Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 123 of 253
Found at i:38938426 original size:12 final size:12
Alignment explanation
Indices: 38938411--38938449 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
38938401 ATTTTCTCAT
38938411 TCTTTTTCTTTC
1 TCTTTTTCTTTC
38938423 TCTTTTTCTTTC
1 TCTTTTTCTTTC
*
38938435 TCCCTTTTC-TTC
1 T-CTTTTTCTTTC
38938447 TCT
1 TCT
38938450 GTTTGTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 1 0.04
12 17 0.71
13 6 0.25
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:38941060 original size:40 final size:40
Alignment explanation
Indices: 38940999--38941259 Score: 375
Period size: 40 Copynumber: 6.6 Consensus size: 40
38940989 ATTCGGATTG
*
38940999 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*** *
38941038 ATATTAGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
38941078 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
38941118 ATAACCGGGCCAAGTCCCAAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
38941158 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
38941198 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
38941238 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
38941260 TACTTGGTTT
Statistics
Matches: 204, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 27 0.13
40 177 0.87
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:38949941 original size:26 final size:27
Alignment explanation
Indices: 38949912--38949965 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
38949902 TCACACAAGT
*
38949912 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
38949938 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
38949965 T
1 T
38949966 GATAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:38962571 original size:43 final size:43
Alignment explanation
Indices: 38962510--38962664 Score: 229
Period size: 43 Copynumber: 3.6 Consensus size: 43
38962500 CCGGCATTAC
* **
38962510 GCCTGCTAGGTACGAAGGCCCGAATACACATCACTAACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
38962553 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
* ** *
38962596 GCTTGCTAGGCACGAAGGCCTAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
* *
38962639 GCTTGCTAGGTACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
38962665 TAATACCAGC
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 102 1.00
ACGTcount: A:0.32, C:0.30, G:0.24, T:0.14
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
Found at i:38962741 original size:38 final size:38
Alignment explanation
Indices: 38962662--38962764 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
38962652 GAAGGCCCGA
* * * *
38962662 ATATAATACCAGCACTAAGCCTGTGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
*
38962700 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCTAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
** * *
38962738 ATATTTTACCAGCATGAAGCCTACGGG
1 ATATAATACCAGCACGAAGCCTGCGGG
38962765 TCTTTAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:38963339 original size:46 final size:45
Alignment explanation
Indices: 38963287--38963457 Score: 263
Period size: 46 Copynumber: 3.7 Consensus size: 45
38963277 GGTTGAGCAT
38963287 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G-C
*
38963334 C-GAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GC
*
38963379 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACAC
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GC
* *
38963425 CTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38963458 GGGGCGGGTT
Statistics
Matches: 117, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.02
46 114 0.97
47 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (45 bp):
CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGC
Found at i:38970391 original size:46 final size:46
Alignment explanation
Indices: 38970341--38970466 Score: 225
Period size: 46 Copynumber: 2.7 Consensus size: 46
38970331 TGGTTGAGCA
*
38970341 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
38970387 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
38970433 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38970467 GGGGTGGGTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:38976875 original size:16 final size:16
Alignment explanation
Indices: 38976851--38976920 Score: 94
Period size: 16 Copynumber: 4.6 Consensus size: 16
38976841 ACACATCACC
*
38976851 GGCATGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
38976867 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
38976883 GGCACGAAGGCC--C--
1 GGCACGAA-GCCTGCTA
38976896 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
38976912 GGCACGAAG
1 GGCACGAAG
38976921 GCCCGAATAC
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
12 3 0.06
13 8 0.17
14 1 0.02
15 1 0.02
16 32 0.67
17 3 0.06
ACGTcount: A:0.26, C:0.30, G:0.34, T:0.10
Consensus pattern (16 bp):
GGCACGAAGCCTGCTA
Found at i:38976909 original size:29 final size:29
Alignment explanation
Indices: 38976867--38976925 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
38976857 AAGCCTGCTA
38976867 GGCACGAAGCCTGCTAGGCACGAAGGCCC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCC
38976896 GGCACGAAGCCTGCTAGGCACGAAGGCCC
1 GGCACGAAGCCTGCTAGGCACGAAGGCCC
38976925 G
1 G
38976926 AATACTCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.34, G:0.36, T:0.07
Consensus pattern (29 bp):
GGCACGAAGCCTGCTAGGCACGAAGGCCC
Found at i:38977029 original size:38 final size:38
Alignment explanation
Indices: 38976969--38977087 Score: 157
Period size: 38 Copynumber: 3.1 Consensus size: 38
38976959 GAAGGACCGA
* * *
38976969 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
38977007 ATATAATACCAGCTCGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** *
38977045 ATATTTTACCAGCACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGG
38977085 ATA
1 ATA
38977088 CACATCAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 58 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.26, G:0.24, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:38983928 original size:40 final size:40
Alignment explanation
Indices: 38983869--38984060 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 40
38983859 CATTTGAATG
* * *
38983869 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
38983909 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
38983949 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
38983989 ATATCTGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
38984029 ATA-CTCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATC-CGGGCTAAGACCCGAAGGCATTTGTGC
38984061 TTGTGGTTAT
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 134 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:38986469 original size:45 final size:45
Alignment explanation
Indices: 38986411--38986531 Score: 179
Period size: 45 Copynumber: 2.7 Consensus size: 45
38986401 GATGCTGATG
* * * *
38986411 TCCCAGACATGGTCTTACACGTAACCACATATATCGATGCCAACT
1 TCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAACA
*
38986456 TCCCAGACGTGGTCTTACATGAAAACACATATATCGATGCCAACA
1 TCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAACA
* *
38986501 TCCCAGATGTAGTCTTACACGAAAACACATA
1 TCCCAGACGTGGTCTTACACGAAAACACATA
38986532 CCGGAATCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (45 bp):
TCCCAGACGTGGTCTTACACGAAAACACATATATCGATGCCAACA
Found at i:38990648 original size:31 final size:32
Alignment explanation
Indices: 38990613--38990694 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
38990603 AGACATTATC
*
38990613 TATTCTGTGCTTATTGT-TCTAATAGACTA-TT
1 TATTCTATGCTTATTGTCTC-AATAGACTACTT
* *
38990644 TATTCTATGTTTATTGTCTCAATGGACTATCTT
1 TATTCTATGCTTATTGTCTCAATAGACTA-CTT
* *
38990677 TATTCTATGTTTACTGTC
1 TATTCTATGCTTATTGTC
38990695 CCAGCGGACT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
31 23 0.52
32 2 0.05
33 19 0.43
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (32 bp):
TATTCTATGCTTATTGTCTCAATAGACTACTT
Found at i:38990684 original size:33 final size:33
Alignment explanation
Indices: 38990613--38990757 Score: 123
Period size: 33 Copynumber: 4.5 Consensus size: 33
38990603 AGACATTATC
* * * *
38990613 TATTCTGTGCTTATTGTTCTAATAGACTA--TT
1 TATTCTGTGTTTACTGTCCCAATAGACTATCTT
* * * *
38990644 TATTCTATGTTTATTGTCTCAATGGACTATCTT
1 TATTCTGTGTTTACTGTCCCAATAGACTATCTT
* *** *
38990677 TATTCTATGTTTACTGTCCCAGCGGACTATCTC
1 TATTCTGTGTTTACTGTCCCAATAGACTATCTT
* * *
38990710 TATTTTGTGTTTACTGTCCCAGTAGACTATCTA
1 TATTCTGTGTTTACTGTCCCAATAGACTATCTT
*
38990743 TATTATGTGTTTACT
1 TATTCTGTGTTTACT
38990758 ATTTCAGCTG
Statistics
Matches: 95, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
31 23 0.24
33 72 0.76
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (33 bp):
TATTCTGTGTTTACTGTCCCAATAGACTATCTT
Found at i:38990771 original size:33 final size:33
Alignment explanation
Indices: 38990668--38990771 Score: 111
Period size: 33 Copynumber: 3.2 Consensus size: 33
38990658 TGTCTCAATG
* * * *
38990668 GACTATCTTTATTCTATGTTTACTGTCCCAGCG
1 GACTATCTATATTATGTGTTTACTGTCCCAGCT
* *
38990701 GACTATCTCTATTTTGTGTTTACTGTCCCAG-T
1 GACTATCTATATTATGTGTTTACTGTCCCAGCT
* **
38990733 AGACTATCTATATTATGTGTTTACTATTTCAGCT
1 -GACTATCTATATTATGTGTTTACTGTCCCAGCT
38990767 GACTA
1 GACTA
38990772 CCTCTGTGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
33 59 0.98
34 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.44
Consensus pattern (33 bp):
GACTATCTATATTATGTGTTTACTGTCCCAGCT
Found at i:38996727 original size:47 final size:47
Alignment explanation
Indices: 38996675--38996768 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
38996665 CCTTTTGGGC
* ** *
38996675 TAAAAAATACACCGGTAGCTTTTATAGATCTGGTGAACAGAGTGTTT
1 TAAAAAATACACCAGTAGCTTTTATAGATCTAATGAACAAAGTGTTT
*
38996722 TAAAAAATACACCAGTAGCTTTTATGGATCTAATGAACAAAGTGTTT
1 TAAAAAATACACCAGTAGCTTTTATAGATCTAATGAACAAAGTGTTT
38996769 CAACCCTATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (47 bp):
TAAAAAATACACCAGTAGCTTTTATAGATCTAATGAACAAAGTGTTT
Found at i:39012332 original size:27 final size:27
Alignment explanation
Indices: 39012302--39012440 Score: 111
Period size: 27 Copynumber: 5.1 Consensus size: 27
39012292 TTATACTAGT
* *
39012302 AAACCCTAGTTCACCAAACCAATTGGC
1 AAACCCTAGCTCACCAAACCAACTGGC
* * *
39012329 AAACCTTAGCTCGCCAAACCAACTGGTG
1 AAACCCTAGCTCACCAAACCAACTGG-C
* *
39012357 AACCCCTA--TGCACCAAACCAACTAGC
1 AAACCCTAGCT-CACCAAACCAACTGGC
* * **
39012383 AAACCTTAGCCCGTCAAACCAACTGGC
1 AAACCCTAGCTCACCAAACCAACTGGC
* * * *
39012410 AAACCCCAGCTCACGAAACAAATTGGC
1 AAACCCTAGCTCACCAAACCAACTGGC
39012437 AAAC
1 AAAC
39012441 ATTCCTTACC
Statistics
Matches: 84, Mismatches: 24, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
26 7 0.08
27 71 0.85
28 6 0.07
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.14
Consensus pattern (27 bp):
AAACCCTAGCTCACCAAACCAACTGGC
Found at i:39012439 original size:54 final size:53
Alignment explanation
Indices: 39012302--39012440 Score: 154
Period size: 54 Copynumber: 2.6 Consensus size: 53
39012292 TTATACTAGT
* * *
39012302 AAACCCTAGTTCACCAAACCAATTGGCAAACCTTAGCTCGCCAAACCAACTGGT
1 AAACCCCAG-TCACCAAACCAATTGGCAAACCTTAGCCCGCCAAACCAACTGGC
* * * *
39012356 GAACCCCTA-TGCACCAAACCAACTAGCAAACCTTAGCCCGTCAAACCAACTGGC
1 AAACCCC-AGT-CACCAAACCAATTGGCAAACCTTAGCCCGCCAAACCAACTGGC
* *
39012410 AAACCCCAGCTCACGAAACAAATTGGCAAAC
1 AAACCCCAG-TCACCAAACCAATTGGCAAAC
39012441 ATTCCTTACC
Statistics
Matches: 69, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
53 2 0.03
54 65 0.94
55 2 0.03
ACGTcount: A:0.37, C:0.35, G:0.13, T:0.14
