Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 147 of 292
Found at i:43716638 original size:22 final size:22
Alignment explanation
Indices: 43716604--43716661 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
43716594 CCCGTTATCG
*
43716604 ATGGCTCTGTGCCATCCTAAAT
1 ATGGCTTTGTGCCATCCTAAAT
* * * *
43716626 ATGGCTTTATGCCATCTTGACT
1 ATGGCTTTGTGCCATCCTAAAT
43716648 ATGGCTTTGTGCCA
1 ATGGCTTTGTGCCA
43716662 AACGTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (22 bp):
ATGGCTTTGTGCCATCCTAAAT
Found at i:43716783 original size:32 final size:32
Alignment explanation
Indices: 43716747--43716807 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
43716737 GTGCTAGTTA
*
43716747 TATTACCGTCA-CTGATGGCTATGTGCCAAAGT
1 TATTACAGTCATC-GATGGCTATGTGCCAAAGT
* *
43716779 TATTACAGTTATCGATGGCTTTGTGCCAA
1 TATTACAGTCATCGATGGCTATGTGCCAA
43716808 GTATTCTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (32 bp):
TATTACAGTCATCGATGGCTATGTGCCAAAGT
Found at i:43716875 original size:27 final size:26
Alignment explanation
Indices: 43716835--43716927 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 26
43716825 TTTGCCTCAT
*
43716835 TATCTGATTATGGTGACTATGCCACAAA
1 TATCT-ATTCTGGTGACTATGCCAC-AA
* *
43716863 TATCTATTCTGGTGGCTCTGCCACAA
1 TATCTATTCTGGTGACTATGCCACAA
* * **
43716889 TATCTGTATCTGGTGACTCTATCACAA
1 TATCTAT-TCTGGTGACTATGCCACAA
*
43716916 TATCTGTTCTGG
1 TATCTATTCTGG
43716928 CAGCCATACT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.23
27 39 0.68
28 5 0.09
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (26 bp):
TATCTATTCTGGTGACTATGCCACAA
Found at i:43735945 original size:27 final size:27
Alignment explanation
Indices: 43735913--43736423 Score: 647
Period size: 27 Copynumber: 19.1 Consensus size: 27
43735903 TAGTTTACCA
* * *
43735913 AATTACTGAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43735940 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43735967 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43735994 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43736021 AAATACCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43736047 AATTACTGAAATACCCCTGTAAGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
43736073 AATTAACGACATA-CCCTCTA-GATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43736098 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43736125 AATTACCGAAATACCCCTGTAGAGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** **
43736152 AATAACTAAAATACCCCTGTAATGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43736179 AATTATCGAAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
43736205 AATTACTGAAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43736232 AATTACCGAAATATCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
43736259 AATTACTGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43736286 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
43736313 AATTAGTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
43736340 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
43736367 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
43736394 AATTATCGAGATACCCTTGTGGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
43736420 AATT
1 AATT
43736424 TACCATTTTT
Statistics
Matches: 418, Mismatches: 61, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
24 3 0.01
25 17 0.04
26 65 0.16
27 333 0.80
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:43736812 original size:22 final size:22
Alignment explanation
Indices: 43736787--43736832 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
43736777 GGCTCTGTGG
43736787 CATCCTAAATATGGCTTTATGC
1 CATCCTAAATATGGCTTTATGC
* * * *
43736809 CATCTTGACTATGGCTTTGTGC
1 CATCCTAAATATGGCTTTATGC
43736831 CA
1 CA
43736833 AACGTATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (22 bp):
CATCCTAAATATGGCTTTATGC
Found at i:43736954 original size:32 final size:32
Alignment explanation
Indices: 43736918--43736978 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
43736908 GTGCTAGTTA
*
43736918 TATTACCGTCA-CTGATGGCTATGTGCCAAAGT
1 TATTACAGTCATC-GATGGCTATGTGCCAAAGT
* *
43736950 TATTACAGTTATCGATGGCTTTGTGCCAA
1 TATTACAGTCATCGATGGCTATGTGCCAA
43736979 GTATTCTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 24 0.96
33 1 0.04
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (32 bp):
TATTACAGTCATCGATGGCTATGTGCCAAAGT
Found at i:43737046 original size:27 final size:26
Alignment explanation
Indices: 43737006--43737098 Score: 87
Period size: 27 Copynumber: 3.5 Consensus size: 26
43736996 TTTGCCTCAT
*
43737006 TATCTGATTATGGTGACTATGCCACAAA
1 TATCT-ATTCTGGTGACTATGCCAC-AA
* *
43737034 TATCTATTCTGGTGGCTCTGCCACAA
1 TATCTATTCTGGTGACTATGCCACAA
* * **
43737060 TATCTGTATCTGGTGACTCTATCACAA
1 TATCTAT-TCTGGTGACTATGCCACAA
*
43737087 TATCTGTTCTGG
1 TATCTATTCTGG
43737099 CAGCCATACT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 13 0.23
27 39 0.68
28 5 0.09
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (26 bp):
TATCTATTCTGGTGACTATGCCACAA
Found at i:43745763 original size:12 final size:12
Alignment explanation
Indices: 43745746--43745771 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
43745736 TAGTTAAATG
43745746 AACTAAAAGACA
1 AACTAAAAGACA
43745758 AACTAAAAGACA
1 AACTAAAAGACA
43745770 AA
1 AA
43745772 ATTTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.15, G:0.08, T:0.08
Consensus pattern (12 bp):
AACTAAAAGACA
Found at i:43746505 original size:18 final size:18
Alignment explanation
Indices: 43746482--43746516 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43746472 TTAATTTGGC
43746482 TATGATGAAT-TATATGTT
1 TATGAT-AATATATATGTT
43746500 TATGATAATATATATGT
1 TATGATAATATATATGT
43746517 GATAGTAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (18 bp):
TATGATAATATATATGTT
Found at i:43753067 original size:18 final size:18
Alignment explanation
Indices: 43753029--43753067 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
43753019 GCCGTGAGGG
*
43753029 CCACACGGGCGTGTGGGC
1 CCACACGGGCGTGTGAGC
* *
43753047 CCACATGGGCGTGTGATC
1 CCACACGGGCGTGTGAGC
43753065 CCA
1 CCA
43753068 TTTTACTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.36, T:0.15
Consensus pattern (18 bp):
CCACACGGGCGTGTGAGC
Found at i:43754292 original size:25 final size:25
Alignment explanation
Indices: 43754264--43754327 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
43754254 CTGTTATTGA
* *
43754264 TAGTATATCCTGAAACTACTATAGG
1 TAGTACATACTGAAACTACTATAGG
* *
43754289 TAGTACATACTGAGACTACTATAGA
1 TAGTACATACTGAAACTACTATAGG
*
43754314 TAG-ACTTACTGAAA
1 TAGTACATACTGAAA
43754328 ACACCCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.27
25 24 0.73
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (25 bp):
TAGTACATACTGAAACTACTATAGG
Found at i:43756748 original size:19 final size:20
Alignment explanation
Indices: 43756724--43756761 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43756714 GGTACCACCA
43756724 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
43756743 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
43756762 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:43757146 original size:46 final size:46
Alignment explanation
Indices: 43756986--43757158 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
43756976 AACCCGCCCC
** * * * *
43756986 TAAGTGAACTCAAACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * * * *
43757032 TAAATGAACTCGTACTCAACTGAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
43757080 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
43757125 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
43757159 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 55 0.55
47 27 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:43757615 original size:30 final size:30
Alignment explanation
Indices: 43757581--43757637 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
43757571 ATTTAATACG
43757581 AACTTTAAAAAAATTACACTTTTGCCCTTA
1 AACTTTAAAAAAATTACACTTTTGCCCTTA
*** *
43757611 AACTTTTGCATAATTACACTTTTGCCC
1 AACTTTAAAAAAATTACACTTTTGCCC
43757638 CTAGGCTCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCTTA
Found at i:43761152 original size:18 final size:18
Alignment explanation
Indices: 43761129--43761168 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
43761119 TAGTTGGGAG
43761129 GAGTATTTTCCATTGGCA
1 GAGTATTTTCCATTGGCA
43761147 GAGTATTTTCCATTGGCA
1 GAGTATTTTCCATTGGCA
43761165 GAGT
1 GAGT
43761169 TCGCTTACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.38
Consensus pattern (18 bp):
GAGTATTTTCCATTGGCA
Found at i:43773916 original size:40 final size:39
Alignment explanation
Indices: 43773871--43774078 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
43773861 CGGAATACAA
*
