Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 511 of 770
Found at i:158363891 original size:54 final size:54
Alignment explanation
Indices: 158363781--158363883 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
158363771 TGGATAAGTT
*
158363781 GTAGAATTAACGAAATACCCCTGTAGAATAGAATTACCAAAATACCCTTATAGG
1 GTAGAAATAACGAAATACCCCTGTAGAATAGAATTACCAAAATACCCTTATAGG
* ** * *
158363835 GTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCAAGATGCCCTT
1 GTAGAAATAACGAAATACCCCTGTAGAATAGAATTACCAAAATACCCTT
158363884 GTGGGGTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.23
Consensus pattern (54 bp):
GTAGAAATAACGAAATACCCCTGTAGAATAGAATTACCAAAATACCCTTATAGG
Found at i:158364593 original size:27 final size:26
Alignment explanation
Indices: 158364549--158364600 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
158364539 CTCGCTGCAG
*
158364549 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
158364576 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
158364601 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:158368594 original size:40 final size:40
Alignment explanation
Indices: 158368539--158368642 Score: 174
Period size: 40 Copynumber: 2.6 Consensus size: 40
158368529 TTGGCTCAGA
* *
158368539 TATAACAACCAGCACGAATGCCTTC-GAGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCAG-GACTTAACCCGGT
158368579 TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
158368619 TATAATAACCCGCACGAATGCCTT
1 TATAATAACCCGCACGAATGCCTT
158368643 GCACATATAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 60 0.98
41 1 0.02
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCAGGACTTAACCCGGT
Found at i:158369222 original size:2 final size:2
Alignment explanation
Indices: 158369215--158369253 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
158369205 CGAATTTAAC
158369215 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
158369254 CTAAATGTCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:158376821 original size:40 final size:40
Alignment explanation
Indices: 158376777--158376880 Score: 190
Period size: 40 Copynumber: 2.6 Consensus size: 40
158376767 TTGGCTCGGA
* *
158376777 TATAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
158376817 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
1 TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
158376857 TATAATAACCCGCACGAATGCCTT
1 TATAATAACCCGCACGAATGCCTT
158376881 GCACATATAT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (40 bp):
TATAATAACCCGCACGAATGCCTTCGGGACTTAACCCGGT
Found at i:158378794 original size:42 final size:42
Alignment explanation
Indices: 158378729--158378832 Score: 165
Period size: 42 Copynumber: 2.5 Consensus size: 42
158378719 ACACGCCCAG
*
158378729 GACACACGCCTGTGCCT-GAGGCCGTGTCATCCACATGGCTGA
1 GACACACGCCTGTGTCTCG-GGCCGTGTCATCCACATGGCTGA
*
158378771 GACACACGCATGTGTCTCGGGCCGTGTCATCCACATGGCTGA
1 GACACACGCCTGTGTCTCGGGCCGTGTCATCCACATGGCTGA
*
158378813 GACACACACCTGTGTCTCGG
1 GACACACGCCTGTGTCTCGG
158378833 CCCATGTGCT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.20
Consensus pattern (42 bp):
GACACACGCCTGTGTCTCGGGCCGTGTCATCCACATGGCTGA
Found at i:158381657 original size:40 final size:40
Alignment explanation
Indices: 158381530--158381659 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
158381520 ATGCTGGAAA
* *
158381530 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
158381570 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
158381610 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
158381650 TTATATCCGG
1 TTATATCCGG
158381660 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:158389625 original size:40 final size:40
Alignment explanation
Indices: 158389498--158389627 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
158389488 ATGCTGGAAA
* *
158389498 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
158389538 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
158389578 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
158389618 TTATATCCGG
1 TTATATCCGG
158389628 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:158395800 original size:14 final size:14
Alignment explanation
Indices: 158395781--158395827 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
158395771 CATGTTCACA
158395781 TATAAATTCATGAG
1 TATAAATTCATGAG
*
158395795 TATAAATGTTCA-CA-
1 TATAAA--TTCATGAG
158395809 TATAAATTCATGAG
1 TATAAATTCATGAG
158395823 TATAA
1 TATAA
158395828 GAAAGCATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 4 0.15
13 1 0.04
14 17 0.63
15 1 0.04
16 4 0.15
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.36
Consensus pattern (14 bp):
TATAAATTCATGAG
Found at i:158395805 original size:28 final size:28
Alignment explanation
Indices: 158395772--158395827 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
158395762 TTCGCAACAC
158395772 ATGTTCACATATAAATTCATGAGTATAA
1 ATGTTCACATATAAATTCATGAGTATAA
158395800 ATGTTCACATATAAATTCATGAGTATAA
1 ATGTTCACATATAAATTCATGAGTATAA
158395828 GAAAGCATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (28 bp):
ATGTTCACATATAAATTCATGAGTATAA
Found at i:158404196 original size:40 final size:39
Alignment explanation
Indices: 158404069--158404198 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
158404059 ATGCTGGAAA
* *
158404069 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
158404109 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
158404149 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
158404189 TTATATCCGG
1 TTATATCCGG
158404199 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:158408286 original size:54 final size:54
Alignment explanation
Indices: 158408079--158408286 Score: 184
Period size: 53 Copynumber: 3.9 Consensus size: 54
158408069 TTTCCTTTTT
* * ** * *
158408079 AAACTTACCATTTCCATTTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
* * * * *
158408132 GAACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATA
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
* ** * * ** * * *
158408186 GTAGTTTATCAATGCCATGTCTTGATATGGTCTTACATGATTTCCTTGCCTTGTA
1 -AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
** *
158408241 AAACTTACCAATGCCATGCCTTGGCATCATCTTACTTGGTATCCTT
1 AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
158408287 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 35, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 44 0.37
54 34 0.29
55 40 0.34
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (54 bp):
AAACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:158410065 original size:35 final size:36
Alignment explanation
Indices: 158410019--158410091 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 36
158410009 TCAACTGGGG
158410019 TATGTTGGCTTGCATTTCTTGGTG-TGGTCGAATGC
1 TATGTTGGCTTGCATTTCTTGGTGTTGGTCGAATGC
158410054 TATGTTGGCTTGCATTTCTTGGTGTTGGTCGAATGC
1 TATGTTGGCTTGCATTTCTTGGTGTTGGTCGAATGC
158410090 TA
1 TA
158410092 CTTTCCCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 24 0.65
36 13 0.35
ACGTcount: A:0.12, C:0.14, G:0.30, T:0.44
Consensus pattern (36 bp):
TATGTTGGCTTGCATTTCTTGGTGTTGGTCGAATGC
Found at i:158413769 original size:39 final size:39
Alignment explanation
