 TATTTAA
65435125 TATTTAA
1 TATTTAA
65435132 TATTTAA
1 TATTTAA
65435139 TATTT-A
1 TATTTAA
65435145 TATTT
1 TATTT
65435150 TTTCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATTTAA
Found at i:65435135 original size:14 final size:13
Alignment explanation
Indices: 65435110--65435149 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
65435100 ATTTTAGAAA
*
65435110 AATATTTTTATTT
1 AATATTTATATTT
65435123 AATATTTAATATTT
1 AATATTT-ATATTT
65435137 AATATTTATATTT
1 AATATTTATATTT
65435150 TTTCTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:65435135 original size:20 final size:20
Alignment explanation
Indices: 65435110--65435149 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
65435100 ATTTTAGAAA
*
65435110 AATATTTTTATTTAATATTT
1 AATATTTATATTTAATATTT
65435130 AATATTTAATATTT-ATATTT
1 AATATTT-ATATTTAATATTT
65435150 TTTCTTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
AATATTTATATTTAATATTT
Found at i:65437078 original size:26 final size:26
Alignment explanation
Indices: 65437048--65437099 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
65437038 ATTTTTAATT
65437048 AGTAAAAGTAAAATAATAAATTGATC
1 AGTAAAAGTAAAATAATAAATTGATC
65437074 AGTAAAAGTAAAATAATAAATTGATC
1 AGTAAAAGTAAAATAATAAATTGATC
65437100 CCTAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.27
Consensus pattern (26 bp):
AGTAAAAGTAAAATAATAAATTGATC
Found at i:65437105 original size:26 final size:26
Alignment explanation
Indices: 65437050--65437106 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
65437040 TTTTAATTAG
*
65437050 TAAAAGTAAAATAATAAATTGATCAG
1 TAAAAGTAAAATAATAAATTGATCAC
*
65437076 TAAAAGTAAAATAATAAATTGATCCC
1 TAAAAGTAAAATAATAAATTGATCAC
65437102 TAAAA
1 TAAAA
65437107 ATATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (26 bp):
TAAAAGTAAAATAATAAATTGATCAC
Found at i:65437398 original size:18 final size:18
Alignment explanation
Indices: 65437367--65437417 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
65437357 AACATACATT
*
65437367 TTAAATAT-TTTTATATTA
1 TTAAATATATATTAT-TTA
*
65437385 TTAAAT-TATATTATTTC
1 TTAAATATATATTATTTA
*
65437402 TTTAATATATATTATT
1 TTAAATATATATTATT
65437418 AACTTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAAATATATATTATTTA
Found at i:65443041 original size:153 final size:154
Alignment explanation
Indices: 65442656--65443020 Score: 558
Period size: 153 Copynumber: 2.4 Consensus size: 154
65442646 ATATTCCACC
* * *
65442656 TGATATTTCTGGTCTATCCTGTTTG-GAAATACTTGATCTTAGTGGTAACAATTTCATCAGCATA
1 TGATATTTCTGGTCTATCCTCTTTGAGATATACTTAATCTTAGTGGTAACAATTTCATCAGCATA
* * *
65442720 CCTGCATCTCTTACTCGACTCTCGAAGCTTGAAATTCTGCGATTGTCAAATTGTAACATGTGCAC
66 CCTGCATCTCTTACTCGACTCTCGAAGCTGGAAATTCTGAGATTGTCAAATTGCAACATGTGCAC
65442785 TTTTGGTGAAGCAGATACTCATAG
131 TTTTGGTGAAGCAGATACTCATAG
*
65442809 TGATATTTCTGGTCTATCCTCTTTGA-ATATACTTAATCTTAGTGATAACAATTTCATCAGCATA
1 TGATATTTCTGGTCTATCCTCTTTGAGATATACTTAATCTTAGTGGTAACAATTTCATCAGCATA
* * * * *
65442873 CCTGCATCTCTTACTCGACTGTCGAATCTCGGAAA-TCTTATATTGTCAAATTGCAACATTTGCA
66 CCTGCATCTCTTACTCGACTCTCGAAGCT-GGAAATTCTGAGATTGTCAAATTGCAACATGTGCA
*
65442937 CTTTTGGTGAAGCAGATACTCATGG
130 CTTTTGGTGAAGCAGATACTCATAG
* *
65442962 TGATATTTCTGGTCTATCCTCTTTGAGTTAT-CTTAATCTTAGTGGTAAGAATTTCATCA
1 TGATATTTCTGGTCTATCCTCTTTGAGATATACTTAATCTTAGTGGTAACAATTTCATCA
65443021 CCCTTCCTTT
Statistics
Matches: 193, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
153 186 0.96
154 7 0.04
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (154 bp):
TGATATTTCTGGTCTATCCTCTTTGAGATATACTTAATCTTAGTGGTAACAATTTCATCAGCATA
CCTGCATCTCTTACTCGACTCTCGAAGCTGGAAATTCTGAGATTGTCAAATTGCAACATGTGCAC
TTTTGGTGAAGCAGATACTCATAG
Found at i:65443081 original size:153 final size:152
Alignment explanation
Indices: 65442656--65443073 Score: 482
Period size: 153 Copynumber: 2.7 Consensus size: 152