43773871 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
43773911 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
43773951 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
43773991 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
43774031 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
43774071 CCGGATAT
1 CCGGATAT
43774079 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:43774011 original size:80 final size:81
Alignment explanation
Indices: 43773871--43774076 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
43773861 CGGAATACAA
* * *
43773871 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
43773935 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
43773951 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
43774014 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
43774031 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
43774077 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:43781927 original size:40 final size:39
Alignment explanation
Indices: 43781882--43782089 Score: 227
Period size: 40 Copynumber: 5.2 Consensus size: 39
43781872 CGGAATACAA
*
43781882 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *
43781922 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
43781962 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
43782002 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
43782042 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
43782082 CCGGATAT
1 CCGGATAT
43782090 CATTCAATTG
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 1 0.01
40 143 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:43782022 original size:80 final size:80
Alignment explanation
Indices: 43781882--43782089 Score: 256
Period size: 80 Copynumber: 2.6 Consensus size: 80
43781872 CGGAATACAA
* * *
43781882 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
*
43781947 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAAC
* * * *
43781962 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAAT
*
43782026 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
43782042 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
43782090 CATTCAATTG
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 108 0.99
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATG
CCTTCGGGTATTAAC
Found at i:43784140 original size:39 final size:39
Alignment explanation
Indices: 43784045--43784228 Score: 239
Period size: 39 Copynumber: 4.7 Consensus size: 39
43784035 TAATTGAGGA
* * * *
43784045 TTATAACCGGGCTAAGACCTGCAGGCCTT-GTG-TGAGAT-
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTG-G-TG
43784083 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
* * * *
43784122 TTATATCCAGGCTTAGTCCTGAAGGTATTGGTGCTGGTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
*
43784161 TTATGTCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
*
43784200 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCTGAAGGCATT
43784229 TGTGTTGGAA
Statistics
Matches: 128, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
38 26 0.20
39 100 0.78
40 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
Found at i:43792108 original size:39 final size:39
Alignment explanation
Indices: 43792058--43792242 Score: 280
Period size: 39 Copynumber: 4.7 Consensus size: 39
43792048 TGTGTGAGAT
*
43792058 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
43792097 TTATATCCGGGCTAAGTCTCGAAGGTATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
43792136 TTATGTCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
43792175 TTATATCCGGGCTAAGTTCCGAAGGTATTCGTGCAGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
43792214 TTATATCTGGGCTAGGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
43792243 TGTGTTGGAA
Statistics
Matches: 130, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 130 1.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:43797542 original size:13 final size:13
Alignment explanation
Indices: 43797524--43797557 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
43797514 ACCCAATAGG
43797524 CTTTAATTTAATA
1 CTTTAATTTAATA
43797537 CTTTAATTTAATA
1 CTTTAATTTAATA
43797550 CTTTAATT
1 CTTTAATT
43797558 AACCTCCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (13 bp):
CTTTAATTTAATA
Found at i:43798143 original size:11 final size:11
Alignment explanation
Indices: 43798127--43798168 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
43798117 TAGCTATTTA
43798127 TAATAAAATAT
1 TAATAAAATAT
43798138 TAATAAAATAT
1 TAATAAAATAT
*
43798149 CTCATTAAAATAT
1 -T-AATAAAATAT
43798162 TAATAAA
1 TAATAAA
43798169 GTAATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:43801903 original size:109 final size:110
Alignment explanation
Indices: 43801711--43801911 Score: 307
Period size: 109 Copynumber: 1.8 Consensus size: 110
43801701 TGGTGAGTGA
** * * *
43801711 GTGAAATGGAGAACAAATGCCTCTTTATTTATACTAGTGAGGAGCTCTTTGAGTTTGATATTTTA
1 GTGAAATGGAGAACAAATGCCTCACTATTTAGACTAGTGAGGAACCCTTTGAGTTTGATATTTTA
43801776 AGCATGATAATCCCCCTTTTTTCTCTCAAACATAGTCGACCCCTT
66 AGCATGATAATCCCCCTTTTTTCTCTCAAACATAGTCGACCCCTT
* *
43801821 GTGAAATGGAGAGCAAATGCCTCACTATTT-GACTAGTGAGGAACCCTTTGAGTTTGTTAATTTT
1 GTGAAATGGAGAACAAATGCCTCACTATTTAGACTAGTGAGGAACCCTTTGAGTTTGAT-ATTTT
*
43801885 -AGCATGATAATCCCCCTTTTTTTTCTC
65 AAGCATGATAATCCCCCTTTTTTCTCTC
43801912 TCATGCATGG
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
109 50 0.61
110 32 0.39
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.37
Consensus pattern (110 bp):
GTGAAATGGAGAACAAATGCCTCACTATTTAGACTAGTGAGGAACCCTTTGAGTTTGATATTTTA
AGCATGATAATCCCCCTTTTTTCTCTCAAACATAGTCGACCCCTT
Found at i:43804897 original size:46 final size:46
Alignment explanation
Indices: 43804841--43805016 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
43804831 TATTTGGGCA
*
43804841 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
43804887 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
43804934 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
43804980 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43805017 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.59
47 33 0.30
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:43804996 original size:93 final size:93
Alignment explanation
Indices: 43804837--43805008 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
43804827 GGGATATTTG
* * *
43804837 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43804902 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
43804930 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43804995 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
43805009 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:43806302 original size:24 final size:24
Alignment explanation
Indices: 43806270--43806318 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
43806260 TGAATTAAGT
43806270 CCGTTAACACCTCGTGTTCGACTC
1 CCGTTAACACCTCGTGTTCGACTC
43806294 CCGTTAACACCTCGTGTTCGACTC
1 CCGTTAACACCTCGTGTTCGACTC
43806318 C
1 C
43806319 GGAAACGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.39, G:0.16, T:0.29
Consensus pattern (24 bp):
CCGTTAACACCTCGTGTTCGACTC
Found at i:43808033 original size:15 final size:15
Alignment explanation
Indices: 43807994--43808072 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
43807984 GTATCTTGGG
*
43807994 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
43808009 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
43808024 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
43808038 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
43808053 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
43808067 TTTCTT
1 TTTCTT
43808073 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:43808057 original size:29 final size:29
Alignment explanation
Indices: 43807985--43808071 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
43807975 CATAGTATCG
* * * *
43807985 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
43808015 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
43808044 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
43808072 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:43810607 original size:46 final size:46
Alignment explanation
Indices: 43810445--43810616 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
43810435 ATTTGGGCAT
*
43810445 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A--T
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
43810488 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
43810533 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
43810581 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43810617 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
40 5 0.05
42 2 0.02
43 28 0.26