Indices: 158413696--158413857 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
158413686 TGTGAATGAA
158413696 TGTGCGAATTGTGATATCC-GGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
158413734 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
158413773 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
158413812 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
158413852 TGTGCG
1 TGTGCG
158413858 GGTTACCATA
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
38 19 0.17
39 79 0.69
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:158413873 original size:40 final size:39
Alignment explanation
Indices: 158413696--158413887 Score: 242
Period size: 39 Copynumber: 4.9 Consensus size: 39
158413686 TGTGAATGAA
* *
158413696 TGTGCGAATTGTGATATCC-GGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
158413734 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
158413773 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
158413812 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
158413852 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
158413888 TGTTTTGAAC
Statistics
Matches: 138, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 19 0.14
39 79 0.57
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:158418581 original size:29 final size:29
Alignment explanation
Indices: 158418548--158418621 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
158418538 GTGACGAGAT
158418548 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
158418577 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
158418606 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
158418622 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:158418637 original size:29 final size:28
Alignment explanation
Indices: 158418605--158418679 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
158418595 CTGGAAATAT
* *
158418605 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
158418634 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
158418662 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
158418680 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:158418648 original size:58 final size:57
Alignment explanation
Indices: 158418548--158418679 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
158418538 GTGACGAGAT
* * * * * *
158418548 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
158418606 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
158418663 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
158418680 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:158426782 original size:71 final size:71
Alignment explanation
Indices: 158426696--158426859 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
158426686 CGATTTGTCT
158426696 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
158426761 CTTTCA
66 CTTTCA
158426767 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
158426832 CTTTCA
66 CTTTCA
158426838 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
158426860 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:158426897 original size:71 final size:70
Alignment explanation
Indices: 158426696--158426893 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
158426686 CGATTTGTCT
* * * *
158426696 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
158426761 CTTTCA
65 CTTTCA
* * * *
158426767 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
158426832 CTTTCA
65 CTTTCA
* *
158426838 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
158426894 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:158434352 original size:71 final size:71
Alignment explanation
Indices: 158434266--158434429 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
158434256 CGATTTGTCT
158434266 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
158434331 CTTTCA
66 CTTTCA
158434337 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
158434402 CTTTCA
66 CTTTCA
158434408 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
158434430 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:158434467 original size:71 final size:70
Alignment explanation
Indices: 158434266--158434463 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
158434256 CGATTTGTCT
* * * *
158434266 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
158434331 CTTTCA
65 CTTTCA
* * * *
158434337 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
158434402 CTTTCA
65 CTTTCA
* *
158434408 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
158434464 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:158438843 original size:69 final size:66
Alignment explanation
Indices: 158438655--158438852 Score: 171
Period size: 69 Copynumber: 2.9 Consensus size: 66
158438645 GCTCGTAGGC
* * * ***
158438655 GAATAGCTACATCCTCAGCACAGCTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGTG
1 GAATAGCTACAGCCCCAGCACAGTTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACACATG
158438720 A
66 A
* * * * * * ** * * *
158438721 GCAAAGAGCTACAGCCCACATCACAATTAGCGAGAGAAAAGCTCCCAACTGTCATAGTAAGGGTC
1 G--AATAGCTACAGCCC-CAGCACAGTTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAA--GAC
158438786 ACATGA
61 ACATGA
* *
158438792 GAATAGCTACAGCCCCTAGCATAGTTAGTGAGAGCAAAGCTCCTAGTTGTCAAATTAAGAC
1 GAATAGCTACAGCCCC-AGCACAGTTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAAGAC
158438853 TTGCAAGCGA
Statistics
Matches: 97, Mismatches: 29, Indels: 11
0.71 0.21 0.08
Matches are distributed among these distances:
66 1 0.01
67 2 0.02
68 12 0.12
69 76 0.78
71 6 0.06
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (66 bp):
GAATAGCTACAGCCCCAGCACAGTTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACACATG
A
Found at i:158438894 original size:138 final size:137
Alignment explanation
Indices: 158438655--158438920 Score: 331
Period size: 138 Copynumber: 1.9 Consensus size: 137
158438645 GCTCGTAGGC
* * **
158438655 GAATAGCTACATCCTCAGCACAGCTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGTG
1 GAATAGCTACAGCCCCAGCACAGCTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGCA
* * * *
158438720 AGCAAAGAGCTACAGCCCACATCACAATTAGCGAGAGAAAAGCTCCCAACTGTCATAGTAAGGGT
66 AGCAAAGAGCTACACCCCACATCACAATTAGAGAGAGAAAAGCTCCCAAATGTCATACTAAGGGT
158438785 CACATGA
131 CACATGA
* * *
158438792 GAATAGCTACAGCCCCTAGCATAGTTAGTGAGAGCAAAGCTCCTAGTTGTCAAATTAAGACTTGC
1 GAATAGCTACAGCCCC-AGCACAGCTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGC
* * * * *
158438857 AAGCGAAGAG-TCACAACCTCCA-AT-AGAGTTAGAGAGAGCAGAGCTCCCAAATGTCATACTAA
65 AAGCAAAGAGCT-AC-ACC-CCACATCACAATTAGAGAGAGAAAAGCTCCCAAATGTCATACTAA
158438919 GG
127 GG
158438921 CTCGCAGGTG
Statistics
Matches: 109, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
137 15 0.14
138 87 0.80
139 4 0.04
140 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (137 bp):
GAATAGCTACAGCCCCAGCACAGCTAGTGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGCA
AGCAAAGAGCTACACCCCACATCACAATTAGAGAGAGAAAAGCTCCCAAATGTCATACTAAGGGT
CACATGA
Found at i:158438934 original size:69 final size:68
Alignment explanation
Indices: 158438816--158439108 Score: 243
Period size: 69 Copynumber: 4.3 Consensus size: 68
158438806 CCTAGCATAG
