Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 57 of 290
Found at i:18969969 original size:40 final size:40
Alignment explanation
Indices: 18969909--18970092 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
18969899 TATTCGAATG
*
18969909 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
18969949 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGACTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTA-GTGACT
* * * *
18969989 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
18970029 ATATCCGGGCTAAG-TCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
18970069 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
18970093 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 116 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:18970042 original size:80 final size:80
Alignment explanation
Indices: 18969909--18970128 Score: 261
Period size: 80 Copynumber: 2.8 Consensus size: 80
18969899 TATTCGAATG
* * * *
18969909 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* * *
18969973 ATTTGTGCGACTTG-CT
65 ATTTATGCGA-GTGACC
* *
18969989 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
18970053 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
* * *
18970069 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
18970129 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 13 0.11
79 20 0.17
80 88 0.73
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:18973315 original size:106 final size:106
Alignment explanation
Indices: 18973187--18973398 Score: 397
Period size: 106 Copynumber: 2.0 Consensus size: 106
18973177 AATTATGTGT
18973187 TATGCTGAATTTCATTATGAAATGTATGCTTTGTGGTTAATTTCAAATAATATGTAAATTATGTG
1 TATGCTGAATTTCATTATGAAATGTATGCTTTGTGGTTAATTTCAAATAATATGTAAATTATGTG
* *
18973252 AGCTACTTGTTAAATATAATTGTTACCGAGTATTGATTTCG
66 AACTACTTGTTAAATATAATTGTTACCGAGTATTGACTTCG
*
18973293 TATGTTGAATTTCATTATGAAATGTATGCTTTGTGGTTAATTTCAAATAATATGTAAATTATGTG
1 TATGCTGAATTTCATTATGAAATGTATGCTTTGTGGTTAATTTCAAATAATATGTAAATTATGTG
18973358 AACTACTTGTTAAATATAATTGTTACCGAGTATTGACTTCG
66 AACTACTTGTTAAATATAATTGTTACCGAGTATTGACTTCG
18973399 GCATTCTACG
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (106 bp):
TATGCTGAATTTCATTATGAAATGTATGCTTTGTGGTTAATTTCAAATAATATGTAAATTATGTG
AACTACTTGTTAAATATAATTGTTACCGAGTATTGACTTCG
Found at i:18973552 original size:46 final size:46
Alignment explanation
Indices: 18973502--18973677 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
18973492 TGGTTGAGCA
18973502 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
18973548 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
18973593 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
18973641 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
18973678 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:18973658 original size:93 final size:93
Alignment explanation
Indices: 18973499--18973670 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
18973489 GGATGGTTGA
*
18973499 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
18973564 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
18973592 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
18973656 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
18973671 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:18981130 original size:46 final size:46
Alignment explanation
Indices: 18981080--18981483 Score: 672
Period size: 46 Copynumber: 8.8 Consensus size: 46
18981070 ATGGTTGAGC
18981080 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
18981126 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
18981172 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
18981218 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
18981264 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
18981310 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
* * *
18981356 GTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T
* *
18981399 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAAC
1 --G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
* *
18981449 GCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
18981484 GGGGCAGGTT
Statistics
Matches: 339, Mismatches: 10, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
42 2 0.01
43 5 0.01
45 3 0.01
46 291 0.86
47 29 0.09
48 3 0.01
50 4 0.01
51 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
Found at i:18981745 original size:19 final size:20
Alignment explanation
Indices: 18981708--18981745 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
18981698 ATAAGGTGGT
18981708 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
18981728 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
18981746 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:18992082 original size:43 final size:42
Alignment explanation
Indices: 18992036--18992191 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 42
18992026 TGTATTATCG
* *
18992036 TGTAAGACCATGTCTGGGACGTTGGCATCA-ACTTATGATTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCATA-TT-TGATTACA
* *
18992079 TGTAAGACCACGTCTGGGACATTGGCATCATATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
** * *
18992121 TGTAAGACCTTGTCTGGGATAG-TGACATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGA-CGTTGGCATC-ATATTTGATTACA
*
18992164 TCTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
18992192 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
42 30 0.32
43 63 0.67
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
Found at i:18996634 original size:27 final size:27
Alignment explanation
Indices: 18996601--18996655 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
18996591 TACTTATACA
18996601 TTCATGCAAAAGTCGGGCTATAAATTT
1 TTCATGCAAAAGTCGGGCTATAAATTT
18996628 TTCATGCAAAAGTCGGGCTATAAATTT
1 TTCATGCAAAAGTCGGGCTATAAATTT
18996655 T
1 T
18996656 ACTTTAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (27 bp):
TTCATGCAAAAGTCGGGCTATAAATTT
Found at i:19003175 original size:27 final size:26
Alignment explanation
Indices: 19003143--19003430 Score: 242
Period size: 27 Copynumber: 10.7 Consensus size: 26
19003133 TCCCCAGTTG
* *
19003143 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCTCGATTTA
* *
19003170 TAAAATTACCGAAATACCGTCGA-TTG
1 TAAAATTACC-AAATACCCTCGATTTA
* * * *
19003196 TAAAACTACTAAAATACCCTTGATTTG
1 TAAAATTAC-CAAATACCCTCGATTTA
*
19003223 TAAAATTATCGAAATACCCTC-AGTTTA
1 TAAAATTA-CCAAATACCCTCGA-TTTA
* * *
19003250 CAAAATTACTAAAATACCCTCGATTTG
1 TAAAATTAC-CAAATACCCTCGATTTA
* * *
19003277 TAAAATTACTAAAATACCCTCGACTTG
1 TAAAATTAC-CAAATACCCTCGATTTA
*
19003304 TAAAATTACCAAAGTACCC-CCAGTTTA
1 TAAAATTACCAAA-TACCCTCGA-TTTA
* *
19003331 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCTCGATTTA
* *
19003358 TAAAATTACCGAAATACCGTTGA-TTA
1 TAAAATTACC-AAATACCCTCGATTTA
*
19003384 TAAAATTACTGAAATACCCTCGATTTA
1 TAAAATTAC-CAAATACCCTCGATTTA
19003411 TAAAATTACCGAAATACCCT
1 TAAAATTACC-AAATACCCT
19003431 TGTAGGGTAG
Statistics
Matches: 214, Mismatches: 32, Indels: 30
0.78 0.12 0.11
Matches are distributed among these distances:
26 50 0.23
27 152 0.71
28 12 0.06
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCGATTTA
Found at i:19003418 original size:161 final size:161
Alignment explanation
Indices: 19003140--19003457 Score: 430
Period size: 161 Copynumber: 2.0 Consensus size: 161
19003130 ATATCCCCAG
* *
19003140 TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCGAAATACCGTCGATTGTAAAACTAC
1 TTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATACCGTCGATTGTAAAACTAC
* * *
19003205 TAAAATACCCTTGATTTGTAAAATTATCGAAATACCCTCAGTTTACAAAATTACTAAAATACCCT
66 CAAAATACCCTTGATTTATAAAATTATCGAAATACCCTCAGTTTACAAAATTACCAAAATACCCT
**
19003270 CG-ATTTGTAAAATTACTAAAATACCCTCGAC
131 CGTA-GGGTAAAATTACTAAAATACCCTCGAC
*
19003301 TTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATATCC-TCGATTTGTAAAATT
1 TTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATA-CCGTCGA-TTGTAAAACT
* * * *
19003365 ACCGAAATACCGTTGA-TTATAAAATTA-CTGAAATACCCTC-GATTTATAAAATTACCGAAATA
64 ACCAAAATACCCTTGATTTATAAAATTATC-GAAATACCCTCAG-TTTACAAAATTACCAAAATA
* *
19003427 CCCTTGTAGGGTAGAATTACTAAAATACCCT
127 CCCTCGTAGGGTAAAATTACTAAAATACCCT
19003458 TGTAGGGTAG
Statistics
Matches: 138, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
160 2 0.01
161 111 0.80
162 25 0.18
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (161 bp):
TTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCCAAATACCGTCGATTGTAAAACTAC
CAAAATACCCTTGATTTATAAAATTATCGAAATACCCTCAGTTTACAAAATTACCAAAATACCCT
CGTAGGGTAAAATTACTAAAATACCCTCGAC
Found at i:19003444 original size:27 final size:27
Alignment explanation
Indices: 19003414--19003716 Score: 356
Period size: 27 Copynumber: 11.2 Consensus size: 27
19003404 CGATTTATAA
19003414 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
**
19003441 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
19003468 AATTACCGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* **
19003495 AATTACCGAAATACCCCTGTAATGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
19003522 AATTACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
19003549 AAATACCAAAATAACCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
19003576 AAATATCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
** * *
19003603 AATTATTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
19003630 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
19003657 AAATACCGAAATATCCC-TGTAGGGTAG
1 AATTACCGAAATA-CCCTTGTAGGGTAG
* * *
19003684 AATCACCGAGATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
19003711 AATTAC
1 AATTAC
19003717 TATTTTGCCC
Statistics
Matches: 236, Mismatches: 38, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 3 0.01
27 230 0.97
28 3 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:19003880 original size:16 final size:16
Alignment explanation
Indices: 19003859--19003889 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19003849 CAAATATGGG
*
19003859 CATGACATTTTGCATA
1 CATGACATGTTGCATA
19003875 CATGACATGTTGCAT
1 CATGACATGTTGCAT
19003890 GGGTTGGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:19004311 original size:27 final size:26
Alignment explanation
Indices: 19004281--19004386 Score: 113
Period size: 27 Copynumber: 4.0 Consensus size: 26
19004271 ATTCTGTTAA
*
19004281 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTTTGCCACAATATCTG-TTCTG
** * *
19004308 GTGGCCATGCCACAAATATTTATTCTG
1 GTGGCTTTGCCAC-AATATCTGTTCTG
*
19004335 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTG
* *
19004362 GTGACTTTGTCACAATATCTGTTCT
1 GTGGCTTTGCCACAATATCTGTTCT
19004387 AGCAGCCATG
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 10 0.15
27 50 0.77
28 5 0.08
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:19004545 original size:6 final size:6
Alignment explanation
Indices: 19004508--19004706 Score: 86
Period size: 6 Copynumber: 32.3 Consensus size: 6
19004498 TTGCATTCAC
* * * *
19004508 ATTCTG AATT-TG ATTCTG CTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG -ATTCTG ATTCTG AT-TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
19004557 -TTACCTG ATACTA ATTCTA ATTTTG ATTCT- ATTACCTG ATACTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * * *
19004607 ATTTTG ATTC-G GTTACTTG ATACTG ATTCTG ATTCTG ATTTTG -TCACCTA
1 ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * *
19004657 ATTCTA ATTCTG ATTCAG ATTCTA ATTATG ATTCTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