46 35 0.32
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:43819429 original size:20 final size:20
Alignment explanation
Indices: 43819392--43819429 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43819382 TGTTACAATG
*
43819392 TGTGTGAGCTTTACATATTT
1 TGTGTGAGCTATACATATTT
43819412 TGTGTGAGCCTATA-ATAT
1 TGTGTGAG-CTATACATAT
43819430 GCAAACCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.45
Consensus pattern (20 bp):
TGTGTGAGCTATACATATTT
Found at i:43819479 original size:22 final size:22
Alignment explanation
Indices: 43819433--43819479 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
43819423 ATAATATGCA
* **
43819433 AACCTAATAAAAGTATTGTGTG
1 AACCCAATAAAAGTATTGTACG
43819455 AACCCAATAAAAGTATTGTACG
1 AACCCAATAAAAGTATTGTACG
43819477 AAC
1 AAC
43819480 TTTATAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.26
Consensus pattern (22 bp):
AACCCAATAAAAGTATTGTACG
Found at i:43819690 original size:37 final size:37
Alignment explanation
Indices: 43819598--43819690 Score: 87
Period size: 37 Copynumber: 2.5 Consensus size: 37
43819588 TCCTGCTTTC
* * ***
43819598 AAATGTTTTATGCGAGCTTAATTGTTTCATGTGAGCTT
1 AAATGTTTTATGCGAGC-CAAATGTTTCATACAAGCTT
* * ** *
43819636 AACTATTTTATAAGAGCCAAATGTTTTATACAAGCTT
1 AAATGTTTTATGCGAGCCAAATGTTTCATACAAGCTT
43819673 AAATGTTTTATGCGAGCC
1 AAATGTTTTATGCGAGCC
43819691 TAAAAGTACT
Statistics
Matches: 41, Mismatches: 14, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
37 28 0.68
38 13 0.32
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (37 bp):
AAATGTTTTATGCGAGCCAAATGTTTCATACAAGCTT
Found at i:43819694 original size:19 final size:19
Alignment explanation
Indices: 43819598--43819694 Score: 88
Period size: 19 Copynumber: 5.2 Consensus size: 19
43819588 TCCTGCTTTC
43819598 AAATGTTTTATGCGAGCTT
1 AAATGTTTTATGCGAGCTT
* * *
43819617 AATTGTTTCATGTGAGCTT
1 AAATGTTTTATGCGAGCTT
* * ** *
43819636 AACTATTTTATAAGAGC-C
1 AAATGTTTTATGCGAGCTT
* *
43819654 AAATGTTTTATACAAGCTT
1 AAATGTTTTATGCGAGCTT
*
43819673 AAATGTTTTATGCGAGCCT
1 AAATGTTTTATGCGAGCTT
43819692 AAA
1 AAA
43819695 AGTACTATGC
Statistics
Matches: 60, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
18 13 0.22
19 47 0.78
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (19 bp):
AAATGTTTTATGCGAGCTT
Found at i:43823586 original size:11 final size:11
Alignment explanation
Indices: 43823570--43823594 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43823560 CTGAGGTTGA
43823570 AATATTATTTT
1 AATATTATTTT
43823581 AATATTATTTT
1 AATATTATTTT
43823592 AAT
1 AAT
43823595 TGTTTATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
AATATTATTTT
Found at i:43825486 original size:40 final size:40
Alignment explanation
Indices: 43825441--43825607 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
43825431 CGGAATATAA
43825441 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43825481 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
43825521 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43825561 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43825600 CCGGATAT
1 CCGGATAT
43825608 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43825591 original size:80 final size:79
Alignment explanation
Indices: 43825457--43825607 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
43825447 ATAATCACGT
*
43825457 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
43825522 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
43825537 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
43825600 CCGGATAT
64 CCGGATAT
43825608 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:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:43826456 original size:17 final size:19
Alignment explanation
Indices: 43826433--43826478 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43826423 AAGAAGCATG
43826433 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43826451 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43826469 AATCATGCTC
1 AATCATGCTC
43826479 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43834443 original size:28 final size:28
Alignment explanation
Indices: 43834378--43834478 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43834368 ATAGTGAATC
*
43834378 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
43834407 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43834435 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
43834465 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43834479 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:43842395 original size:28 final size:28
Alignment explanation
Indices: 43842330--43842430 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
43842320 ATAGTGAATC
*
43842330 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
43842359 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43842387 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
43842417 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43842431 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:43845382 original size:40 final size:39
Alignment explanation
Indices: 43845327--43845534 Score: 247
Period size: 40 Copynumber: 5.2 Consensus size: 39
43845317 TGAATGATAC
* *
43845327 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
43845367 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
43845407 CCGGGTTAAGACCCGAAGGCATTTGTACGAGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
* * * *
43845447 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * * *
43845487 CCGGGTTAAGACCCGAAGGCAATTGTGATTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
43845527 CC-GGCTAA
1 CCGGGCTAA
43845535 ATTCCGAAGA
Statistics
Matches: 147, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 7 0.05
40 137 0.93
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:43845460 original size:80 final size:79
Alignment explanation
Indices: 43845323--43845534 Score: 284
Period size: 80 Copynumber: 2.7 Consensus size: 79
43845313 CATATGAATG
* * * * *
43845323 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGT-CGAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
* * *
43845388 TTTGTGCTAGTTGTT
65 TTTGTACGAGTTGCT
*
43845403 ATATCCGGGTTAAGACCCGAAGGCATTTGTACGAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGT-CGAGTGGTTATATCCGGGCTAAGACCCGAAGGCA
43845468 TTTGTACGAGTTGCT
65 TTTGTACGAGTTGCT
*
43845483 ATACCCGGGTTAAGACCCGAAGGCAATTGT-GATTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTCGA--GTGGTTATATCCGGGCTAA
43845535 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.02
79 6 0.05
80 110 0.93
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTCGAGTGGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTACGAGTTGCT
Found at i:43846788 original size:25 final size:25
Alignment explanation
Indices: 43846759--43846806 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43846749 TTATAATATG
* * *
43846759 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43846784 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43846807 GTTTATACAT
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:43846868 original size:20 final size:20
Alignment explanation
Indices: 43846843--43846933 Score: 155
Period size: 20 Copynumber: 4.5 Consensus size: 20
43846833 ATTTTGATAA
*
43846843 ACATGATATGTATGGTATGC
1 ACATGATATGTATGATATGC
43846863 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43846883 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
43846903 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43846923 ACATGAGATGT
1 ACATGATATGT
43846934 TCATAAATGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.34, C:0.11, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43846877 original size:9 final size:9
Alignment explanation
Indices: 43846845--43846921 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
43846835 TTTGATAAAC
43846845 ATGATATGT
1 ATGATATGT
* *
43846854 ATGGTATGCAC
1 ATGATATG--T
43846865 ATGATATGT
1 ATGATATGT
*
43846874 ATGATATGCAC
1 ATGATATG--T
*
43846885 ATGACATGT
1 ATGATATGT
*
43846894 ATGATATGCAC
1 ATGATATG--T
43846905 ATGATATGT
1 ATGATATGT
43846914 ATGATATG
1 ATGATATG
43846922 CACATGAGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
9 30 0.58
11 22 0.42
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:43847082 original size:24 final size:24
Alignment explanation
Indices: 43846979--43847096 Score: 172
Period size: 23 Copynumber: 5.0 Consensus size: 24
43846969 GAGGAAGTGA
43846979 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
43847003 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
43847026 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
43847049 AAAAAGGGCTT-TGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTATT
*