* * ** * * * * *
158438816 TTAGTGAGAGCAAAGCTCCTAGTTGTCAAATTAAGACTTGCAAGCGAAGAGTCACAACCTCCAAT
1 TTAGAGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGCGAAGAGTCA-AACCTCCAAT
* *
158438881 AGAG
65 ACAA
* * * * *
158438885 TTAGAGAGAGCAGAGCTCCCAAATGTCATACTAAGGCTCGCAGGTGAAGAGCTGAAACCTCCTAT
1 TTAGAGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGCGAAGAG-TCAAACCTCCAAT
158438950 ACAA
65 ACAA
*
158438954 TTA-ATGAGAGCAAAGCTCCCAACT-TCCATACTAAGGCTCGCAGGCGAAGAGTCGTAACC-CCT
1 TTAGA-GAGAGCAAAGCTCCCAACTGT-CATACTAAGGCTCGCAGGCGAAGAGTC-AAACCTCC-
**
158439016 AGCACAA
62 AATACAA
* * * * * * **
158439023 TTAGTGAGAGCAAAGCTCCCAACTGCCATACTAAGGCTCACAGGCAAAGAGTCGTAACC-CTAGC
1 TTAGAGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGCGAAGAGTC-AAACCTCCAAT
158439087 ACAA
65 ACAA
*
158439091 TTAGTGAGAGCAAAGCTC
1 TTAGAGAGAGCAAAGCTC
158439109 TAGGTGAAAC
Statistics
Matches: 189, Mismatches: 28, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
68 30 0.16
69 157 0.83
70 2 0.01
ACGTcount: A:0.35, C:0.25, G:0.22, T:0.19
Consensus pattern (68 bp):
TTAGAGAGAGCAAAGCTCCCAACTGTCATACTAAGGCTCGCAGGCGAAGAGTCAAACCTCCAATA
CAA
Found at i:158438962 original size:138 final size:138
Alignment explanation
Indices: 158438682--158439066 Score: 320
Period size: 138 Copynumber: 2.8 Consensus size: 138
158438672 GCACAGCTAG
** *
158438682 TGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGTGAGCAAAGAGCTACAGCCCACATCACAA
1 TGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGCAAGCAAAGAGCTACACCCCACATCACAA
* * * * * * * *
158438747 TTAGCGAGAGAAAAGCTCCCAACTGTCATAGTAAGGGTCACATGAGAATAGCTACAGCCCCTAGC
66 TTAGAGAGAGAAAAGCTCCCAAATGTCATACTAAGGCTCACAGGAGAAGAGCTACAACCCCTAAC
*
158438812 ATAGTTAG
131 ATAGTTAA
* *
158438820 TGAGAGCAAAGCTCCTAGTTGTCAAATTAAGACTTGCAAGCGAAGAG-TCACAACCTCCA-AT-A
1 TGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGCAAGCAAAGAGCT-AC-ACC-CCACATCA
* * * * * *
158438882 GAGTTAGAGAGAGCAGAGCTCCCAAATGTCATACTAAGGCTCGCAGGTGAAGAGCTGA-AACCTC
63 CAATTAGAGAGAGAAAAGCTCCCAAATGTCATACTAAGGCTCACAGGAGAAGAGCT-ACAACC-C
158438946 CTATACA-A-TTAA
126 CTA-ACATAGTTAA
* * * * * * * * * *
158438958 TGAGAGCAAAGCTCCCAACTT-CCATACTAAGGCTCGCAGGCGAAGAGTCGTA-ACCCC-TAGCA
1 TGAGAGCAAAGCT-CCTAGTTGTCAAACTAAGACTTGCAAGCAAAGAG-C-TACACCCCACATCA
* * * *
158439020 CAATTAGTGAGAGCAAAGCTCCCAACTGCCATACTAAGGCTCACAGG
63 CAATTAGAGAGAGAAAAGCTCCCAAATGTCATACTAAGGCTCACAGG
158439067 CAAAGAGTCG
Statistics
Matches: 199, Mismatches: 36, Indels: 24
0.77 0.14 0.09
Matches are distributed among these distances:
137 4 0.02
138 173 0.87
139 15 0.08
140 6 0.03
141 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (138 bp):
TGAGAGCAAAGCTCCTAGTTGTCAAACTAAGACTTGCAAGCAAAGAGCTACACCCCACATCACAA
TTAGAGAGAGAAAAGCTCCCAAATGTCATACTAAGGCTCACAGGAGAAGAGCTACAACCCCTAAC
ATAGTTAA
Found at i:158440802 original size:39 final size:39
Alignment explanation
Indices: 158440757--158440914 Score: 284
Period size: 39 Copynumber: 4.1 Consensus size: 39
158440747 ATGCAAGACA
158440757 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
158440796 CTGGAAATGTATCCGGGCTAAAGT-CC-CAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
158440833 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
158440872 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
158440911 CTGG
1 CTGG
158440915 TGCTGGTAAT
Statistics
Matches: 115, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
37 35 0.30
38 4 0.03
39 76 0.66
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:158440847 original size:76 final size:78
Alignment explanation
Indices: 158440757--158440914 Score: 284
Period size: 76 Copynumber: 2.1 Consensus size: 78
158440747 ATGCAAGACA
*
158440757 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAG-TC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACC
158440821 C-CAGGCTTCGTG
66 CGCAGGCTTCGTG
*
158440833 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTGTCCGGGCTAAAGACC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACC
158440898 CGCAGGCTTCGTG
66 CGCAGGCTTCGTG
158440911 CTGG
1 CTGG
158440915 TGCTGGTAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
76 61 0.78
77 2 0.03
78 15 0.19
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (78 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGACC
CGCAGGCTTCGTG
Found at i:158446542 original size:39 final size:39
Alignment explanation
Indices: 158446462--158446580 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
158446452 ATGCAAGACA
158446462 CTGGAAATGTATCCGGGCTAAAGT-CC-CAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
158446499 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
158446538 CTGGAAATGTGTCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
158446577 CTGG
1 CTGG
158446581 TGCTGGTAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
37 24 0.31
38 2 0.03
39 52 0.67
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:158452204 original size:39 final size:39
Alignment explanation
Indices: 158452126--158452247 Score: 210
Period size: 39 Copynumber: 3.1 Consensus size: 39
158452116 ATGCAAGACA
158452126 CTGGAAATGTATCCGGGCTAAAGT-CCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
158452164 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
158452203 CTGGAAATGTGTCCGGGCTAAAGTATCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAG--TCCCGCAGGCTTCGTG
158452244 CTGG
1 CTGG
158452248 TGCTGGTAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
38 24 0.30
39 36 0.45
41 20 0.25
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:158466598 original size:40 final size:40
Alignment explanation
Indices: 158466539--158466745 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
158466529 CAATTGAATG
* * * *
158466539 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
158466579 ATATCCGGGTTAAGACCCGAAGGCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
158466618 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
158466658 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
158466698 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
158466738 ATATCCGG
1 ATATCCGG
158466746 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 34 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:158466718 original size:80 final size:77
Alignment explanation
Indices: 158466540--158466745 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 77
158466530 AATTGAATGA
* * ** * * *
158466540 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
*
158466605 TGTGCTAGTGAC
66 TGTGCAAGTGAC
* * *
158466617 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
158466682 ATTTGTGCAAGTCGTTC
64 A-TTGTGCAAGT-G-AC
* *
158466699 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
158466746 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
77 1 0.01
79 53 0.49
80 52 0.48
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (77 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TGTGCAAGTGAC
Found at i:158476382 original size:40 final size:40
Alignment explanation
Indices: 158476323--158476490 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
158476313 CGGGACTTTA
* * *
158476323 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