19004705 AT
1 AT
19004707 AATGTTTCTT
Statistics
Matches: 143, Mismatches: 33, Indels: 33
0.68 0.16 0.16
Matches are distributed among these distances:
5 13 0.09
6 109 0.76
7 15 0.10
8 6 0.04
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:19004551 original size:31 final size:31
Alignment explanation
Indices: 19004508--19004671 Score: 211
Period size: 31 Copynumber: 5.3 Consensus size: 31
19004498 TTGCATTCAC
* *
19004508 ATTCTGAATTTGATTCTGCTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
19004539 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
19004570 ATTCTAATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
19004601 ATTCTGATTTTGATTCGGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * * *
19004632 ATTCTGATTCTGATTTTGTCACCTAATTCTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
19004663 ATTCTGATT
1 ATTCTGATT
19004672 CAGATTCTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 115 1.00
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:19004703 original size:24 final size:25
Alignment explanation
Indices: 19004654--19004721 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
19004644 ATTTTGTCAC
* *
19004654 CTAATTCTAATTCTGATTC-AGATT
1 CTAATTATGATTCTGATTCTAGATT
19004678 CTAATTATGATTCTGATTCTAG-TT
1 CTAATTATGATTCTGATTCTAGATT
* * * *
19004702 CTGATAATGTTTCTTATTCT
1 CTAATTATGATTCTGATTCT
19004722 GTAATGGGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 35 0.95
25 2 0.05
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (25 bp):
CTAATTATGATTCTGATTCTAGATT
Found at i:19006764 original size:27 final size:27
Alignment explanation
Indices: 19006654--19006952 Score: 234
Period size: 27 Copynumber: 11.2 Consensus size: 27
19006644 TTAGTTTACC
* *
19006654 AAATTACTGAAATATCCC-C-AGTTGTA
1 AAATTACTAAAATA-CCCTCGATTTGTA
* * * *
19006680 AAATTACCAAAGTACCCCCG-TTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
19006706 AAATTACCGAAATACCGTCGA-TTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
19006732 AAATTACTAAAATACCCTTGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* **
19006759 AAATTA-TCGAAATACCCTC-AGTTTACA
1 AAATTACT-AAAATACCCTCGA-TTTGTA
*
19006786 AAATTACTAAAATCCCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
*
19006813 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * * *
19006840 AAATTACCAAAGTACCCCCAATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
** *
19006867 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
** * * *
19006894 AAATTACCGAAATATCGTTGA-TTGTA
1 AAATTACTAAAATACCCTCGATTTGTA
* * * *
19006920 AAATTCCTAAAATACTCTTGATTTATA
1 AAATTACTAAAATACCCTCGATTTGTA
19006947 AAATTA
1 AAATTA
19006953 TCGAAATACC
Statistics
Matches: 217, Mismatches: 47, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
25 3 0.01
26 75 0.35
27 137 0.63
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTGTA
Found at i:19006826 original size:81 final size:79
Alignment explanation
Indices: 19006675--19006964 Score: 307
Period size: 81 Copynumber: 3.6 Consensus size: 79
19006665 ATATCCCCAG
* * *
19006675 TTGTAAAATTACCAAAGTACCCCCGTTTATAAAATTACCGAAATACCGTCGA-TTGTAAAATTAC
1 TTGTAAAATTACCAAAGTACCCCAGTTTATAAAATTACCAAAATACCCTCGATTTGTAAAATTAC
19006739 TAAAATACCCTTGA
66 TAAAATACCCTTGA
* * * *
19006753 TTTGTAAAATTATCGAAA-TACCCTCAGTTTACAAAATTACTAAAATCCCCTCGATTTGTAAAAT
1 -TTGTAAAATTA-CCAAAGTACCC-CAGTTTATAAAATTACCAAAATACCCTCGATTTGTAAAAT
*
19006817 TACTAAAATACCCTCGA
63 TACTAAAATACCCTTGA
* * *
19006834 CTTGTAAAATTACCAAAGTACCCCCAATTTATAAAATTACCCAAATATCCTCGATTTGTAAAATT
1 -TTGTAAAATTACCAAAGTA-CCCCAGTTTATAAAATTACCAAAATACCCTCGATTTGTAAAATT
** * *
19006899 ACCGAAATATCGTTGA
64 ACTAAAATACCCTTGA
* * ** * *
19006915 TTGTAAAATT-CCTAAAATACTCTTGATTTATAAAATTATCGAAATACCCT
1 TTGTAAAATTACC-AAAGTACCCCAG-TTTATAAAATTACCAAAATACCCT
19006965 TGTAGGGTAG
Statistics
Matches: 175, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
79 20 0.11
80 68 0.39
81 84 0.48
82 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (79 bp):
TTGTAAAATTACCAAAGTACCCCAGTTTATAAAATTACCAAAATACCCTCGATTTGTAAAATTAC
TAAAATACCCTTGA
Found at i:19006978 original size:27 final size:27
Alignment explanation
Indices: 19006948--19007252 Score: 376
Period size: 27 Copynumber: 11.3 Consensus size: 27
19006938 TGATTTATAA
*
19006948 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
19006975 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
19007002 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * **
19007029 AATTATCGAAATACCCCTGTAATGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
19007056 AATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
19007083 AAATACCAAAATAACCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
19007110 AAATATCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
19007137 AATTACTGAAATACCCCTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
19007164 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
19007191 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
19007218 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
19007245 AATTACCG
1 AATTACCG
19007253 TCTTGCCCCT
Statistics
Matches: 240, Mismatches: 38, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 240 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:19007039 original size:81 final size:81
Alignment explanation
Indices: 19006951--19007252 Score: 415
Period size: 81 Copynumber: 3.7 Consensus size: 81
19006941 TTTATAAAAT
* * *
19006951 TATCGAAATACCCTTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATAC
1 TATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
* *
19007016 CCCTGTAGGGTAGAAT
66 CCTTGTAGGGTAGAAA
** * * * *
19007032 TATCGAAATACCCCTGTAATGTAGAATTACTGAAATACCCCTATAAGGTAGAAATACCAAAATAA
1 TATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
19007097 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* *
19007113 TATCGAAATACCCCTGTAGGGTAAAATTACTGAAATACCCCTATAGGATAGAATTACCGAAATAC
1 TATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
19007178 CCTTGTAGGGTAGAAA
66 CCTTGTAGGGTAGAAA
* * * * * * * *
19007194 TACCGAAATACCCTTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCG
1 TATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCG
19007253 TCTTGCCCCT
Statistics
Matches: 192, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 192 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
TATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATAC
CCTTGTAGGGTAGAAA
Found at i:19007632 original size:22 final size:22
Alignment explanation
Indices: 19007598--19007656 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
19007588 CCCGTTATCG
* *
19007598 ATGGCTCTATGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
19007620 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
19007642 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
19007657 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:19007845 original size:27 final size:26
Alignment explanation
Indices: 19007815--19007921 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 26
19007805 TTCTGTTAAA
* *
19007815 TGGCTTTGCCACATTATCTGATTCTGG
1 TGGCTATGCCACAATATCTG-TTCTGG
*
19007842 TGGCTATGCCACAAATATTTGTTCTGG
1 TGGCTATGCCAC-AATATCTGTTCTGG
* *
19007869 TGGCTCTACCACAATATCTGTATCTGG
1 TGGCTATGCCACAATATCTGT-TCTGG
* * ** *
19007896 TGACTCTGTTACAATATTTGTTCTGG
1 TGGCTATGCCACAATATCTGTTCTGG
19007922 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.19
27 48 0.72
28 6 0.09
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
TGGCTATGCCACAATATCTGTTCTGG
Found at i:19008107 original size:31 final size:31
Alignment explanation
Indices: 19008041--19008243 Score: 262
Period size: 31 Copynumber: 6.5 Consensus size: 31
19008031 TTGCATTCAC
* * ** * *
19008041 ATTCTGATTTTGATCCTATTATGTAATATTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
19008072 ATTCTGATTTTGATTCTGTTACCTGATACTA
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
19008103 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
19008134 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
19008165 ATTTTGATTTTGATTCAGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * *
19008196 ATTCTGATTCTGATTTTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
19008227 ATTTTGATTTTGATTCT
1 ATTCTGATTTTGATTCT
19008244 AATTCTAGTT
Statistics
Matches: 152, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 152 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:19008196 original size:6 final size:6
Alignment explanation
Indices: 19008070--19008258 Score: 75
Period size: 6 Copynumber: 30.7 Consensus size: 6
19008060 TATGTAATAT
* * * *
19008070 TGATTC TGATTT TGATTC TG-TTACC TGATAC TAATTC TGATTT TGATTC
1 TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC
* * * * *
19008119 TG-TTACC TGATAC TGATTT TGATTT TGATTC TG-TTACC TGATAC TGATTT
1 TGATT--C TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC
* * * * *
19008169 TGATTT TGATTC AG-TTACC TGATAC TGATTC TGATTC TGATTT TG-TCACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGAT--TC
* * * *
19008219 TAATTC TGATTT TGATTT TGATTC TAATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
19008259 AATGTTTCTT
Statistics
Matches: 137, Mismatches: 29, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
5 10 0.07
6 109 0.80
7 13 0.09
8 5 0.04
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (6 bp):
TGATTC
Found at i:19016077 original size:35 final size:35
Alignment explanation
Indices: 19016031--19016101 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
19016021 GATTGATAGC
*
19016031 AGGAATAAGGAGTATAAACTCCTCAAACCACCATG
1 AGGAATAAGGAGAATAAACTCCTCAAACCACCATG
* *
19016066 AGGAATGAGGAGAATAAACTCCTCAAACCACTATG
1 AGGAATAAGGAGAATAAACTCCTCAAACCACCATG
19016101 A
1 A
19016102 TTATTCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (35 bp):
AGGAATAAGGAGAATAAACTCCTCAAACCACCATG
Found at i:19022394 original size:38 final size:38
Alignment explanation
Indices: 19022351--19022481 Score: 136
Period size: 38 Copynumber: 3.2 Consensus size: 38
19022341 TTTCAAATTA
19022351 ACATGTATAACCGTGGCATATCCACTTAGCACCATGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCATGTT
* * *
19022389 ACATGTTTAACCATGGTATATCCACTTAGCACCATGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCATG-T--T
* *
19022430 GAATCGATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCATGTT
19022474 ACATGTAT
1 ACATGTAT
19022482 CAATATGTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
38 34 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 26 0.35
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCATGTT
Found at i:19022465 original size:47 final size:48
Alignment explanation
Indices: 19022396--19022517 Score: 165
Period size: 48 Copynumber: 2.6 Consensus size: 48
19022386 GTTACATGTT
* * *
19022396 TAACCATGGTATATCCACTTAGCACCATGTTA-ATGAATCGATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * *
19022443 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATATGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
**
19022491 TAATTGTGGTATATCCACTTAGCACCA
1 TAACCGTGGTATATCCACTTAGCACCA
19022518 AATTTTTTCC
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 29 0.45
48 36 0.55
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:19028480 original size:13 final size:13
Alignment explanation
Indices: 19028462--19028488 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19028452 GCTTGACAAG
19028462 GACACACCCGTGT
1 GACACACCCGTGT