43847073 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43847097 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 1, Indels: 9
0.90 0.01 0.09
Matches are distributed among these distances:
23 52 0.59
24 19 0.22
25 17 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:43848574 original size:228 final size:228
Alignment explanation
Indices: 43848177--43848602 Score: 825
Period size: 228 Copynumber: 1.9 Consensus size: 228
43848167 ATACATCATG
43848177 GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
1 GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
*
43848242 TCACAAAGCATAAATTTCAGCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
66 TCACAAAGCATAAATTTCACCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
*
43848307 TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAATTCTATAGTTTTTCTACCCA
131 TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
43848372 TGACAATTTAACAATATATACTCAATATTCAAA
196 TGACAATTTAACAATATATACTCAATATTCAAA
43848405 GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
1 GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
*
43848470 TCACAAAGCATAAATTTCTCCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
66 TCACAAAGCATAAATTTCACCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
43848535 TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
131 TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
43848600 TGA
196 TGA
43848603 TCGAGACCTC
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 195 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (228 bp):
GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
TCACAAAGCATAAATTTCACCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
TGACAATTTAACAATATATACTCAATATTCAAA
Found at i:43852192 original size:55 final size:55
Alignment explanation
Indices: 43852103--43852217 Score: 212
Period size: 55 Copynumber: 2.1 Consensus size: 55
43852093 ACATTCATTC
*
43852103 ATCACAATTCAATATCAAATGAATAATAATTTAATTCAAACAAGCTTATTTGTAT
1 ATCAAAATTCAATATCAAATGAATAATAATTTAATTCAAACAAGCTTATTTGTAT
*
43852158 ATCAAAATTCAATATCAAATGATTAATAATTTAATTCAAACAAGCTTATTTGTAT
1 ATCAAAATTCAATATCAAATGAATAATAATTTAATTCAAACAAGCTTATTTGTAT
43852213 ATCAA
1 ATCAA
43852218 CTTACTTCAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (55 bp):
ATCAAAATTCAATATCAAATGAATAATAATTTAATTCAAACAAGCTTATTTGTAT
Found at i:43852196 original size:27 final size:27
Alignment explanation
Indices: 43852108--43852196 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
43852098 CATTCATCAC
*
43852108 AATTCAATATCAAATGAATAATAATTT
1 AATTCAATATCAAATGATTAATAATTT
* * ** **
43852135 AATTCAA-A-CAAGCTTATTTGTATATCAA
1 AATTCAATATCAA-ATGATTAATA-AT-TT
43852163 AATTCAATATCAAATGATTAATAATTT
1 AATTCAATATCAAATGATTAATAATTT
43852190 AATTCAA
1 AATTCAA
43852197 ACAAGCTTAT
Statistics
Matches: 44, Mismatches: 13, Indels: 10
0.66 0.19 0.15
Matches are distributed among these distances:
25 3 0.07
26 6 0.14
27 16 0.36
28 9 0.20
29 7 0.16
30 3 0.07
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.37
Consensus pattern (27 bp):
AATTCAATATCAAATGATTAATAATTT
Found at i:43858641 original size:28 final size:29
Alignment explanation
Indices: 43858610--43858674 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
43858600 AAAGTAATTT
* * *
43858610 TTGATAAAAATTTCAATT-AGGGATTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
* *
43858638 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATTGAGGGATTAAA
*
43858667 TTGTGAAA
1 TTGAGAAA
43858675 TAAATGAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 14 0.47
29 16 0.53
ACGTcount: A:0.43, C:0.02, G:0.23, T:0.32
Consensus pattern (29 bp):
TTGAGAAAAATGTAAATTGAGGGATTAAA
Found at i:43861236 original size:49 final size:49
Alignment explanation
Indices: 43861110--43861763 Score: 1073
Period size: 49 Copynumber: 13.3 Consensus size: 49
43861100 CCCTTCGGGA
* * * * * * *
43861110 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43861157 CCTATCACATATAT--ACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
43861204 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43861253 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43861302 CTTATCACATATATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
43861353 CTTATCACATATATGCACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43861402 CTTATCACATATATACACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACACTTTCACATTCATCACATCGGCCATTAGGC
*
43861453 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43861504 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
43861553 CTTATCACATATATACACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43861602 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43861651 CTTATTACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43861700 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
43861749 CTTATCACATATATA
1 CTTATCACATATATA
43861764 TATCTCATAC
Statistics
Matches: 574, Mismatches: 23, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
47 50 0.09
48 1 0.00
49 386 0.67
51 131 0.23
53 6 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43867590 original size:14 final size:16
Alignment explanation
Indices: 43867571--43867607 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
43867561 TTATTATGTG
43867571 TGAATTTTTT-TG-TT
1 TGAATTTTTTGTGCTT
43867585 TGAATTTTTTGTGCTT
1 TGAATTTTTTGTGCTT
43867601 T-AATTTT
1 TGAATTTT
43867608 GTCATTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.48
15 8 0.38
16 3 0.14
ACGTcount: A:0.16, C:0.03, G:0.14, T:0.68
Consensus pattern (16 bp):
TGAATTTTTTGTGCTT
Found at i:43880027 original size:23 final size:23
Alignment explanation
Indices: 43879999--43880048 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
43879989 TTACGTGAAG
* *
43879999 TCAGTTTTCTGGGTCATGTTGTA
1 TCAGTTTTCTGGGCCATATTGTA
43880022 TCAGTTTTCTGGGCCATATTGTA
1 TCAGTTTTCTGGGCCATATTGTA
43880045 TCAG
1 TCAG
43880049 CATCGGGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (23 bp):
TCAGTTTTCTGGGCCATATTGTA
Found at i:43885102 original size:27 final size:26
Alignment explanation
Indices: 43885062--43885167 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 26
43885052 AGGAAGCGTC
* *
43885062 CTGGTGTCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
43885089 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
43885116 CTGGTGGTTCTGCCACGATTACCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
43885144 CTGGTGACTCTGTCACATTATCTG
1 CTGGTGGCTCTGCCACATTATCTG
43885168 TTTTGGCAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
26 2 0.03
27 48 0.73
28 16 0.24
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:43889642 original size:66 final size:68
Alignment explanation
Indices: 43889564--43889750 Score: 263
Period size: 71 Copynumber: 2.7 Consensus size: 68
43889554 TAGTACCACT
*
43889564 CATGCGACCCAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
1 CATGCGACCCAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAAT
43889626 CACG
65 CACG
*
43889630 CATGCGACCCAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCCAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGA
43889695 ATCACG
63 ATCACG
*
43889701 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCCAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
43889751 GATACATCTC
Statistics
Matches: 112, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
66 13 0.12
67 6 0.05
68 1 0.01
69 1 0.01
71 91 0.81
ACGTcount: A:0.19, C:0.29, G:0.19, T:0.33
Consensus pattern (68 bp):
CATGCGACCCAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATC
ACG
Found at i:43889675 original size:71 final size:71
Alignment explanation
Indices: 43889587--43889750 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
43889577 CGATTTGTCT
43889587 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
43889652 CTTTCA
66 CTTTCA
* *
43889658 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
43889723 CTTTCA
66 CTTTCA
43889729 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
43889751 GATACATCTC
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:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:43889788 original size:71 final size:70
Alignment explanation
Indices: 43889587--43889784 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
43889577 CGATTTGTCT
* * * * *
43889587 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43889652 CTTTCA
65 CTTTCA
* * * *
43889658 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
43889723 CTTTCA
65 CTTTCA
* *
43889729 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
43889785 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:43893640 original size:14 final size:14
Alignment explanation
Indices: 43893618--43893662 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