158476363 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
158476403 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
158476443 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGG-CTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
158476482 CCCGGATAT
1 CCCGGATAT
158476491 CATTCAATTT
Statistics
Matches: 106, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 14 0.13
40 86 0.81
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:158479712 original size:40 final size:39
Alignment explanation
Indices: 158479632--158479823 Score: 179
Period size: 40 Copynumber: 4.8 Consensus size: 39
158479622 TTGAATTATG
* ** *
158479632 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAGGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGA-GTTACTATA
* * *
158479672 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATATA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTACTATA
* * *
158479712 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACTATA
* *
158479751 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTACTATA
* ** * *
158479791 ACCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
158479824 CGTTATACCG
Statistics
Matches: 126, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 32 0.25
40 87 0.69
41 7 0.06
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTACTATA
Found at i:158479771 original size:79 final size:80
Alignment explanation
Indices: 158479632--158479823 Score: 228
Period size: 79 Copynumber: 2.4 Consensus size: 80
158479622 TTGAATTATG
** * * *
158479632 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAGGTGACTATATCCGGACTAAGATCCGAAGGCGTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTGACTAAACCCGGACTAAGATCCGAAGGCATT
158479696 CGTGCGAGTTAATATA
65 CGTGCGAGTTAATATA
* **
158479712 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
*
158479775 CGTGCGAGTTACTATA
65 CGTGCGAGTTAATATA
* ** *
158479791 ACCGGGCTTTGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
158479824 CGTTATACCG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 57 0.59
80 38 0.40
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATATA
Found at i:158483059 original size:47 final size:49
Alignment explanation
Indices: 158483008--158483174 Score: 134
Period size: 47 Copynumber: 3.5 Consensus size: 49
158482998 GAATTGACGG
*
158483008 TTAAGGATACCATGTAAGACCATGTCAACACATGGCATCGGCA-T-TGA
1 TTAAGGATACCATGTAAGACCATGTCAACACATGGCATCGGCACTAAGA
* ** * * *
158483055 TTAAGG-TCTCCATGTAAGACCACATCAAGATATGGCATTGGCACTAAGA
1 TTAAGGAT-ACCATGTAAGACCATGTCAACACATGGCATCGGCACTAAGA
* ** **
158483104 -CAAGGATACCATGTAAGACCATGTTTGGA-ACATGGCATTTG-A-TAAGA
1 TTAAGGATACCATGTAAGACCATG--TCAACACATGGCATCGGCACTAAGA
*
158483151 -CAAGGATACCATGTAAGACCATGT
1 TTAAGGATACCATGTAAGACCATGT
158483175 TTGGAACATG
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 1 0.01
47 63 0.64
48 19 0.19
49 13 0.13
50 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (49 bp):
TTAAGGATACCATGTAAGACCATGTCAACACATGGCATCGGCACTAAGA
Found at i:158483123 original size:48 final size:47
Alignment explanation
Indices: 158483064--158483241 Score: 143
Period size: 47 Copynumber: 3.8 Consensus size: 47
158483054 ATTAAGGTCT
*
158483064 CCATGTAAGACCACATCAAG-ATATGGCATTGGCACTAAGACAAGGATA
1 CCATGTAAGACCACATCAAGAACATGGCATTGG-A-TAAGACAAGGATA
** *** *
158483112 CCATGTAAGACCATGTTTGGAACATGGCATTTGATAAGACAAGGATA
1 CCATGTAAGACCACATCAAGAACATGGCATTGGATAAGACAAGGATA
** *** *
158483159 CCATGTAAGACCATGTTTGGAACATGGCATTTGG-TAAGATAAGGATA
1 CCATGTAAGACCACATCAAGAACATGGCA-TTGGATAAGACAAGGATA
*
158483206 TCATGTAAGA-CA-ATGCCAAG-ACATGGCATT-GATAAG
1 CCATGTAAGACCACAT--CAAGAACATGGCATTGGATAAG
158483242 TTCTATATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 7 0.06
46 10 0.09
47 64 0.58
48 19 0.17
49 10 0.09
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (47 bp):
CCATGTAAGACCACATCAAGAACATGGCATTGGATAAGACAAGGATA
Found at i:158483175 original size:47 final size:47
Alignment explanation
Indices: 158483099--158483216 Score: 209
Period size: 47 Copynumber: 2.5 Consensus size: 47
158483089 GCATTGGCAC
158483099 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
*
158483146 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
* *
158483193 TAAGATAAGGATATCATGTAAGAC
1 TAAGACAAGGATACCATGTAAGAC
158483217 AATGCCAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGA
Found at i:158483325 original size:55 final size:54
Alignment explanation
Indices: 158483207--158483420 Score: 243
Period size: 55 Copynumber: 4.0 Consensus size: 54
158483197 ATAAGGATAT
* * * * ** *
158483207 CATGTAAGACAATGCCAAGACATGGCATTGATAAGTTCTATATGGAAAAGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCCATAAGGAAAAGGTAC
* *
158483261 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACCATAAGGAAAAGGTCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CCATAAGGAAAAGGTAC
* * *
158483316 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-CATAAGG-CAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCCATAAGGAAAAGG-TAC
* * * * *
158483369 CATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAAAAAGGAAAAGGT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCCATAAGGAAAAGGT
158483421 TCCCGAGTAA
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 43 0.32
54 40 0.29
55 49 0.36
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCCATAAGGAAAAGGTAC
Found at i:158483380 original size:53 final size:53
Alignment explanation
Indices: 158483199--158483416 Score: 240
Period size: 54 Copynumber: 4.0 Consensus size: 53
158483189 TTGGTAAGAT
* * *
158483199 AAGGATATCATGTAAGACAATGCCAAGACATGGCATTGATAAGTTCTATATGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGA
* * * * *
158483253 AAAGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACCATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT--CATAAGG-A
* * * * *
158483309 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGA
* * *
158483361 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCAAAAAGGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC-ATAAGGA
158483415 AA
1 AA
158483417 AGGTTCCCGA
Statistics
Matches: 139, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
52 4 0.03
53 44 0.32
54 47 0.34
55 39 0.28
56 5 0.04
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCATAAGGA
Found at i:158487900 original size:42 final size:43
Alignment explanation
Indices: 158487796--158487994 Score: 223
Period size: 42 Copynumber: 4.7 Consensus size: 43
158487786 TTTGTTATCA
* * * *
158487796 TGTAAGACCAC-ATCTAGGACGTTGGCATCAAGT-TATGATTTACG
1 TGTAAGACCACTGTCTGGGATGTTGGCATC--GTATTTGATTT-CG
158487840 TGTAAGACCAC-GTCTGGGATGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACTGTCTGGGATGTTGGCATCGTATTTGATTTCG
* * * *
158487882 TGTAAAACC-CTGTTTGGGACAG-TGGCATCGATATTTGATTACG
1 TGTAAGACCACTGTCTGGGA-TGTTGGCATCG-TATTTGATTTCG
158487925 TGTAAGACCACT-TCTGGGATGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACTGTCTGGGATGTTGGCATCGTATTTGATTTCG
*
158487967 TGTAAGACC-CTGTCTGGGACGTTGGCAT
1 TGTAAGACCACTGTCTGGGATGTTGGCAT
158487995 TGTACGAGCT
Statistics
Matches: 135, Mismatches: 13, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
41 3 0.02
42 63 0.47
43 41 0.30
44 28 0.21
