Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 581 of 770
Found at i:181265017 original size:23 final size:23
Alignment explanation
Indices: 181264937--181265079 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 23
181264927 TGCTTTATCA
*
181264937 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
181264961 TAATAACTGGGGCCA-AAGCCCTTT
1 T-ATAACTGGGG-CATAAGCCCTTT
*
181264985 CAATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
181265009 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
181265032 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
181265055 CGATAACTGGGGCATAAGCCCTTT
1 -TATAACTGGGGCATAAGCCCTTT
181265079 T
1 T
181265080 TCACTTCCTC
Statistics
Matches: 108, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
23 47 0.44
24 48 0.44
25 13 0.12
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:181265017 original size:47 final size:46
Alignment explanation
Indices: 181264938--181265078 Score: 187
Period size: 47 Copynumber: 3.0 Consensus size: 46
181264928 GCTTTATCAT
*
181264938 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGG-CATAAGCCCTTT-A
*
181264987 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTA
*
181265033 ATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTT-TATAACTGGGGCATAAGCCCTTT
181265079 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
46 24 0.28
47 41 0.48
48 9 0.10
49 12 0.14
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (46 bp):
ATAACTGGGGCATAAGCCCTTTTATAACTGGGGCATAAGCCCTTTA
Found at i:181265155 original size:20 final size:20
Alignment explanation
Indices: 181265130--181265189 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
181265120 TATGATTACC
181265130 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
181265150 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
181265170 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
181265190 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:181265160 original size:11 final size:11
Alignment explanation
Indices: 181265130--181265184 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
181265120 TATGATTACC
181265130 TCATGTGCATA
1 TCATGTGCATA
*
181265141 TCA--TACATA
1 TCATGTGCATA
181265150 TCATGTGCATA
1 TCATGTGCATA
* *
181265161 TCA--TACATT
1 TCATGTGCATA
181265170 TCATGTGCATA
1 TCATGTGCATA
181265181 TCAT
1 TCAT
181265185 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:181265278 original size:25 final size:25
Alignment explanation
Indices: 181265232--181265279 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
181265222 ATACATAAAC
* * *
181265232 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
*
181265257 CCTAGGGGCAAAACGGTTATTTT
1 CCTAGGGGCAAAACGGTCATTTT
181265280 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:181266413 original size:571 final size:571
Alignment explanation
Indices: 181265331--181266474 Score: 2252
Period size: 571 Copynumber: 2.0 Consensus size: 571
181265321 TTTCCAAGTT
*
181265331 TATTAATGATTACTTAACAATTCATGGGTGCAAACAGTGATTCTGGCCCATTTTTAGCGACAATG
1 TATTAATGATTACTTAACAATTCATGGGTGCAAACAGTGATTCTGGCCCATTTTTAGCGACAACG
181265396 AGTTATTGGGCCTAAAACCCTTAATGGGCCCTACTTAGCCAATTTCGTCATCTCGGCCCATTTAG
66 AGTTATTGGGCCTAAAACCCTTAATGGGCCCTACTTAGCCAATTTCGTCATCTCGGCCCATTTAG
181265461 CCTATATTCCATAACGGTTTTAACAGTCTTATCATGCCATATAACAGATTTCCGTTTACTACCAA
131 CCTATATTCCATAACGGTTTTAACAGTCTTATCATGCCATATAACAGATTTCCGTTTACTACCAA
181265526 TTTTTCCCAAATGGGCCCGAAAGCCCAATGGGCCCCACTTCGACCCCTCGAGGCCCAACTTACCA
196 TTTTTCCCAAATGGGCCCGAAAGCCCAATGGGCCCCACTTCGACCCCTCGAGGCCCAACTTACCA
181265591 AGAACGCCAAAAATCACACTCTTACCGTTTCCATCGTTCTCGATCATCGTCTCATCGATTCTAAC
261 AGAACGCCAAAAATCACACTCTTACCGTTTCCATCGTTCTCGATCATCGTCTCATCGATTCTAAC
*
181265656 TAACTAGTGAGCGTTCGCTTGCTCACAAGTCCTCGAAATGCCAGAATTTCGGCATTTCGGCTTTT
326 TAACTAGTGAGAGTTCGCTTGCTCACAAGTCCTCGAAATGCCAGAATTTCGGCATTTCGGCTTTT
181265721 CGGCATTTATCGCTTTAAGCTATGAAAAAGGGTTCGTTACACACCTGATTTGCGATTTTCCTTGA
391 CGGCATTTATCGCTTTAAGCTATGAAAAAGGGTTCGTTACACACCTGATTTGCGATTTTCCTTGA
181265786 CAAGATCTCCTATGCGATTTCTCCTATAATCAATTGTTTAACTAGATCAGCTCGCAATAATTGAA
456 CAAGATCTCCTATGCGATTTCTCCTATAATCAATTGTTTAACTAGATCAGCTCGCAATAATTGAA
181265851 CCAAAATAAGAACTTTCCAATATTAACACTTACACATTCGGCCACCATCCA
521 CCAAAATAAGAACTTTCCAATATTAACACTTACACATTCGGCCACCATCCA
181265902 TATTAATGATTACTTAACAATTCATGGGTGCAAACAGTGATTCTGGCCCATTTTTAGCGACAACG
1 TATTAATGATTACTTAACAATTCATGGGTGCAAACAGTGATTCTGGCCCATTTTTAGCGACAACG
181265967 AGTTATTGGGCCTAAAACCCTTAATGGGCCCTACTTAGCCAATTTCGTCATCTCGGCCCATTTAG
66 AGTTATTGGGCCTAAAACCCTTAATGGGCCCTACTTAGCCAATTTCGTCATCTCGGCCCATTTAG
181266032 CCTATATTCCATAACGGTTTTAACAGTCTTATCATGCCATATAACAGATTTCCGTTTACTACCAA
131 CCTATATTCCATAACGGTTTTAACAGTCTTATCATGCCATATAACAGATTTCCGTTTACTACCAA
181266097 TTTTTCCCAAATGGGCCCGAAAGCCCAATGGGCCCCACTTCGACCCCTCGAGGCCCAACTTACCA
196 TTTTTCCCAAATGGGCCCGAAAGCCCAATGGGCCCCACTTCGACCCCTCGAGGCCCAACTTACCA
*
181266162 AGAACGCCAAAAATCACACTCTTACCGTTTCCATCGTTCTCGATCATCGTCTTATCGATTCTAAC
261 AGAACGCCAAAAATCACACTCTTACCGTTTCCATCGTTCTCGATCATCGTCTCATCGATTCTAAC
181266227 TAACTAGTGAGAGTTCGCTTGCTCACAAGTCCTCGAAATGCCAGAATTTCGGCATTTCGGCTTTT
326 TAACTAGTGAGAGTTCGCTTGCTCACAAGTCCTCGAAATGCCAGAATTTCGGCATTTCGGCTTTT
181266292 CGGCATTTATCGCTTTAAGCTATGAAAAAGGGTTCGTTACACACCTGATTTGCGATTTTCCTTGA
391 CGGCATTTATCGCTTTAAGCTATGAAAAAGGGTTCGTTACACACCTGATTTGCGATTTTCCTTGA
*
181266357 CGAGATCTCCTATGCGATTTCTCCTATAATCAATTGTTTAACTAGATCAGCTCGCAATAATTGAA
456 CAAGATCTCCTATGCGATTTCTCCTATAATCAATTGTTTAACTAGATCAGCTCGCAATAATTGAA
181266422 CCAAAATAAGAACTTTCCAATATTAACACTTACACATTCGGCCACCATCCA
521 CCAAAATAAGAACTTTCCAATATTAACACTTACACATTCGGCCACCATCCA
181266473 TA
1 TA
181266475 ATGGCCTTAG
Statistics
Matches: 569, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
571 569 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (571 bp):
TATTAATGATTACTTAACAATTCATGGGTGCAAACAGTGATTCTGGCCCATTTTTAGCGACAACG
AGTTATTGGGCCTAAAACCCTTAATGGGCCCTACTTAGCCAATTTCGTCATCTCGGCCCATTTAG
CCTATATTCCATAACGGTTTTAACAGTCTTATCATGCCATATAACAGATTTCCGTTTACTACCAA
TTTTTCCCAAATGGGCCCGAAAGCCCAATGGGCCCCACTTCGACCCCTCGAGGCCCAACTTACCA
AGAACGCCAAAAATCACACTCTTACCGTTTCCATCGTTCTCGATCATCGTCTCATCGATTCTAAC
TAACTAGTGAGAGTTCGCTTGCTCACAAGTCCTCGAAATGCCAGAATTTCGGCATTTCGGCTTTT
CGGCATTTATCGCTTTAAGCTATGAAAAAGGGTTCGTTACACACCTGATTTGCGATTTTCCTTGA
CAAGATCTCCTATGCGATTTCTCCTATAATCAATTGTTTAACTAGATCAGCTCGCAATAATTGAA
CCAAAATAAGAACTTTCCAATATTAACACTTACACATTCGGCCACCATCCA
Found at i:181273614 original size:31 final size:32
Alignment explanation
Indices: 181273571--181273668 Score: 112
Period size: 38 Copynumber: 3.0 Consensus size: 32
181273561 CCCTTTCATA
181273571 TTTCATA--TTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTTCATAATACTGGGCCGAAGCCT
181273601 TTTCATGTTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCA----T-AT-TTTCATAATACTGGGCCGAAGCCT
*
181273639 TTTCATA-TTTCATATTACTGGGCCGAAGCC
1 TTTCATATTTTCATAATACTGGGCCGAAGCC
181273669 CATTACTGTA
Statistics
Matches: 59, Mismatches: 1, Indels: 15
0.79 0.01 0.20
Matches are distributed among these distances:
30 5 0.08
31 22 0.37
33 1 0.02
34 2 0.03
35 1 0.02
38 28 0.47
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (32 bp):
TTTCATATTTTCATAATACTGGGCCGAAGCCT
Found at i:181273629 original size:38 final size:38
Alignment explanation
Indices: 181273549--181273654 Score: 178
Period size: 38 Copynumber: 2.8 Consensus size: 38
181273539 TCAATCATGC
* *
181273549 ACTGGGCCGTAGCCCTTTCATATTTCATA-TTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
181273586 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
181273624 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
181273655 ACTGGGCCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
37 26 0.41
38 38 0.59
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.39
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:181273935 original size:19 final size:20
Alignment explanation
Indices: 181273885--181273961 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 20
181273875 ACCTCTTTTA
*
181273885 ATAACTGGGGCCAAAGCCCTTT
1 ATAACTGGGG-C-ATGCCCTTT
*
181273907 CAATAACTGGGGCATGCCTTTT
1 --ATAACTGGGGCATGCCCTTT
*
181273929 A-AACTGGGGCAAAGCCCTTT
1 ATAACTGGGGC-ATGCCCTTT
181273949 ATAACTGGGGCAT
1 ATAACTGGGGCAT
181273962 AAGCCCTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
19 9 0.20
20 10 0.22
21 9 0.20
22 7 0.15
23 1 0.02
24 10 0.22
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (20 bp):
ATAACTGGGGCATGCCCTTT
Found at i:181273947 original size:21 final size:22
Alignment explanation
Indices: 181273879--181273971 Score: 104
Period size: 21 Copynumber: 4.2 Consensus size: 22
181273869 AGGCCTACCT
181273879 CTTTTAATAACTGGGGCCAAAGCC
1 CTTTT-ATAACTGGGG-CAAAGCC
* *
181273903 CTTTCAATAACTGGGGC-ATG-C
1 CTTT-TATAACTGGGGCAAAGCC
181273924 CTTTTA-AACTGGGGCAAAGCC
1 CTTTTATAACTGGGGCAAAGCC
181273945 C-TTTATAACTGGGGCATAAGCC
1 CTTTTATAACTGGGGCA-AAGCC
181273967 CTTTT
1 CTTTT
181273972 TCACTTCCTC
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
19 9 0.15
20 7 0.12
21 17 0.29
22 8 0.14
23 4 0.07
24 14 0.24
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (22 bp):
CTTTTATAACTGGGGCAAAGCC
Found at i:181274047 original size:20 final size:20
Alignment explanation
Indices: 181274022--181274081 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
181274012 TATGATTACC