43893608 TTAAAGAAGC
43893618 AACTCATTAAATTA
1 AACTCATTAAATTA
*
43893632 AATTCATTAAA-TA
1 AACTCATTAAATTA
*
43893645 AACTCATTTAATTA
1 AACTCATTAAATTA
43893659 AACT
1 AACT
43893663 AAGATGAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:43897909 original size:40 final size:40
Alignment explanation
Indices: 43897843--43898009 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43897833 AAATTGAATG
* * *
43897843 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43897882 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
43897922 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43897962 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43898002 ATATCCGG
1 ATATCCGG
43898010 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:43905832 original size:40 final size:40
Alignment explanation
Indices: 43905766--43905932 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43905756 AAATTGAATG
* * *
43905766 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43905805 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
43905845 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43905885 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43905925 ATATCCGG
1 ATATCCGG
43905933 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:43907342 original size:31 final size:31
Alignment explanation
Indices: 43907304--43907368 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
43907294 CCTTTTCATG
43907304 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
43907335 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
43907366 TTT
1 TTT
43907369 ACTGTAAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:43907605 original size:24 final size:24
Alignment explanation
Indices: 43907559--43907677 Score: 145
Period size: 24 Copynumber: 5.0 Consensus size: 24
43907549 GCTTTATCAT
*
43907559 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
43907584 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
*
43907608 ATAACTGGGGCATAAGCCCTTCT-
1 ATAACTGGGGCATAAGCCCTTTTA
**
43907631 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTA
43907655 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43907678 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
23 23 0.28
24 47 0.57
25 13 0.16
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43907638 original size:47 final size:47
Alignment explanation
Indices: 43907584--43907675 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
43907574 GCCTCTTTTA
43907584 ATAACTGGGGCCA-AAGCCCTTTCAATAACTGGGGCATAAGCCCTTCT
1 ATAACTGGGG-CATAAGCCCTTTCAATAACTGGGGCATAAGCCCTTCT
*
43907631 ATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATAAGCCCTT
1 ATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCCCTT
43907676 TTTCACTTCC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
46 2 0.05
47 41 0.95
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAAGCCCTTCT
Found at i:43907753 original size:20 final size:20
Alignment explanation
Indices: 43907728--43907787 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
43907718 TATGATTACC
43907728 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
43907748 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
43907768 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
43907788 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:43907758 original size:11 final size:11
Alignment explanation
Indices: 43907728--43907782 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
43907718 TATGATTACC
43907728 TCATGTGCATA
1 TCATGTGCATA
*
43907739 TCA--TACATA
1 TCATGTGCATA
43907748 TCATGTGCATA
1 TCATGTGCATA
* *
43907759 TCA--TACATT
1 TCATGTGCATA
43907768 TCATGTGCATA
1 TCATGTGCATA
43907779 TCAT
1 TCAT
43907783 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:43907858 original size:25 final size:25
Alignment explanation
Indices: 43907830--43907877 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43907820 ATACATAAAC
* * *
43907830 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43907855 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43907878 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43913864 original size:120 final size:121
Alignment explanation
Indices: 43913647--43913864 Score: 314
Period size: 120 Copynumber: 1.8 Consensus size: 121
43913637 GAATTATGTG
* * * * * * *
43913647 AAATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCGGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATACCGGG
* **
43913712 CTAAGTCCCGAAGGCGATTATGCTAGTGATTATTTGTGTTTGAGCCTTAGTAACGA
66 CTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
43913768 AAATGAAA-ATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATA-CCGG
*
43913832 GCTAAGTCCCGAAGAC-ATTATGCTGGAAATTAT
65 GCTAAGTCCCGAAGACGATTATGCTAGAAATTAT
43913865 ATCCGGGTTA
Statistics
Matches: 85, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
120 58 0.68
121 27 0.32
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (121 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATACCGGG
CTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
Found at i:43913988 original size:40 final size:40
Alignment explanation
Indices: 43913861--43913990 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
43913851 ATGCTGGAAA
* *
43913861 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
43913901 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
43913941 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
43913981 TTATATCCGG
1 TTATATCCGG
43913991 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:43913989 original size:80 final size:79
Alignment explanation
Indices: 43913824--43913990 Score: 196
Period size: 80 Copynumber: 2.1 Consensus size: 79
43913814 AAATTGAATG
* *
43913824 ATATCCGGGCTAAGTCCCGAAGACATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGACCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
43913889 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * ** *
43913903 ACATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTCATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGACATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
43913967 -ATTCGTGC-ACGTGGTT
64 AATT-GTGCTA-GTGGCT
43913983 ATATCCGG
1 ATATCCGG
43913991 TTGTATTCCG
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 29 0.39
80 45 0.61
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGACATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:43921889 original size:121 final size:121
Alignment explanation
Indices: 43921671--43921889 Score: 305
Period size: 121 Copynumber: 1.8 Consensus size: 121
43921661 GAATTATGTG
* * * * * * * *
43921671 AATGAAATATGGATGTGTATTGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGGG
1 AATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATACCCGGG
* **
43921736 CTAAGTCCCGAAGGCGATTATGCTAGTGATTATTTGTGTTTGAGCCTTAGTAACGA
66 CTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
*
43921792 AATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATATCCGGG
1 AATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATACCCGGG
*
43921857 CTAAGTCCCGAAGAC-ATTTATGCTGGAAATTAT
66 CTAAGTCCCGAAGACGA-TTATGCTAGAAATTAT
43921890 ATCCGGTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
120 1 0.01
121 83 0.99
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.35
Consensus pattern (121 bp):
AATGAAACATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATACCCGGG
CTAAGTCCCGAAGACGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
Found at i:43922011 original size:40 final size:40
Alignment explanation
Indices: 43921848--43922013 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
43921838 AAATTGAATG
* * * ***
43921848 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGGTT
* * * *
43921888 ATATCC-GGTTAAGA-CCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * *
43921926 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
*
43921966 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGGTT
43922006 ATATCCGG
1 ATATCCGG
43922014 TTGTATTCCG
Statistics
Matches: 100, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
38 20 0.20
39 14 0.14
40 66 0.66
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
Found at i:43925208 original size:19 final size:19
Alignment explanation
Indices: 43925186--43925230 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
43925176 GCATAGTAAT
43925186 TTTAGGCTAGCATAAAACA
1 TTTAGGCTAGCATAAAACA
* * *
43925205 TTTAAGCTTGTATAAAACA
1 TTTAGGCTAGCATAAAACA
43925224 TTT-GGCT
1 TTTAGGCT
43925231 CTTATAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.36
Consensus pattern (19 bp):
TTTAGGCTAGCATAAAACA
Found at i:43925271 original size:19 final size:19
Alignment explanation
Indices: 43925243--43925279 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