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACTGTCTGGGATGTTGGCATCGTATTTGATTTCG
Found at i:158487943 original size:85 final size:85
Alignment explanation
Indices: 158487812--158487994 Score: 282
Period size: 85 Copynumber: 2.1 Consensus size: 85
158487802 ACCACATCTA
158487812 GGACGTTGGCATC-A-AGTTATGATTTACGTGTAAGACCACGTCTGGGATGTTGGCATCGTATTT
1 GGACGTTGGCATCGATA-TT-TGA-TTACGTGTAAGACCACGTCTGGGATGTTGGCATCGTATTT
*
158487875 GATTTCGTGTAAAACCCTGTTTG
63 GATTTCGTGTAAAACCCTGTCTG
*
158487898 GGACAG-TGGCATCGATATTTGATTACGTGTAAGACCACTTCTGGGATGTTGGCATCGTATTTGA
1 GGAC-GTTGGCATCGATATTTGATTACGTGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGA
*
158487962 TTTCGTGTAAGACCCTGTCTG
65 TTTCGTGTAAAACCCTGTCTG
158487983 GGACGTTGGCAT
1 GGACGTTGGCAT
158487995 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
84 1 0.01
85 70 0.78
86 14 0.16
87 4 0.04
88 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (85 bp):
GGACGTTGGCATCGATATTTGATTACGTGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGAT
TTCGTGTAAAACCCTGTCTG
Found at i:158491419 original size:29 final size:29
Alignment explanation
Indices: 158491278--158491407 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
158491268 GACAAGATTG
* * * *
158491278 GCACTAAGTGTGCGGGTTTAAAATTGTATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* * *
158491308 GCACTAAGTGTGCGAGTTTG--ATTCTATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
158491336 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
158491365 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
158491394 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
158491408 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 21 0.23
29 50 0.56
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:158499327 original size:30 final size:29
Alignment explanation
Indices: 158499291--158499419 Score: 154
Period size: 28 Copynumber: 4.5 Consensus size: 29
158499281 GACAAGATTG
* *
158499291 GCACTAAGTGTGCGGGTTTAAAATTGTATA
1 GCACTAAGTGTGCGAGTTTAAAA-TATATA
* * *
158499321 GCACTAAGTGTGCGAGTTT-GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATATATA
* *
158499349 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTTTAAAATATATA
* *
158499378 GCACTAAGTGTGCGAG-CTGAAATATATA
1 GCACTAAGTGTGCGAGTTTAAAATATATA
158499406 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
158499420 GATTCACTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
28 45 0.52
29 23 0.27
30 18 0.21
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTAAAATATATA
Found at i:158499392 original size:57 final size:58
Alignment explanation
Indices: 158499291--158499419 Score: 172
Period size: 57 Copynumber: 2.2 Consensus size: 58
158499281 GACAAGATTG
* * * * * * *
158499291 GCACTAAGTGTGCGGGTTTAAAATTGTATAGCACTAAGTGTGCGAGTTTG-ATTCTATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAG-CTGAAATATATA
158499349 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAATATATA
158499406 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
158499420 GATTCACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
56 2 0.03
57 41 0.65
58 20 0.32
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:158506604 original size:42 final size:41
Alignment explanation
Indices: 158506490--158506646 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 41
158506480 ATGTGTTATA
*
158506490 GTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTATGATTTAT
1 GTGTAAGACC-CGTCTGGGACGTTGGCATCGTA-TT-TGATTT-C
* *
158506534 GTGTAAGACCAGTCTGGGACGTTAGCATCGTATTTGATTTC
1 GTGTAAGACCCGTCTGGGACGTTGGCATCGTATTTGATTTC
* * * *
158506575 GTGTAAGACCCTGTCTGGGATAG-TGGCATCTATATTTTATTAC
1 GTGTAAGACCC-GTCTGGGA-CGTTGGCATC-GTATTTGATTTC
* * *
158506618 ATGTAAGACCACATTTGGGACGTTGGCAT
1 GTGTAAGACC-CGTCTGGGACGTTGGCAT
158506647 TGTACAAGAT
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 10 0.11
42 21 0.22
43 51 0.54
44 12 0.13
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (41 bp):
GTGTAAGACCCGTCTGGGACGTTGGCATCGTATTTGATTTC
Found at i:158508363 original size:29 final size:27
Alignment explanation
Indices: 158508329--158508431 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
158508319 TACTCAATCA
*
158508329 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
158508358 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
158508387 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
158508416 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
158508432 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:158514454 original size:40 final size:39
Alignment explanation
Indices: 158514289--158514472 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
158514279 AAATTGAATG
* * *
158514289 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
158514329 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
158514369 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
158514409 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
158514448 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
158514473 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:158514497 original size:80 final size:81
Alignment explanation
Indices: 158514329--158514517 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
158514319 GCTGGAAATT
* * * *
158514329 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
158514394 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
158514410 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
158514473 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
158514489 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
158514518 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:158521101 original size:40 final size:40
Alignment explanation
Indices: 158521042--158521249 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
158521032 CAATTGAATG
* * * *
158521042 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
158521082 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
158521122 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
158521162 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
158521202 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
158521242 ATATCCGG
1 ATATCCGG
158521250 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:158521180 original size:80 final size:80
Alignment explanation
Indices: 158521043--158521249 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
158521033 AATTGAATGA
* * ** * * *
158521043 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
158521108 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
158521121 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
158521186 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
158521203 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
158521250 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:158529216 original size:40 final size:40
Alignment explanation
Indices: 158529157--158529364 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
158529147 CAATTGAATG
* * * *
158529157 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
158529197 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
158529237 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