19028475 GACACACCCGTGT
1 GACACACCCGTGT
19028488 G
1 G
19028489 CGATTGCTCC
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:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (13 bp):
GACACACCCGTGT
Found at i:19037141 original size:40 final size:39
Alignment explanation
Indices: 19037110--19037319 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
19037100 GGACTAAGAT
* *
19037110 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
19037150 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
19037190 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
19037230 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
19037270 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
19037309 CCGAAGGCATT
1 CCGAAGGCATT
19037320 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:19037273 original size:120 final size:120
Alignment explanation
Indices: 19037057--19037319 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
19037047 TTGAATGCTG
* *
19037057 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
19037121 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
19037177 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
19037240 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
19037296 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
19037320 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:19037339 original size:79 final size:80
Alignment explanation
Indices: 19037058--19037354 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
19037048 TGAATGCTGT
* ** * * * **
19037058 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
19037121 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
19037138 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
19037202 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
19037218 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
19037282 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
19037297 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
19037355 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:19042941 original size:30 final size:30
Alignment explanation
Indices: 19042905--19042964 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
19042895 TTCCCGAGCC
*
19042905 TAGGGGCAAAAGTATAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* * *
19042935 TAGGGGCAAAAATTTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
19042965 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:19062804 original size:16 final size:17
Alignment explanation
Indices: 19062783--19062821 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
19062773 ACTGTAACAC
*
19062783 CCCAAAAATCCCGAAA-
1 CCCAAAAATCCCAAAAT
19062799 CCCAAAAATCCCAAAAT
1 CCCAAAAATCCCAAAAT
19062816 CCCAAA
1 CCCAAA
19062822 CTTTCTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.51, C:0.38, G:0.03, T:0.08
Consensus pattern (17 bp):
CCCAAAAATCCCAAAAT
Found at i:19063507 original size:58 final size:57
Alignment explanation
Indices: 19063440--19063554 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 57
19063430 TGTTTTTCTT
*
19063440 TCTTTTCTTCCTGCTAATTTCTATTCTTCTCTATACAAGTTTT-TGTGTTTCACTTAGC
1 TCTTTTCTTCCTGCTAATTTCTATTCTTCTCTACACAA-TTTTAT-TGTTTCACTTAGC
* *
19063498 TCTTTTCTTCCTGCTGATTTCTATTCTTCTCTACATAATTTTATTGTTTCACTTAGC
1 TCTTTTCTTCCTGCTAATTTCTATTCTTCTCTACACAATTTTATTGTTTCACTTAGC
19063555 CGATTTCTTC
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
57 17 0.32
58 36 0.68
ACGTcount: A:0.16, C:0.23, G:0.08, T:0.54
Consensus pattern (57 bp):
TCTTTTCTTCCTGCTAATTTCTATTCTTCTCTACACAATTTTATTGTTTCACTTAGC
Found at i:19064179 original size:16 final size:15
Alignment explanation
Indices: 19064157--19064201 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
19064147 GCCGAAATGC
19064157 CGAAATGCCAAAAAT
1 CGAAATGCCAAAAAT
*
19064172 CTGAAATGCCGAAAAGT
1 C-GAAATGCC-AAAAAT
*
19064189 CGAAAAGCCAAAA
1 CGAAATGCCAAAA
19064202 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 15 0.58
17 6 0.23
ACGTcount: A:0.51, C:0.20, G:0.18, T:0.11
Consensus pattern (15 bp):
CGAAATGCCAAAAAT
Found at i:19066924 original size:29 final size:28
Alignment explanation
Indices: 19066881--19066990 Score: 112
Period size: 29 Copynumber: 3.9 Consensus size: 28
19066871 CATGATTATG
* * *
19066881 AATGTGACTGGGCCTAACGGGCCAAATA
1 AATGTGATTGGGCCTAATGGGCCATATA
*
19066909 AATGTGATTTGGGCCTAATGGGTCATATA
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * *
19066938 CAGGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* * *
19066967 AATATGATTGGGCTTAATAGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
19066991 GACACATGTA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 22 0.32
29 46 0.68
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:19080084 original size:22 final size:19
Alignment explanation
Indices: 19080058--19080099 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
19080048 AACTAATAAC
19080058 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
19080080 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
19080099 T
1 T
19080100 CAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:19080090 original size:16 final size:15
Alignment explanation
Indices: 19080058--19080096 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
19080048 AACTAATAAC
19080058 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
19080074 TTATTATAATATATAT
1 TAATTATAAT-TATAT
19080090 TAATTAT
1 TAATTAT
19080097 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:19080816 original size:25 final size:25
Alignment explanation
Indices: 19080789--19080837 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
19080779 TTGTTCTCCT
* *
19080789 AAATTTCAATTTTATTTAATTATTTA
1 AAATTTCAA-ATTATTGAATTATTTA
19080815 AAATTTCAAATTATTGAATTATT
1 AAATTTCAAATTATTGAATTATT
19080838 AATATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (25 bp):
AAATTTCAAATTATTGAATTATTTA
Found at i:19081758 original size:14 final size:14
Alignment explanation
Indices: 19081739--19081766 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
19081729 TGAGGATCCC
19081739 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
19081753 AAAGAAGAAGAAGA
1 AAAGAAGAAGAAGA
19081767 TCCTACAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAGA
Found at i:19086442 original size:20 final size:18
Alignment explanation
Indices: 19086409--19086445 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
19086399 TGTGATGTTG
19086409 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
19086427 ATATGTCTTGAATTTAATT
1 ATATGT-TT-AATTTAATT
19086446 CGTGTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:19087487 original size:20 final size:21
Alignment explanation
Indices: 19087458--19087530 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 21
19087448 TTTAAGGTTA
*
19087458 AATTGTAA-TTAAGTTTATTT
1 AATTGGAACTTAAGTTTATTT
* *
19087478 AATTGGAATTTAA-TATAATTT
1 AATTGGAACTTAAGT-TTATTT
* *
19087499 -GTTGTAA-TTAAGTTTATTT
1 AATTGGAACTTAAGTTTATTT
19087518 AATTGGAACTTAA
1 AATTGGAACTTAA
19087531 TATAATTGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.22
20 19 0.46
21 13 0.32
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.49
Consensus pattern (21 bp):
AATTGGAACTTAAGTTTATTT
Found at i:19087504 original size:40 final size:40
Alignment explanation
Indices: 19087460--19087537 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
19087450 TAAGGTTAAA
*
19087460 TTGTAATTAAGTTTATTTAATTGGAATTTAATATAATTTG
1 TTGTAATTAAGTTTATTTAATTGGAACTTAATATAATTTG
19087500 TTGTAATTAAGTTTATTTAATTGGAACTTAATATAATT
1 TTGTAATTAAGTTTATTTAATTGGAACTTAATATAATT
19087538 GAAAGACCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.51
Consensus pattern (40 bp):
TTGTAATTAAGTTTATTTAATTGGAACTTAATATAATTTG
Found at i:19102483 original size:34 final size:35
Alignment explanation
Indices: 19102444--19102515 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 35
19102434 ACAACCAAAC
19102444 TTCGATTAT-ATATATTAATTCCAACCATATAAAA
1 TTCGATTATAATATATTAATTCCAACCATATAAAA
19102478 TTCGATTATAGCATATATTAATTCCAACCATATAAAA
1 TTCGATTATA--ATATATTAATTCCAACCATATAAAA
19102515 T
1 T
19102516 GAAATTCACT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
34 9 0.26
37 26 0.74
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (35 bp):
TTCGATTATAATATATTAATTCCAACCATATAAAA
Found at i:19103600 original size:27 final size:27
Alignment explanation
Indices: 19103543--19103643 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
19103533 TGGATAAGTT
* *
19103543 GTAGAATTACCGAAATACCCCTATA-A
1 GTAGAATTACTGAAATACCCCTGTAGA
* *
19103569 GGTAGAAGTA-TCGAAATACCCTTGTAGA
1 -GTAGAATTACT-GAAATACCCCTGTAGA
* * *
19103597 GTAGAAATACTAAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGA
*
19103624 GTAGAATTACTGAGATACCC
1 GTAGAATTACTGAAATACCC
19103644 TTGTGGGGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 58 0.97
28 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGA
Found at i:19103652 original size:27 final size:27
Alignment explanation
Indices: 19103582--19103660 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
19103572 AGAAGTATCG
* *
19103582 AAATACCCTTGTAGAGTAGAAATACTA
1 AAATACCCTTGTAGGGTAGAATTACTA
* *
19103609 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACTA
* * *
19103636 AGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
19103661 CATTTTGCCC
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACTA
Found at i:19104357 original size:27 final size:26
Alignment explanation
Indices: 19104313--19104364 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
19104303 CTCACTGCAA
*
19104313 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
19104340 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
19104365 GCATTCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:19104575 original size:75 final size:75
Alignment explanation
Indices: 19104452--19104601 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
19104442 TCTAGGGACT
19104452 TCGTCACAATATCTGGCAGCCTCGCTGCAATTTCTGTGGTGTGTAGCGGTCGGGTGGGTCGAGTA
1 TCGTCACAATATCTGGCAGCCTCGCTGCAATTTCTGTGGTGTGTAGCGGTCGGGTGGGTCGAGTA
19104517 GTCTCCCCAC
66 GTCTCCCCAC
*
19104527 TCGTCACAATATCTGGCAGCCTCGCTGCAATTTCTGTGGTGTGTAGCGGTTGGGTGGGTCGAGTA
1 TCGTCACAATATCTGGCAGCCTCGCTGCAATTTCTGTGGTGTGTAGCGGTCGGGTGGGTCGAGTA
19104592 GTCTCCCCAC
66 GTCTCCCCAC
19104602 ATGGTGTAAG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.29
Consensus pattern (75 bp):
TCGTCACAATATCTGGCAGCCTCGCTGCAATTTCTGTGGTGTGTAGCGGTCGGGTGGGTCGAGTA
GTCTCCCCAC
Found at i:19114724 original size:44 final size:44
Alignment explanation
Indices: 19114659--19114744 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
19114649 TTGATATCTC
* *
19114659 AAAGTCCATGGTTGTACCATGGCAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
* * *
19114703 AAAGTCCATGTTTATAACATGGCATTTAAGGAGGAATTGACG
1 AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACG
19114745 ATTAAGGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGCAATTAAGGAAGAATTGACGGA
Found at i:19114874 original size:47 final size:48
Alignment explanation
Indices: 19114748--19114954 Score: 135
Period size: 47 Copynumber: 4.4 Consensus size: 48
19114738 ATTGACGATT
** * *
19114748 AAGGATACCATGTAAGACCATGTCAAGACATGGAAAT-GG---TAAGGC
1 AAGGATACCATGTAAGACCACATCAAGACATGG-CATCGGCACTAAGAC
* * * ** * **
19114793 AAAGATCCCATGTAAAACCATGTCAAGACATGGCATCGGCATTAA-TT
1 AAGGATACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGAC
** *
19114840 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGAC
1 AAGGA-TACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGAC
* *** *
19114888 AAGGATACCATGTAAGACCACGTTTGGAACATGGCATTTGG---TAAGAC
1 AAGGATACCATGTAAGACCACATCAAG-ACATGGCA-TCGGCACTAAGAC
19114935 AAGGATACCATGTAAGACCA
1 AAGGATACCATGTAAGACCA
19114955 TGTTTGGAAC
Statistics
Matches: 131, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 2 0.02
45 32 0.24
47 62 0.47
48 25 0.19
49 6 0.05
50 4 0.03
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (48 bp):
AAGGATACCATGTAAGACCACATCAAGACATGGCATCGGCACTAAGAC
Found at i:19114960 original size:47 final size:47
Alignment explanation
Indices: 19114882--19114998 Score: 180
Period size: 47 Copynumber: 2.5 Consensus size: 47
19114872 GCATTGGCAC
*
19114882 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
*
19114929 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
* * **
19114976 TAAGATAAAGATATTATGTAAGA
1 TAAGACAAGGATACCATGTAAGA
19114999 ACATCCCAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCACGTTTGGAACATGACATTTGG
Found at i:19115106 original size:55 final size:54
Alignment explanation
Indices: 19115010--19115178 Score: 227
Period size: 55 Copynumber: 3.1 Consensus size: 54
19115000 CATCCCAATG
* * *
19115010 CATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACCATGTCAAGA
1 CATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
* * *
19115064 CATGGCATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGG
1 CATGGCATTGATGAGTT-CTATAAGGC-AAGGATACCATGTAAGACCATGTCAAGA
*
19115119 CATGGCATTTG-TGAGTTC-ATAAGGCAAGGATACCACGTAAGACCATGTCAAGA
1 CATGGCA-TTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
19115172 CATGGCA
1 CATGGCA
19115179 ATGGTAAGTT
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
52 4 0.04
53 33 0.33
54 17 0.17
55 40 0.40
56 7 0.07
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGGCATTGATGAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGA
Found at i:19115164 original size:53 final size:54
Alignment explanation
Indices: 19114991--19115178 Score: 222
Period size: 55 Copynumber: 3.5 Consensus size: 54
19114981 TAAAGATATT
* * * * *
19114991 ATGTAAGAACATCCCAATG-CATGGCATTGATAAGTTCTATAAGGCAAGGAAATC
1 ATGTAAGACCATGCCAA-GACATGGCATTGATGAGTTCTATAAGGCAAGGATACC
* *
19115045 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCCC
1 ATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATACC
*
19115100 ATGTAAGACCATGCCAAGGCATGGCATTTG-TGAGTTC-ATAAGGCAAGGATACC
1 ATGTAAGACCATGCCAAGACATGGCA-TTGATGAGTTCTATAAGGCAAGGATACC
* *
19115153 ACGTAAGACCATGTCAAGACATGGCA
1 ATGTAAGACCATGCCAAGACATGGCA
19115179 ATGGTAAGTT
Statistics
Matches: 116, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.03
53 34 0.29
54 31 0.27
55 40 0.34
56 7 0.06
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (54 bp):
ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATACC
Found at i:19122877 original size:15 final size:15
Alignment explanation
Indices: 19122857--19122887 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19122847 AAAAATAAGC
19122857 TTCACACTCTTTTCT
1 TTCACACTCTTTTCT
19122872 TTCACACTCTTTTCT
1 TTCACACTCTTTTCT
19122887 T
1 T
19122888 ACATATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.32, G:0.00, T:0.55
Consensus pattern (15 bp):
TTCACACTCTTTTCT
Found at i:19123134 original size:47 final size:47
Alignment explanation
Indices: 19123082--19123177 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
19123072 ACAACATCAA
19123082 ATCAGCACGAAAGCACGAATCTCGAACCATCAAAGGACAATTCTTAC
1 ATCAGCACGAAAGCACGAATCTCGAACCATCAAAGGACAATTCTTAC
*
19123129 ATCAGCAGGAAAGCACGAATCTCGAACCATCAAAGGACAATTCTTAC
1 ATCAGCACGAAAGCACGAATCTCGAACCATCAAAGGACAATTCTTAC
19123176 AT
1 AT
19123178 ACTTTGTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.41, C:0.26, G:0.16, T:0.18
Consensus pattern (47 bp):
ATCAGCACGAAAGCACGAATCTCGAACCATCAAAGGACAATTCTTAC
Found at i:19128634 original size:32 final size:32
Alignment explanation
Indices: 19128593--19128656 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
19128583 AAAGTTTATA
19128593 GGGTTAAGGAAACTTACTAGTTCCCAATATTT
1 GGGTTAAGGAAACTTACTAGTTCCCAATATTT
19128625 GGGTTAAGGAAACTTACTAGTTCCCAATATTT
1 GGGTTAAGGAAACTTACTAGTTCCCAATATTT
19128657 CTACTTCTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (32 bp):
GGGTTAAGGAAACTTACTAGTTCCCAATATTT
Found at i:19131653 original size:40 final size:40
Alignment explanation
Indices: 19131501--19131646 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
19131491 TTGAATGATG
* * * *
19131501 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
19131541 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19131581 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19131622 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19131647 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.01
40 82 0.88
41 10 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19131653 original size:80 final size:80
Alignment explanation
Indices: 19131501--19131679 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
19131491 TTGAATGATG
* *
19131501 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
19131566 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
19131581 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
19131644 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
19131661 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19131680 TACGTGATTT
Statistics
Matches: 84, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.71
81 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:19135513 original size:14 final size:14
Alignment explanation
Indices: 19135494--19135537 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
19135484 CATAACTTAT
19135494 ATTATATACATATA
1 ATTATATACATATA
* *
19135508 ATTATATACATTTT
1 ATTATATACATATA
19135522 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
19135538 TATATATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:19144362 original size:46 final size:46
Alignment explanation
Indices: 19144312--19144526 Score: 430
Period size: 46 Copynumber: 4.7 Consensus size: 46
19144302 AGCATCCGAA
19144312 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
19144358 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
19144404 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
19144450 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
19144496 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAGGG
19144527 GCGGGTTACA
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 169 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACGCCTAAG
Found at i:19146363 original size:43 final size:43
Alignment explanation
Indices: 19146302--19146391 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
19146292 TGCAGCCAGT
* *
19146302 GTAGGGACATCGAGATTTGTTAACCCCGAGTGCCAGCGGTGTG
1 GTAGGGACATCGAGATTTGTTAAACCCGAGTGCCAGCAGTGTG
19146345 GTAGGGA-ACTCGAGATTTGTTAAACCCGAGTGCCAGCAGTGTG
1 GTAGGGACA-TCGAGATTTGTTAAACCCGAGTGCCAGCAGTGTG
19146388 GTAG
1 GTAG
19146392 AAATCATTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 1 0.02
43 43 0.98
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (43 bp):
GTAGGGACATCGAGATTTGTTAAACCCGAGTGCCAGCAGTGTG
Found at i:19150955 original size:46 final size:46
Alignment explanation
Indices: 19150899--19151013 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
19150889 TGGTTGAGCA
* *
19150899 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCAAACG
*
19150945 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCAAACG
*
19150991 -CCTAAGCTCGTTGAGTTGAGTCC
1 TCCGAA-CTCGTTGAGTTGAGTCC
19151014 NNNNNNNNNN
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 4 0.06
46 60 0.94
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCAAACG
Found at i:19156068 original size:40 final size:40
Alignment explanation
Indices: 19155990--19156133 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
19155980 ACCCAAGTAT
*
19155990 CTTCGGGATTTAG-CCGGATATAGCAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACT-AGCACAAATGC
**
19156029 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
19156069 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
19156112 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
19156134 CATCCGAATA
Statistics
Matches: 91, Mismatches: 7, Indels: 10
0.84 0.06 0.09
Matches are distributed among these distances:
39 14 0.15
40 47 0.52
41 1 0.01
43 29 0.32
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:19163886 original size:40 final size:40
Alignment explanation
Indices: 19163806--19163989 Score: 203
Period size: 40 Copynumber: 4.5 Consensus size: 40
19163796 ACCCAAGTAT
* * *
19163806 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAGTGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * **
19163845 CTTAGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
19163885 CTTCGGGACTTAGCTCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
19163928 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
19163968 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
19163990 CATCCGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
39 11 0.09
40 76 0.63
41 1 0.01
43 33 0.27
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:19163941 original size:83 final size:79
Alignment explanation
Indices: 19163806--19163989 Score: 242
Period size: 83 Copynumber: 2.3 Consensus size: 79
19163796 ACCCAAGTAT
* * * *
19163806 CTTCGGGATTTAGCCGGATATAGCAACTCGCACAAGTGCCTTAGGGTCTTAGCCCGGATATAGTC
1 CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTAGGGACTTAGCCCGGATATAGTA
**
19163871 ACTAGCATGAATGC
66 ACTAGCACAAATGC
* *
19163885 CTTCGGGACTTAGCTCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGC-CGGATATAGC-A--ACTCGCACAAATGCCTTAGGGACTTAGCCCGGATAT
*
19163950 AGTAACTTGCACAAATGC
62 AGTAACTAGCACAAATGC
19163968 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAG-CCGGATAT
19163990 CATCCGAATA
Statistics
Matches: 90, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 13 0.14
80 9 0.10
81 1 0.01
83 66 0.73
84 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTAGGGACTTAGCCCGGATATAGTA
ACTAGCACAAATGC
Found at i:19167617 original size:27 final size:27
Alignment explanation
Indices: 19167569--19167620 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
19167559 GCGAGGCTGC
*
19167569 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
19167596 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
19167621 ACATATCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:19167717 original size:27 final size:27
Alignment explanation
Indices: 19167669--19167720 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
19167659 GTTAGGCTGC
*
19167669 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
19167696 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
19167721 ACATATCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:19167727 original size:100 final size:100
Alignment explanation
Indices: 19167553--19167820 Score: 475
Period size: 100 Copynumber: 2.7 Consensus size: 100
19167543 CACCACAGAA
*
19167553 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGTGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
19167618 AGAACATATCTATATATATCTGGCGAAGCCACCAG
66 AGAACATATCTATATATATCTGGCGAAGCCACCAG
* *
19167653 GTTGCAGTTAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
1 ATTGCAGTGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