Consensus pattern (53 bp):
AAACCCCAGTCACCAAACCAATTGGCAAACCTTAGCCCGCCAAACCAACTGGC
Found at i:39020867 original size:27 final size:27
Alignment explanation
Indices: 39020830--39021031 Score: 203
Period size: 27 Copynumber: 7.4 Consensus size: 27
39020820 TAAATTGTAC
*
39020830 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39020857 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
39020884 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
39020910 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
39020937 CGACACTAAGTGTGCGAGTTGACTATGT
1 AG-CACTAAGTGTGCGATTTGACTATGT
*
39020965 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
39020993 GGCACTAAGTGTGCG-TGTTGATTATAT
1 AGCACTAAGTGTGCGAT-TTGACTATGT
*
39021020 AGCACTGAGTGT
1 AGCACTAAGTGT
39021032 ACGGACTTAA
Statistics
Matches: 149, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
26 2 0.01
27 123 0.83
28 24 0.16
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39027284 original size:40 final size:40
Alignment explanation
Indices: 39027223--39027298 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
39027213 CGGTACTTTA
* * *
39027223 TGGTGTGTAGGGTTGGATGGGTCGATTTTATCCCCATATT
1 TGGTATGTAGGGTAGGATGGGTCAATTTTATCCCCATATT
*
39027263 TGGTATGTAGGGATAGG-TGGGTCAATTTTTTCCCCA
1 TGGTATGTAGGG-TAGGATGGGTCAATTTTATCCCCA
39027299 CATGGTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.90
41 3 0.10
ACGTcount: A:0.17, C:0.13, G:0.32, T:0.38
Consensus pattern (40 bp):
TGGTATGTAGGGTAGGATGGGTCAATTTTATCCCCATATT
Found at i:39034625 original size:40 final size:39
Alignment explanation
Indices: 39034559--39034650 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
39034549 CGATATCTCG
*
39034559 CACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAATCA
1 CACACTAAGTG-CATACATAGCCGAAGCTATCTCAAATCA
* * * **
39034599 CACACTAAGTGCAATATATAGTCGAAGCTATGTCGTATCA
1 CACACTAAGTGC-ATACATAGCCGAAGCTATCTCAAATCA
39034639 CACACTAAGTGC
1 CACACTAAGTGC
39034651 CACAAATAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (39 bp):
CACACTAAGTGCATACATAGCCGAAGCTATCTCAAATCA
Found at i:39037413 original size:101 final size:101
Alignment explanation
Indices: 39037231--39037413 Score: 235
Period size: 101 Copynumber: 1.8 Consensus size: 101
39037221 TAGTCACGTA
* * * *
39037231 TGTAGTACAAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTTGCATGTGTTGTACTAAGTGC
1 TGTAGTACAAAGTGCAGGCTACTACATGTACCAAATGGATAAGTTGCATGTGTTGTACTAAGGGC
*
39037296 AGGCTACTATGCGTACCCGTTAACTCTGATCACATG
66 AGGCTACTACGCGTACCCGTTAACTCTGATCACATG
* * * * *
39037332 TGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAAG-T-CATGTGTGTAGTACTAAGG
1 TGTAGTACAAAGTGCAGGCTACTACATGTACCAAATGGATAAGTTGCATGTGT-T-GTACTAAGG
*
39037395 GCAGGCTACTACGTGTACC
64 GCAGGCTACTACGCGTACC
39037414 AGATTGATAG
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
99 7 0.10
100 2 0.03
101 60 0.87
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (101 bp):
TGTAGTACAAAGTGCAGGCTACTACATGTACCAAATGGATAAGTTGCATGTGTTGTACTAAGGGC
AGGCTACTACGCGTACCCGTTAACTCTGATCACATG
Found at i:39037496 original size:151 final size:151
Alignment explanation
Indices: 39037222--39037614 Score: 572
Period size: 151 Copynumber: 2.6 Consensus size: 151
39037212 ATTCCTTGTT
* * * * *
39037222 AGTCACGTATGTAGTACAAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTTGCATGTGTTGT
1 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGT
* *
39037287 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTCTGATCACATGTGTAGTACTAAGTGTAGGCT
66 ACTAAGTGCAAGCTACTATGCGTACCCGTTAACTCTGATCACATGTGTAGTACTAAGTGCAGGCT
*
39037352 ACTACATGTATCAGATGGTTA
131 ACTACATGTATCAGATGGTGA
* *
39037373 AGTCATGTGTGTAGTACTAAGGGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGT
* * *
39037438 ATTAAGCGCAAGCTACTATGCGTACCCGTTAACT-TCGATCACGTGTGTAGTACTAAGTGCAGGC
66 ACTAAGTGCAAGCTACTATGCGTACCCGTTAACTCT-GATCACATGTGTAGTACTAAGTGCAGGC
**
39037502 TACTATGTGTATCAGATGGTGA
130 TACTACATGTATCAGATGGTGA
* * * * *
39037524 ATTCATGTGTGTAATAGTAAGTACAGGCTACTACATGTACCAAATTGATAGGTCGCATGTGTAGT
1 AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGT
* *
39037589 ACTAAGTGCATGCTACTATGCATACC
66 ACTAAGTGCAAGCTACTATGCGTACC
39037615 AGAGAGCTTC
Statistics
Matches: 215, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
150 1 0.00
151 214 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (151 bp):
AGTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAAGCTACTATGCGTACCCGTTAACTCTGATCACATGTGTAGTACTAAGTGCAGGCT
ACTACATGTATCAGATGGTGA
Found at i:39037615 original size:50 final size:50
Alignment explanation
Indices: 39037231--39037617 Score: 260
Period size: 50 Copynumber: 7.7 Consensus size: 50
39037221 TAGTCACGTA
* * * * **
39037231 TGTAGTACAAAGTGCAGGCTACTACGTGTACCAAATTGATAGGTTGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATAGGTCACATG
* * * * *
39037281 TGTTGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTCTGATCACATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGA-T-AGGTCACATG
* *** * * * * **
39037332 TGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAAGTCATGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATAGGTCACATG
* * * *
39037382 TGTAGTACTAAGGGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATAGGTCACATG
* * * * * * * *
39037432 TGTAGTATTAAGCGCAAGCTACTATGCGTACCCG-TTAACTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGA--TAGGTCACATG
* * * **
39037483 TGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTGA-A-TTCATGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT--TGATAGGTCACATG
* * * *** * *
39037533 TGTAATAGTAAGTACAGGCTACTACATGTACCAAATTGATAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATAGGTCACATG
* *
39037583 TGTAGTACTAAGTGCATGCTACTATGCATACCAGA
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
39037618 GAGCTTCGGT
Statistics
Matches: 250, Mismatches: 77, Indels: 20
0.72 0.22 0.06
Matches are distributed among these distances:
48 3 0.01
49 7 0.03
50 167 0.67
51 69 0.28
52 2 0.01
54 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATTGATAGGTCACATG
Found at i:39037838 original size:16 final size:16
Alignment explanation
Indices: 39037817--39037848 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39037807 AGAATGGAGT
39037817 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
39037833 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
39037849 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:39041502 original size:39 final size:40
Alignment explanation
Indices: 39041417--39041600 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
39041407 GCTACTCGTT
* *
39041417 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATT-TAGTAACTCGCA
39041457 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * *
39041496 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * * * *
39041535 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGACCGGATTTAGTAAC-TCGCA
*
39041576 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGACCGGA
39041601 CATCATTCGA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 6 0.05
39 57 0.46
40 51 0.41
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
Found at i:39041600 original size:40 final size:40
Alignment explanation
Indices: 39041398--39041600 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
39041388 CGGAATTTAA
** *
39041398 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39041438 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA-A
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
39041477 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
39041516 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
39041556 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
39041596 CCGGA
1 CCGGA
39041601 CATCATTCGA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 6 0.04
39 58 0.42
40 63 0.45
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:39057408 original size:50 final size:50
Alignment explanation
Indices: 39057304--39057415 Score: 129
Period size: 50 Copynumber: 2.2 Consensus size: 50
39057294 GACCTTGTAT
* * * * *
39057304 ATATTCAGCCA-CATAGGTATGTACATATGTGATGTTATATTGGATTTCGA
1 ATATTCAGCCATGA-AGGTATGCACAAATGTGATATTATATTGAATTTCGA
* *
39057354 ATATTCGGCCATGAAGGTATGCACAAATGTGATATTATATTTGAATTT-GT
1 ATATTCAGCCATGAAGGTATGCACAAATGTGATATTATA-TTGAATTTCGA
39057404 ATATTCAGCCAT
1 ATATTCAGCCAT
39057416 ATAAGTATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
50 44 0.85
51 8 0.15
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (50 bp):
ATATTCAGCCATGAAGGTATGCACAAATGTGATATTATATTGAATTTCGA
Found at i:39057491 original size:57 final size:57
Alignment explanation
Indices: 39057416--39057529 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
39057406 ATTCAGCCAT
* *
39057416 ATAAGTATATATTTGATGTTAAATTTGATTTTGCATATTCGGCCATATAGGTATGCA
1 ATAAGTACATATGTGATGTTAAATTTGATTTTGCATATTCGGCCATATAGGTATGCA
*
39057473 ATAAGTACATATGTGATGTTAAATTTGATTTTTCATATTCGGCCATATAGGTATGCA
1 ATAAGTACATATGTGATGTTAAATTTGATTTTGCATATTCGGCCATATAGGTATGCA
39057530 CATATGTGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.41
Consensus pattern (57 bp):
ATAAGTACATATGTGATGTTAAATTTGATTTTGCATATTCGGCCATATAGGTATGCA
Found at i:39060140 original size:15 final size:15
Alignment explanation
Indices: 39060122--39060156 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
39060112 ACATTCTCTT
39060122 TTGCAACAAATTTAG
1 TTGCAACAAATTTAG
*
39060137 TTGCAATAAATTTAG
1 TTGCAACAAATTTAG
*
39060152 GTGCA
1 TTGCA
39060157 GGGGACACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (15 bp):
TTGCAACAAATTTAG
Found at i:39063807 original size:47 final size:44
Alignment explanation
Indices: 39063695--39063820 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 44
39063685 GGGTTATTGT
*
39063695 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATTGTGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATTGG-C-CATTGAGA
*
39063741 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGG-CATTGAGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCCATTGAGA
* *
39063786 CGAGTGCTAGTGTAAGACATGTCTAGGAAATGCAT
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCAT
39063821 CGGCTACGAG
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
45 7 0.10
46 19 0.27
47 26 0.37
48 18 0.26
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.25
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCATTGAGA
Found at i:39067437 original size:39 final size:39
Alignment explanation
Indices: 39067393--39067701 Score: 460
Period size: 39 Copynumber: 8.0 Consensus size: 39
39067383 ATTATATTAT
* *
39067393 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
39067432 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
39067471 CAACACGAAGCCTGCGGGACTTTGGCCCGGATACATTTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
39067510 CAGCACGAAGCCT--GGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* * *
39067547 CAGCACGAAGCCTGTGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
39067586 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
39067625 TAGCACGAAGCCTGCGGGACTTTAGCCCGGATACAATTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
** *
39067664 CAGCACGAAGCCTGCAAGACTTTGGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
39067702 TCAGTGTCTT
Statistics
Matches: 246, Mismatches: 22, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
37 34 0.14
39 212 0.86
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:39067673 original size:154 final size:155
Alignment explanation
Indices: 39067393--39067701 Score: 467