158529277 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
158529317 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
158529357 ATATCCGG
1 ATATCCGG
158529365 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:158529295 original size:80 final size:80
Alignment explanation
Indices: 158529158--158529364 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
158529148 AATTGAATGA
* * ** * * *
158529158 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
158529223 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
158529236 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
158529301 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
158529318 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
158529365 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:158537319 original size:24 final size:24
Alignment explanation
Indices: 158537291--158537342 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
158537281 TCACGGTTTC
158537291 GAAGAGGCAATGTGGGAACCCAAG
1 GAAGAGGCAATGTGGGAACCCAAG
158537315 GAAGAGGCAATGTGGGAACCCAAG
1 GAAGAGGCAATGTGGGAACCCAAG
158537339 GAAG
1 GAAG
158537343 CTATGAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.38, T:0.08
Consensus pattern (24 bp):
GAAGAGGCAATGTGGGAACCCAAG
Found at i:158543766 original size:29 final size:29
Alignment explanation
Indices: 158543726--158543828 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
158543716 GTTGAGAGAT
*
158543726 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
158543755 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
158543784 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
158543813 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
158543829 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:158552055 original size:39 final size:39
Alignment explanation
Indices: 158551974--158552139 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 39
158551964 AAATTGAATG
* *
158551974 ATATCCGGGCTAAG-CCCGAAGACAATTATGC--TGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGG---TT
* *
158552013 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
**
158552052 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGC-AGTGGTT
* * *
158552092 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCA-GTGGTT
158552132 ATATCCGG
1 ATATCCGG
158552140 TTATATTCCG
Statistics
Matches: 106, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.40
40 56 0.53
41 2 0.02
42 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAGTGGTT
Found at i:158560034 original size:40 final size:40
Alignment explanation
Indices: 158559968--158560118 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
158559958 AAATTGAATG
* * *
158559968 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
158560007 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
158560047 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
158560087 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
158560119 ACATGGTTAT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:158560132 original size:40 final size:40
Alignment explanation
Indices: 158560005--158560134 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
158559995 ATGCTGGAAA
* * *
158560005 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
158560045 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
158560085 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
158560125 TTATATCCGG
1 TTATATCCGG
158560135 TTATATTCCG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:158561702 original size:31 final size:31
Alignment explanation
Indices: 158561661--158561724 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
158561651 CCTTTTCATA
*
158561661 TTTCATATTTCATAACACTGG-GCCGAAGCCT
1 TTTCAAATTTCATAACAC-GGCGCCGAAGCCT
**
158561692 TTTCAAATTTCATATTACGGCGCCGAAGCCT
1 TTTCAAATTTCATAACACGGCGCCGAAGCCT
158561723 TT
1 TT
158561725 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (31 bp):
TTTCAAATTTCATAACACGGCGCCGAAGCCT
Found at i:158561965 original size:23 final size:23
Alignment explanation
Indices: 158561914--158562075 Score: 170
Period size: 23 Copynumber: 7.0 Consensus size: 23
158561904 GCTTTATCAT
**
158561914 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGG-GGCAAAGCC-CTTTTA
*
158561939 ATAACTGGGGCAAAGCCCTTTTT
1 ATAACTGGGGCAAAGCCCTTTTA
*
158561962 ATAAC-AGGGCATAAGCCC-TTTA
1 ATAACTGGGGCA-AAGCCCTTTTA
* *
158561984 ATAACTGGGGCGTAAG-CCTTTTG
1 ATAACTGGGGC-AAAGCCCTTTTA
*
158562007 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCA-AAGCCCTTTTA
*
158562031 ATAACTGGGGCATAGCCC-TTTA
1 ATAACTGGGGCAAAGCCCTTTTA
158562053 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCA-AAGCCCTTTT
158562076 TCACTTCCTC
Statistics
Matches: 117, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
22 30 0.26
23 50 0.43
24 29 0.25
25 8 0.07
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (23 bp):
ATAACTGGGGCAAAGCCCTTTTA
Found at i:158562048 original size:69 final size:69
Alignment explanation
Indices: 158561914--158562075 Score: 222
Period size: 69 Copynumber: 2.3 Consensus size: 69
158561904 GCTTTATCAT
* *
158561914 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTTATAACAGGGCATAAGC
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTGATAACAGGGCATAAGC
158561978 CCTTTA
64 CCTTTA
* * *
158561984 ATAACTGGGGCGTAAG-CCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAT-AGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCCCTTTTGATAAC-AGGGCATAAGC
158562047 CCTTTA
64 CCTTTA
158562053 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
158562076 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
68 17 0.20
69 44 0.53
70 22 0.27
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (69 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCCCTTTTGATAACAGGGCATAAGCCC
TTTA
Found at i:158562075 original size:46 final size:46
Alignment explanation
Indices: 158561914--158562075 Score: 195
Period size: 46 Copynumber: 3.5 Consensus size: 46
158561904 GCTTTATCAT
* * *
158561914 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTT
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAGCCC-TTTA
* * * *
158561962 ATAAC-AGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAT-AGCCCTTTA
*
158562007 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAGCCCTTTA
158562053 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
158562076 TCACTTCCTC
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
45 23 0.23
46 51 0.52
47 20 0.20
48 5 0.05
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (46 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAGCCCTTTA
Found at i:158562147 original size:9 final size:9
Alignment explanation
Indices: 158562133--158562207 Score: 53
Period size: 9 Copynumber: 7.9 Consensus size: 9
158562123 ATCTCGTGTG
158562133 CATATCATA
1 CATATCATA
*
158562142 CATATCATGTG
1 CATATCA--TA
158562153 CATATCATA
1 CATATCATA
* *
158562162 CATGTCATGTG
1 CATATCA--TA
158562173 CATATCATA
1 CATATCATA
158562182 CATATCAT-
1 CATATCATA
**
158562190 GGTAATCATA
1 CAT-ATCATA
158562200 CATATCAT
1 CATATCAT
158562208 GTTTATCAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
8 1 0.02
9 33 0.66
10 1 0.02