181274022 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
181274042 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
181274062 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
181274082 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:181283542 original size:47 final size:46
Alignment explanation
Indices: 181283425--181283597 Score: 189
Period size: 45 Copynumber: 3.8 Consensus size: 46
181283415 GGATGGTTGA
181283425 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
181283472 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
* *
181283515 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
181283565 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
181283598 TAGGGGCGGG
Statistics
Matches: 108, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.29
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:181291899 original size:27 final size:27
Alignment explanation
Indices: 181291861--181291933 Score: 128
Period size: 27 Copynumber: 2.7 Consensus size: 27
181291851 CATACCTGAA
*
181291861 CCCTCATATGATAAAATGATGATATTG
1 CCCTTATATGATAAAATGATGATATTG
*
181291888 CCCTTATGTGATAAAATGATGATATTG
1 CCCTTATATGATAAAATGATGATATTG
181291915 CCCTTATATGATAAAATGA
1 CCCTTATATGATAAAATGA
181291934 CGATTTTACC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (27 bp):
CCCTTATATGATAAAATGATGATATTG
Found at i:181291970 original size:27 final size:27
Alignment explanation
Indices: 181291926--181292134 Score: 203
Period size: 27 Copynumber: 7.7 Consensus size: 27
181291916 CCTTATATGA
* ** *
181291926 TAAAATGACGATTTTACCATCATAGGG
1 TAAAATGACTATAATACCCTCATAGGG
* *
181291953 TAAAATGATCGA-AATACCCCCCATAGGG
1 TAAAATGA-CTATAATA-CCCTCATAGGG
*
181291981 TAAAATGA-TCAAAATACCC-CTATAGGG
1 TAAAATGACT-ATAATACCCTC-ATAGGG
*
181292008 TAAAATGACTATAATACCCCCATAGGG
1 TAAAATGACTATAATACCCTCATAGGG
*
181292035 T-AAATGACTATAATACCCTCATAGGA
1 TAAAATGACTATAATACCCTCATAGGG
* *
181292061 TAAAATGACTGTAATA-CCTCTGTAGGG
1 TAAAATGACTATAATACCCTC-ATAGGG
* **
181292088 TAAAATGACTATAATACCTTTGTAGGG
1 TAAAATGACTATAATACCCTCATAGGG
*
181292115 TAAAATGACTGTAATACCCT
1 TAAAATGACTATAATACCCT
181292135 TGTAAAATAA
Statistics
Matches: 156, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
26 29 0.19
27 99 0.63
28 28 0.18
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (27 bp):
TAAAATGACTATAATACCCTCATAGGG
Found at i:181292078 original size:80 final size:81
Alignment explanation
Indices: 181291993--181292152 Score: 214
Period size: 80 Copynumber: 2.0 Consensus size: 81
181291983 AAATGATCAA
181291993 AATACCCCTATAGGGTAAAATGACTATAATACCCCCATAGGGT-AAATGACTATAATACCCTCAT
1 AATACCCCTATAGGGTAAAATGACTATAATACCCCCATAGGGTAAAATGACTATAATACCCTCAT
**
181292057 AGGATAAAATGACTGT
66 AAAATAAAATGACTGT
* * **** * **
181292073 AATACCTCTGTAGGGTAAAATGACTATAATACCTTTGTAGGGTAAAATGACTGTAATACCCTTGT
1 AATACCCCTATAGGGTAAAATGACTATAATACCCCCATAGGGTAAAATGACTATAATACCCTCAT
181292138 AAAATAAAATGACTG
66 AAAATAAAATGACTG
181292153 ATTTGTTCTA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
80 37 0.54
81 31 0.46
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (81 bp):
AATACCCCTATAGGGTAAAATGACTATAATACCCCCATAGGGTAAAATGACTATAATACCCTCAT
AAAATAAAATGACTGT
Found at i:181292119 original size:54 final size:54
Alignment explanation
Indices: 181291947--181292133 Score: 227
Period size: 54 Copynumber: 3.5 Consensus size: 54
181291937 TTTTACCATC
* * *
181291947 ATAGGGTAAAATGA-TCGAAATACCCCCCATAGGGTAAAATGA-TCAAAATACCCCT
1 ATAGGGTAAAATGACT-GTAATA-CCCCCATAGGGTAAAATGACT-ATAATACCCTT
* *
181292002 ATAGGGTAAAATGACTATAATACCCCCATAGGGT-AAATGACTATAATACCCTC
1 ATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACTATAATACCCTT
* * ** *
181292055 ATAGGATAAAATGACTGTAATACCTCTGTAGGGTAAAATGACTATAATACCTTT
1 ATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACTATAATACCCTT
*
181292109 GTAGGGTAAAATGACTGTAATACCC
1 ATAGGGTAAAATGACTGTAATACCC
181292134 TTGTAAAATA
Statistics
Matches: 114, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
53 43 0.38
54 52 0.46
55 18 0.16
56 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (54 bp):
ATAGGGTAAAATGACTGTAATACCCCCATAGGGTAAAATGACTATAATACCCTT
Found at i:181292145 original size:27 final size:27
Alignment explanation
Indices: 181291993--181292152 Score: 144
Period size: 27 Copynumber: 6.0 Consensus size: 27
181291983 AAATGATCAA
* * * *
181291993 AATACCCCTATAGGGTAAAATGACTAT
1 AATACCCTTGTAGGATAAAATGACTGT
*** * *
181292020 AATACCCCCATAGGGT-AAATGACTAT
1 AATACCCTTGTAGGATAAAATGACTGT
**
181292046 AATACCCTCATAGGATAAAATGACTGT
1 AATACCCTTGTAGGATAAAATGACTGT
* *
181292073 AATA-CCTCTGTAGGGTAAAATGACTAT
1 AATACCCT-TGTAGGATAAAATGACTGT
* *
181292100 AATACCTTTGTAGGGTAAAATGACTGT
1 AATACCCTTGTAGGATAAAATGACTGT
**
181292127 AATACCCTTGTAAAATAAAATGACTG
1 AATACCCTTGTAGGATAAAATGACTG
181292153 ATTTGTTCTA
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
26 27 0.23
27 87 0.75
28 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (27 bp):
AATACCCTTGTAGGATAAAATGACTGT
Found at i:181298510 original size:49 final size:49
Alignment explanation
Indices: 181298441--181298711 Score: 526
Period size: 49 Copynumber: 5.6 Consensus size: 49
181298431 GTACATAATA
181298441 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
181298490 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
181298538 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
181298587 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
181298636 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
181298685 ATATATGTGATAAGGCCTAATGGCCGA
1 ATATATGTGATAAGGCCTAATGGCCGA
181298712 ATGGCTAATG
Statistics
Matches: 220, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
48 48 0.22
49 172 0.78
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:181298553 original size:97 final size:98
Alignment explanation
Indices: 181298441--181298711 Score: 526
Period size: 97 Copynumber: 2.8 Consensus size: 98
181298431 GTACATAATA
181298441 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
181298506 CTAATGGCCGATGTGATGAATGTG-AAATGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
181298538 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
181298603 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
181298636 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
181298701 CTAATGGCCGA
66 CTAATGGCCGA
181298712 ATGGCTAATG
Statistics
Matches: 172, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
97 89 0.52
98 83 0.48
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (98 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:181298722 original size:146 final size:146
Alignment explanation
Indices: 181298441--181298711 Score: 524
Period size: 146 Copynumber: 1.8 Consensus size: 146
181298431 GTACATAATA
181298441 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
*
181298506 CTAATGGCCGATGTGATGAATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 CTAATGGCCGACGTGATGAATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
181298571 GAATGTGAAAATGTAT
131 GAATGTGAAAATGTAT
181298587 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
181298652 CTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGA
66 CTAATGGCCGACGTGATGAATGTG-AAATGTATATATATGTGATAAGGCCTAATGGCCGA
181298712 ATGGCTAATG
Statistics
Matches: 123, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
146 88 0.72
147 35 0.28
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (146 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
CTAATGGCCGACGTGATGAATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
GAATGTGAAAATGTAT
Found at i:181298815 original size:37 final size:36
Alignment explanation
Indices: 181298760--181298846 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
181298750 AACTTAGAAA
181298760 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
*
181298798 TATGTCCGGGTACGACCCGATGACTACGTGTGGGGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
181298835 TATGTCCGGGTA
1 TATGTCCGGGTA
181298847 AGACTTCATA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:181302377 original size:40 final size:40
Alignment explanation
Indices: 181302313--181302425 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 40
181302303 GCTACTCGTT
* * * ***
181302313 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
181302353 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
*
181302393 CAATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
181302426 TTCGCACATT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 18 0.29
40 45 0.71
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.20
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:181305794 original size:29 final size:28
Alignment explanation
Indices: 181305727--181305798 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
181305717 AAAATTGTAC
* * *
181305727 AGCACTAAGTGTGCGAGTTTGATTCTAT
1 AGCACTAAGTGTGCGAGTCTGAATATAT
181305755 AGCACTAAGTGTGCGAG-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGTCTG--AATATAT
181305784 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
181305799 GATTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 17 0.44
29 20 0.51
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGAATATAT
Found at i:181316120 original size:40 final size:39
Alignment explanation
Indices: 181315955--181316138 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