43925233 TATAAAATAG
* *
43925243 TTAAGTTCACATGAAACAA
1 TTAAGCTCACATAAAACAA
43925262 TTAAGCTCACATAAAACA
1 TTAAGCTCACATAAAACA
43925280 TTTGAAAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.19, G:0.08, T:0.24
Consensus pattern (19 bp):
TTAAGCTCACATAAAACAA
Found at i:43925418 original size:22 final size:22
Alignment explanation
Indices: 43925390--43925441 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
43925380 AAGCTCACTC
**
43925390 ACTTTTATAGAGTTCGTACAAT
1 ACTTTTATAGAGTTCACACAAT
* *
43925412 ACTTTTATTGGGTTCACACAAT
1 ACTTTTATAGAGTTCACACAAT
43925434 ACTTTTAT
1 ACTTTTAT
43925442 TAGGATTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (22 bp):
ACTTTTATAGAGTTCACACAAT
Found at i:43933069 original size:22 final size:22
Alignment explanation
Indices: 43933027--43933072 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
43933017 TAAAATCGTC
* *
43933027 AAATTTAAATTTAGTATAATAA
1 AAATTTAAAATTAATATAATAA
43933049 AAATCTTAAAATTAATA-AATAA
1 AAAT-TTAAAATTAATATAATAA
43933071 AA
1 AA
43933073 TTATTTTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATTTAAAATTAATATAATAA
Found at i:43935381 original size:11 final size:11
Alignment explanation
Indices: 43935345--43935386 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
43935335 AAAATATTAC
43935345 TTTATTAATAT
1 TTTATTAATAT
*
43935356 TTTAATGAGATAT
1 TTT-ATTA-ATAT
43935369 TTTATTAATAT
1 TTTATTAATAT
43935380 TTTATTA
1 TTTATTA
43935387 TAAATAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:43937855 original size:19 final size:19
Alignment explanation
Indices: 43937831--43937868 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
43937821 GTTAGAATCG
43937831 AGATTAAATTGAAAAATTA
1 AGATTAAATTGAAAAATTA
43937850 AGATTAAATTGAAAAATTA
1 AGATTAAATTGAAAAATTA
43937869 CCTAGCTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (19 bp):
AGATTAAATTGAAAAATTA
Found at i:43941330 original size:39 final size:39
Alignment explanation
Indices: 43941276--43941456 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
43941266 AACACAAATG
*
43941276 CCTTCGGGATTTAGCCCGGATATAACACCTGCACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCTGCACGAATA
** *
43941315 CCTTCGGGACTTAGCCCGGATATAACACCAACACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCTGCACGAATA
* *
43941354 CCTTCGGGACTTAGCCCAGACATAACACCAT-CACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACC-TGCACGAATA
* * * *
43941393 CCTTCGAGACTTAGCCTGGATATAACA-CTAGTACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCT-GCACGAATA
* *
43941432 CCTTCAGGACGTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
43941457 ATCTCACACA
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 119 0.98
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCTGCACGAATA
Found at i:43941393 original size:78 final size:78
Alignment explanation
Indices: 43941264--43941448 Score: 255
Period size: 78 Copynumber: 2.4 Consensus size: 78
43941254 TCACACATTT
* * * * *
43941264 CCAACACAAATGCCTTCGGGATTTAGCCCGGATATAACACCTGCACGAATACCTTCGGGACTTAG
1 CCAACACGAATGCCTTCGGGACTTAGCCCAGACATAACACCTGCACGAATACCTTCGAGACTTAG
43941329 CCCGGATATAACA
66 CCCGGATATAACA
43941342 CCAACACGAATGCCTTCGGGACTTAGCCCAGACATAACACCAT-CACGAATACCTTCGAGACTTA
1 CCAACACGAATGCCTTCGGGACTTAGCCCAGACATAACACC-TGCACGAATACCTTCGAGACTTA
*
43941406 GCCTGGATATAACA
65 GCCCGGATATAACA
* ** * *
43941420 CTAGTACGAATGCCTTCAGGACGTAGCCC
1 CCAACACGAATGCCTTCGGGACTTAGCCC
43941449 GGATATAAAT
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
78 94 0.99
79 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (78 bp):
CCAACACGAATGCCTTCGGGACTTAGCCCAGACATAACACCTGCACGAATACCTTCGAGACTTAG
CCCGGATATAACA
Found at i:43945210 original size:46 final size:46
Alignment explanation
Indices: 43945160--43945335 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
43945150 TATTTGGGCA
43945160 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43945206 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43945251 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
43945299 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43945336 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43945315 original size:93 final size:93
Alignment explanation
Indices: 43945156--43945327 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
43945146 TGGATATTTG
* *
43945156 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43945221 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
43945249 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
43945314 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
43945328 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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:43948301 original size:15 final size:15
Alignment explanation
Indices: 43948281--43948349 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
43948271 GTATCTTGGG
43948281 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
43948296 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
43948311 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
43948326 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
43948341 TTTCTTTAT
1 TTTCTTTAT
43948350 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:43948350 original size:30 final size:30
Alignment explanation
Indices: 43948272--43948359 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
43948262 CATAGTATCG
* * * *
43948272 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
43948302 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
43948332 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
43948360 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:43950823 original size:46 final size:47
Alignment explanation
Indices: 43950653--43950832 Score: 208
Period size: 46 Copynumber: 3.8 Consensus size: 47
43950643 ATTTGGGCAT
*
43950653 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAACTCGAGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AA--C-AGC
* * *
43950704 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-A-GC
43950749 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-GC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACAGC
*
43950797 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
43950833 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 9, Indels: 19
0.80 0.06 0.13
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 37 0.33
47 28 0.25
48 8 0.07
50 6 0.05
51 31 0.27
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACAGC
Found at i:43956697 original size:28 final size:28
Alignment explanation
Indices: 43956632--43956731 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
43956622 ATAGTGAATC
*
43956632 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
43956661 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43956689 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
43956719 CGCACACTTAGTG
1 CGCACACTTAGTG
43956732 ACATACCCTT
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.37
29 18 0.29
30 18 0.29
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43956782 original size:29 final size:29
Alignment explanation
Indices: 43956757--43956850 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
43956747 TCTCACACCC
* *
43956757 AGTGCCGTATATTTCCAGCATCCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
43956786 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
43956815 AGTGCCATATATTTTCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
43956844 AGTGCCA
1 AGTGCCA
43956851 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:43956783 original size:58 final size:58
Alignment explanation
Indices: 43956721--43956847 Score: 139
Period size: 58 Copynumber: 2.2 Consensus size: 58
43956711 TTTAAACCCG
* * * *
43956721 CACACTTAGTGACATACCCTTCGAGC-TCTCACACCCAGTGCCGTATATTTCCAGCATC
1 CACACTTAGTGACATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCATC
* * * ** * *
43956779 CACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTTCAGCATG
1 CACACTTAGTGACATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCATC
43956837 CACACTTAGTG
1 CACACTTAGTG
43956848 CCAATCTCGT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 56 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (58 bp):
CACACTTAGTGACATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCATC
Found at i:43960783 original size:39 final size:39
Alignment explanation
Indices: 43960729--43960870 Score: 212
Period size: 39 Copynumber: 3.6 Consensus size: 39
43960719 AACACAAATG
* *
43960729 CCTTCGGGACTTAGCCCGGATATAACACCAGCATGAATT
1 CCTTCAGGACTTAGCCCGGATATAACACCAGCATGAATA
* **
43960768 CCTTCAGGACTTAGCCCGGACATAACACCAGCACCAATA
1 CCTTCAGGACTTAGCCCGGATATAACACCAGCATGAATA
* * *
43960807 CCTTCGGGACTTAGCCTGGATATAACACCAGCATGAATG