11 15 0.30
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:158562152 original size:20 final size:20
Alignment explanation
Indices: 158562129--158562209 Score: 130
Period size: 20 Copynumber: 4.2 Consensus size: 20
158562119 GAACATCTCG
158562129 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
158562149 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
158562169 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
158562189 TG-GTA-ATCATACATATCA
1 TGTGCATATCATACATATCA
158562207 TGT
1 TGT
158562210 TTATCAAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.26
19 2 0.04
20 40 0.70
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:158563547 original size:27 final size:27
Alignment explanation
Indices: 158563518--158564091 Score: 629
Period size: 27 Copynumber: 21.6 Consensus size: 27
158563508 GGGTATTTTA
* * *
158563518 GTAATTTTGTAAATCGAGGGCAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
158563545 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
158563572 GTAATTCTATAAATCGAGGCT-AAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
158563598 G-AATACTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
158563624 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
158563651 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
158563678 GTAATTATATAAAT-TAGGGGTAAAAAG
1 GTAATTCTGTAAATCGA-GGGTAAAACG
* **
158563705 GTAATT-TATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
158563731 GTAATTCTGTAAA-CTGAGGGT-AAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
158563757 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
158563784 ATAATT-T-TACAATCGAGGGTAAAACG
1 GTAATTCTGTA-AATCGAGGGTAAAACG
* *
158563810 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
158563837 GTAATTCTGTAAATCAAGGGT-AAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
158563863 ATAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
**
158563890 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
158563917 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
* *
158563944 GTTATTCTGTAAATCGAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
158563971 GTAA-T-T-TCAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
158563995 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** **
158564022 GTAATTTTACAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
158564049 GTAATTCTATAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
158564076 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
158564092 GGAGTACTTT
Statistics
Matches: 467, Mismatches: 59, Indels: 42
0.82 0.10 0.07
Matches are distributed among these distances:
24 20 0.04
25 21 0.04
26 99 0.21
27 322 0.69
28 5 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:158563728 original size:80 final size:81
Alignment explanation
Indices: 158563518--158564089 Score: 591
Period size: 79 Copynumber: 7.2 Consensus size: 81
158563508 GGGTATTTTA
* * * * * * *
158563518 GTAATTTTGTAAATCGAGGGCAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATAGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
* *
158563583 AATCGAGGCT-AAATG
66 AATCGAGGGTAAAACG
* * * *
158563598 G-AATACTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTA
1 GTAATTCTGTAAATAGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
* *
158563662 AATCGGGGGTAAAATG
66 AATCGAGGGTAAAACG
* * * * **
158563678 GTAATTATATAAATTAG-GGGTAAAAAGGTAATT-TATAAATCGAGGGTAAAATAGTAATTCTGT
1 GTAATTCTGTAAA-TAGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
158563741 AAA-CTGAGGGT-AAACG
65 AAATC-GAGGGTAAAACG
* * * * *
158563757 GTAATTTTGTAAATCGAGGGTAAAATGATAATT-T-TACAATCGAGGGTAAAACGGTAATTCTAT
1 GTAATTCTGTAAATAGAGGGTAAAACGGTAATTCTGTA-AATCGAGGGTAAAACGGTAATTCTGT
*
158563820 AAATCGAGGGTAAAACA
65 AAATCGAGGGTAAAACG
**
158563837 GTAATTCTGTAAATCA-AGGGT-AAACAATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTG
1 GTAATTCTGTAAAT-AGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTG
**
158563899 TAAATCGAGGGTAAAATA
64 TAAATCGAGGGTAAAACG
* *
158563917 GTAATTCTGTAAACT-GAGGGTAAAACGGTTATTCTGTAAATCGAAGGTAAAACGGTAA-T-T-T
1 GTAATTCTGTAAA-TAGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
*
158563978 CAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* * * ** ** *
158563995 GTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTATA
1 GTAATTCTGTAAATAGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
158564060 AA-CTGAGGGTAAAACG
66 AATC-GAGGGTAAAACG
158564076 GTAATTCTGTAAAT
1 GTAATTCTGTAAAT
158564090 CGGGAGTACT
Statistics
Matches: 416, Mismatches: 55, Indels: 41
0.81 0.11 0.08
Matches are distributed among these distances:
77 1 0.00
78 67 0.16
79 137 0.33
80 124 0.30
81 84 0.20
82 3 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GTAATTCTGTAAATAGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
AATCGAGGGTAAAACG
Found at i:158563841 original size:132 final size:135
Alignment explanation
Indices: 158563516--158564091 Score: 659
Period size: 132 Copynumber: 4.3 Consensus size: 135
158563506 AAGGGTATTT
* * * *
158563516 TAGTAATTTTGTAAATCGAGGGCAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTA
1 TAGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
* * *
158563581 TAAATCGAGGCT-AAAT-GGAATACTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
66 TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
158563644 TAAAA
131 TAAAA
* * * * * *
158563649 -CGATAATTATGTAAATCGGGGGTAAAATGGTAATTATATAAAT-TAGGGGTAAAA-AGGTAATT
1 TAG-TAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA-GGGTAAAACA-GTAATT
*
158563711 -TATAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGT-AAACGGTAATTTTGTAAATCG
63 CTATAAATCGAGGGTAAAATAGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
158563773 AGGGTAAAA
127 AGGGTAAAA
*
158563782 T-GATAATT-T-TACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTC
1 TAG-TAATTATGTA-AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTC
* *
158563844 TGTAAATCAAGGGTAAACA-A-TAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
64 TATAAATCGAGGGTAAA-ATAGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
158563906 AGGGTAAAA
127 AGGGTAAAA
* * * *
158563915 TAGTAATTCTGTAAA-CTGAGGGTAAAACGGTTATTCTGTAAATCGAAGGTAAAACGGTAA-T-T
1 TAGTAATTATGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
* ** * * **
158563977 -TCAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGG
65 ATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGG
158564041 GTAAAA
130 GTAAAA
* *
158564047 TAGTAATTCTATAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCG
1 TAGTAATTATGTAAATC-GAGGGTAAAACGGTAATTCTGTAAATCG
158564092 GGAGTACTTT
Statistics
Matches: 390, Mismatches: 33, Indels: 41
0.84 0.07 0.09
Matches are distributed among these distances:
130 1 0.00
131 15 0.04
132 167 0.43
133 144 0.37
134 61 0.16
135 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (135 bp):
TAGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTA
TAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGG
TAAAA
Found at i:158563850 original size:186 final size:185
Alignment explanation
Indices: 158563518--158564091 Score: 750
Period size: 186 Copynumber: 3.1 Consensus size: 185
158563508 GGGTATTTTA
* * * * * *