181315945 AAATTGAATG
* * *
181315955 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
181315995 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
181316035 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
181316075 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
181316114 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
181316139 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:181316163 original size:80 final size:81
Alignment explanation
Indices: 181315995--181316183 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
181315985 GCTGGAAATT
* * * *
181315995 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
181316060 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
181316076 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
181316139 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
181316155 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
181316184 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:181324221 original size:40 final size:39
Alignment explanation
Indices: 181324056--181324239 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
181324046 AAATTGAATG
* * *
181324056 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
181324096 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
181324136 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
181324176 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
181324215 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
181324240 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:181324264 original size:80 final size:81
Alignment explanation
Indices: 181324096--181324284 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
181324086 GCTGGAAATT
* * * *
181324096 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
181324161 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
181324177 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
181324240 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
181324256 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
181324285 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:181330320 original size:110 final size:109
Alignment explanation
Indices: 181330123--181330342 Score: 386
Period size: 110 Copynumber: 2.0 Consensus size: 109
181330113 CCCGATATAC
181330123 TTAAAGAGCTTATTCTCAAGAAAAGTAGTGTCTTTTCGTAACTTTTAGATTTTAAGCTAATAAGT
1 TTAAAGAGCTTATTCTCAAGAAAAGTAGTGTCTTTTCGTAACTTTTAGATTTTAAGCTAATAAGT
* *
181330188 GTAAATGCCTCGTTTTTAGTCATTTGGAGGCCCAACTTGGCCAA
66 ATAAATGCCTCGTTTTTAGTCATTTAGAGGCCCAACTTGGCCAA
* * *
181330232 TTAAGGAGCTTATTCTCAAGAAAAGTAGTGTCTTTTTCTTAATTTTTAGATTTTAAGCTAATAAG
1 TTAAAGAGCTTATTCTCAAGAAAAGTAGTGTC-TTTTCGTAACTTTTAGATTTTAAGCTAATAAG
181330297 TATAAATGCCTCGTTTTTAGTCATTTAGAGGCCCAACTTGGCCAA
65 TATAAATGCCTCGTTTTTAGTCATTTAGAGGCCCAACTTGGCCAA
181330342 T
1 T
181330343 AGTGTTGTTG
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
109 31 0.30
110 74 0.70
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (109 bp):
TTAAAGAGCTTATTCTCAAGAAAAGTAGTGTCTTTTCGTAACTTTTAGATTTTAAGCTAATAAGT
ATAAATGCCTCGTTTTTAGTCATTTAGAGGCCCAACTTGGCCAA
Found at i:181344290 original size:46 final size:46
Alignment explanation
Indices: 181344240--181344415 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
181344230 TGGTTGAGCA
181344240 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
181344286 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
181344331 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
181344379 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
181344416 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:181344396 original size:93 final size:93
Alignment explanation
Indices: 181344237--181344408 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
181344227 GGATGGTTGA
* *
181344237 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181344302 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
181344330 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181344395 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
181344409 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:181350614 original size:33 final size:34
Alignment explanation
Indices: 181350572--181350710 Score: 160
Period size: 33 Copynumber: 4.0 Consensus size: 34
181350562 AGACCGAAGG
181350572 CATTCGTGCGAGTTGATATATCC-GGCTAAGACC
1 CATTCGTGCGAGTTGATATATCCGGGCTAAGACC
181350605 CATTCGTGCGAGTTGATATATCCGGGCTAAGACC
1 CATTCGTGCGAGTTGATATATCCGGGCTAAGACC
**
181350639 GAAGGCATTCGTGCGAGTTGATATATCC-GGCTAGACGAAGG
1 -----CATTCGTGCGAGTTGATATATCCGGGCTA-A-G-ACC
181350680 CATTCGTG-GAGTTGATATA-CCGGGCTAAGAC
1 CATTCGTGCGAGTTGATATATCCGGGCTAAGAC
181350711 GAAGGCCTTT
Statistics
Matches: 93, Mismatches: 3, Indels: 21
0.79 0.03 0.18
Matches are distributed among these distances:
32 1 0.01
33 24 0.26
34 13 0.14
35 16 0.17
36 8 0.09
38 5 0.05
39 24 0.26
40 1 0.01
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (34 bp):
CATTCGTGCGAGTTGATATATCCGGGCTAAGACC
Found at i:181350659 original size:39 final size:39
Alignment explanation
Indices: 181350550--181350780 Score: 254
Period size: 36 Copynumber: 6.2 Consensus size: 39
181350540 AACATTGGAA
181350550 ATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGAT
181350589 ATATCC-GGCTAAGACC-----CATTCGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGAT
181350622 ATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGAT
181350661 ATATCC-GGCT-AGA-CGAAGGCATTCGTG-GAGTTGAT
1 ATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGAT
* * * * *
181350696 ATA-CCGGGCTAAGA-CGAAGGCCTTTGTGCAAG-TCACC
1 ATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGA-T
* * * * * *
181350733 AAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCGCT
1 ATATCCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTGAT
181350773 ATATCCGG
1 ATATCCGG
181350781 TTAAATCCCG
Statistics
Matches: 161, Mismatches: 17, Indels: 27
0.79 0.08 0.13
Matches are distributed among these distances:
33 23 0.14
34 12 0.07
35 15 0.09
36 31 0.19
37 7 0.04
38 23 0.14
39 29 0.18
40 21 0.13
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGAT
Found at i:181354468 original size:40 final size:40
Alignment explanation
Indices: 181354403--181354610 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
181354393 TCTTCGGAAT
* ** *
181354403 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
181354442 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
181354482 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
181354522 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
181354562 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
181354602 TTAGCCCGG
1 TTAGCCCGG
181354611 GTATCATTCA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 3 0.02
40 150 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:181362680 original size:40 final size:40
Alignment explanation
Indices: 181362605--181362812 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
181362595 TTTCTTCAAT
* ** *
181362605 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
181362644 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
181362684 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
181362724 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
181362764 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
181362804 TTAGCCCGG
1 TTAGCCCGG
181362813 GTATCATTCA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 3 0.02
40 150 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:181367051 original size:40 final size:40
Alignment explanation
Indices: 181367000--181367103 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
181366990 TATTATAATC
* *
181367000 TCGCACACTAAGTGTCATATATAG-CTGAAGCTAT-TCTAAA
1 TCGCACACTAAGTGCCACATATAGTC-GAAGCTATCTC-AAA
* *
181367040 TTGCACACTAAGTGCCACATATAGTCGAAGCTATCTCGAA
1 TCGCACACTAAGTGCCACATATAGTCGAAGCTATCTCAAA
* *
181367080 TCGCACACTAAGTCCCACACATAG
1 TCGCACACTAAGTGCCACATATAG
181367104 AAGAATTGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 52 0.95
41 3 0.05
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCACATATAGTCGAAGCTATCTCAAA
Found at i:181369641 original size:41 final size:42
Alignment explanation
Indices: 181369517--181369642 Score: 130
Period size: 42 Copynumber: 3.0 Consensus size: 42
181369507 AGGGTTACTA
* * *
181369517 AGATTACGTGTAAGACCATATCTAGGACATGGCATCAATATG
1 AGATTACGTGTAAGACCATATCTAGGATATGGCATCGATACG
* * * *
181369559 AGACTT-CGTCTAAGACCATAGCTGGGCTAGTGGCATCGATACG
1 AGA-TTACGTGTAAGACCATATCTAGGATA-TGGCATCGATACG
* * *
181369602 AG-TTACATGTAAGACCATATCTTGGATATGGCATTGATACG
1 AGATTACGTGTAAGACCATATCTAGGATATGGCATCGATACG
181369643 GTACTGAGTG
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
41 14 0.21
42 39 0.57
43 15 0.22
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (42 bp):
AGATTACGTGTAAGACCATATCTAGGATATGGCATCGATACG
Found at i:181372237 original size:49 final size:47
Alignment explanation
Indices: 181371943--181372261 Score: 249
Period size: 49 Copynumber: 6.7 Consensus size: 47
181371933 TTACTTGTGT
* *
181371943 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAAT-ATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATA
* * * ** *
181371989 GCCAATGTAAGATCATGCCTGGTACATGGCATCGGTGTAGA-GAATGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATG-ATGA-TA