19167718 AGAACATATCTATATATATCTGGCGAAGCCACCAG
66 AGAACATATCTATATATATCTGGCGAAGCCACCAG
* *
19167753 ATTGCAGTGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAAATATATGTGGCGAGGCCAC
1 ATTGCAGTGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCCAC
19167817 CAGA
65 CAGA
19167821 TTGCAACGAG
Statistics
Matches: 160, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
99 7 0.04
100 153 0.96
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (100 bp):
ATTGCAGTGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACC
AGAACATATCTATATATATCTGGCGAAGCCACCAG
Found at i:19175736 original size:29 final size:30
Alignment explanation
Indices: 19175703--19175779 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
19175693 GTTGTGAGAT
* *
19175703 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAACTTGAAAGTACA
* *
19175732 TGGCACTAAGTGTGCG-AGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAACTTGAAAGTACA
* *
19175761 CGGCACTATGTGTGCGAAC
1 TGGCACTAAGTGTGCGAAC
19175780 CCACTATATA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 6 0.15
29 32 0.82
30 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAACTTGAAAGTACA
Found at i:19182365 original size:40 final size:40
Alignment explanation
Indices: 19182282--19182546 Score: 297
Period size: 40 Copynumber: 6.7 Consensus size: 40
19182272 TTGAATGCTG
* * * *
19182282 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTG-TTAAA
* * * **
19182322 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTGTTAAA
*
19182362 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
19182402 TCCGGGTTAAGTCCCGAAGGCATTCT-TGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-TGTGCGAGTTGTTAAA
* *
19182442 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* * **
19182482 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* *
19182521 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
19182547 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 22, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
39 34 0.17
40 153 0.78
41 9 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
Found at i:19188959 original size:85 final size:85
Alignment explanation
Indices: 19188811--19188980 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
19188801 GAAATGTTTC
19188811 AATGTGATACTTATTGTCTAGAATATGTAATTATGAATGTGTGAAAATTTCAAGCTTCAATTTGG
1 AATGTGATACTTATTGTCTAGAATATGTAATTATGAATGTGTGAAAATTTCAAGCTTCAATTTGG
*
19188876 TTGATTTCATGTGAATTTAG
66 TTGATTGCATGTGAATTTAG
* *
19188896 AATGTGATACTTATTGTGTAGAATATGTAATTATGAATGTGTGAAAATTTCAAGCTTCGATTTGG
1 AATGTGATACTTATTGTCTAGAATATGTAATTATGAATGTGTGAAAATTTCAAGCTTCAATTTGG
19188961 TTGATTGCATGTGAATTTAG
66 TTGATTGCATGTGAATTTAG
19188981 TCAATAGGAC
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (85 bp):
AATGTGATACTTATTGTCTAGAATATGTAATTATGAATGTGTGAAAATTTCAAGCTTCAATTTGG
TTGATTGCATGTGAATTTAG
Found at i:19189892 original size:39 final size:40
Alignment explanation
Indices: 19189741--19189910 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
19189731 GGACTAAGAT
* * *
19189741 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
19189781 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
19189821 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
19189861 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
19189900 CCGAAGGCATT
1 CCGAAGGCATT
19189911 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:19189930 original size:79 final size:80
Alignment explanation
Indices: 19189763--19189945 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
19189753 GTGCGAGATA
* * * *
19189763 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
19189828 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
19189843 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
19189907 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
19189922 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
19189946 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:19194063 original size:56 final size:56
Alignment explanation
Indices: 19193967--19194157 Score: 238
Period size: 56 Copynumber: 3.4 Consensus size: 56
19193957 TCCCAGATAG
* * *** * * *
19193967 GGTCTTACTCGCACACATAAATTGGAATCGCATTTTGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
*
19194023 GGTCTTACTCACACATATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
* * **
19194079 GGTCTTACTCGCACACATATATCAAAATCACATATTGATGCCAACATATTAAACGT
1 GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
* * *
19194135 GGTTTTACTCGCACGCATATATC
1 GGTCTTACTCACACACATATATC
19194158 GATGCCATGG
Statistics
Matches: 119, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (56 bp):
GGTCTTACTCACACACATATATCAAAATCACATATCGATGCCAATGTATTAAACGT
Found at i:19200076 original size:27 final size:27
Alignment explanation
Indices: 19200046--19200283 Score: 323
Period size: 27 Copynumber: 8.8 Consensus size: 27
19200036 ATTACCAAAG
* * *
19200046 TACCCTCGATTTACAGAATAACTATTT
1 TACCCTCGATTTATAGAATTACCATTT
19200073 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19200100 TATCCTCGATTTGTAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19200127 TACTCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
19200154 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
19200181 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
* * **
19200208 TACCATCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
19200235 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* * *
19200262 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
19200284 TGAAATACCC
Statistics
Matches: 190, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:19200292 original size:27 final size:27
Alignment explanation
Indices: 19200235--19200373 Score: 95
Period size: 27 Copynumber: 5.2 Consensus size: 27
19200225 ATTACTGTTT
* * ***
19200235 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCGAAA
*
19200262 TACCCTTGATTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
* *
19200289 TACCCTT-AGTTTCCAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* * *
19200316 TACCCCTGATTTTA-GAAATTATCGAAA
1 TACCCTTGA-TTTACAAAATTACCGAAA
* * ** *
19200343 TACTCTTAATTTGTAAAA-TATCGAAA
1 TACCCTTGATTTACAAAATTACCGAAA
19200369 TACCC
1 TACCC
19200374 CTGTAGGGTA
Statistics
Matches: 88, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
26 16 0.18
27 68 0.77
28 4 0.05
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCGAAA
Found at i:19200309 original size:54 final size:54
Alignment explanation
Indices: 19200134--19200312 Score: 137
Period size: 54 Copynumber: 3.3 Consensus size: 54
19200124 TTTTACTCTC
* * * * * * ** *
19200134 GATTTATAAAATTACCATTTTACCCTTGATTTATAGAATTAC-CATTTTACCCTC
1 GATTTACAAAATTACCATTTTACCATCGATTTACAAAATTACTGA-AATACCCTA
* * * *** *
19200188 GATTTATAGAATTACCATTTTACCATCGATTTACAGAATTACTGTTTTACCCTC
1 GATTTACAAAATTACCATTTTACCATCGATTTACAAAATTACTGAAATACCCTA
* * * *
19200242 GATTTACAGAATTACCGTTTTACCCTTGATTTACAAAATTACTGAAATACCCTTA
1 GATTTACAAAATTACCATTTTACCATCGATTTACAAAATTACTGAAATACCC-TA
*
19200297 G-TTTCCAAAATTACCA
1 GATTTACAAAATTACCA
19200313 AAATACCCCT
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
54 103 0.98
55 2 0.02
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (54 bp):
GATTTACAAAATTACCATTTTACCATCGATTTACAAAATTACTGAAATACCCTA
Found at i:19200335 original size:54 final size:54
Alignment explanation
Indices: 19200277--19200402 Score: 132
Period size: 53 Copynumber: 2.4 Consensus size: 54
19200267 TTGATTTACA
* ***
19200277 AAATTACTGAAATACCCTTAGTTTCCAAAATTACCAAAATACCCCTG-ATTTTAG
1 AAATTACTGAAATACCCTTAATTTCCAAAA-TACCAAAATACCCCTGTAGGGTAG
* ** * *
19200331 AAATTA-TCGAAATACTCTTAATTTGTAAAATATCGAAATACCCCTGTAGGGTAG
1 AAATTACT-GAAATACCCTTAATTTCCAAAATACCAAAATACCCCTGTAGGGTAG
19200385 -AATTACTGAAATACCCTT
1 AAATTACTGAAATACCCTT
19200403 GTAGGGTAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
53 30 0.51
54 29 0.49
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATTACTGAAATACCCTTAATTTCCAAAATACCAAAATACCCCTGTAGGGTAG
Found at i:19200405 original size:27 final size:27
Alignment explanation
Indices: 19200365--19200671 Score: 343
Period size: 27 Copynumber: 11.4 Consensus size: 27
19200355 GTAAAATATC
*
19200365 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
* *
19200392 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
19200419 GAAATACCCCTGTAGGATAGAATTATT
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
19200446 AAAATAACCC-TATAGGGTAAAATTA-T
1 GAAAT-ACCCTTGTAGGGTAGAATTACT
* * *
19200472 CGAAATACCCCTGTACGGTAGAATTACC
1 -GAAATACCCTTGTAGGGTAGAATTACT
*
19200500 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
*
19200527 GAAATAACCC-TGTAGGGTAGAATTACC
1 GAAAT-ACCCTTGTAGGGTAGAATTACT
19200554 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
19200581 GAAAGACCCTTGTAGGATAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACT
* * *
19200608 GAAATACCCTTATAGGGTAAAAATACT
1 GAAATACCCTTGTAGGGTAGAATTACT
* *
19200635 GAAATACCGC-TGTAGTGTAGAATTACC
1 GAAATACC-CTTGTAGGGTAGAATTACT
*
19200662 GAGATACCCT
1 GAAATACCCT
19200672 CGGGTAAATT
Statistics
Matches: 236, Mismatches: 36, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
26 10 0.04
27 217 0.92
28 9 0.04
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACT
Found at i:19200423 original size:54 final size:54
Alignment explanation
Indices: 19200358--19200671 Score: 380
Period size: 54 Copynumber: 5.8 Consensus size: 54
19200348 TTAATTTGTA
* *
19200358 AAATATCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* *** *
19200412 AAATACCGAAATACCCCTGTAGGATAGAATTATTAAAATAACCC-TATAGGGTA-
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAAT-ACCCTTGTAGGGTAG
* * *
19200465 AAATTATCGAAATACCCCTGTACGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AAA-TACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * *
19200520 AATTACTGAAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * * * * *
19200574 AATTACTGAAAGACCCTTGTAGGATAGAATTACCGAAATACCCTTATAGGGTAA
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
* * * *
19200628 AAATACTGAAATACCGCTGTAGTGTAGAATTACCGAGATACCCT
1 AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCT
19200672 CGGGTAAATT
Statistics
Matches: 225, Mismatches: 31, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
53 7 0.03
54 212 0.94
55 6 0.03
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (54 bp):
AAATACCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAG
Found at i:19200470 original size:81 final size:81
Alignment explanation
Indices: 19200365--19200670 Score: 393
Period size: 81 Copynumber: 3.8 Consensus size: 81
19200355 GTAAAATATC
* * * *
19200365 GAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
1 GAAATAACCCTATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCT
*
19200430 GTAGGATAGAATTATT
66 GTAGGATAGAATTACT
* * *
19200446 AAAATAACCCTATAGGGTAAAATTA-TCGAAATACCCCTGTACGGTAGAATTACCGAAATACCCC
1 GAAATAACCCTATAGGGTAAAATTACT-GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCC
*
19200510 TGTAGGGTAGAATTACT
65 TGTAGGATAGAATTACT
* * * * * *
19200527 GAAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACTGAAAGACCCTT
1 GAAATAACCCTATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCT
*
19200592 GTAGGATAGAATTACC
66 GTAGGATAGAATTACT
* * *
19200608 GAAAT-ACCCTTATAGGGTAAAAATACTGAAATACCGC-TGTAGTGTAGAATTACCGAGATACCC
1 GAAATAACCC-TATAGGGTAAAATTACTGAAATACC-CTTGTAGGGTAGAATTACCGAAATACCC
19200671 TCGGGTAAAT
Statistics
Matches: 193, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