1 CCTTCAGGACTTAGCCCGGATATAACACCAGCATGAATA
43960846 CCTTCAGGACTTAGCCCGGATATAA
1 CCTTCAGGACTTAGCCCGGATATAA
43960871 ATCTCACACA
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (39 bp):
CCTTCAGGACTTAGCCCGGATATAACACCAGCATGAATA
Found at i:43960934 original size:2 final size:2
Alignment explanation
Indices: 43960927--43960952 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43960917 TATCATGCAC
43960927 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
43960953 CATAACACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43969492 original size:30 final size:31
Alignment explanation
Indices: 43969458--43969521 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
43969448 GCCCTTTTCA
43969458 TTTTCATA-TTCATAACACTGGGCCGAAGCC
1 TTTTCATATTTCATAACACTGGGCCGAAGCC
**
43969488 TTTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTTCATATTTCATAACACTGGGCCGAAGCC
43969519 TTT
1 TTT
43969522 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTTCATATTTCATAACACTGGGCCGAAGCC
Found at i:43969764 original size:24 final size:24
Alignment explanation
Indices: 43969713--43969855 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
43969703 GCTTTATCAT
*
43969713 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
43969738 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
43969762 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
43969785 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
43969809 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
43969833 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43969856 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43969792 original size:47 final size:48
Alignment explanation
Indices: 43969713--43969854 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
43969703 GCTTTATCAT
* *
43969713 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
43969762 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
43969809 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
43969855 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:43969813 original size:71 final size:72
Alignment explanation
Indices: 43969712--43969855 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
43969702 TGCTTTATCA
*
43969712 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
43969777 GCCCTTT
66 GCCCTTT
* * **
43969784 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
43969847 AGCCCTTT
65 AGCCCTTT
43969855 T
1 T
43969856 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:43969931 original size:20 final size:20
Alignment explanation
Indices: 43969906--43969944 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
43969896 TATGATTACA
43969906 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
*
43969926 TCATGTGCATCTCATACAT
1 TCATGTGCATATCATACAT
43969945 ACCATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:43970020 original size:25 final size:25
Alignment explanation
Indices: 43969988--43970035 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43969978 ATACATAAAC
* * *
43969988 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43970013 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43970036 CATGGTATAA
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:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43977497 original size:30 final size:31
Alignment explanation
Indices: 43977463--43977526 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
43977453 CCCTTTTCAT
43977463 TTTTCATA-TTCATAACACTGGGCCGAAGCC
1 TTTTCATATTTCATAACACTGGGCCGAAGCC
**
43977493 TTTTCATATTTCATATTACTGGGCCGAAGCC
1 TTTTCATATTTCATAACACTGGGCCGAAGCC
43977524 TTT
1 TTT
43977527 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.26
31 23 0.74
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTTCATATTTCATAACACTGGGCCGAAGCC
Found at i:43977764 original size:22 final size:22
Alignment explanation
Indices: 43977736--43977812 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
43977726 CCTAGCCTCT
43977736 TTTAATAACTGGGGAAAAGCCC
1 TTTAATAACTGGGGAAAAGCCC
*
43977758 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGG-AAAAGCCC
* *
43977781 TTTTAT-ACTGGGGCAAAGCCC
1 TTTAATAACTGGGGAAAAGCCC
43977802 -TT-ATAACTGGG
1 TTTAATAACTGGG
43977813 CATAAGCCNA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.04
20 8 0.16
21 6 0.12
22 21 0.43
23 12 0.24
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (22 bp):
TTTAATAACTGGGGAAAAGCCC
Found at i:43977799 original size:44 final size:45
Alignment explanation
Indices: 43977714--43977820 Score: 134
Period size: 44 Copynumber: 2.4 Consensus size: 45
43977704 TGCTTTATCA
*
43977714 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGAAAAGCCCTT
1 TATAACTGG-GGCATAAGCCTCTTTTAATAACTGGGGAAAAGCCC-T
*
43977760 TAATAACTGGGGCATAAGCC-CTTTT-AT-ACTGGGGCAAAGCCCT
1 T-ATAACTGGGGCATAAGCCTCTTTTAATAACTGGGGAAAAGCCCT
43977803 TATAACT-GGGCATAAGCC
1 TATAACTGGGGCATAAGCC
43977821 NATTATTTGC
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
41 11 0.19
42 6 0.11
43 2 0.04
44 14 0.25
45 2 0.04
46 10 0.18
47 12 0.21
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (45 bp):
TATAACTGGGGCATAAGCCTCTTTTAATAACTGGGGAAAAGCCCT
Found at i:43984254 original size:40 final size:40
Alignment explanation
Indices: 43984209--43984375 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
43984199 CGGAATATAA
43984209 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43984249 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
43984289 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43984329 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43984368 CCGGATAT
1 CCGGATAT
43984376 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43984359 original size:80 final size:79
Alignment explanation
Indices: 43984225--43984375 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
43984215 ATAATCACGT
*
43984225 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
43984290 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
43984305 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
43984368 CCGGATAT
64 CCGGATAT
43984376 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:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:43985223 original size:17 final size:19
Alignment explanation
Indices: 43985200--43985245 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
43985190 AAGAAGCATG
43985200 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
43985218 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
43985236 AATCATGCTC
1 AATCATGCTC
43985246 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:43989061 original size:14 final size:14
Alignment explanation
Indices: 43989034--43989072 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
43989024 CAAAATTAAA
*
43989034 ACACAAA-AATTTC
1 ACACAAATAAATTC
43989047 ACACAAATAAATTC
1 ACACAAATAAATTC
43989061 ACACATAATAAA
1 ACACA-AATAAA
43989073 CACAGAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (14 bp):
ACACAAATAAATTC
Found at i:43991254 original size:23 final size:23
Alignment explanation
Indices: 43991228--43991273 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
43991218 ATACCCGATG
*
43991228 CTGATACAACATGGCCCAGAAAA
1 CTGATACAACATGACCCAGAAAA
43991251 CTGATACAACATGACCCAGAAAA
1 CTGATACAACATGACCCAGAAAA
43991274 TTGACTTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (23 bp):
CTGATACAACATGACCCAGAAAA
Found at i:43996908 original size:13 final size:13
Alignment explanation
Indices: 43996892--43996916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43996882 AAATTAAAGC
43996892 ACAAAAAATTCAA
1 ACAAAAAATTCAA
43996905 ACAAAAAATTCA
1 ACAAAAAATTCA
43996917 CACATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (13 bp):
ACAAAAAATTCAA
Found at i:43998720 original size:13 final size:13
Alignment explanation
Indices: 43998702--43998726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43998692 CGTGTGTAAC
43998702 ACACGGTCATGTT
1 ACACGGTCATGTT
43998715 ACACGGTCATGT
1 ACACGGTCATGT
43998727 GTCCCCTGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:44002817 original size:2 final size:2
Alignment explanation
Indices: 44002810--44002838 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44002800 GAGACTAGTC
44002810 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44002839 CATGTCATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44008600 original size:35 final size:38
Alignment explanation
Indices: 44008529--44008600 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 38
44008519 TGTTTTGAAC
*
44008529 TATGATATTAGCCATGAGATTTGGCTCGTAAATGTTTG
1 TATGATATTAGCCATGAAATTTGGCTCGTAAATGTTTG
* *
44008567 TATG-TATTA-CCATTAAATTTGGCTTG-AAATGTTT
1 TATGATATTAGCCATGAAATTTGGCTCGTAAATGTTT