Period size: 154 Copynumber: 2.0 Consensus size: 155
39067383 ATTATATTAT
*
39067393 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
* * *
39067458 CCGGATACATTTCCAACACGAAGCCTGCGGGACTTTGGCCCGGATACATTTTCAGCACGAAGCCT
66 CCGGATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATACAATTCCAGCACGAAGCCT
* *
39067523 G-GGACTTTAGTCCGGATACATTTC
131 GAAGACTTTAGCCCGGATACATTTC
* * ** *
39067547 CAGCACGAAGCCTGTGGGACTTTGGCCCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTAGC
1 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
* * *
39067612 CCGGATATATTTCTAGCACGAAGCCTGCGGGACTTTAGCCCGGATACAATTCCAGCACGAAGCCT
66 CCGGATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATACAATTCCAGCACGAAGCCT
*
39067677 GCAAGACTTTGGCCCGGATACATTT
131 G-AAGACTTTAGCCCGGATACATTT
39067702 TCAGTGTCTT
Statistics
Matches: 138, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
154 119 0.86
156 19 0.14
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.22
Consensus pattern (155 bp):
CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
CCGGATACATTTCCAACACGAAGCCTGCGGGACTTTAGCCCGGATACAATTCCAGCACGAAGCCT
GAAGACTTTAGCCCGGATACATTTC
Found at i:39069576 original size:42 final size:42
Alignment explanation
Indices: 39069529--39069610 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
39069519 TGTGGTCCCA
* *
39069529 AAACCACTGTTCCGATTAGACCCAAAATCGGGCTATTACACG
1 AAACCACTGTTCCGACTAGACCCAAAATCGGACTATTACACG
* * *
39069571 AAACCACTGTTTCGGCTAGACCCAAAATCGGACTGTTACA
1 AAACCACTGTTCCGACTAGACCCAAAATCGGACTATTACA
39069611 TACCACGTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
AAACCACTGTTCCGACTAGACCCAAAATCGGACTATTACACG
Found at i:39075163 original size:6 final size:6
Alignment explanation
Indices: 39075152--39075181 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
39075142 TAAATATACA
39075152 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
39075182 CTAGACACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:39080883 original size:46 final size:46
Alignment explanation
Indices: 39080783--39080909 Score: 148
Period size: 46 Copynumber: 2.7 Consensus size: 46
39080773 TTGGTGTGTC
* * *
39080783 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGAGACGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGACGAGAG
* * * *
39080831 CTAGTGTAAGACATGTTTGGGACATTCATCGGCCTCGAGACGTA-AG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACG-AGAG
*
39080877 CCAGTGTAAGACATGTCTAGGACATGCATCGGC
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC
39080910 TGGAACATGG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 43 0.64
47 14 0.21
48 10 0.15
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGAGAG
Found at i:39082195 original size:21 final size:20
Alignment explanation
Indices: 39082162--39082200 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
39082152 TCGAGTTGGT
*
39082162 CACACGAGTGTGTTGCCCTTC
1 CACACGAGCGTG-TGCCCTTC
*
39082183 CACACGGGCGTGTGCCCT
1 CACACGAGCGTGTGCCCT
39082201 ATTTTTAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.36, G:0.28, T:0.23
Consensus pattern (20 bp):
CACACGAGCGTGTGCCCTTC
Found at i:39091449 original size:46 final size:47
Alignment explanation
Indices: 39091316--39091488 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 47
39091306 TTGCCATGAG
* *
39091316 CAGTGTAAGAACATGTCTGGGACATGGCATCGGC-ATTGAGACG-AGTGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGACGTA--GC
* *
39091364 TAGTGTAAGACCATGTCTCGGACAT-GCATCGGCCT-CGAGACGTAAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTACGAGACGT-AGC
* * *
39091411 CAGTGTAAGA-CATGTCTGGGACAT-GCATCCGCTACGAGATGT-GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGACGTAGC
*
39091455 CAGTTTAAGACCATGTCTGGGACATGGCATCGGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC
39091489 ATGGATATGG
Statistics
Matches: 107, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
44 10 0.09
45 16 0.15
46 33 0.31
47 24 0.22
48 23 0.21
49 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACGAGACGTAGC
Found at i:39091478 original size:91 final size:96
Alignment explanation
Indices: 39091316--39091488 Score: 241
Period size: 91 Copynumber: 1.9 Consensus size: 96
39091306 TTGCCATGAG
* *
39091316 CAGTGTAAGAACATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCTAGTGTAAGACCATGTC
1 CAGTGTAAGAACATGTCTGGGACATGGCATCCGCATCGAGACGAGTGCTAGTGTAAGACCATGTC
39091381 TCGGACAT-GCATCGGCCTCGAGACGTAAGC
66 TCGGACATGGCATCGGCCTCGAGACGTAAGC
* * *
39091411 CAGTGTAAG-ACATGTCTGGGACAT-GCATCCGC-TACGAGATGTGT-C-AGTTTAAGACCATGT
1 CAGTGTAAGAACATGTCTGGGACATGGCATCCGCAT-CGAGACGAGTGCTAGTGTAAGACCATGT
*
39091471 CTGGGACATGGCATCGGC
65 CTCGGACATGGCATCGGC
39091489 ATGGATATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 7
0.84 0.07 0.08
Matches are distributed among these distances:
91 22 0.31
92 10 0.14
93 14 0.20
94 15 0.21
95 9 0.13
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (96 bp):
CAGTGTAAGAACATGTCTGGGACATGGCATCCGCATCGAGACGAGTGCTAGTGTAAGACCATGTC
TCGGACATGGCATCGGCCTCGAGACGTAAGC
Found at i:39092846 original size:28 final size:28
Alignment explanation
Indices: 39092781--39092904 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
39092771 GAGATTGACG
* * * *
39092781 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
39092810 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
39092838 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
39092866 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
39092894 CTGAGTGTGCG
1 CTAAGTGTGCG
39092905 GACTTAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 74 0.83
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:39095411 original size:21 final size:21
Alignment explanation
Indices: 39095387--39095444 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
39095377 GAGTTGGTTT
39095387 CACGGGCGTGTTGCCCTTCCA
1 CACGGGCGTGTTGCCCTTCCA
* *
39095408 CACGAGCGTGTTGCCTTTCCA
1 CACGGGCGTGTTGCCCTTCCA
*
39095429 CATGGGCGTG-TGCCCT
1 CACGGGCGTGTTGCCCT
39095445 GTTTTAAGGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 5 0.16
21 27 0.84
ACGTcount: A:0.10, C:0.34, G:0.29, T:0.26
Consensus pattern (21 bp):
CACGGGCGTGTTGCCCTTCCA
Found at i:39100295 original size:30 final size:30
Alignment explanation
Indices: 39100260--39100319 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
39100250 CTTGAAGAAA
39100260 GCCGATTGATACTTCAAGACTGAAGATCTC
1 GCCGATTGATACTTCAAGACTGAAGATCTC
*
39100290 GCCGATTGATCCTTCAAGACTGAAGATCTC
1 GCCGATTGATACTTCAAGACTGAAGATCTC
39100320 CCTTCAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (30 bp):
GCCGATTGATACTTCAAGACTGAAGATCTC
Found at i:39104874 original size:27 final size:29
Alignment explanation
Indices: 39104843--39104904 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
39104833 TTAGTTAAAA
39104843 ATTTAAAATT-T-T-TGTTCATGTTCGTTT
1 ATTTAAAATTATCTGTGTTCATG-TCGTTT
39104870 ATTTAAAATTATCTGTGTTCATGTCGTTT
1 ATTTAAAATTATCTGTGTTCATGTCGTTT
39104899 ATTTAA
1 ATTTAA
39104905 TGTTCACGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.31
28 1 0.03
29 13 0.41
30 8 0.25
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (29 bp):
ATTTAAAATTATCTGTGTTCATGTCGTTT
Found at i:39104952 original size:24 final size:23
Alignment explanation
Indices: 39104904--39104963 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 23
39104894 CGTTTATTTA
39104904 ATGTTCACGAACATTAAATGAAC
1 ATGTTCACGAACATTAAATGAAC
* * *
39104927 ATGTTCATGAATATATAATTGAAC
1 ATGTTCACGAACAT-TAAATGAAC
39104951 ATGTTCACGAACA
1 ATGTTCACGAACA
39104964 ATGTTAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 12 0.39
24 19 0.61
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (23 bp):
ATGTTCACGAACATTAAATGAAC
Found at i:39108005 original size:40 final size:40
Alignment explanation
Indices: 39107943--39108160 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
39107933 AAGCCAAGTA
* * ** *
39107943 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGTTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
39107982 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39108022 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39108062 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
39108102 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
39108142 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39108161 TTATCATCCA
Statistics
Matches: 165, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.08
40 152 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39116069 original size:40 final size:40
Alignment explanation
Indices: 39116015--39116256 Score: 362
Period size: 40 Copynumber: 6.0 Consensus size: 40
39116005 GGATTTAACT
* * *
39116015 GGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
39116055 GGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
39116095 GGATATAGTAACTCGCACAAATGCCTTCAGAACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
39116135 AGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
39116175 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
39116215 GGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGCCC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
39116255 GG
1 GG
39116257 TTATCATCCA
Statistics
Matches: 187, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 185 0.99
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:39128276 original size:110 final size:110
Alignment explanation
Indices: 39128083--39128302 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
39128073 TGTGACTATT
39128083 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
*
39128148 AGAAGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATTGAGTAG
66 AGAAGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
*
39128193 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCTAGAGCAA
1 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
*
39128258 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
66 AGAAGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
39128303 CCTATCCACA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (110 bp):
ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
AGAAGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
Found at i:39128689 original size:39 final size:39
Alignment explanation
Indices: 39128642--39128877 Score: 307
Period size: 39 Copynumber: 6.1 Consensus size: 39
39128632 GAATTATACT
39128642 CGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATC
*
39128681 CGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATC
*
39128720 CGAGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATC
* *
39128759 CGGGTTAAGCCCTGAAGGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATC
* * * * **
39128798 CGGGCTAAATTCCCGCAGGC-TTTGTGCTGGTACTATATC
1 CGGGCT-AAGTCCTGAAGGCATTCGTGCTGGTGTTATATC
* * *
39128837 CGGGCTAAAGTCC-CACAGGC-TTTGTGCTGGTATTATATC
1 CGGGCT-AAGTCCTGA-AGGCATTCGTGCTGGTGTTATATC
39128876 CG
1 CG
39128878 AGCTTAAAGT
Statistics
Matches: 177, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 168 0.95
40 9 0.05
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
CGGGCTAAGTCCTGAAGGCATTCGTGCTGGTGTTATATC
Found at i:39136511 original size:93 final size:92
Alignment explanation
Indices: 39136353--39136523 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 92
39136343 GGATGGTTGA
* *
39136353 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTT
39136418 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
* *
39136445 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGAG
39136509 TTGAGTCCGAGTTCG
64 TTGAGTCCGAGTTCG
39136524 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 25 0.34