*
181372038 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATA
* * * * *
181372085 GCCAGTGTAAGACGTGTTTGGGACACGCATCGG-CT--AAGA-GTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATA
* * ** * * *
181372128 TGCTAGTGTAAGACATGTTTGGGACATGCATCAACACT-TATAGACGAGA
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCGAT-GATGATA
* * * *
181372177 GCTAGTATAAGACCATGTCTGGGACATGGCATCAGCCTCGATGATTATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATGATA
*
181372226 GCCAGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
181372262 AACATATCCC
Statistics
Matches: 219, Mismatches: 38, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
43 3 0.01
44 31 0.14
46 16 0.07
47 57 0.26
48 34 0.16
49 68 0.31
50 10 0.05
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGATA
Found at i:181373088 original size:55 final size:54
Alignment explanation
Indices: 181373022--181373206 Score: 246
Period size: 55 Copynumber: 3.4 Consensus size: 54
181373012 GCACTTAAAA
* *
181373022 TTTAAAGTCAGTGTTGAACACGGGTAGGCCACACGAGCATGTGTCATGGTCGTGT
1 TTTAAAGTCAATGTTGAACACGGGTAGGCCACACG-GCATGTGTCATGGCCGTGT
* *
181373077 TTTAAAGTCAGTGTTGAAAACGGGTAGGCCACACCGGCATGTGTCAT-GCCGTGT
1 TTTAAAGTCAATGTTGAACACGGGTAGGCCACA-CGGCATGTGTCATGGCCGTGT
* ** *
181373131 TTTAAAGTCAATGTTGCACACAAGTAGGCCACACGGTCGTGTGTCATGGCCGTGT
1 TTTAAAGTCAATGTTGAACACGGGTAGGCCACACGG-CATGTGTCATGGCCGTGT
* *
181373186 TATAAAGTCAATGTTGCACAC
1 TTTAAAGTCAATGTTGAACAC
181373207 AGGCTAAGGG
Statistics
Matches: 118, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
53 3 0.03
54 43 0.36
55 70 0.59
56 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (54 bp):
TTTAAAGTCAATGTTGAACACGGGTAGGCCACACGGCATGTGTCATGGCCGTGT
Found at i:181381345 original size:40 final size:40
Alignment explanation
Indices: 181381212--181381415 Score: 360
Period size: 39 Copynumber: 5.2 Consensus size: 40
181381202 GGACTAAGAT
181381212 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
181381251 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
181381290 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
181381330 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
181381370 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
181381409 CCGAAGG
1 CCGAAGG
181381416 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
39 93 0.57
40 69 0.43
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:181381356 original size:79 final size:79
Alignment explanation
Indices: 181381200--181381415 Score: 364
Period size: 79 Copynumber: 2.7 Consensus size: 79
181381190 CGGATGATAA
*
181381200 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTTG
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
181381264 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
181381279 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
*
181381344 GCGAGTTGCTATAT
66 GCGAGTTACTATAT
* *
181381358 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
181381416 TACTTGGGTT
Statistics
Matches: 131, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
78 40 0.31
79 62 0.47
80 29 0.22
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:181389337 original size:38 final size:39
Alignment explanation
Indices: 181389279--181389488 Score: 306
Period size: 38 Copynumber: 5.5 Consensus size: 39
181389269 CGGATGATAA
*
181389279 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATAT
*
181389319 CCGGGCTAAGTCC-AAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
181389357 CCGGGCTAAGTCCGAAGGCATTTGTGCGAG-TACTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
*
181389395 CCGGGCTAAGTCCCAAGGCATTTGTGC-AG-T-CTATAT
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
*
181389431 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
*
181389471 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGT-CCGAAGG
181389489 TACTTGGGTT
Statistics
Matches: 159, Mismatches: 6, Indels: 11
0.90 0.03 0.06
Matches are distributed among these distances:
36 17 0.11
37 18 0.11
38 73 0.46
39 34 0.21
40 17 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:181389469 original size:76 final size:78
Alignment explanation
Indices: 181389279--181389488 Score: 324
Period size: 77 Copynumber: 2.7 Consensus size: 78
181389269 CGGATGATAA
*
181389279 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCAAGGCATTTGT
1 CCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAGGCATTTGT
181389343 GCTAGTTACTATAT
65 GCTAGTTACTATAT
181389357 CCGGGCTAAGTCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCAAGGCATTTGTG
1 CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAGGCATTTGTG
181389421 C-AG-T-CTATAT
66 CTAGTTACTATAT
* *
181389431 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC-AAGG
181389489 TACTTGGGTT
Statistics
Matches: 125, Mismatches: 3, Indels: 10
0.91 0.02 0.07
Matches are distributed among these distances:
74 17 0.14
75 30 0.24
76 34 0.27
77 35 0.28
78 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCAAGGCATTTGTG
CTAGTTACTATAT
Found at i:181392207 original size:29 final size:28
Alignment explanation
Indices: 181392151--181392239 Score: 126
Period size: 27 Copynumber: 3.2 Consensus size: 28
181392141 ATTGCATGAC
**
181392151 TATGAATGTGATTGGGCCTAATAAGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
181392179 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
**
181392208 TATGAA-AAGATTGGGCCTAATGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
181392235 TATGA
1 TATGA
181392240 TGTATGTAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
27 22 0.39
28 13 0.23
29 21 0.38
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:181393462 original size:18 final size:18
Alignment explanation
Indices: 181393410--181393462 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
181393400 TTACAGTAAT
* *
181393410 TAAGG-TTTCATTATAAA
1 TAAGGTTTTCAATAAAAA
* *
181393427 GAAGGTTTTCAATGAAAA
1 TAAGGTTTTCAATAAAAA
*
181393445 TAAGGTTTTCGATAAAAA
1 TAAGGTTTTCAATAAAAA
181393463 ACTTCAATGT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 4 0.14
18 24 0.86
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (18 bp):
TAAGGTTTTCAATAAAAA
Found at i:181396324 original size:35 final size:32
Alignment explanation
Indices: 181396285--181396362 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 32
181396275 TATGTTAATA
181396285 GGCTTAGGCCTAGACTGCTACTGTTACTGAAAATG
1 GGCTTAGGCCT-GACTGCTACTGTTACT--AAATG
*
181396320 GGCTTAGGCCCTGACTGCTATTGTTACTAAATG
1 GGCTTAGG-CCTGACTGCTACTGTTACTAAATG
*
181396353 GGCTCAGGCC
1 GGCTTAGGCC
181396363 CATATTGCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
32 2 0.05
33 12 0.30
35 23 0.57
36 3 0.08
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (32 bp):
GGCTTAGGCCTGACTGCTACTGTTACTAAATG
Found at i:181396362 original size:33 final size:34
Alignment explanation
Indices: 181396297--181396363 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
181396287 CTTAGGCCTA
*
181396297 GACTGCTACTGTTACTGAAAATGGGCTTAGGCCCT
1 GACTGCTACTGTTACT-AAAATGGGCTCAGGCCCT
*
181396332 GACTGCTATTGTTACT-AAATGGGCTCAGGCCC
1 GACTGCTACTGTTACTAAAATGGGCTCAGGCCC
181396364 ATATTGCTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 15 0.50
35 15 0.50
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.28
Consensus pattern (34 bp):
GACTGCTACTGTTACTAAAATGGGCTCAGGCCCT
Found at i:181398705 original size:28 final size:28
Alignment explanation
Indices: 181398640--181398740 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
181398630 ATAGTGAATC
*
181398640 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
181398669 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
181398697 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
181398727 CGCACACTTAGTGC
1 CGCACACTTAGTGC
181398741 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:181406664 original size:28 final size:28
Alignment explanation
Indices: 181406599--181406670 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 28
181406589 ATAGTGAATC
*
181406599 CGCACACTTAGTGCTATATGTATTCAACT
1 CGCACACTTAGTGCTATA-GTAATCAACT
181406628 CGCACACTTAGTGCTATA-TAATCAAACT
1 CGCACACTTAGTGCTATAGTAATC-AACT
181406656 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
181406671 GTACAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 19 0.46
29 18 0.44
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAGTAATCAACT
Found at i:181412148 original size:20 final size:20
Alignment explanation
Indices: 181412123--181412163 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
181412113 AACTTAAATA
181412123 CTCGATGTTGATACAATATG
1 CTCGATGTTGATACAATATG
181412143 CTCGATGTTGATACAATATG
1 CTCGATGTTGATACAATATG
181412163 C
1 C
181412164 CCCAGAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (20 bp):
CTCGATGTTGATACAATATG
Found at i:181416396 original size:43 final size:43
Alignment explanation
Indices: 181416335--181416473 Score: 190
Period size: 43 Copynumber: 3.2 Consensus size: 43
181416325 AGGATTTCCA
*
181416335 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *
181416378 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGCCATTG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * **
181416421 ATATGTGATTACGAGTAAGACTACGTTTAATG-CGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCT-GGGACGTTGGCATCG