44008601 TTGGTGAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 8 0.26
36 14 0.45
37 5 0.16
38 4 0.13
ACGTcount: A:0.28, C:0.10, G:0.19, T:0.43
Consensus pattern (38 bp):
TATGATATTAGCCATGAAATTTGGCTCGTAAATGTTTG
Found at i:44011288 original size:12 final size:12
Alignment explanation
Indices: 44011271--44011296 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44011261 TAGTTAAATG
44011271 AACTAAAAGACA
1 AACTAAAAGACA
44011283 AACTAAAAGACA
1 AACTAAAAGACA
44011295 AA
1 AA
44011297 ATTTTTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.15, G:0.08, T:0.08
Consensus pattern (12 bp):
AACTAAAAGACA
Found at i:44016818 original size:31 final size:31
Alignment explanation
Indices: 44016783--44016846 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
44016773 CCTTTTCATA
44016783 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
44016814 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
44016845 TT
1 TT
44016847 ACAGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:44017094 original size:23 final size:23
Alignment explanation
Indices: 44017038--44017226 Score: 254
Period size: 23 Copynumber: 8.0 Consensus size: 23
44017028 TGCTTTATCA
*
44017038 TATAACTGGAGGCCT-AGCCTCTTT
1 TATAACTGG-GGCATAAGCC-CTTT
*
44017062 TAATAACTGGGGCAAAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
44017086 TATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
* *
44017109 AATAACTGGGGCGTAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
*
44017132 TGATAACTGGGGCACAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
44017156 TGATAACTGGGGCATAAGCCCTTT
1 T-ATAACTGGGGCATAAGCCCTTT
*
44017180 AATAACTGGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
* *
44017203 AATAACTAGGGCATAAGCCCTTT
1 TATAACTGGGGCATAAGCCCTTT
44017226 T
1 T
44017227 TCACTTCCTC
Statistics
Matches: 150, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 86 0.57
24 52 0.35
25 12 0.08
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (23 bp):
TATAACTGGGGCATAAGCCCTTT
Found at i:44017173 original size:71 final size:70
Alignment explanation
Indices: 44017039--44017226 Score: 281
Period size: 70 Copynumber: 2.7 Consensus size: 70
44017029 GCTTTATCAT
*
44017039 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAG
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAG
44017103 CCCTTTA
64 CCCTTTA
* * *
44017110 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCACAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTT-ATAACTGGGGCATAAGC
44017175 CCTTTA
65 CCTTTA
* *
44017181 ATAACTGGGGCATAAGCCC-TTTAATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTT
44017227 TCACTTCCTC
Statistics
Matches: 108, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
70 55 0.51
71 53 0.49
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (70 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAGCC
CTTTA
Found at i:44017175 original size:94 final size:95
Alignment explanation
Indices: 44017039--44017226 Score: 299
Period size: 94 Copynumber: 2.0 Consensus size: 95
44017029 GCTTTATCAT
* *
44017039 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTATAACTGGGGCATAAGC
1 ATAACTGGAGGCCAAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAGC
* *
44017104 CCTTTAATAACTGGGGCGTAAGCCCTTTTG
66 CCTTTAATAACTAGGGCATAAGCCCTTTTG
* *
44017134 ATAACTGG-GGCACAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAG
1 ATAACTGGAGGC-CAAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAG
44017197 CCCTTTAATAACTAGGGCATAAGCCCTTTT
65 CCCTTTAATAACTAGGGCATAAGCCCTTTT
44017227 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
94 73 0.85
95 13 0.15
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (95 bp):
ATAACTGGAGGCCAAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCATAAGC
CCTTTAATAACTAGGGCATAAGCCCTTTTG
Found at i:44017298 original size:9 final size:9
Alignment explanation
Indices: 44017284--44017360 Score: 73
Period size: 9 Copynumber: 7.9 Consensus size: 9
44017274 ATCTCGTGTG
44017284 CATATCATA
1 CATATCATA
44017293 CATATCATGTA
1 CATATCA--TA
44017304 CATATCATA
1 CATATCATA
* *
44017313 CATGTCATGTG
1 CATATCA--TA
44017324 CATATCATA
1 CATATCATA
*
44017333 CATATCATGTG
1 CATATCA--TA
44017344 CATATCATA
1 CATATCATA
44017353 CATATCAT
1 CATATCAT
44017361 GTTTATCAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
9 32 0.57
11 24 0.43
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:44017307 original size:11 final size:11
Alignment explanation
Indices: 44017291--44017362 Score: 75
Period size: 11 Copynumber: 7.1 Consensus size: 11
44017281 GTGCATATCA
44017291 TACATATCATG
1 TACATATCATG
44017302 TACATATCA--
1 TACATATCATG
*
44017311 TACATGTCATG
1 TACATATCATG
*
44017322 TGCATATCA--
1 TACATATCATG
44017331 TACATATCATG
1 TACATATCATG
*
44017342 TGCATATCA--
1 TACATATCATG
44017351 TACATATCATG
1 TACATATCATG
44017362 T
1 T
44017363 TTATCAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
9 24 0.49
11 25 0.51
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (11 bp):
TACATATCATG
Found at i:44017307 original size:20 final size:20
Alignment explanation
Indices: 44017280--44017362 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
44017270 GAACATCTCG
44017280 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
44017300 TGTACATATCATACATGTCA
1 TGTGCATATCATACATATCA
44017320 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
44017340 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
44017360 TGT
1 TGT
44017363 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:44018652 original size:27 final size:27
Alignment explanation
Indices: 44018622--44018707 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
44018612 TACCATACAG
* *
44018622 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * * *
44018649 GGGTATTGTGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
* **
44018676 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
44018703 GGGTA
1 GGGTA
44018708 AAAAAGTAAT
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:44018715 original size:27 final size:27
Alignment explanation
Indices: 44018686--44019133 Score: 582
Period size: 27 Copynumber: 16.7 Consensus size: 27
44018676 GGGTATTTTA
* **
44018686 GTAATTTTGTAAATCGAGGGTAAAAAA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44018713 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44018740 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
44018767 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44018794 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44018821 ATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44018847 GTAATTATGTAAATTG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
44018873 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44018900 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
44018927 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
44018954 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
44018981 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44019008 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44019035 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* **
44019062 GTAATTCTGTAAATCTAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
44019089 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
44019116 GTAATTCTGTAAATCGAG
1 GTAATTCTGTAAATCGAG
44019134 AGTACTTTGG
Statistics
Matches: 371, Mismatches: 43, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
26 50 0.13
27 318 0.86
28 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:44022700 original size:16 final size:18
Alignment explanation
Indices: 44022660--44022705 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
44022650 GGCATGTAGA
*
44022660 CCACACGGGTGTGTGGTC
1 CCACACAGGTGTGTGGTC
44022678 CCACACAGGTGTGTGGTC
1 CCACACAGGTGTGTGGTC
44022696 CCACACAGGT
1 CCACACAGGT
44022706 AAACCACACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (18 bp):
CCACACAGGTGTGTGGTC
Found at i:44024003 original size:25 final size:25
Alignment explanation
Indices: 44023975--44024023 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
44023965 CTGTTATTGA
* *
44023975 TAGTATACCCTGAAACTACTATAGG
1 TAGTACACACTGAAACTACTATAGG
*
44024000 TAGTACATACTGAAACTACTATAG
1 TAGTACACACTGAAACTACTATAG
44024024 ATAGACTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (25 bp):
TAGTACACACTGAAACTACTATAGG
Found at i:44024040 original size:25 final size:25
Alignment explanation
Indices: 44023984--44024038 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
44023974 ATAGTATACC
*
44023984 CTGAAACTACTATAGGTAGTACATA
1 CTGAAACTACTATAGATAGTACATA
*
44024009 CTGAAACTACTATAGATAG-ACTTA
1 CTGAAACTACTATAGATAGTACATA
44024033 CTGAAA
1 CTGAAA
44024039 ACACCCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (25 bp):
CTGAAACTACTATAGATAGTACATA
Done.