93 48 0.66
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39136518 original size:46 final size:45
Alignment explanation
Indices: 39136357--39136530 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
39136347 GGTTGAGCAT
* *
39136357 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
39136401 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
39136446 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 ---CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
39136494 CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39136531 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 25 0.23
46 39 0.36
47 28 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:39143920 original size:46 final size:46
Alignment explanation
Indices: 39143868--39144043 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
39143858 TGGTTGAGCA
39143868 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39143914 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
39143959 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
39144007 -CTCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
39144044 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 61 0.56
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:39144024 original size:93 final size:93
Alignment explanation
Indices: 39143865--39144036 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
39143855 TGATGGTTGA
*
39143865 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
39143930 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
39143958 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTC-CGAACTCGTTGAG
*
39144022 TTGAGTTCGAGTTCG
65 TTGAGTCCGAGTTCG
39144037 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:39156351 original size:39 final size:39
Alignment explanation
Indices: 39156297--39156553 Score: 286
Period size: 39 Copynumber: 6.5 Consensus size: 39
39156287 TAATGGAGAA
* * *
39156297 TTATACCCGGGCTAAGTCCTGAAGGCATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
39156336 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
39156375 TTATATCCGAGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
39156414 TTATATCCGGGTTAAGCCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
39156453 TTATATCCGGGCTAAATTCCCGCAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
* * * * * *
39156492 TTATATCCATGCCAAAGTTCC-ACAGGC-TTTGTGCTGGTA
1 TTATATCC-GGGCTAAGTCCCGA-AGGCATTCGTGCTGGTG
39156531 TTATATCCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
39156554 CATGCTTTGT
Statistics
Matches: 185, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 165 0.89
40 18 0.10
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:39164130 original size:21 final size:22
Alignment explanation
Indices: 39164097--39164137 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
39164087 TTCATTTATG
*
39164097 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
39164118 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
39164138 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:39164581 original size:28 final size:28
Alignment explanation
Indices: 39164513--39164591 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
39164503 GAATCATTCG
* * **
39164513 ATATTTTGCACACCAAGTTTCATTCTCA
1 ATATTTTGAACACTAAGTGCCATTCTCA
* *
39164541 ATATCTCGAACACTAAGTGCCATTCTCA
1 ATATTTTGAACACTAAGTGCCATTCTCA
* *
39164569 ATATTTTGTACACTGAGTGCCAT
1 ATATTTTGAACACTAAGTGCCAT
39164592 ATTTGATTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (28 bp):
ATATTTTGAACACTAAGTGCCATTCTCA
Found at i:39166777 original size:30 final size:29
Alignment explanation
Indices: 39166715--39166932 Score: 190
Period size: 30 Copynumber: 7.3 Consensus size: 29
39166705 ATCGATTATA
39166715 AAAAGGGATGGTGACGACCATCAACA-ATG
1 AAAAGGGATGGTGACGACCATCAA-ATATG
39166744 AAAAGGGATGGTGACGACCATCGAAATATG
1 AAAAGGGATGGTGACGACCATC-AAATATG
* *
39166774 AAAAGGGATGGTGATGACCATCGAACTATG
1 AAAAGGGATGGTGACGACCATC-AAATATG
** * * **
39166804 AAAAGGGATGGCT-TTGGCTATCGATCTATG
1 AAAAGGGATGG-TGACGACCATC-AAATATG
* * * * * *
39166834 AAAATGGATAGCT-TCGGCTATCAAATTATT
1 AAAAGGGAT-GGTGACGACCATCAAA-TATG
* *
39166864 AAAAGGGATGGTGACAACCATCAAACAATG
1 AAAAGGGATGGTGACGACCATCAAA-TATG
39166894 AAAAGGGATGGTGACGACCATCAAATTATG
1 AAAAGGGATGGTGACGACCATCAAA-TATG
39166924 AAAAGGGAT
1 AAAAGGGAT
39166933 AGCTTTGGCT
Statistics
Matches: 159, Mismatches: 24, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
29 26 0.16
30 131 0.82
31 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.21
Consensus pattern (29 bp):
AAAAGGGATGGTGACGACCATCAAATATG
Found at i:39166834 original size:60 final size:58
Alignment explanation
Indices: 39166688--39166842 Score: 170
Period size: 60 Copynumber: 2.6 Consensus size: 58
39166678 TTGAAAACGG
* *
39166688 AAAGGG-TAGCTTCGGCTATCGATTATAAAAAGGGATGGTGACGACCATCAACAATGA
1 AAAGGGATGGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAACAATGA
* * * * * *
39166745 AAAGGGATGG-TGACGACCATCGAAATATGAAAAGGGATGGTGATGACCATCGAACTATGA
1 AAAGGGATGGCT-TCGGCTATCG-ATTATGAAAAGGGATGGTGACGACCATC-AACAATGA
* *
39166805 AAAGGGATGGCTTTGGCTATCGATCTATGAAAATGGAT
1 AAAGGGATGGCTTCGGCTATCGAT-TATGAAAAGGGAT
39166843 AGCTTCGGCT
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
57 7 0.09
58 9 0.12
59 26 0.33
60 35 0.45
61 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (58 bp):
AAAGGGATGGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAACAATGA
Found at i:39166873 original size:120 final size:120
Alignment explanation
Indices: 39166741--39167004 Score: 352
Period size: 120 Copynumber: 2.2 Consensus size: 120
39166731 ACCATCAACA
* * * *
39166741 ATGAAAAGGGATGGTGACGACCATCGAAA-TATGAAAAGGGATGGTGATGACCATCGAACTATGA
1 ATGAAAAGGGATGGTGACAACCATC-AAACAATGAAAAGGGATGGTGACGACCATCAAACTATGA
* * * *
39166805 AAAGGGATGGCTTTGGCTATCGATCTATGAAAATGGATAGCTTCGGCTATCAAATT
65 AAAGGGATAGCTTTGGCTATCGAACTATGAAAAGGGATAACTTCGGCTATCAAATT
* *
39166861 ATTAAAAGGGATGGTGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAATTATGAA
1 ATGAAAAGGGATGGTGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAACTATGAA
* * * * * *
39166926 AAGGGATAGCTTTGGCTGTTGAACTATGACAAGGGATAACTTTGGTTATCGAATT
66 AAGGGATAGCTTTGGCTATCGAACTATGAAAAGGGATAACTTCGGCTATCAAATT
*
39166981 ATGAAAAGGGAT-GTGTCAACCATC
1 ATGAAAAGGGATGGTGACAACCATC
39167005 GTACTATTGC
Statistics
Matches: 125, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
119 14 0.11
120 111 0.89
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (120 bp):
ATGAAAAGGGATGGTGACAACCATCAAACAATGAAAAGGGATGGTGACGACCATCAAACTATGAA
AAGGGATAGCTTTGGCTATCGAACTATGAAAAGGGATAACTTCGGCTATCAAATT
Found at i:39166917 original size:60 final size:60
Alignment explanation
Indices: 39166715--39166932 Score: 212
Period size: 60 Copynumber: 3.6 Consensus size: 60
39166705 ATCGATTATA
39166715 AAAAGGGATGGTGACGACCATCAACA--ATGAAAAGGGATGGTGACGACCATCGAAA-TATG
1 AAAAGGGATGGTGACGACCATCAA-ATTATGAAAAGGGATGGTGACGACCATC-AAACTATG
* * * ** * * * *
39166774 AAAAGGGATGGTGATGACCATCGAACTATGAAAAGGGATGGCT-TTGGCTATCGATCTATG
1 AAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGG-TGACGACCATCAAACTATG
* * * * * * * *
39166834 AAAATGGATAGCT-TCGGCTATCAAATTATTAAAAGGGATGGTGACAACCATCAAACAATG
1 AAAAGGGAT-GGTGACGACCATCAAATTATGAAAAGGGATGGTGACGACCATCAAACTATG
39166894 AAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGAT
1 AAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGAT
39166933 AGCTTTGGCT
Statistics
Matches: 121, Mismatches: 31, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
58 1 0.01
59 26 0.21
60 91 0.75
61 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.21
Consensus pattern (60 bp):
AAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATGGTGACGACCATCAAACTATG
Found at i:39166924 original size:90 final size:90
Alignment explanation
Indices: 39166715--39166962 Score: 229
Period size: 90 Copynumber: 2.8 Consensus size: 90
39166705 ATCGATTATA
* * * *
39166715 AAAAGGGATGGTGACGACCATCAACA--ATGAAAAGGGAT-GGTGACGACCATCGAAATATGAAA
1 AAAAGGGATGGTGACGACCATCAA-ATTATGAAAAGGGATAGCT-TCGGCTATCGAAATATGAAA
** * *
39166777 AGGGATGGTGATGACCATCGAACTATG
64 AGGGATGGTGACAACCATCAAACAATG
** * * * * *
39166804 AAAAGGGATGGCT-TTGGCTATC-GATCTATGAAAATGGATAGCTTCGGCTATC-AAATTATTAA
1 AAAAGGGATGG-TGACGACCATCAAAT-TATGAAAAGGGATAGCTTCGGCTATCGAAA-TATGAA
39166866 AAGGGATGGTGACAACCATCAAACAATG
63 AAGGGATGGTGACAACCATCAAACAATG
* * * * *
39166894 AAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTTGGCTGTTGAACTATGACAAG
1 AAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGGCTATCGAAATATGAAAAG
39166959 GGAT
66 GGAT
39166963 AACTTTGGTT
Statistics
Matches: 123, Mismatches: 27, Indels: 17
0.74 0.16 0.10
Matches are distributed among these distances:
87 1 0.01
89 20 0.16
90 96 0.78
91 6 0.05
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (90 bp):
AAAAGGGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGGCTATCGAAATATGAAAAG
GGATGGTGACAACCATCAAACAATG
Found at i:39166954 original size:30 final size:30
Alignment explanation
Indices: 39166920--39166992 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
39166910 ACCATCAAAT
* * *
39166920 TATGAAAAGGGATAGCTTTGGCTGTTGAAC
1 TATGAAAAGGGATAACTTTGGCTATCGAAC
* * *
39166950 TATGACAAGGGATAACTTTGGTTATCGAAT
1 TATGAAAAGGGATAACTTTGGCTATCGAAC
39166980 TATGAAAAGGGAT
1 TATGAAAAGGGAT
39166993 GTGTCAACCA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.30
Consensus pattern (30 bp):
TATGAAAAGGGATAACTTTGGCTATCGAAC
Found at i:39170060 original size:17 final size:18
Alignment explanation
Indices: 39170033--39170073 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
39170023 AAGGCTATTT
39170033 TGGGCCGTGTGGG-CCACA
1 TGGG-CGTGTGGGCCCACA
39170051 TGGGCGTGTGGGCCCACA
1 TGGGCGTGTGGGCCCACA
39170069 TGGGC
1 TGGGC
39170074 CTGCTCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.10, C:0.27, G:0.46, T:0.17
Consensus pattern (18 bp):
TGGGCGTGTGGGCCCACA
Found at i:39174329 original size:50 final size:47
Alignment explanation
Indices: 39174221--39174451 Score: 164
Period size: 49 Copynumber: 4.7 Consensus size: 47
39174211 TAATGCCGAT
* * * *
39174221 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGGCGAC
* *
39174268 GCCATGTCCCAGACAATTGTCTTACACTGACT-ATCGAAATCGAGGCTGAC
1 GCCATGTCCCAGAC-ATGGTCTTACACTGACTCATC--AATCAAGGC-GAC
* * *
39174318 GCCATGTCCCAGACATGGTCTTACACT-AGCTCTTACATATC-CGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTCAT-CA-ATCAAG-G-CGAC
* * * * * * * *
39174368 GCCATGTCCCAGATATTGTTCTTACACTGACACCTCTAT-ACGTCTCGAT
1 GCCATGTCCCAGACA-TGGTCTTACACTGACTCATCAATCAAG--GCGAC
*
39174417 GCCATGTCCCAGACATGGTCTTACACTGACACATC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC
39174452 TCGTAGCTGA
Statistics
Matches: 150, Mismatches: 20, Indels: 27
0.76 0.10 0.14
Matches are distributed among these distances:
47 17 0.11
48 34 0.23
49 44 0.29
50 38 0.25
51 16 0.11
52 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGGCGAC
Found at i:39174440 original size:99 final size:97
Alignment explanation
Indices: 39174217--39174443 Score: 259
Period size: 97 Copynumber: 2.3 Consensus size: 97
39174207 GGTATAATGC
*
39174217 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGAC
39174282 AATTGTCTTACACTGACTATCGAAATCGAGGCT
66 AATTGTCTTACACTGACTATCGAAATC-AGGCT
* * * *
39174315 -GACGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACAT-ATCCGTGCCGATGCCATGTCCC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCA--AGT--CGATGCCATGTCCC
* * * *
39174378 AGA-TATTGTTCTTACACTGAC-ACCTCTATA-C-GTCT
62 AGACAATTG-TCTTACACTGACTA--TCGAAATCAGGCT