80 5 0.03
81 187 0.97
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
GAAATAACCCTATAGGGTAAAATTACTGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCT
GTAGGATAGAATTACT
Found at i:19200955 original size:25 final size:25
Alignment explanation
Indices: 19200888--19200957 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
19200878 AGGAAGTGCT
* *
19200888 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
19200913 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
19200938 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
19200958 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:19203444 original size:27 final size:27
Alignment explanation
Indices: 19203414--19203651 Score: 296
Period size: 27 Copynumber: 8.8 Consensus size: 27
19203404 ATTACCAAAG
*
19203414 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* **
19203441 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTT
*
19203468 CACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
** * *
19203495 TATTCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
19203522 TACCTTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
19203549 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
19203576 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
19203603 TACTCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
19203630 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
19203652 TAAAATACCC
Statistics
Matches: 180, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 180 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:19203514 original size:81 final size:81
Alignment explanation
Indices: 19203414--19203651 Score: 332
Period size: 81 Copynumber: 2.9 Consensus size: 81
19203404 ATTACCAAAG
* * *
19203414 TACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACTATTTCACCCTCGATT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
*
19203479 TATAGAATTACCGTTT
66 TATAGAATTACCATTT
** * * * * *
19203495 TATTCTCGATTTACAGAATTACCATTTTACCTTCGATTTATAGAATTACTGTTTTACCCTTGATT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
19203560 TATAGAATTACCATTT
66 TATAGAATTACCATTT
* * *
19203576 TACCCTCAATTTACAGAATTACCGTTTTACTCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
* *
19203641 TACAAAATTAC
66 TATAGAATTAC
19203652 TAAAATACCC
Statistics
Matches: 134, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 134 1.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCGTTTTACCCTCGATTTATAAAATTACTGTTTTACCCTCGATT
TATAGAATTACCATTT
Found at i:19203660 original size:27 final size:28
Alignment explanation
Indices: 19203607--19203704 Score: 80
Period size: 27 Copynumber: 3.6 Consensus size: 28
19203597 CCGTTTTACT
****
19203607 CTCGA-TTTACAAAATTACCGTTTTACC
1 CTCGAGTTTACAAAATTACCAAAATACC
*
19203634 CTCGA-TTTACAAAATTACTAAAATACC
1 CTCGAGTTTACAAAATTACCAAAATACC
* *
19203661 CT-TAGTTTAAAAAATTACCAAAATACC
1 CTCGAGTTTACAAAATTACCAAAATACC
*
19203688 C-CTGATTTTA-AAAATTA
1 CTC-GAGTTTACAAAATTA
19203705 TCGAAATAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.02
27 52 0.90
28 5 0.09
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (28 bp):
CTCGAGTTTACAAAATTACCAAAATACC
Found at i:19203661 original size:81 final size:80
Alignment explanation
Indices: 19203389--19203662 Score: 305
Period size: 81 Copynumber: 3.4 Consensus size: 80
19203379 TAGTGAAATG
* * * *
19203389 CCCTCAATTTGTAAAATTACCAAAGTACCCTCAATTTATAGAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTATAAAATTACCAAATTACCCTCAATTTACAGAATTACCGTTTTA-CCTCGATTTA
* *
19203454 TAAAATTACTATTTCA
65 TAAAATTACTGTTTTA
* *** ** * *
19203470 CCCTCGATTTATAGAATTACCGTTTTATTCTCGATTTACAGAATTACCATTTTACCTTCGATTTA
1 CCCTCGATTTATAAAATTACCAAATTACCCTCAATTTACAGAATTACCGTTTTACC-TCGATTTA
*
19203535 TAGAATTACTGTTTTA
65 TAAAATTACTGTTTTA
* * **
19203551 CCCTTGATTTATAGAATTACCATTTTACCCTCAATTTACAGAATTACCGTTTTACTCTCGATTTA
1 CCCTCGATTTATAAAATTACCAAATTACCCTCAATTTACAGAATTACCGTTTTAC-CTCGATTTA
* *
19203616 CAAAATTACCGTTTTA
65 TAAAATTACTGTTTTA
* * *
19203632 CCCTCGATTTACAAAATTACTAAAATACCCT
1 CCCTCGATTTATAAAATTACCAAATTACCCT
19203663 TAGTTTAAAA
Statistics
Matches: 160, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
80 2 0.01
81 157 0.98
82 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.39
Consensus pattern (80 bp):
CCCTCGATTTATAAAATTACCAAATTACCCTCAATTTACAGAATTACCGTTTTACCTCGATTTAT
AAAATTACTGTTTTA
Found at i:19203699 original size:28 final size:27
Alignment explanation
Indices: 19203630--19203701 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
19203620 ATTACCGTTT
* *
19203630 TACCCTCGA-TTTACAAAATTACTAAAA
1 TACCCT-GAGTTTAAAAAATTACCAAAA
*
19203657 TACCCTTAGTTTAAAAAATTACCAAAA
1 TACCCTGAGTTTAAAAAATTACCAAAA
*
19203684 TACCCCTGATTTTAAAAA
1 TA-CCCTGAGTTTAAAAA
19203702 TTATCGAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
26 1 0.03
27 24 0.63
28 13 0.34
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (27 bp):
TACCCTGAGTTTAAAAAATTACCAAAA
Found at i:19203773 original size:27 final size:27
Alignment explanation
Indices: 19203734--19204272 Score: 717
Period size: 27 Copynumber: 20.0 Consensus size: 27
19203724 TAAAATATCA
*
19203734 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
19203761 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCTTGTAGGGTAGAATTACCG
*
19203788 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * * *
19203815 AAATACCCCTATAGGATAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
19203842 AAATAACCC-TGTAGGGTAGAATTACCG
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
*
19203869 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCTTGTAGGGTAGAATTACCG
*
19203896 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * * *
19203923 AAATACCCCTATAGGATAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
19203950 AAATAACCC-TGTAGGGTAGAATTACCG
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
*
19203977 AAATACCCTTGTAGGGTAGAATTACCA
1 AAATACCCTTGTAGGGTAGAATTACCG
*
19204004 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * * *
19204031 AAATACCCCTATAGGATAGAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
19204058 AAATAACCC-TGTAGGGTAGAATTACCG
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
19204085 AAATACCCTTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
19204112 AAATACCCCTGTAGGGTAAAATTACTG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
19204139 AAATAACCC-TATAGGGTAGAATTACTG
1 AAAT-ACCCTTGTAGGGTAGAATTACCG
* * *
19204166 AAATACCCCTGTAGGATAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* *
19204193 AAATACCCTTGTCGGGTAGAAATACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
*
19204220 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCG
* * *
19204247 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
19204273 ATTTTGCCCC
Statistics
Matches: 449, Mismatches: 55, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
26 16 0.04
27 417 0.93
28 16 0.04
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCTTGTAGGGTAGAATTACCG
Found at i:19204283 original size:108 final size:108
Alignment explanation
Indices: 19203734--19204254 Score: 891
Period size: 108 Copynumber: 4.8 Consensus size: 108
19203724 TAAAATATCA
*
19203734 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
1 AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
19203799 TAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTACTG
66 TAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTACTG
19203842 AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
1 AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
19203907 TAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTACTG
66 TAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTACTG
19203950 AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
1 AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
19204015 TAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTACTG
66 TAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTACTG
* *
19204058 AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
1 AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
* * *
19204123 TAGGGTA-AAATTACTGAAATAACCCTATAGGGTAGAATTACTG
66 TAGGGTAGAAA-TACCGAAATACCCCTATAGGATAGAATTACTG
* * * * * * *
19204166 AAATACCCCTGTAGGATAGAATTATCGAAATACCCTTGTCGGGTAGAAATACCGAAATACCCCTG
1 AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
* *
19204231 TAGGGTAGAATTACCGAGATACCC
66 TAGGGTAGAAATACCGAAATACCC
19204255 TTGTGGGGTA
Statistics
Matches: 396, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
107 3 0.01
108 391 0.99
109 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (108 bp):
AAATAACCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCTTG
TAGGGTAGAAATACCGAAATACCCCTATAGGATAGAATTACTG
Found at i:19204513 original size:25 final size:25
Alignment explanation
Indices: 19204475--19204544 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
19204465 AGGAAGTGCT
* *
19204475 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
19204500 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
19204525 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
19204545 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:19204557 original size:24 final size:24
Alignment explanation
Indices: 19204474--19204569 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
19204464 TAGGAAGTGC
*
19204474 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
19204499 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
19204523 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
19204547 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
19204570 ATAAGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:19204568 original size:50 final size:50
Alignment explanation
Indices: 19204475--19204569 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
19204465 AGGAAGTGCT
**
19204475 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
19204525 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
19204570 ATAAGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:19213022 original size:40 final size:40
Alignment explanation
Indices: 19212964--19213887 Score: 1753
Period size: 40 Copynumber: 23.1 Consensus size: 40
19212954 TGGATGATAA
* * *
19212964 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
19213004 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
19213044 CTGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213084 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213124 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213164 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213204 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213244 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213284 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213324 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213364 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213404 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213444 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213484 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213524 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213564 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213604 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213644 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213684 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213724 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213764 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