181416464 ATATGTGATT
1 ATATGTGATT
181416474 CTAATATGTG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 84 0.99
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:181416492 original size:56 final size:56
Alignment explanation
Indices: 181416432--181416609 Score: 257
Period size: 56 Copynumber: 3.2 Consensus size: 56
181416422 TATGTGATTA
* *
181416432 CGAGTAAGACTACGTTTAATGCGTTGGCATCGATATGTGATTCTAATATGTGTGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTAATATGTGTGTG
* * * *
181416488 CGAGTAAGACCATGTTTAATACATTGGCATCGATATGTGATTCTGATATGTATGTG
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTAATATGTGTGTG
* * * * *
181416544 CGAGTAAGACCACGTTTAATACGTTGGCATCAATAGGTGATTCCAATATGTGTTTA
1 CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTAATATGTGTGTG
181416600 CGAGTAAGAC
1 CGAGTAAGAC
181416610 TTTATCTGGG
Statistics
Matches: 107, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 107 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (56 bp):
CGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTAATATGTGTGTG
Found at i:181420428 original size:29 final size:29
Alignment explanation
Indices: 181420287--181420416 Score: 156
Period size: 29 Copynumber: 4.5 Consensus size: 29
181420277 GACAAGATTG
* * * * *
181420287 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* * *
181420317 GCACTAAGTGTGCGAGTTTG--ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
181420345 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
181420374 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
181420403 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
181420417 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.23
29 50 0.56
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:181428251 original size:30 final size:30
Alignment explanation
Indices: 181428215--181428373 Score: 193
Period size: 28 Copynumber: 5.5 Consensus size: 30
181428205 GACAAGATTG
* * * *
181428215 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTTAAAATTATATA
** *
181428245 GCACTAAGTGTGCGAG-TT-TGATTATACA
1 GCACTAAGTGTGCGAGCTTAAAATTATATA
*
181428273 GCACTAAGTGTGCGAGC-TGAAA-TATATA
1 GCACTAAGTGTGCGAGCTTAAAATTATATA
*
181428301 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTTAAAATTATATA
*
181428331 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTTAAAATTATATA
181428360 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
181428374 GATTCACTAT
Statistics
Matches: 116, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
28 46 0.40
29 26 0.22
30 44 0.38
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTTAAAATTATATA
Found at i:181428327 original size:58 final size:57
Alignment explanation
Indices: 181428215--181428373 Score: 205
Period size: 58 Copynumber: 2.8 Consensus size: 57
181428205 GACAAGATTG
* * * * * *
181428215 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
*
181428273 GCACTAAGTGTGCGAGCTG-AAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
181428331 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
181428374 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
55 2 0.02
56 20 0.22
57 3 0.03
58 42 0.47
59 23 0.26
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:181431798 original size:46 final size:46
Alignment explanation
Indices: 181431745--181431920 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
181431735 ATATTGGGCA
181431745 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
181431791 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
181431838 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
181431884 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
181431921 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:181431900 original size:93 final size:93
Alignment explanation
Indices: 181431741--181431912 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
181431731 TGGGATATTG
* *
181431741 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
181431806 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
181431834 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
181431899 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
181431913 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:181440588 original size:29 final size:28
Alignment explanation
Indices: 181440554--181440656 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
181440544 TACTCAATCA
*
181440554 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
181440583 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
181440612 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
181440641 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
181440657 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:181447309 original size:29 final size:29
Alignment explanation
Indices: 181447276--181447378 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
181447266 CCTCCGAACT
** * * *
181447276 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
181447305 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
181447334 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
181447363 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
181447379 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:181455244 original size:29 final size:29
Alignment explanation
Indices: 181455211--181455313 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
181455201 CCTCCGAACT
** * * *
181455211 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
181455240 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
181455269 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
181455298 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
181455314 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:181463109 original size:29 final size:29
Alignment explanation
Indices: 181463067--181463168 Score: 152
Period size: 29 Copynumber: 3.6 Consensus size: 29
181463057 ACCCTCCGCT
* * * *
181463067 CGCACAC-CAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
181463095 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
181463124 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
181463153 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
181463169 ATCTCGTCAC
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 6 0.09
29 61 0.91
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:181469466 original size:25 final size:25
Alignment explanation
Indices: 181469437--181469484 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
181469427 TTATAATATG
* * *
181469437 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
181469462 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
181469485 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:181469553 original size:20 final size:20
Alignment explanation
Indices: 181469528--181469586 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
181469518 TAAATATGGT
181469528 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
181469548 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
181469568 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
181469587 GGTAATCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:181469703 original size:25 final size:24
Alignment explanation
Indices: 181469636--181469707 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
181469626 GAGGAAGTGA
*
181469636 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
181469660 GAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
181469684 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
181469708 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 30 0.73
25 11 0.27
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:181469953 original size:37 final size:38
Alignment explanation
Indices: 181469899--181470059 Score: 214
Period size: 37 Copynumber: 4.4 Consensus size: 38
181469889 CGTTTACAGT
181469899 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
181469937 AAA-GCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
181469967 AAAGGCTTCGGCCCAGTATTA-GAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
181470004 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
181470042 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
181470060 GCATGATTGA
Statistics
Matches: 108, Mismatches: 5, Indels: 19
0.82 0.04 0.14
Matches are distributed among these distances:
30 16 0.15
31 12 0.11
32 1 0.01
37 46 0.43
38 20 0.19
39 13 0.12
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:181469973 original size:68 final size:68
Alignment explanation
Indices: 181469899--181470036 Score: 251
Period size: 68 Copynumber: 2.0 Consensus size: 68
181469889 CGTTTACAGT
181469899 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAA-GCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTA-GAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
181469963 ATGA
65 ATGA
*
181469967 AAAGGCTTCGGCCCAGTATTAGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAATA
1 AAAGGCTTCGGCCCAGTATTAGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATA
181470032 TGA
66 TGA
181470035 AA
1 AA
181470037 TACGAAAAGG
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 19 0.28
68 49 0.72
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (68 bp):
AAAGGCTTCGGCCCAGTATTAGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAATA
TGA
Found at i:181477789 original size:25 final size:25
Alignment explanation
Indices: 181477760--181477807 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
181477750 TTATAATATG
* * *
181477760 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
181477785 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
181477808 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:181477876 original size:20 final size:20
Alignment explanation
Indices: 181477851--181477909 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
181477841 TAAATATGGT
181477851 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
181477871 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
181477891 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
181477910 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:181478027 original size:25 final size:24
Alignment explanation
Indices: 181477960--181478031 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
181477950 GAGGAAGTGA
*
181477960 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
181477984 GAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
181478008 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
181478032 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 30 0.73
25 11 0.27
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:181478274 original size:38 final size:38
Alignment explanation
Indices: 181478223--181478385 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
181478213 CGTTTACAGT
181478223 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
181478261 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
181478292 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
181478330 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
181478368 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
181478386 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:181478285 original size:31 final size:31
Alignment explanation
Indices: 181478247--181478362 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
181478237 AGTATTATGA
181478247 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
181478278 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
181478314 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
181478347 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
181478363 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:181478299 original size:69 final size:69
Alignment explanation
Indices: 181478223--181478362 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
181478213 CGTTTACAGT
181478223 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
181478288 ATGA
66 ATGA
*
181478292 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
181478357 ATGA
66 ATGA
181478361 AA
1 AA
181478363 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:181485896 original size:40 final size:40
Alignment explanation
Indices: 181485851--181485980 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
181485841 CGGAATATAA
181485851 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
181485891 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
181485931 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
181485971 CCGGATATAA
1 CCGGATATAA
181485981 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:181485995 original size:40 final size:39
Alignment explanation
Indices: 181485867--181486017 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
181485857 ATAACCATGT
* * *
181485867 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
** *
181485907 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-C
* **
181485947 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
* *
181485986 AGCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
181486018 CATTCAATTT
Statistics
Matches: 94, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
39 15 0.16
40 77 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACC
Found at i:181486001 original size:80 final size:79
Alignment explanation
Indices: 181485851--181486017 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
181485841 CGGAATATAA
*
181485851 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATG
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
181485916 CCTTCGGGTCTTAGC
66 CCTTCGGG-CTTAGC
* * * ** *
181485931 CCGGATATAGCCACT-TGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA
*
181485993 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
181486010 CCGGATAT
1 CCGGATAT
181486018 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 17 0.22
80 58 0.76
81 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (79 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:181489052 original size:25 final size:25
Alignment explanation
Indices: 181489023--181489070 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
181489013 TTATAATATG
* * *
181489023 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
181489048 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
181489071 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:181489139 original size:20 final size:20
Alignment explanation
Indices: 181489114--181489172 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
181489104 TAAATATGGT
181489114 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
181489134 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
181489154 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
181489173 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:181489253 original size:23 final size:24
Alignment explanation
Indices: 181489223--181489317 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
181489213 GAGGAAGTGA
181489223 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
181489246 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
181489270 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
181489294 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
181489318 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:181489291 original size:47 final size:49
Alignment explanation
Indices: 181489224--181489317 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
181489214 AGGAAGTGAA
*
181489224 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
181489271 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
181489318 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:181489560 original size:38 final size:38
Alignment explanation
Indices: 181489509--181489671 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
181489499 CGTTTACAGT
181489509 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
181489547 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
181489578 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
181489616 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
181489654 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
181489672 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:181489571 original size:31 final size:31
Alignment explanation
Indices: 181489533--181489648 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
181489523 AGTATTATGA
181489533 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
181489564 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
181489600 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
181489633 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
181489649 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:181489585 original size:69 final size:69
Alignment explanation
Indices: 181489509--181489648 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
181489499 CGTTTACAGT
181489509 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
181489574 ATGA
66 ATGA
*
181489578 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
181489643 ATGA
66 ATGA
181489647 AA
1 AA
181489649 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:181497018 original size:25 final size:25
Alignment explanation
Indices: 181496989--181497036 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
181496979 TTATAATATG
* * *
181496989 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
181497014 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
181497037 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:181497105 original size:20 final size:20
Alignment explanation
Indices: 181497080--181497138 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
181497070 TAAATATGGT
181497080 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
181497100 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
181497120 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
181497139 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:181497219 original size:23 final size:24
Alignment explanation
Indices: 181497189--181497283 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
181497179 GAGGAAGTGA
181497189 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
181497212 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
181497236 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
181497260 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
181497284 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:181497257 original size:47 final size:49
Alignment explanation
Indices: 181497190--181497283 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