39174413 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
39174444 GACACATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
96 1 0.01
97 37 0.33
98 5 0.05
99 34 0.31
100 30 0.27
101 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCCATCAAGTCGATGCCATGTCCCAGAC
AATTGTCTTACACTGACTATCGAAATCAGGCT
Found at i:39190910 original size:29 final size:28
Alignment explanation
Indices: 39190869--39190970 Score: 132
Period size: 28 Copynumber: 3.6 Consensus size: 28
39190859 TGAGTTACTG
39190869 AGGATGGCACTTAGTGTGCGAAACATCC
1 AGGATGGCACTTAGTGTGCGAAACATCC
* * * ** *
39190897 AGAAATGGCTCTTAGTGAGCGAATTATCG
1 AG-GATGGCACTTAGTGTGCGAAACATCC
*
39190926 AGGATGGCACTTAGTGTGCGATACATCC
1 AGGATGGCACTTAGTGTGCGAAACATCC
39190954 AGGATGGCACTTAGTGT
1 AGGATGGCACTTAGTGT
39190971 ATGATACATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
28 38 0.63
29 22 0.37
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (28 bp):
AGGATGGCACTTAGTGTGCGAAACATCC
Found at i:39190911 original size:57 final size:57
Alignment explanation
Indices: 39190842--39190967 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
39190832 TCGATTTTGA
* * *
39190842 AAATGGCACTTAGGGTGTGAGTTA-CTGAGGATGGCACTTAGTGTGCGAAACATCCAG
1 AAATGGCACTTAGGGAGCGAATTATC-GAGGATGGCACTTAGTGTGCGAAACATCCAG
* * *
39190899 AAATGGCTCTTAGTGAGCGAATTATCGAGGATGGCACTTAGTGTGCGATACATCCAG
1 AAATGGCACTTAGGGAGCGAATTATCGAGGATGGCACTTAGTGTGCGAAACATCCAG
*
39190956 -GATGGCACTTAG
1 AAATGGCACTTAG
39190968 TGTATGATAC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 10 0.17
57 49 0.82
58 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (57 bp):
AAATGGCACTTAGGGAGCGAATTATCGAGGATGGCACTTAGTGTGCGAAACATCCAG
Found at i:39190990 original size:28 final size:28
Alignment explanation
Indices: 39190869--39190992 Score: 83
Period size: 28 Copynumber: 4.4 Consensus size: 28
39190859 TGAGTTACTG
* * *
39190869 AGGATGGCACTTAGTGTGCGAAACATCC
1 AGGAAGGCACTTAGTGTACGATACATCC
* * * *
39190897 AGAAATGGCTCTTAGTG-AGCGA-ATTATCG
1 AGGAA-GGCACTTAGTGTA-CGATA-CATCC
* *
39190926 AGGATGGCACTTAGTGTGCGATACATCC
1 AGGAAGGCACTTAGTGTACGATACATCC
* * *
39190954 AGGATGGCACTTAGTGTATGATACATTC
1 AGGAAGGCACTTAGTGTACGATACATCC
39190982 -GAGAAGGCACT
1 AG-GAAGGCACT
39190993 AGGTGTGTGA
Statistics
Matches: 74, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
27 1 0.01
28 53 0.72
29 20 0.27
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (28 bp):
AGGAAGGCACTTAGTGTACGATACATCC
Found at i:39204302 original size:45 final size:45
Alignment explanation
Indices: 39204249--39204378 Score: 208
Period size: 45 Copynumber: 2.9 Consensus size: 45
39204239 CCACATATCG
* *
39204249 ATGCCAACATCCCAGACGTGGTTTTACACAAAAACACATATACCA
1 ATGCCAACATCCCAGATGTGGTCTTACACAAAAACACATATACCA
**
39204294 ATGCCAACATCCCAGATGTGGTCTTACATGAAAACACATATACCA
1 ATGCCAACATCCCAGATGTGGTCTTACACAAAAACACATATACCA
39204339 ATGCCAA-AGTCCCAGATGTGGTCTTACACAAAAACACATA
1 ATGCCAACA-TCCCAGATGTGGTCTTACACAAAAACACATA
39204379 GCCTAATCCT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 77 0.99
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (45 bp):
ATGCCAACATCCCAGATGTGGTCTTACACAAAAACACATATACCA
Found at i:39220463 original size:42 final size:41
Alignment explanation
Indices: 39220397--39220496 Score: 114
Period size: 41 Copynumber: 2.4 Consensus size: 41
39220387 CGTTCCAAAA
* * * *
39220397 AAAACGCCGGTAAAAA-TAGAGCATTCGCGGCGTTTTTTA-CT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCG--CTTTAGCT
* *
39220438 AAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGCT
39220479 AAAACGCCGCTAAAAACC
1 AAAACGCCGCTAAAAACC
39220497 CCATAACCCC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 4 0.08
41 32 0.64
42 14 0.28
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTAGCT
Found at i:39220675 original size:14 final size:15
Alignment explanation
Indices: 39220658--39220691 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
39220648 ATCATTATAT
39220658 TTTAAGGAT-TATGG
1 TTTAAGGATATATGG
39220672 TTTAA-GATATATGG
1 TTTAAGGATATATGG
39220686 TTTAAG
1 TTTAAG
39220692 CAGGTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
TTTAAGGATATATGG
Found at i:39221619 original size:10 final size:11
Alignment explanation
Indices: 39221580--39221624 Score: 56
Period size: 10 Copynumber: 4.0 Consensus size: 11
39221570 TATATAAGAC
39221580 AAATATATATA
1 AAATATATATA
*
39221591 AAATATTATTTTA
1 AAATA-TA-TATA
39221604 AAATATATAT-
1 AAATATATATA
39221614 AAATATATATA
1 AAATATATATA
39221625 TGGAAAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 10 0.34
11 7 0.24
12 4 0.14
13 8 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATATATATA
Found at i:39224582 original size:134 final size:132
Alignment explanation
Indices: 39224360--39224611 Score: 486
Period size: 134 Copynumber: 1.9 Consensus size: 132
39224350 TGGTGATTCC
39224360 ATTTTGGTTATTTAGATGTTTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGT
1 ATTTTGGTTATTTAGATGTTTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGT
39224425 GGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTT
66 GGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTT
39224490 AT
131 AT
39224492 ATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTTCATGTTTCTATCCAACTTATGTGTTTAGT
1 ATTTTGGTTATTTAGATGTT-TTTTGGTCTG-TTTTCATGTTTCTATCCAACTTATGTGTTTAGT
39224557 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
64 GTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATAT
39224612 TGTTGAATTC
Statistics
Matches: 118, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
132 20 0.17
133 10 0.08
134 88 0.75
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (132 bp):
ATTTTGGTTATTTAGATGTTTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAGTGT
GGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATTGTT
AT
Found at i:39226990 original size:370 final size:370
Alignment explanation
Indices: 39226259--39227165 Score: 1730
Period size: 370 Copynumber: 2.5 Consensus size: 370
39226249 TGTCCATTAT
39226259 AATTACAACAATAGCTGACCTTCT-TCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
39226323 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
39226388 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAAGAATTGAAAAAAGTTCTATCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTC-AAAAGAATTGAAAAAAGTTCTATCGAGCTC
39226453 ATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACG
195 ATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACG
* *
39226518 ATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTTATTTAATAATGTTTTATTTTAATA
260 ATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTAAATTAATAATGTTTTATTTTAATA
*
39226583 TTTAATATTTTAAATTTCTTTAAAAGTTATAACTACTTTTTATCAA
325 TTTAATATTTTAAATTTATTTAAAAGTTATAACTACTTTTTATCAA
39226629 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
39226694 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
39226759 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAGAACTTGAAAAAAGTTCTATCGAGCTC
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAGAA-TTGAAAAAAGTTCTATCGAGCTC
39226824 ATTTACTATT-AATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACG
195 ATTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACG
39226888 ATTC-TTTTTGATATTATTATATTCAAATTACTATTTTTTAAATTAATAATGTTTTATTTTAATA
260 ATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTAAATTAATAATGTTTTATTTTAATA
39226952 TTTAATATTTTTAAATTTATTTAAAAGTTATAACTACTTTTTATCAA
325 TTTAATA-TTTTAAATTTATTTAAAAGTTATAACTACTTTTTATCAA
*
39226999 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATGT
1 AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
39227064 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
66 AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
39227129 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
131 AACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
39227166 TGTTTCAATT
Statistics
Matches: 530, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
369 65 0.12
370 293 0.55
371 172 0.32
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (370 bp):
AATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTTAAATATTTTAAAGATTCAAAGTATAT
AGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCAAGATATAATGGATCCTCCCTAGGTGT
AACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAGAATTGAAAAAAGTTCTATCGAGCTCA
TTTACTATTGAATATTTATATAACCTTAATTTATTTCCAATTTACTTATAAAAATTAAACTACGA
TTCTTTTTTGATATTATTATATTCAAATTACTATTTTTTAAATTAATAATGTTTTATTTTAATAT
TTAATATTTTAAATTTATTTAAAAGTTATAACTACTTTTTATCAA
Found at i:39227280 original size:24 final size:24
Alignment explanation
Indices: 39227253--39227320 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
39227243 ATTATTATTG
*
39227253 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
* *
39227277 AAATATTATTC-TCCATTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
*
39227301 AAATATTATTGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
39227321 CCATTTAAGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
23 1 0.03
24 34 0.92
25 2 0.05
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:39227541 original size:15 final size:15
Alignment explanation
Indices: 39227497--39227552 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
39227487 AACGACATGT
39227497 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
39227513 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
39227526 ATATTATTTAATTAA
1 ATATTATTTAATTAA
39227541 ATATTATTTAAT
1 ATATTATTTAAT
39227553 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:39227669 original size:9 final size:9
Alignment explanation
Indices: 39227657--39227873 Score: 134
Period size: 9 Copynumber: 23.6 Consensus size: 9
39227647 TATTTGATAT
*
39227657 CATAATTTA
1 CATAACTTA
39227666 CATAACTTA
1 CATAACTTA
* *
39227675 TATAACATA
1 CATAACTTA
*
39227684 TATAACTTA
1 CATAACTTA
39227693 CATAACTTA
1 CATAACTTA
* *
39227702 TATAACCTA
1 CATAACTTA
39227711 CATAACTTA
1 CATAACTTA
*
39227720 TATAACTTA
1 CATAACTTA
* *
39227729 GATAA-ATA
1 CATAACTTA
*
39227737 TATAACTTA
1 CATAACTTA
39227746 CATAACTTA
1 CATAACTTA
39227755 CATAATACTTA
1 CAT-A-ACTTA
* *
39227766 AATATATTTTATA
1 CATA-A--CT-TA
*
39227779 TCATAATTTA
1 -CATAACTTA
39227789 CATAACTTA
1 CATAACTTA
39227798 CATAACTTA
1 CATAACTTA
*
39227807 TATAACTTA
1 CATAACTTA
* *
39227816 GATAA-ATA
1 CATAACTTA
* *
39227824 TATAATTTA
1 CATAACTTA
*
39227833 CATAA-ATA
1 CATAACTTA
* * *
39227841 TATATCATA
1 CATAACTTA
*
39227850 TCATAAATTA
1 -CATAACTTA
39227860 CATAACTTA
1 CATAACTTA
39227869 CATAA
1 CATAA
39227874 TACTTAAATA
Statistics
Matches: 165, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 121 0.73
10 11 0.07
11 9 0.05
12 1 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (9 bp):
CATAACTTA
Found at i:39227679 original size:18 final size:18
Alignment explanation
Indices: 39227657--39227873 Score: 162
Period size: 18 Copynumber: 12.3 Consensus size: 18
39227647 TATTTGATAT
* *
39227657 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
39227675 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
39227693 CATAACTTATATAACCTA
1 CATAACTTATATAACTTA
39227711 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* *
39227729 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
*
39227746 CATAACTTACATAATACTTA
1 CATAACTTATAT-A-ACTTA
* *
39227766 AATATA-TTTTAT-A--T-
1 CATA-ACTTATATAACTTA
* *
39227780 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
39227798 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
39227816 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