65442646 ATATTCCACC
* * * *
65442656 TGATATTTCTGGTCTATCCTGTTTGGAA-ATACTTGATCTTAGTGGTAACAATTTCATCAGCATA
1 TGATATTTCTGGTCTATCCTCTTT-GAATATACTTAATCTTAGTGATAACAATTTCATCACCATA
* * * * * *** *
65442720 CCTGCATCTCTTACTCGACTCTCGAAGCTTGAAATTCTGCGATTGTCAAATTGTAACATGTGCAC
65 CCTGCAGCTCTTACTCAACTGTCCAAGCTCGAAA-TCTTAAATTGTCAAATTGCAACATGTGCAC
65442785 TTTTGGTGAAGCAGATACTCATAG
129 TTTTGGTGAAGCAGATACTCATAG
*
65442809 TGATATTTCTGGTCTATCCTCTTTGAATATACTTAATCTTAGTGATAACAATTTCATCAGCATAC
1 TGATATTTCTGGTCTATCCTCTTTGAATATACTTAATCTTAGTGATAACAATTTCATCACCATAC
* * * * * *
65442874 CTGCATCTCTTACTCGACTGTCGAATCTCGGAAATCTTATATTGTCAAATTGCAACATTTGCACT
66 CTGCAGCTCTTACTCAACTGTCCAAGCTC-GAAATCTTAAATTGTCAAATTGCAACATGTGCACT
*
65442939 TTTGGTGAAGCAGATACTCATGG
130 TTTGGTGAAGCAGATACTCATAG
* * * * *
65442962 TGATATTTCTGGTCTATCCTCTTTGAGT-TATCTTAATCTTAGTGGTAAGAATTTCATCACCCTT
1 TGATATTTCTGGTCTATCCTCTTTGAATATA-CTTAATCTTAGTGATAACAATTTCATCACCATA
*** * *
65443026 CCTTTGGCTCTTACTCAACTTTCCAGGCTC-AAATTGCTTAAATTGTCA
65 CCTGCAGCTCTTACTCAACTGTCCAAGCTCGAAA-T-CTTAAATTGTCA
65443074 GGTTGCAAGA
Statistics
Matches: 232, Mismatches: 28, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
151 3 0.01
152 6 0.03
153 219 0.94
154 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (152 bp):
TGATATTTCTGGTCTATCCTCTTTGAATATACTTAATCTTAGTGATAACAATTTCATCACCATAC
CTGCAGCTCTTACTCAACTGTCCAAGCTCGAAATCTTAAATTGTCAAATTGCAACATGTGCACTT
TTGGTGAAGCAGATACTCATAG
Found at i:65448707 original size:5 final size:5
Alignment explanation
Indices: 65448699--65448724 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
65448689 AATAATCAAG
65448699 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
65448725 AAAATTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:65453018 original size:20 final size:20
Alignment explanation
Indices: 65452993--65453034 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
65452983 GAATTTCTTC
65452993 AACCTCATTAACTTTTGCTA
1 AACCTCATTAACTTTTGCTA
65453013 AACCTCATTAACTTTTGCTA
1 AACCTCATTAACTTTTGCTA
65453033 AA
1 AA
65453035 GCAACAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (20 bp):
AACCTCATTAACTTTTGCTA
Found at i:65456583 original size:21 final size:20
Alignment explanation
Indices: 65456559--65456626 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
65456549 AACAACGTTA
65456559 AATGTCCAATTAAGCAACACT
1 AATGTCCAATTAAGC-ACACT
* * *
65456580 AATGGT-AAATATAACCACGCT
1 AAT-GTCCAAT-TAAGCACACT
65456601 AAATGTCCAATTAAGGCACACT
1 -AATGTCCAATTAA-GCACACT
65456623 AATG
1 AATG
65456627 GTAGTTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.24
Consensus pattern (20 bp):
AATGTCCAATTAAGCACACT
Found at i:65456586 original size:43 final size:43
Alignment explanation
Indices: 65456538--65456636 Score: 146
Period size: 43 Copynumber: 2.3 Consensus size: 43
65456528 GGAAAGTTTG
*
65456538 ATGGTAGTTATAACAACGTTAAATGTCCAATTAA-GCAACACTA
1 ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGC-ACACTA
** *
65456581 ATGGTAAATATAACCACGCTAAATGTCCAATTAAGGCACACTA
1 ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGCACACTA
65456624 ATGGTAGTTATAA
1 ATGGTAGTTATAA
65456637 GAGAGAGCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
43 47 0.96
44 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGGTAGTTATAACAACGCTAAATGTCCAATTAAGGCACACTA
Found at i:65456624 original size:22 final size:21
Alignment explanation
Indices: 65456557--65456624 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 21
65456547 ATAACAACGT
65456557 TAAATGTCCAATTAAGCAACAC
1 TAAATGTCCAATTAAGC-ACAC
* * *
65456579 T-AATGGT-AAATATAACCACGC
1 TAAAT-GTCCAAT-TAAGCACAC
65456600 TAAATGTCCAATTAAGGCACAC
1 TAAATGTCCAATTAA-GCACAC
65456622 TAA
1 TAA
65456625 TGGTAGTTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.24
Consensus pattern (21 bp):
TAAATGTCCAATTAAGCACAC
Done.