19213804 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
19213844 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
19213884 CCGG
1 CCGG
19213888 TTAAATCCTG
Statistics
Matches: 872, Mismatches: 10, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
39 3 0.00
40 869 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:19215539 original size:122 final size:120
Alignment explanation
Indices: 19215324--19215546 Score: 383
Period size: 122 Copynumber: 1.8 Consensus size: 120
19215314 AAAATAGCCG
*
19215324 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAATTTCGATTTAACACAAAATGTA
1 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAATCTCGATTTAACACAAAATGTA
*
19215389 TGATAACTAACCTAAGAATGCAAATTAAATTATAGACATTGGCATGGTAATAGCA
66 TGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
* * *
19215444 TGAGAATGAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAATAACTCGATTTAACACGAAATG
1 TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAAT--CTCGATTTAACACAAAATG
19215509 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
64 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
19215547 ATAATGAGCA
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
120 42 0.44
122 54 0.56
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (120 bp):
TGAGAATGAGAATAGTAATGTCATGGGTACGAGGTTTTCCTAATCTCGATTTAACACAAAATGTA
TGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCA
Found at i:19218122 original size:28 final size:28
Alignment explanation
Indices: 19218086--19218141 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
19218076 TTTAAGGGTC
19218086 TAATTAAGTTTTATTTAACTTTAATTTG
1 TAATTAAGTTTTATTTAACTTTAATTTG
19218114 TAATTAAGTTTTATTTAACTTTAATTTG
1 TAATTAAGTTTTATTTAACTTTAATTTG
19218142 ACCCTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.04, G:0.07, T:0.57
Consensus pattern (28 bp):
TAATTAAGTTTTATTTAACTTTAATTTG
Found at i:19218154 original size:28 final size:28
Alignment explanation
Indices: 19218095--19218157 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
19218085 CTAATTAAGT
* **
19218095 TTTATTTAACTTTAATTTGTAATTAAGT
1 TTTATTTAACTTTAATTTGTAACTAAAA
*
19218123 TTTATTTAACTTTAATTTG-ACCCTAAAA
1 TTTATTTAACTTTAATTTGTA-ACTAAAA
19218151 TTTATTT
1 TTTATTT
19218158 TGTNTATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 29 0.97
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTATTTAACTTTAATTTGTAACTAAAA
Found at i:19218390 original size:3 final size:3
Alignment explanation
Indices: 19218162--19218376 Score: 430
Period size: 3 Copynumber: 71.7 Consensus size: 3
19218152 TTATTTTGTN
19218162 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19218210 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19218258 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19218306 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19218354 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
19218377 GTTTTGATAT
Statistics
Matches: 212, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 212 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:19218792 original size:70 final size:70
Alignment explanation
Indices: 19218718--19218857 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
19218708 TTATTATTAT
*
19218718 TCCTTCCGTTACCATCACTATGATATTATTATTTTTATAACATTTTTATATAATTATCTATACCC
1 TCCTTCCGTTACCATCACTATGATATTATTATTTTTATAACATTTTTATATAATTATCTATACAC
19218783 TATTG
66 TATTG
19218788 TCCTTCCGTTACCATCACTATGATATTATTATTTTTATAACATTTTTATATAATTATCTATACAC
1 TCCTTCCGTTACCATCACTATGATATTATTATTTTTATAACATTTTTATATAATTATCTATACAC
19218853 TATTG
66 TATTG
19218858 CTTTTACACT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (70 bp):
TCCTTCCGTTACCATCACTATGATATTATTATTTTTATAACATTTTTATATAATTATCTATACAC
TATTG
Found at i:19231102 original size:43 final size:43
Alignment explanation
Indices: 19231052--19231202 Score: 144
Period size: 44 Copynumber: 3.5 Consensus size: 43
19231042 TTCACCAGGC
19231052 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAA-TTCGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAGTTCG-AGAT
* * * * *
19231095 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGT-GACGAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAGTTCGA-GAT
* * * * *
19231138 CTTTAGCCCCCTAAGCAGTAGGGTAACAAGCTAAAGTTCATAGAT
1 C-TTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAGTTC-GAGAT
* *
19231183 CTTATCACCCTAAGCAGTAG
1 CTTAACCCCCTAAGCAGTAG
19231203 TAAAGCAGAT
Statistics
Matches: 86, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 35 0.41
44 46 0.53
45 3 0.03
46 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGTTGAAGTTCGAGAT
Found at i:19231398 original size:43 final size:42
Alignment explanation
Indices: 19231351--19231514 Score: 100
Period size: 43 Copynumber: 3.8 Consensus size: 42
19231341 ATATAGATCA
19231351 AAGATGACAAGCCTTAACCCCTAAGCAGTAGGATAACAGGCTG
1 AAGATGACAAGCCTTAACCCCTAAGCAGTAGGATAACA-GCTG
* * * * *
19231394 AAGATCTAC-AGATCTTATCACCCTAAGCAGTAGGGA-AATAGATCG
1 AAGAT-GACAAG-CCTTAAC-CCCTAAGCAGTA-GGATAACAGCT-G
** * * * * **
19231439 AAGATGATGAGCTTTAACCACCTAAGTAGTAGGGTAAGAAGCCA
1 AAGATGACAAGCCTTAACC-CCTAAGCAGTAGGATAA-CAGCTG
*
19231483 AAG-TTACAAGCCTTAACCCCCTAAGCAGTAGG
1 AAGATGACAAGCCTTAA-CCCCTAAGCAGTAGG
19231515 GTAATGGGCT
Statistics
Matches: 90, Mismatches: 21, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
43 31 0.34
44 31 0.34
45 25 0.28
46 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (42 bp):
AAGATGACAAGCCTTAACCCCTAAGCAGTAGGATAACAGCTG
Found at i:19231404 original size:88 final size:87
Alignment explanation
Indices: 19231269--19231515 Score: 248
Period size: 88 Copynumber: 2.8 Consensus size: 87
19231259 TTCAAACCAC
* * * *
19231269 CAAGCCTTAAACCCCCTAAGCAGTAGGGTAACCAGCAAAAGTTTACAGATCTTAACCCCCTAAGT
1 CAAGCCTT-AA-CCCCTAAGCAGTAGGATAACCAGCAAAAGTCTACAGATCTTAACACCCTAAGC
*
19231334 AGTAGGGATATAGATCAAAGATGA
64 AGTAGGGAAATAGATCAAAGATGA
** *
19231358 CAAGCCTTAACCCCTAAGCAGTAGGATAA-CAGGCTGAAGATCTACAGATCTTATCACCCTAAGC
1 CAAGCCTTAACCCCTAAGCAGTAGGATAACCA-GCAAAAG-TCTACAGATCTTAACACCCTAAGC
*
19231422 AGTAGGGAAATAGATCGAAGATGA
64 AGTAGGGAAATAGATCAAAGATGA
** * * * ** * * *
19231446 TGAGCTTTAACCACCTAAGTAGTAGGGTAAGAAGCCAAAGT-TACA-AGCCTTAACCCCCTAAGC
1 CAAGCCTTAACC-CCTAAGCAGTAGGATAACCAGCAAAAGTCTACAGA-TCTTAACACCCTAAGC
19231509 AGTAGGG
64 AGTAGGG
19231516 TAATGGGCTG
Statistics
Matches: 133, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
86 3 0.02
87 47 0.35
88 54 0.41
89 28 0.21
90 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (87 bp):
CAAGCCTTAACCCCTAAGCAGTAGGATAACCAGCAAAAGTCTACAGATCTTAACACCCTAAGCAG
TAGGGAAATAGATCAAAGATGA
Found at i:19231442 original size:45 final size:43
Alignment explanation
Indices: 19231311--19231443 Score: 119
Period size: 45 Copynumber: 3.0 Consensus size: 43
19231301 CAGCAAAAGT
* * *
19231311 TTACAGATCTTAACCCCCTAAGTAGTAGGGATATAGATCAAAGA
1 TTACAGATCTTAA-CCCCTAAGCAGTAGGGAAATAGATCGAAGA
* * * *
19231355 TGACA-AGCCTTAACCCCTAAGCAGTA-GGATAACAG-GCTGAAGA
1 TTACAGA-TCTTAACCCCTAAGCAGTAGGGA-AATAGATC-GAAGA
*
19231398 TCTACAGATCTTATCACCCTAAGCAGTAGGGAAATAGATCGAAGA
1 T-TACAGATCTTAAC-CCCTAAGCAGTAGGGAAATAGATCGAAGA
19231443 T
1 T
19231444 GATGAGCTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
42 4 0.06
43 21 0.30
44 17 0.25
45 23 0.33
46 4 0.06
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (43 bp):
TTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGA
Found at i:19232310 original size:24 final size:23
Alignment explanation
Indices: 19232279--19232324 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
19232269 AATTTTGGGC
*
19232279 CCAAAACCCCTAAACCCACTAAG
1 CCAAAACCCCAAAACCCACTAAG
*
19232302 CCAATAACCCCAAAACCTACTAA
1 CCAA-AACCCCAAAACCCACTAA
19232325 ACCCAGACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.46, C:0.41, G:0.02, T:0.11
Consensus pattern (23 bp):
CCAAAACCCCAAAACCCACTAAG
Found at i:19233880 original size:93 final size:93
Alignment explanation
Indices: 19233768--19233940 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
19233758 CGCCCATAAG
* *
19233768 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
19233833 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
19233861 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
19233926 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
19233941 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:19233936 original size:46 final size:46
Alignment explanation
Indices: 19233761--19233936 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
19233751 TGTAACCCGC
* *
19233761 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
19233807 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
19233857 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
19233900 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
19233937 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 67 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:19233955 original size:46 final size:45
Alignment explanation
Indices: 19233812--19233955 Score: 130
Period size: 46 Copynumber: 3.1 Consensus size: 45
19233802 CGCATCCATA
* * * *
19233812 AGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
19233860 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
19233905 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
19233951 AGTGA
1 AGTGA
19233956 CACGTCAGTT
Statistics
Matches: 76, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 37 0.49
47 29 0.38
48 5 0.07
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:19235799 original size:21 final size:21
Alignment explanation
Indices: 19235770--19235811 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
19235760 GCCCCAGGAC
* *
19235770 TTCATGTTTGTTTCGGATTTA
1 TTCACGTTTATTTCGGATTTA
19235791 TTCACGTTTATTTCGGATTTA
1 TTCACGTTTATTTCGGATTTA
19235812 GTCCTTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.55
Consensus pattern (21 bp):
TTCACGTTTATTTCGGATTTA
Found at i:19236194 original size:3 final size:3
Alignment explanation
Indices: 19236147--19236180 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
19236137 ACGTATACAT
19236147 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19236181 GTTTTGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:19237529 original size:343 final size:343
Alignment explanation
Indices: 19236901--19237587 Score: 1320
Period size: 343 Copynumber: 2.0 Consensus size: 343
19236891 AATATCATTA
19236901 TTATTGTTTTCATTATCATCTTATGTTACCATTATTTATTTATTTATTTGCTTGCACGTTCGATC
1 TTATTGTTTTCATTATCATCTTATGTTACCATTATTTATTTATTTATTTGCTTGCACGTTCGATC
19236966 ATTTCATTTTTTTCCTCACATATTTGTTTACATTTGTTTAGCCTCGTCATTATATCATCTTTTAC
66 ATTTCATTTTTTTCCTCACATATTTGTTTACATTTGTTTAGCCTCGTCATTATATCATCTTTTAC
19237031 AACTATTCATATTATTGCTTTTGACACTATCGCACCCGTCATTATGTTATTATTCATTTGCTTTT
131 AACTATTCATATTATTGCTTTTGACACTATCGCACCCGTCATTATGTTATTATTCATTTGCTTTT
19237096 ATGTTTACTATAAATCACGATTTTACTCAAAACATTAATAATTTTCTCATAAAAGTAAATATTCC
196 ATGTTTACTATAAATCACGATTTTACTCAAAACATTAATAATTTTCTCATAAAAGTAAATATTCC
*
19237161 GTATTTAGTAATTCGAGATAATCGTGCCCTAACTTACTGGGACTCGATTGGTCTCATTCAACCTA
261 GTATTTAGTAATTCGAGACAATCGTGCCCTAACTTACTGGGACTCGATTGGTCTCATTCAACCTA
19237226 AATAAACGGAATATTCTT
326 AATAAACGGAATATTCTT
*
19237244 TTATTGTTTTCATTATCATCTTATGTTACCATTATTTATTTATTTATTTGCTTGCGCGTTCGATC
1 TTATTGTTTTCATTATCATCTTATGTTACCATTATTTATTTATTTATTTGCTTGCACGTTCGATC