39227833 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
39227850 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
39227869 CATAA
1 CATAA
39227874 TACTTAAATA
Statistics
Matches: 156, Mismatches: 32, Indels: 22
0.74 0.15 0.10
Matches are distributed among these distances:
13 1 0.01
14 7 0.04
15 2 0.01
17 40 0.26
18 84 0.54
19 9 0.06
20 12 0.08
21 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.38
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:39233812 original size:31 final size:31
Alignment explanation
Indices: 39233766--39233832 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
39233756 TGGTTGTATT
* *
39233766 TTTTATGTTAAATTTGCTGTTTTTGGCTGCA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
* * * *
39233797 TTTTATATTATATTTGTTGTATTTGGTTGGA
1 TTTTATATTAAATTTGCTGTATTTGGCTGCA
39233828 TTTTA
1 TTTTA
39233833 ATGCAGGAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.04, G:0.18, T:0.60
Consensus pattern (31 bp):
TTTTATATTAAATTTGCTGTATTTGGCTGCA
Found at i:39233931 original size:43 final size:43
Alignment explanation
Indices: 39233907--39234156 Score: 446
Period size: 43 Copynumber: 5.8 Consensus size: 43
39233897 GTAAAAAAAG
*
39233907 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* * *
39233950 CGCCACTAAAAGCCTTGACCTATAGCGGCGCTTTTACCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
39233993 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
39234036 CGCCGCTAAAAGCCTTGACGTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
39234079 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
39234122 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGTTTTT
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTT
39234157 TTCCCAATAA
Statistics
Matches: 197, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 197 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:39241013 original size:40 final size:40
Alignment explanation
Indices: 39240775--39240999 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
39240765 TTGAATGATG
* * * *
39240775 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39240815 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
39240855 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39240894 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39240934 TCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39240975 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39241000 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39241021 original size:119 final size:119
Alignment explanation
Indices: 39240775--39241032 Score: 299
Period size: 119 Copynumber: 2.2 Consensus size: 119
39240765 TTGAATGATG
* * *
39240775 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATTT
* ** *
39240840 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
39240894 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAGACCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATT
* * *
39240958 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
65 TGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
39241014 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
39241033 TACGTGATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
118 2 0.02
119 84 0.71
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGACCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:39248906 original size:40 final size:40
Alignment explanation
Indices: 39248676--39248900 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
39248666 TTGAATGATG
* * * *
39248676 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39248716 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39248756 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39248795 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39248835 TCCGGGTTAAGTCCCGAACGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39248876 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39248901 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39248914 original size:40 final size:40
Alignment explanation
Indices: 39248757--39248919 Score: 118
Period size: 40 Copynumber: 4.1 Consensus size: 40
39248747 GATACTAATT
* * ** *
39248757 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAACGCATTTGAACGAGTGACTATAA
* ** ** *
39248795 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAACGCATTTGAACGAGTGACTATAA
* * *
39248835 TCCGGGTTAAGTCCCGAACGCATTTGTACGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAACGCATTTGAACGAGTGACTATAA
* * *
39248876 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAACGCATTTGAACGAGTGA-CTATAA
39248916 CCGG
1 CCGG
39248920 TTAAATTCCG
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
39 10 0.09
40 97 0.89
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAACGCATTTGAACGAGTGACTATAA
Found at i:39248918 original size:80 final size:79
Alignment explanation
Indices: 39248715--39248923 Score: 203
Period size: 80 Copynumber: 2.6 Consensus size: 79
39248705 AAGTGACCAT
* ** * * *
39248715 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCCGAACGCAT
*
39248778 TGGTGCGAGTTACTAA
64 TGGTACGAGTTACTAA
* * ** *
39248794 ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAACGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-CCCGAACGCATT
*
39248859 TGTACGAGTTACTATA
65 GGTACGAGTTACTA-A
* *
39248875 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
39248924 ATTCCGAAGG
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
78 2 0.02
79 50 0.45
80 56 0.51
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCCGAACGCATTG
GTACGAGTTACTAA
Found at i:39250801 original size:13 final size:14
Alignment explanation
Indices: 39250771--39250807 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
39250761 TATAGATATG
39250771 ATTTT-TTTCAGTTC
1 ATTTTATTT-AGTTC
39250785 ATTTTATTTAGTT-
1 ATTTTATTTAGTTC
39250798 ATTTTATTTA
1 ATTTTATTTA
39250808 TATTACTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 9 0.41
15 3 0.14
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (14 bp):
ATTTTATTTAGTTC
Found at i:39257800 original size:12 final size:12
Alignment explanation
Indices: 39257783--39257807 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39257773 TCTAGCTTGA
39257783 TTGAGGTATGTT
1 TTGAGGTATGTT
39257795 TTGAGGTATGTT
1 TTGAGGTATGTT
39257807 T
1 T
39257808 GATGATGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (12 bp):
TTGAGGTATGTT
Found at i:39257899 original size:28 final size:29
Alignment explanation
Indices: 39257863--39257921 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
39257853 TAGTGATTTT
*
39257863 TTGAAAAAAATGTCAATT-AGGGATTAAA
1 TTGAAAAAAATGTAAATTGAGGGATTAAA
* * *
39257891 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAAAAAAATGTAAATTGAGGGATTAAA
39257920 TT
1 TT
39257922 TTGAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.44, C:0.02, G:0.24, T:0.31
Consensus pattern (29 bp):
TTGAAAAAAATGTAAATTGAGGGATTAAA
Found at i:39258510 original size:43 final size:43
Alignment explanation
Indices: 39258416--39258535 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
39258406 CGTGATGAAA
* * *
39258416 TTACATGTAAGACCATGTATGGGACATTGGCATTGTATGGTGT
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATGGTGT
*
39258459 TTATGTGTAAGACCATGTCTGGGACATTGGCATCGTTACAT-G-GT
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCG-T--ATGGTGT
* *
39258503 TT-CGTGTAAGACCACGTCTGGGACGTTGGCATC
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATC
39258536 AATATATGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
43 59 0.88
44 5 0.07
45 1 0.01
46 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATGGTGT
Found at i:39258554 original size:43 final size:43
Alignment explanation
Indices: 39258464--39258559 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
39258454 GGTGTTTATG
* ** * ** *
39258464 TGTAAGACCATGTCTGGGACATTGGCATCGTTACATGGTTTCG
1 TGTAAGACCACGTCTGGGACATTGGCATCAATACATGATAACA
* *
39258507 TGTAAGACCACGTCTGGGACGTTGGCATCAATATATGATAACA
1 TGTAAGACCACGTCTGGGACATTGGCATCAATACATGATAACA
39258550 TGTAAGACCA
1 TGTAAGACCA
39258560 TATATGGGAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCAATACATGATAACA
Found at i:39261806 original size:30 final size:30
Alignment explanation
Indices: 39261771--39261831 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39261761 TCCTTAACTC
39261771 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * * *
39261801 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
39261831 A
1 A
39261832 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:39264597 original size:10 final size:11
Alignment explanation
Indices: 39264584--39264633 Score: 52
Period size: 10 Copynumber: 4.7 Consensus size: 11
39264574 CTATTTAAAT
39264584 TTAATAATA-A
1 TTAATAATATA
39264594 TTAAT-ATATA
1 TTAATAATATA
*
39264604 TT-ATAATAGA
1 TTAATAATATA
*
39264614 TATAATTATATA
1 T-TAATAATATA
39264626 TTAATAAT
1 TTAATAAT
39264634 TATCATCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 5 0.16
10 13 0.41
11 7 0.22
12 7 0.22
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
TTAATAATATA
Found at i:39264609 original size:16 final size:15
Alignment explanation
Indices: 39264585--39264631 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
39264575 TATTTAAATT
*
39264585 TAATAATAATTAATA
1 TAATTATAATTAATA
39264600 TATATTATAA-TAGATA
1 TA-ATTATAATTA-ATA
39264616 TAATTATATATTAATA
1 TAATTATA-ATTAATA
39264632 ATTATCATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 10 0.37
16 15 0.56
17 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
TAATTATAATTAATA
Found at i:39264623 original size:22 final size:20
Alignment explanation
Indices: 39264584--39264633 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 20
39264574 CTATTTAAAT
39264584 TTAATAATAATTAATATATA
1 TTAATAATAATTAATATATA
39264604 TT-ATAATAGATATAATTATATA
1 TTAATAATA-AT-TAA-TATATA
39264626 TTAATAAT
1 TTAATAAT
39264634 TATCATCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.23
20 4 0.15
21 3 0.12
22 8 0.31
23 5 0.19
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
TTAATAATAATTAATATATA
Found at i:39273773 original size:21 final size:21
Alignment explanation
Indices: 39273749--39273788 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
39273739 TTCAAAATTT
*
39273749 GATGGTTATCACCGTCCCTCC
1 GATGGTTATCACCATCCCTCC
*
39273770 GATGGTTGTCACCATCCCT
1 GATGGTTATCACCATCCCT
39273789 TTTACTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.35, G:0.20, T:0.30
Consensus pattern (21 bp):
GATGGTTATCACCATCCCTCC
Found at i:39273819 original size:30 final size:30
Alignment explanation
Indices: 39273800--39273859 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
39273790 TTACTAATTT
*
39273800 GATAGCCGAAGCTATCCCTTTTCATAGATC
1 GATAGCCAAAGCTATCCCTTTTCATAGATC
39273830 GATAGCCAAAGCTATCCCTTTTCATAGATC
1 GATAGCCAAAGCTATCCCTTTTCATAGATC
39273860 AATGGTCATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
GATAGCCAAAGCTATCCCTTTTCATAGATC
Found at i:39273865 original size:111 final size:111
Alignment explanation
Indices: 39273671--39273872 Score: 262
Period size: 111 Copynumber: 1.8 Consensus size: 111
39273661 ATGGTTAACA
** * * * *
39273671 CATCCCTTTTTGTAATTCGATAACTGAAGTTATCCCTTTTCATAGTTTGACAACCAAAGCTATCC
1 CATCCCTTTTACTAATTCGATAACCGAAGCTATCCCTTTTCATAGATCGACAACCAAAGCTATCC
** *
39273736 CTTTTCAAAATTTGATGGTTATCACCGTCCCTCCGATGGTTGTCAC
66 CTTTTCAAAATTCAATGGTCATCACCGTCCCTCCGATGGTTGTCAC
* * * *
39273782 CATCCCTTTTACTAATTTGATAGCCGAAGCTATCCCTTTTCATAGATCGATAGCCAAAGCTATCC
1 CATCCCTTTTACTAATTCGATAACCGAAGCTATCCCTTTTCATAGATCGACAACCAAAGCTATCC
*