181497180 AGGAAGTGAA
*
181497190 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
181497237 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
181497284 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:181497526 original size:38 final size:38
Alignment explanation
Indices: 181497475--181497637 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
181497465 CGTTTACAGT
181497475 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
181497513 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
181497544 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
181497582 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
181497620 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
181497638 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:181497537 original size:31 final size:31
Alignment explanation
Indices: 181497499--181497614 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
181497489 AGTATTATGA
181497499 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
181497530 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
181497566 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
181497599 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
181497615 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:181497551 original size:69 final size:69
Alignment explanation
Indices: 181497475--181497614 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
181497465 CGTTTACAGT
181497475 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
181497540 ATGA
66 ATGA
*
181497544 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
181497609 ATGA
66 ATGA
181497613 AA
1 AA
181497615 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:181505125 original size:40 final size:40
Alignment explanation
Indices: 181505080--181505246 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
181505070 CGGAATATAA
*
181505080 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
181505120 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
181505160 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
181505200 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
181505239 CCGGATAT
1 CCGGATAT
181505247 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:181505230 original size:80 final size:79
Alignment explanation
Indices: 181505096--181505246 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
181505086 ATAACCATGT
*
181505096 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
181505161 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
181505176 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
181505239 CCGGATAT
64 CCGGATAT
181505247 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:181511069 original size:17 final size:18
Alignment explanation
Indices: 181511027--181511075 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
181511017 AGTTGAAAAG
181511027 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
181511046 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
181511063 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
181511076 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:181511962 original size:40 final size:40
Alignment explanation
Indices: 181511896--181512062 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
181511886 AAATTGAATG
* * *
181511896 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
181511935 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
181511975 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
181512015 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
181512055 ATATCCGG
1 ATATCCGG
181512063 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:181519048 original size:17 final size:18
Alignment explanation
Indices: 181519006--181519054 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
181518996 AGTTGAAAAG
181519006 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
181519025 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
181519042 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
181519055 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:181519999 original size:40 final size:37
Alignment explanation
Indices: 181519912--181520020 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 37
181519902 CTGGAAATTA
* * *
181519912 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTAGT
* *
181519950 TATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTATT
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAG-TAGT
181519989 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 -TATCCGGGCTAAGACCCGAAGGCA-TTGTGC
181520021 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
37 3 0.05
38 27 0.44
39 2 0.03
40 27 0.44
41 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (37 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTAGT
Found at i:181520034 original size:40 final size:40
Alignment explanation
Indices: 181519872--181520036 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
181519862 AAATTGAATG
* * **
181519872 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * *
181519911 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG-GT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
181519950 -TATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
181519989 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
181520029 ATATCCGG
1 ATATCCGG
181520037 TTATATTCCG
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
37 3 0.03
38 28 0.27
39 16 0.16
40 54 0.52
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:181521939 original size:27 final size:26
Alignment explanation
Indices: 181521895--181521946 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
181521885 CTCGCTGCAA
*
181521895 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
181521922 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
181521947 GCAGCCTCGC
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:181522000 original size:31 final size:32
Alignment explanation
Indices: 181521962--181522023 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
181521952 CTCGCTGCAA
* *
181521962 TCTGGTGGCTTCGCCAC-ATATATATATCTGT
1 TCTGGTGGCCTAGCCACAATATATATATCTGT
*
181521993 TCTGGTGGCCTAGCCACAATATCTATATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
181522024 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:181526524 original size:46 final size:45
Alignment explanation
Indices: 181526463--181526583 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 45
181526453 AGAGCTAGTG
* *
181526463 TAAGACATGTTTGGGACATGCATCGGCCT-CGAGATGTAAGCCAGTA
1 TAAGACATGTCTGGGACATGCATCGGCCTACAAGATGT--GCCAGTA
* *
181526509 TAAGACATGTCTGGGACATGCATCGG-CTACAAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTACAAGATGTGCCAGTA
* *
181526553 TAAGACCATGTCAGGGACATGGCATAGGCCT
1 TAAGA-CATGTCTGGGACAT-GCATCGGCCT
181526584 TAATTTTGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
44 10 0.15
45 15 0.23
46 38 0.58
47 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (45 bp):
TAAGACATGTCTGGGACATGCATCGGCCTACAAGATGTGCCAGTA
Found at i:181526667 original size:47 final size:46
Alignment explanation
Indices: 181526409--181526674 Score: 195
Period size: 47 Copynumber: 5.7 Consensus size: 46
181526399 TATTTGTAAT
* * *
181526409 CCAGTGTAAGACCATGTCTGGGACATGGCATTGGGA-TTGAGACAAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCA-T-CGACTTGAG-GATGAG
* * * *
181526457 CTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGA-GATGTAAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGAGGATG--AG
* * ** * *
181526503 CCAGTATAAGA-CATGTCTGGGACAT-GCATCGGCTACAAGATGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGGATGAG
* * * * * *
181526547 TCAGTGTAAGACCATGTCAGGGACATGGCATAGGCCTTAATTTTGAT-AG
1 CCAGTGTAAGACCATGTCTGGGACATGGCAT-CGACTTGA---GGATGAG
*
181526596 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGA-GGATGAG
*
181526643 CCAGTGTAAGACCATGTCTAGGACATGGCATC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC
181526675 AGCATTATAC
Statistics
Matches: 176, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
44 12 0.07
45 19 0.11
46 47 0.27
47 49 0.28
48 15 0.09
49 31 0.18
50 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGGATGAG
Found at i:181544180 original size:46 final size:46
Alignment explanation
Indices: 181544130--181544305 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
181544120 TGGTTGAGCA
181544130 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
181544176 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
181544221 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
181544269 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
181544306 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:181544286 original size:93 final size:93
Alignment explanation
Indices: 181544127--181544298 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
181544117 GGATGGTTGA
* *
181544127 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181544192 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
181544220 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181544285 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
181544299 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:181553524 original size:40 final size:40