19237309 ATTTCATTTTTTTCCTCACATATTTGTTTACATTTGTTTAGCCTCGTCATTATATCATCTTTTAC
66 ATTTCATTTTTTTCCTCACATATTTGTTTACATTTGTTTAGCCTCGTCATTATATCATCTTTTAC
*
19237374 AACTGTTCATATTATTGCTTTTGACACTATCGCACCCGTCATTATGTTATTATTCATTTGCTTTT
131 AACTATTCATATTATTGCTTTTGACACTATCGCACCCGTCATTATGTTATTATTCATTTGCTTTT
*
19237439 ATGTTTACTATAAATCACGGTTTTACTCAAAACATTAATAATTTTCTCATAAAAGTAAATATTCC
196 ATGTTTACTATAAATCACGATTTTACTCAAAACATTAATAATTTTCTCATAAAAGTAAATATTCC
* *
19237504 GTATTTAGTAATTCGAGACAATCGTGCCCTAACTTACTGGGTCTCGATTTGTCTCATTCAACCTA
261 GTATTTAGTAATTCGAGACAATCGTGCCCTAACTTACTGGGACTCGATTGGTCTCATTCAACCTA
19237569 AATAAACGGAATATTCTT
326 AATAAACGGAATATTCTT
19237587 T
1 T
19237588 GAAATCACGA
Statistics
Matches: 338, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
343 338 1.00
ACGTcount: A:0.26, C:0.18, G:0.10, T:0.45
Consensus pattern (343 bp):
TTATTGTTTTCATTATCATCTTATGTTACCATTATTTATTTATTTATTTGCTTGCACGTTCGATC
ATTTCATTTTTTTCCTCACATATTTGTTTACATTTGTTTAGCCTCGTCATTATATCATCTTTTAC
AACTATTCATATTATTGCTTTTGACACTATCGCACCCGTCATTATGTTATTATTCATTTGCTTTT
ATGTTTACTATAAATCACGATTTTACTCAAAACATTAATAATTTTCTCATAAAAGTAAATATTCC
GTATTTAGTAATTCGAGACAATCGTGCCCTAACTTACTGGGACTCGATTGGTCTCATTCAACCTA
AATAAACGGAATATTCTT
Found at i:19237909 original size:137 final size:137
Alignment explanation
Indices: 19237663--19237936 Score: 512
Period size: 137 Copynumber: 2.0 Consensus size: 137
19237653 CCGGGTATGA
* *
19237663 CATTTTGATACCTCGAAATAAGATCTTTTGTAAATAAAGGCAATGTTCGGTGTTCGGAAGTTCGA
1 CATTTTGATACCTCGAAATAAGATCTTTTGCAAATAAAGGCAATGTTCGGTGTTCGAAAGTTCGA
*
19237728 GGAAACGTGCCCTAGCTTACTGGGTTTCGATTTTCCTCATTCACCCTAACTAACCGAATATCCTT
66 GGAAACGTGCCCTAACTTACTGGGTTTCGATTTTCCTCATTCACCCTAACTAACCGAATATCCTT
19237793 TTAAAAG
131 TTAAAAG
19237800 CATTTTGATACCTCGAAATAAGATCTTTTGCAAATAAAGGCAATGTTCGGTGTTCGAAAGTTCGA
1 CATTTTGATACCTCGAAATAAGATCTTTTGCAAATAAAGGCAATGTTCGGTGTTCGAAAGTTCGA
*
19237865 GGAAACGTGCCCTAACTTACTGGGTTTCGATTTTCCTCGTTCACCCTAACTAACCGAATATCCTT
66 GGAAACGTGCCCTAACTTACTGGGTTTCGATTTTCCTCATTCACCCTAACTAACCGAATATCCTT
19237930 TTAAAAG
131 TTAAAAG
19237937 AAGGTAAAAT
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (137 bp):
CATTTTGATACCTCGAAATAAGATCTTTTGCAAATAAAGGCAATGTTCGGTGTTCGAAAGTTCGA
GGAAACGTGCCCTAACTTACTGGGTTTCGATTTTCCTCATTCACCCTAACTAACCGAATATCCTT
TTAAAAG
Found at i:19242771 original size:21 final size:21
Alignment explanation
Indices: 19242747--19242792 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
19242737 ATATTATGAC
*
19242747 TATTATTCTTATTCTTATTTT
1 TATTATTCTTATTCTTATTCT
* *
19242768 TATTATTCTTGTTTTTATTCT
1 TATTATTCTTATTCTTATTCT
19242789 TATT
1 TATT
19242793 TTTTACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (21 bp):
TATTATTCTTATTCTTATTCT
Found at i:19242782 original size:15 final size:15
Alignment explanation
Indices: 19242755--19242786 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
19242745 ACTATTATTC
19242755 TTATTCTTATTTTTA
1 TTATTCTTATTTTTA
*
19242770 TTATTCTTGTTTTTA
1 TTATTCTTATTTTTA
19242785 TT
1 TT
19242787 CTTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATTCTTATTTTTA
Found at i:19254954 original size:88 final size:88
Alignment explanation
Indices: 19254805--19255098 Score: 443
Period size: 88 Copynumber: 3.4 Consensus size: 88
19254795 AACATCGGTA
*
19254805 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACTGTGAGCCTTAACCCC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
19254870 CTAAGCAGTAGGGTAACAGGCTG
66 CTAAGCAGTAGGGTAACAGGCTG
* * * **
19254893 AAAATTACAGATCTTATCTCCTTAAGTAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTAACCAT
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
*
19254958 CTAAGCAGTAGGGTAACAAGCTG
66 CTAAGCAGTAGGGTAACAGGCTG
* * *
19254981 AAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA-ACGAGT--TCC-TATACC
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-AGTGAGCCTTA-ACC
19255042 CCCTAAGCAGTAGGGTAACAGGCTG
64 CCCTAAGCAGTAGGGTAACAGGCTG
*
19255067 AAAATTAAAGATCTTATCTCCCTAAGCAGTAG
1 AAAATTACAGATCTTATCTCCCTAAGCAGTAG
19255099 GGTAACAGGC
Statistics
Matches: 187, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
85 2 0.01
86 58 0.31
87 2 0.01
88 125 0.67
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (88 bp):
AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTGAGCCTTAACCCC
CTAAGCAGTAGGGTAACAGGCTG
Found at i:19255006 original size:44 final size:44
Alignment explanation
Indices: 19254868--19255135 Score: 207
Period size: 44 Copynumber: 6.1 Consensus size: 44
19254858 AGCCTTAACC
*
19254868 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCT
* * * * * * * *
19254912 CCTTAAGTAGTAGCGG-AGC-AGATCGAAGACAGT-GAG-CCTTAAC-
1 CCCTAAGCAGTAG-GGTAACAAGCT-GAA-A-ATTACAGATCTTATCT
* *
19254955 CATCTAAGCAGTAGGGTAACAAGCTGAAAATTATAGATCTTATCT
1 C-CCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCT
* * * * *
19255000 CCCTAAGCAGTAGTGG-AGC-AGATTG--AA--ACGAGTTCCTATACC
1 CCCTAAGCAGTAG-GGTAACAAG-CTGAAAATTAC-AGATCTTAT-CT
* *
19255042 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTAAAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCT
*
19255086 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCT
19255130 CCCTAA
1 CCCTAA
19255136 ACAGCAGTGG
Statistics
Matches: 171, Mismatches: 33, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
40 1 0.01
41 9 0.05
42 22 0.13
43 11 0.06
44 107 0.63
45 18 0.11
46 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCT
Found at i:19255114 original size:130 final size:131
Alignment explanation
Indices: 19254958--19255230 Score: 385
Period size: 130 Copynumber: 2.1 Consensus size: 131
19254948 CCTTAACCAT
* * *
19254958 CTAAGCAGTAGGGTAACAAGCTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 CTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGCAGAT
* *
19255023 TGAA-ACGAGT-TCC-TATACCCCCTAAGCAGTAGGGTAACAGGCT-GAAAATTA-AAGATCTTA
66 CGAAGAC-AGTAACCTTA-ACCCCCTAAGCAGTAGGGTAACAGGCTAG-AAATTACAA-ATCTTA
19255083 TCTCC
127 TCTCC
* *
19255088 CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGTAGAT
1 CTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGCAGAT
* *
19255153 CGAAGACAGTGAACCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTGTCT
66 CGAAGACAGT-AACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCT
19255218 CC
130 CC
19255220 CTAAGCAGTAG
1 CTAAGCAGTAG
19255231 CGGAGCAGAT
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
130 66 0.52
131 2 0.02
132 55 0.43
133 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (131 bp):
CTAAGCAGTAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGCAGAT
CGAAGACAGTAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAAATCTTATCTC
C
Found at i:19255191 original size:88 final size:88
Alignment explanation
Indices: 19255086--19255416 Score: 423
Period size: 88 Copynumber: 3.8 Consensus size: 88
19255076 GATCTTATCT
* *
19255086 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGTAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAG
*
19255151 ATCGAAGACAGTGAACCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
* * * * *
19255174 CTCTAAGCAGTAGGGTAACAGGCT-AGAAATTACAAATCTTGTCTCCCTAAGCAGTAGCGGAGCA
1 CCCTAAGCAGTAGGGTAACAGGCTGA-AAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCA
* *
19255238 GATTGAAGACTGTGAGCCTTAACC
65 GATCGAAGACAGTGAGCCTTAACC
** * * * ** *
19255262 CCCTAAGCAGTAGGAAAATAGGCTAAAAATTACAGATTTTATCTCTTTAAACAGTAGTGGAGTAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAG
*
19255327 ATCAAAGACAGTGAGCCTTAACC
66 ATCGAAGACAGTGAGCCTTAACC
* * * *
19255350 CCCTAAGCAGTAGAGTAACAGG-TAGAAAATTACGGATTTTATCTCCCTAAGCAGTAGTGGAGCA
1 CCCTAAGCAGTAGGGTAACAGGCT-GAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCA
19255414 GAT
65 GAT
19255417 TGAAACGAGT
Statistics
Matches: 205, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
87 2 0.01
88 202 0.99
89 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (88 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGCAG
ATCGAAGACAGTGAGCCTTAACC
Found at i:19255221 original size:218 final size:220
Alignment explanation
Indices: 19254868--19255306 Score: 634
Period size: 218 Copynumber: 2.0 Consensus size: 220
19254858 AGCCTTAACC
* ** *
19254868 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCTTAAGTAGTAGCGGAGCAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGCGGAGCAG
* * *
19254933 ATCGAAGACAGTGAGCCTTAACCATCTAAGCAGTAGGGTAACAAGCTGAAAATTATAGATCTTAT
66 ATCGAAGACAGTGAACCTTAACCATCTAAGCAGTAGGGTAACAAGCTGAAAATTACAAATCTTAT
* ** **
19254998 CTCCCTAAGCAGTAGTGGAGCAGATTGAA-AC-GAGTTCC-TATACCCCCTAAGCAGTAGGGTAA
131 CTCCCTAAGCAGTAGCGGAGCAGATTGAAGACTGAGAGCCTTA-ACCCCCTAAGCAGTAGGAAAA
*
19255060 CAGGCTGAAAATTAAAGATCTTATCT
195 CAGGCTAAAAATTAAAGATCTTATCT
* *
19255086 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGTAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGCGGAGCAG
* * *
19255151 ATCGAAGACAGTGAACCTTAACCCTCTAAGCAGTAGGGTAACAGGCT-AGAAATTACAAATCTTG
66 ATCGAAGACAGTGAACCTTAACCATCTAAGCAGTAGGGTAACAAGCTGA-AAATTACAAATCTTA
*
19255215 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACTGTGAGCCTTAACCCCCTAAGCAGTAGGAAAA
130 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACTGAGAGCCTTAACCCCCTAAGCAGTAGGAAAA
* * *
19255280 TAGGCTAAAAATTACAGATTTTATCT
195 CAGGCTAAAAATTAAAGATCTTATCT
19255306 C
1 C
19255307 TTTAAACAGT
Statistics
Matches: 195, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
217 1 0.01
218 144 0.74
219 2 0.01
220 46 0.24
221 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.23
Consensus pattern (220 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGCGGAGCAG
ATCGAAGACAGTGAACCTTAACCATCTAAGCAGTAGGGTAACAAGCTGAAAATTACAAATCTTAT
CTCCCTAAGCAGTAGCGGAGCAGATTGAAGACTGAGAGCCTTAACCCCCTAAGCAGTAGGAAAAC
AGGCTAAAAATTAAAGATCTTATCT
Found at i:19255337 original size:176 final size:176
Alignment explanation
Indices: 19255086--19255420 Score: 501
Period size: 176 Copynumber: 1.9 Consensus size: 176
19255076 GATCTTATCT
** *
19255086 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGTAG
1 CCCTAAGCAGTAGGAAAACAGGCTAAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGTAG
* * * *
19255151 ATCGAAGACAGTGAACCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAG-AAATTACAAATCTTG
66 ATCAAAGACAGTGAACCTTAACCCCCTAAGCAGTAGAGTAACAGG-TAGAAAATTACAAATCTTA
19255215 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACTGTGAGCCTTAACC
130 TCTCCCTAAGCAGTAGCGGAGCAGATTGAAGACTGTGAGCCTTAACC
* * ** *
19255262 CCCTAAGCAGTAGGAAAATAGGCTAAAAATTACAGATTTTATCTCTTTAAACAGTAGTGGAGTAG
1 CCCTAAGCAGTAGGAAAACAGGCTAAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGTAG
* ** *
19255327 ATCAAAGACAGTGAGCCTTAACCCCCTAAGCAGTAGAGTAACAGGTAGAAAATTACGGATTTTAT
66 ATCAAAGACAGTGAACCTTAACCCCCTAAGCAGTAGAGTAACAGGTAGAAAATTACAAATCTTAT
*
19255392 CTCCCTAAGCAGTAGTGGAGCAGATTGAA
131 CTCCCTAAGCAGTAGCGGAGCAGATTGAA
19255421 ACGAGTTCCT
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
175 3 0.02
176 138 0.98
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (176 bp):
CCCTAAGCAGTAGGAAAACAGGCTAAAAATTACAGATCTTATCTCCCTAAACAGCAGTGGAGTAG
ATCAAAGACAGTGAACCTTAACCCCCTAAGCAGTAGAGTAACAGGTAGAAAATTACAAATCTTAT
CTCCCTAAGCAGTAGCGGAGCAGATTGAAGACTGTGAGCCTTAACC
Found at i:19256020 original size:17 final size:16
Alignment explanation
Indices: 19255989--19256019 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19255979 TTTTAAAGGT
19255989 GTTTTTTTTTCTTTTG
1 GTTTTTTTTTCTTTTG
*
19256005 GTTTTTTTTTATTTT
1 GTTTTTTTTTCTTTT
19256020 TTTCCTGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (16 bp):
GTTTTTTTTTCTTTTG
Done.