39273847 CTTTTCATAGA-TCAATGGTCATCACC
66 CTTTTCA-AAATTCAATGGTCATCACC
39273873 ATCTGTAACA
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
111 74 0.97
112 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (111 bp):
CATCCCTTTTACTAATTCGATAACCGAAGCTATCCCTTTTCATAGATCGACAACCAAAGCTATCC
CTTTTCAAAATTCAATGGTCATCACCGTCCCTCCGATGGTTGTCAC
Found at i:39275381 original size:48 final size:48
Alignment explanation
Indices: 39275307--39275529 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 48
39275297 CACATGACAA
* * * * * *
39275307 GCTGATGCCATGTCCTAGATAGGTCTTACCCTAGCTTGTCTATCGCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTATCTATCTCGAG
* ** * * * *
39275356 GCTGATGCATGTCCCAAACATGTCTTGTACTAGC-TCTC-GTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTATCTATCTCGAG
* * **
39275402 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTATCTATCTCGAG
* * *
39275450 GCTGATGCATGTCCCAGACATGTCTTACACTTGC-TCTCATAT-T-GTG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTATC-TATCTCGAG
* *
39275496 GTTGATGCATGTCCCAGTCATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
39275530 ACACAATCAC
Statistics
Matches: 139, Mismatches: 32, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
46 66 0.47
47 6 0.04
48 60 0.43
49 7 0.05
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (48 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTATCTATCTCGAG
Found at i:39275503 original size:94 final size:94
Alignment explanation
Indices: 39275347--39275526 Score: 236
Period size: 94 Copynumber: 1.9 Consensus size: 94
39275337 CTAGCTTGTC
** * *
39275347 TATCGCGAGGCTGATGCATGTCCCAAACATGTCTTGTACTAGCTCTCGTCTCAATGCCGATGCAT
1 TATCGCGAGGCTGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATATCAATGCCGATGCAT
39275412 GTCCCAGACATGTCTTACACTGGCTTAAA
66 GTCCCAGACATGTCTTACACTGGCTTAAA
* * * ** **
39275441 TATCTCGAGGCTGATGCATGTCCCAGACATGTCTTACACTTGCTCTCATAT-TGTGGTTGATGCA
1 TATCGCGAGGCTGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATATCAAT-GCCGATGCA
*
39275505 TGTCCCAGTCATGTCTTACACT
65 TGTCCCAGACATGTCTTACACT
39275527 AGCACACAAT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
93 1 0.01
94 72 0.99
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (94 bp):
TATCGCGAGGCTGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATATCAATGCCGATGCAT
GTCCCAGACATGTCTTACACTGGCTTAAA
Found at i:39275519 original size:46 final size:48
Alignment explanation
Indices: 39275405--39275526 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 48
39275395 TCTCAATGCC
39275405 GATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCT
* * * *
39275453 GATGCATGTCCCAGACATGTCTTACACTTGCTCT-CATAT-T-GTGGTT
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCT
*
39275499 GATGCATGTCCCAGTCATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
39275527 AGCACACAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
46 31 0.46
47 1 0.01
48 35 0.51
49 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCT
Found at i:39282195 original size:39 final size:39
Alignment explanation
Indices: 39282110--39282326 Score: 330
Period size: 39 Copynumber: 5.6 Consensus size: 39
39282100 AGGATTTTAA
* * * *
39282110 CCGGGCTAAGACCCGCAGGCATT-GTG-TGAGATTTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATA-TTATAT
39282148 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
39282187 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* *
39282226 CCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
*
39282265 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
* *
39282304 CTGGGCTAAGTTCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
39282327 TAGGTTGGAA
Statistics
Matches: 166, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.13
39 141 0.85
40 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTGATATTATAT
Found at i:39288003 original size:55 final size:54
Alignment explanation
Indices: 39287934--39288053 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 54
39287924 CTGCCAAAAC
* * *
39287934 AACACGGGTATTCGACACGCCCGTGCCTTGAAAACGTGGCCGAACTTGTCAAATT
1 AACACGGGCATTCGACACGCCCGTGCCTAG-AAACGTGGCCGAACCTGTCAAATT
* * * * * *
39287989 AACACGGGCGTTCGACACGCCTGTGCCTAGCACCGTGGTCGAACCTGTTAAATT
1 AACACGGGCATTCGACACGCCCGTGCCTAGAAACGTGGCCGAACCTGTCAAATT
*
39288043 AACACAGGCAT
1 AACACGGGCAT
39288054 GGGCCTACAT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
54 28 0.52
55 26 0.48
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (54 bp):
AACACGGGCATTCGACACGCCCGTGCCTAGAAACGTGGCCGAACCTGTCAAATT
Found at i:39294989 original size:15 final size:15
Alignment explanation
Indices: 39294969--39294999 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
39294959 TTTACCCGTA
39294969 TGGACAATATAAGGC
1 TGGACAATATAAGGC
39294984 TGGACAATATAAGGC
1 TGGACAATATAAGGC
39294999 T
1 T
39295000 ATCTACCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.23
Consensus pattern (15 bp):
TGGACAATATAAGGC
Found at i:39299441 original size:47 final size:47
Alignment explanation
Indices: 39299220--39299967 Score: 1111
Period size: 47 Copynumber: 15.6 Consensus size: 47
39299210 CCCTTCGGGA
* * * * * *
39299220 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
39299267 CCTGTCAAATATATACACTTTCACATTCATCACATCGG-TATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39299313 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39299360 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39299411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39299458 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39299509 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39299556 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39299603 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39299650 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39299697 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39299746 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39299793 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39299842 CTTATCACATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39299889 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39299938 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
39299968 TCAAATATAC
Statistics
Matches: 638, Mismatches: 48, Indels: 30
0.89 0.07 0.04
Matches are distributed among these distances:
46 40 0.06
47 378 0.59
49 133 0.21
51 87 0.14
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39299738 original size:96 final size:94
Alignment explanation
Indices: 39299220--39299967 Score: 1147
Period size: 96 Copynumber: 7.8 Consensus size: 94
39299210 CCCTTCGGGA
* * * * * * *
39299220 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAAATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
*
39299285 TTTCACATTCATCACATCGG-TATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
39299313 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC----ATATAT
* *
39299378 ACACTTTCACATTCATCACATTGGCCATTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39299411 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC----ATATAT
* * *
39299476 ACACTTTCACATTCATCACATTGGCCACTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
39299509 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
39299574 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
39299603 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
39299668 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
39299697 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
39299762 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
39299793 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
39299858 ACTTTTACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
39299889 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
39299954 ACTTTCACATTCAT
64 ACTTTCACATTCAT
39299968 TCAAATATAC
Statistics
Matches: 620, Mismatches: 28, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
93 46 0.07
94 133 0.21
96 257 0.41
97 29 0.05
98 155 0.25
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:39301343 original size:83 final size:83
Alignment explanation
Indices: 39301249--39301412 Score: 328
Period size: 83 Copynumber: 2.0 Consensus size: 83
39301239 ATGCCCTTTA
39301249 TTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATC
1 TTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATC
39301314 TTGTCCACCCATGCTCTT
66 TTGTCCACCCATGCTCTT
39301332 TTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATC
1 TTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATC
39301397 TTGTCCACCCATGCTC
66 TTGTCCACCCATGCTC
39301413 ATGGCCGGCC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (83 bp):
TTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATAACATC
TTGTCCACCCATGCTCTT
Found at i:39303111 original size:40 final size:40
Alignment explanation
Indices: 39303071--39303532 Score: 745
Period size: 40 Copynumber: 11.7 Consensus size: 40
39303061 TGATTACTCT
* * * *
39303071 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* ** * *
39303111 TTGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
39303151 TCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
39303191 TC-GGACTTAGCCCAGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
39303230 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTTC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
39303270 TCGGGACTTAGCCCGGATATATCACTAGCACGAAT-CATCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGC-TCC
39303310 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
39303350 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
39303390 TC-GGACTTAG-CCGGATATATCACTAGCGCGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
39303428 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
39303468 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
39303508 TC-GGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
39303533 CTCAATTCTC
Statistics
Matches: 394, Mismatches: 23, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
38 29 0.07
39 76 0.19
40 288 0.73
41 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:39303294 original size:119 final size:119
Alignment explanation
Indices: 39303071--39303532 Score: 752
Period size: 119 Copynumber: 3.9 Consensus size: 119
39303061 TGATTACTCT
* * * * * ** *
39303071 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTTGGGGTTTAGCACGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCAC
*
39303136 TAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
66 TAGCACGAATGCTCTTCGG-ACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
39303191 TC-GGACTTAGCCCAGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCAC
39303255 TAGCACGAATGCT-TCTCGGGACTTAGCCCGGATATATCACTAGCACGAAT-CATCC
66 TAGCACGAATGCTCT-TC-GGACTTAGCCCGGATATATCACTAGCACGAATGC-TCC
39303310 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCAC
* *
39303375 TAGCACGAATGCTCCTCGGACTTAG-CCGGATATATCACTAGCGCGAATGCTCC
66 TAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
39303428 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCAC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCAC
39303493 TAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACT
66 TAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACT
39303533 CTCAATTCTC
Statistics
Matches: 321, Mismatches: 14, Indels: 15
0.92 0.04 0.04
Matches are distributed among these distances:
118 116 0.36
119 125 0.39
120 80 0.25
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (119 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCAC
TAGCACGAATGCTCTTCGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:39305035 original size:47 final size:47
Alignment explanation
Indices: 39304957--39305640 Score: 927
Period size: 47 Copynumber: 14.2 Consensus size: 47
39304947 CCCTTCGGGA
* * * * * *
39304957 CTTATCATATTTATACACTTTCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39305004 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39305051 CTTATCACATATATACACTTTCACATTCATCACATCAGCCACTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39305098 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
39305149 CCTGTCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39305196 CTTATCACATATATACACTTTCACATTCATCCCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39305243 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39305294 CTTATCACATATATACACTTTCACATTCATCACATCGGGCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
39305341 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCTACTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
39305392 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39305439 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39305486 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39305535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39305582 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39305631 CTTATCACAT
1 CTTATCACAT
39305641 TGGCCATTCG
Statistics
Matches: 567, Mismatches: 54, Indels: 32
0.87 0.08 0.05
Matches are distributed among these distances:
47 351 0.62
49 90 0.16
51 126 0.22
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39305169 original size:98 final size:94
Alignment explanation
Indices: 39304957--39305640 Score: 927
Period size: 98 Copynumber: 7.1 Consensus size: 94
39304947 CCCTTCGGGA
* * * * * * * *
39304957 CTTATCATATTTATACACTTTCACATCCATCACGTTGGCCACTAGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
39305022 TTTCACATTCATCACATCGGCTATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
39305051 CTTATCACATATATACACTTTCACATTCATCACATCAGCCACTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATAT
* * *
39305116 ACACTTTCACATTCATCACATTGGCCACTCGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
39305149 CCTGTCACATATATGCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
39305214 TTTCACATTCATCCCATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
39305243 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
39305308 ACACTTTCACATTCATCACATCGGGCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * * *
39305341 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCTACTCGGCCCTGTCACATATAT
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
*
39305406 ACACTTTCACATTCATCACATCGGCTATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
39305439 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
39305504 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
39305535 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
39305600 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
39305631 CTTATCACAT
1 CTTATCACAT
39305641 TGGCCATTCG
Statistics
Matches: 535, Mismatches: 45, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
94 129 0.24
96 142 0.27
98 264 0.49
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:39305242 original size:145 final size:143
Alignment explanation
Indices: 39304962--39305640 Score: 943
Period size: 145 Copynumber: 4.7 Consensus size: 143
39304952 CGGGACTTAT
* * * * * *
39304962 CATATTTATACACTTTCACATCCATCACGTTGGCCACTAGGCCCTGTCACATATATACACTTTCA
1 CATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCA
* *
39305027 CATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCAGCCA
66 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
*
39305092 CTAGGCCTTATCA
131 TTAGGCCTTATCA
* * * * *
39305105 CATATATATATACACTTTCACATTCATCACATTGGCCACTCGGCCCTGTCACATATATGCACTTT
1 C--ATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTT
* *
39305170 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCCCATCGGC
64 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
39305235 CATTAGGCCTTATCA
129 CATTAGGCCTTATCA
*
39305250 CATATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTT
1 C--ATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTT
*
39305315 CACATTCATCACATCGGGCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACAT
64 CACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATATACACTTTCACATTCATCACAT
* * * * * *
39305380 TGGCTACTCGGCCCTGTCA
125 CGGCCATTAGGCCTTATCA
* *
39305399 C--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCA
1 CATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCA
*
39305462 CATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGC
66 CATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGC
*
39305527 CATTCGGCCTTATCA
129 CATTAGGCCTTATCA
*
39305542 C--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTT
1 CATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTT
* *
39305605 CACATTCATCACATTGGCCATTCGGCCTTATCACAT
64 CACATTCATCACATCGGCCATTAGGCCTTATCACAT
39305641 TGGCCATTCG
Statistics
Matches: 496, Mismatches: 32, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
143 94 0.19
145 362 0.73
149 40 0.08
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGCCTTATCA
Found at i:39305640 original size:22 final size:22
Alignment explanation
Indices: 39305612--39305662 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
39305602 TTTCACATTC
39305612 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
39305634 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
39305656 ATCACAT
1 ATCACAT
39305663 ATATACACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:39305650 original size:118 final size:118
Alignment explanation
Indices: 39305516--39305758 Score: 477
Period size: 118 Copynumber: 2.1 Consensus size: 118
39305506 TTTCACATTC
39305516 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
39305581 CCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
66 CCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
*
39305634 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCATATTCATCACATCGGCCATTAGG
1 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
39305699 CCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
66 CCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
39305752 ATCACAT
1 ATCACAT
39305759 ATATACACTT
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 124 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (118 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
CCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
Found at i:39305694 original size:69 final size:70
Alignment explanation
Indices: 39305563--39305709 Score: 233
Period size: 69 Copynumber: 2.1 Consensus size: 70
39305553 TTTCACATTC
* *
39305563 ATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTC
1 ATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTA
39305628 GGCCTT
65 GGCCTT
* * *
39305634 ATCACATTGGCCATTCGGCCTTATCAC-ATATATACACTTTCATATTCATCACATCGGCCATTAG
1 ATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAG
39305698 GCCTT
66 GCCTT
39305703 ATCACAT
1 ATCACAT
39305710 ATATATACAC
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 46 0.65
71 25 0.35
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (70 bp):
ATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAG
GCCTT
Found at i:39305733 original size:49 final size:47
Alignment explanation
Indices: 39305634--39305778 Score: 245
Period size: 47 Copynumber: 3.0 Consensus size: 47
39305624 ATTCGGCCTT
*
39305634 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCATATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
* *
39305681 ATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTC
39305730 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
39305777 AT
1 AT
39305779 TCAAATATAC
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
47 47 0.52
49 44 0.48
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
Found at i:39307198 original size:85 final size:85
Alignment explanation
Indices: 39307063--39307229 Score: 325
Period size: 85 Copynumber: 2.0 Consensus size: 85
39307053 TGCCCATGCC
39307063 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
*
39307128 ATATCTTGTCCACCCATACT
66 ACATCTTGTCCACCCATACT
39307148 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
1 CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
39307213 ACATCTTGTCCACCCAT
66 ACATCTTGTCCACCCAT
39307230 GCTCATGGCC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 81 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (85 bp):
CTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTTTAGCCATA
ACATCTTGTCCACCCATACT
Found at i:39311293 original size:29 final size:29
Alignment explanation
Indices: 39311260--39311320 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
39311250 GTTGTATACA
39311260 AAATTTAG-AAATTGTGAGTTCTGGTTGCG
1 AAATTTAGTAAA-TGTGAGTTCTGGTTGCG
39311289 AAATTTAGTAAATGTGAGTTCTGGTTGCG
1 AAATTTAGTAAATGTGAGTTCTGGTTGCG
39311318 AAA
1 AAA
39311321 AGTTGGTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (29 bp):
AAATTTAGTAAATGTGAGTTCTGGTTGCG
Found at i:39318405 original size:56 final size:56
Alignment explanation
Indices: 39318319--39318438 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39318309 ACAAGGGATG
39318319 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
39318375 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAATAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39318431 ATGGGCAA
1 ATGGGCAA
39318439 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:39319652 original size:40 final size:40
Alignment explanation
Indices: 39319568--39319791 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
39319558 TCGAATGATG
* * * *
39319568 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39319608 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39319648 TCCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39319686 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39319726 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39319767 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39319792 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39319805 original size:40 final size:40
Alignment explanation
Indices: 39319569--39319825 Score: 235
Period size: 40 Copynumber: 6.5 Consensus size: 40
39319559 CGAATGATGT
* * * * *
39319569 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
** * *
39319609 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* *
39319649 CCGGGCTAAG--CCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
39319686 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
39319726 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* * **
39319767 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA-A
* *
39319808 CC-GGTTAAATTCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
39319826 TACGTGATTT
Statistics
Matches: 189, Mismatches: 19, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
38 33 0.17
39 3 0.02
40 140 0.74
41 13 0.07
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:39326337 original size:56 final size:56
Alignment explanation
Indices: 39326251--39326370 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
39326241 ACAAGGGATG
39326251 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
39326307 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
39326363 ATGGGCAA
1 ATGGGCAA
39326371 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Done.