Alignment explanation
Indices: 181553479--181553669 Score: 260
Period size: 40 Copynumber: 4.8 Consensus size: 40
181553469 TATAACACAA
*
181553479 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
* * *
181553519 GCACAAATGCCTTCGGGTCTTAGCCC-GGAATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
*
181553558 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
* * *
181553598 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTAT-AGCAACTC
* * *
181553638 GCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGGTAT
181553670 CATTCAATGC
Statistics
Matches: 135, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 36 0.27
40 97 0.72
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
Found at i:181553581 original size:79 final size:80
Alignment explanation
Indices: 181553464--181553669 Score: 310
Period size: 79 Copynumber: 2.6 Consensus size: 80
181553454 CGGAATTTAG
* *
181553464 CCGGATATAA-CACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
*
181553528 CCTTCGGGTCTTAGC
66 CCTTCGGGTCTTAAC
* *
181553543 CCGGA-ATAA-CAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAAT
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAAT
181553606 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTCTTAAC
* * *
181553622 CCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
181553670 CATTCAATGC
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
78 5 0.04
79 73 0.64
80 35 0.31
81 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
CCTTCGGGTCTTAAC
Found at i:181555877 original size:55 final size:56
Alignment explanation
Indices: 181555812--181555926 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
181555802 AGCATGGCTG
* *
181555812 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
181555868 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
181555923 CCAG
1 CCAG
181555927 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:181555889 original size:27 final size:27
Alignment explanation
Indices: 181555837--181555926 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
181555827 GTGACAGAGT
181555837 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
181555866 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
181555893 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
181555921 CACCAG
1 CACCAG
181555927 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:181556077 original size:26 final size:27
Alignment explanation
Indices: 181556035--181556090 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
181556025 TTAACCCTAG
*
181556035 GGGTATAAAGGTCA-TTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
*
181556061 GGGTATAATGGTAATTTTGCATACATA
1 GGGTATAAAGGTAATTTTGCATACATA
181556088 GGG
1 GGG
181556091 GTATTCTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 12 0.44
27 15 0.56
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (27 bp):
GGGTATAAAGGTAATTTTGCATACATA
Found at i:181557175 original size:12 final size:13
Alignment explanation
Indices: 181557156--181557188 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
181557146 GGGTTCGGCT
181557156 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
181557169 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
181557181 ATGGAGAA
1 ATGGAGAA
181557189 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:181563213 original size:19 final size:19
Alignment explanation
Indices: 181563177--181563215 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
181563167 TTTTCATCAT
* *
181563177 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
181563196 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
181563215 A
1 A
181563216 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:181563717 original size:55 final size:56
Alignment explanation
Indices: 181563652--181563767 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 56
181563642 AGCATGGCTG
* *
181563652 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
181563708 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
181563763 CCAGA
1 CCAGA
181563768 CGCTTCCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.57
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:181563729 original size:27 final size:27
Alignment explanation
Indices: 181563677--181563767 Score: 121
Period size: 28 Copynumber: 3.3 Consensus size: 27
181563667 GTGACAGAGT
181563677 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
181563706 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
181563733 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
181563761 CACCAGA
1 CACCAGA
181563768 CGCTTCCTCC
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.43
28 25 0.45
29 7 0.12
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:181563762 original size:28 final size:27
Alignment explanation
Indices: 181563677--181563767 Score: 112
Period size: 27 Copynumber: 3.3 Consensus size: 27
181563667 GTGACAGAGT
*
181563677 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* *
181563706 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
181563733 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
181563761 CACCAGA
1 CACCAGA
181563768 CGCTTCCTCC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:181563918 original size:28 final size:28
Alignment explanation
Indices: 181563871--181563935 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
181563861 AAATTAACCC
*
181563871 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
181563899 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
181563927 TAGGGGTAT
1 TAGGGGTAT
181563936 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:181570585 original size:29 final size:28
Alignment explanation
Indices: 181570551--181570653 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
181570541 TACTCAATCA
*
181570551 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
181570580 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
181570609 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
181570638 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
181570654 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:181573385 original size:46 final size:46
Alignment explanation
Indices: 181573330--181573510 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
181573320 TAGGATGGTT
181573330 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
181573376 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
181573422 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
181573469 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
181573511 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:181573491 original size:93 final size:93
Alignment explanation
Indices: 181573332--181573502 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
181573322 GGATGGTTGA
* *
181573332 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181573397 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
181573425 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
181573490 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
181573503 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:181576350 original size:70 final size:71
Alignment explanation
Indices: 181576199--181576361 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
181576189 GAGATGTATC
181576199 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
181576264 AGGACA
66 AGGACA
181576270 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
181576334 CGGACA
66 AGGACA
181576340 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
181576362 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:181583354 original size:71 final size:71
Alignment explanation
Indices: 181583266--181583429 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
181583256 GAGATGTATC
181583266 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
181583331 AGGACA
66 AGGACA
*
181583337 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
181583402 CGGACA
66 AGGACA
181583408 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
181583430 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:181597777 original size:21 final size:21
Alignment explanation
Indices: 181597752--181597800 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
181597742 AGTAACTATA
*
181597752 TTAGTTAGTACTCTGTTACAG
1 TTAGTTAATACTCTGTTACAG
* *
181597773 TTAGTTAATATTCTGTTATAG
1 TTAGTTAATACTCTGTTACAG
*
181597794 TGAGTTA
1 TTAGTTA
181597801 CATATCAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (21 bp):
TTAGTTAATACTCTGTTACAG
Found at i:181603112 original size:26 final size:26
Alignment explanation
Indices: 181603083--181603134 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
181603073 GGGGATGGAT
181603083 TGAACTCTGTTTAACATGGCCTACTC
1 TGAACTCTGTTTAACATGGCCTACTC
181603109 TGAACTCTGTTTAACATGGCCTACTC
1 TGAACTCTGTTTAACATGGCCTACTC
181603135 CACCGGCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (26 bp):
TGAACTCTGTTTAACATGGCCTACTC
Found at i:181603203 original size:5 final size:5
Alignment explanation
Indices: 181603193--181603217 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
181603183 TTCTTTTAAA
181603193 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
181603218 TAGATAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Done.