158563518 GTAATTTTGTAAATCGAGGGCAAAACAGTAATTCTGTAAA-TCAAGGGTAAAACAGTAATTCTAT
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACT-GAGGGTAAAACGGTAATTCTGT
* * * *
158563582 AAATCGAGGCT-AAATGGAATACTGTA-AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGT
65 AAATCGAGGGTAAAAT-G-ATAATTTACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGT
* * * *
158563645 AAAACGATAATTATGTAAATCGGGGGTAAAATGGTAATTATATAAA-TTAGGGGTAAAAAG
128 AAAACG-TAATTATGTAAATCGAGGGTAAAAT-GTAATTCTATAAACTGA-GGGTAAAACG
* *
158563705 GTAATT-TATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT-AAACGGTAATTTTGTA
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
158563768 AATCGAGGGTAAAATGATAATTTTACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAA
66 AATCGAGGGTAAAATGATAA-TTTACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAA
* * * *
158563833 AACAGTAATTCTGTAAATCAAGGGTAAACA-ATAATTCTGTAAACTGAGGGTAAAACG
130 AAC-GTAATTATGTAAATCGAGGGTAAA-ATGTAATTCTATAAACTGAGGGTAAAACG
*
158563890 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTTATTCTGTA
1 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
* * *
158563955 AATCGAAGGTAAAACGGTAATTT-CAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAA
66 AATCGAGGGTAAAATGATAATTTACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAA
* **
158564019 ACGGTAATTTTACAAATCGAGGGTAAAATAGTAATTCTATAAACTGAGGGTAAAACG
131 AC-GTAATTATGTAAATCGAGGGTAAAAT-GTAATTCTATAAACTGAGGGTAAAACG
158564076 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
158564092 GGAGTACTTT
Statistics
Matches: 344, Mismatches: 32, Indels: 23
0.86 0.08 0.06
Matches are distributed among these distances:
184 4 0.01
185 114 0.33
186 186 0.54
187 40 0.12
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (185 bp):
GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGTAAAACGGTAATTCTGTA
AATCGAGGGTAAAATGATAATTTACAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAA
ACGTAATTATGTAAATCGAGGGTAAAATGTAATTCTATAAACTGAGGGTAAAACG
Found at i:158567485 original size:37 final size:37
Alignment explanation
Indices: 158567424--158567584 Score: 206
Period size: 36 Copynumber: 4.4 Consensus size: 37
158567414 AAACCGGGCT
158567424 AAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGC
1 AAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGC
* *
158567461 AAGTCTCGAAGGCATTTG-GTGAGTTACTATAACCGG-
1 AAGTC-CGAAGGCATTTGTGCGAGTTACTATATCCGGC
* *
158567497 GAGTCCCGAAGGCATTTGTGCGAGTTA-TAT-TCGGGC
1 AAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGC
158567533 TAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 -AAGTCCGAAGGCATTTGTGCGAGTTACTATATCC-GGC
158567572 TAAGT-CGAAGGCA
1 -AAGTCCGAAGGCA
158567585 GTTGACGAGT
Statistics
Matches: 108, Mismatches: 8, Indels: 15
0.82 0.06 0.11
Matches are distributed among these distances:
35 3 0.03
36 40 0.37
37 35 0.32
38 22 0.20
39 8 0.07
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGC
Found at i:158567581 original size:74 final size:76
Alignment explanation
Indices: 158567415--158567584 Score: 237
Period size: 74 Copynumber: 2.3 Consensus size: 76
158567405 TCGGATGATA
158567415 AACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGCAAGTCTCGAAGGCATTTGG
1 AACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGCAAGTCTCGAAGGCATTTGG
*
158567480 TGAGTTACTAT
66 CGAGTTACTAT
*
158567491 AACCGGG---AGTCCCGAAGGCATTTGTGCGAGTTA-TAT-TCGGGCTAAGTC-CGAAGGCATTT
1 AACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGC-AAGTCTCGAAGGCATTT
158567550 GTGCGAGTTACTAT
64 G-GCGAGTTACTAT
*
158567564 ATCCGGGCTAAGT-CGAAGGCA
1 AACCGGGCTAAGTCCGAAGGCA
158567585 GTTGACGAGT
Statistics
Matches: 85, Mismatches: 3, Indels: 14
0.83 0.03 0.14
Matches are distributed among these distances:
72 17 0.20
73 28 0.33
74 30 0.35
76 10 0.12
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (76 bp):
AACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATATCCGGCAAGTCTCGAAGGCATTTGG
CGAGTTACTAT
Found at i:158575419 original size:40 final size:40
Alignment explanation
Indices: 158575277--158575499 Score: 290
Period size: 40 Copynumber: 5.5 Consensus size: 40
158575267 CAGATGATAA
158575277 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
158575318 AACCGGGC-AAGTCCCGAAGGCATTTGTGTGATTTACTATGAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
*
158575360 AACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
158575402 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
158575442 CCGGGCTAAGTCTCGAAGGCAGTTGAGCGAG-TAGCTCTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
158575482 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
158575500 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
39 16 0.10
40 74 0.45
42 41 0.25
43 35 0.21
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:158577192 original size:16 final size:15
Alignment explanation
Indices: 158577166--158577195 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
158577156 ACTAGATCGG
158577166 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
158577181 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
158577196 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:158577646 original size:27 final size:27
Alignment explanation
Indices: 158577606--158577716 Score: 161
Period size: 27 Copynumber: 4.1 Consensus size: 27
158577596 AGGAAGCATC
* *
158577606 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
158577633 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
158577660 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
158577687 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
158577713 CTGG
1 CTGG
158577717 AAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 13 0.17
27 64 0.83
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:158579314 original size:29 final size:29
Alignment explanation
Indices: 158579257--158579329 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
158579247 TACCTGTATC
* *
158579257 TGGCCCATTAAGCCC-AATCATATTGATA
1 TGGCCCATTAGGCCCAAATCAAATTGATA
158579285 TGGCCCATTAGGCCCAAATCAAACTT-ATA
1 TGGCCCATTAGGCCCAAATCAAA-TTGATA
* *
158579314 TAGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
158579330 GTCACATTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 14 0.36
29 23 0.59
30 2 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCAAATTGATA
Found at i:158595511 original size:8 final size:8
Alignment explanation
Indices: 158595499--158595531 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
158595489 AATAGGGACT
*
158595499 AAAATGTT
1 AAAATGTG
158595507 AAAATGTG
1 AAAATGTG
158595515 AAAATGTG
1 AAAATGTG
158595523 AAAATGTG
1 AAAATGTG
158595531 A
1 A
158595532 GGGCTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.21, T:0.27
Consensus pattern (8 bp):
AAAATGTG
Found at i:158596008 original size:42 final size:42
Alignment explanation
Indices: 158595893--158596010 Score: 114
Period size: 44 Copynumber: 2.8 Consensus size: 42
158595883 TAGGATTCTG
* ** * * *
158595893 GTATGTGATTTCGTGTAAGACCACGTCTAGGACGTTGACATC
1 GTATTTGATTTCGTGTAAGACCTTGTCTGGGACATCGACATC
*
158595935 -TATTTGATATTTACGTGTAAGACCATT-TCTGGGACATCGGCATC
1 GTATTTG--ATTT-CGTGTAAGACC-TTGTCTGGGACATCGACATC
*
158595979 GTATTTGATTTCGTGTAAGGCCTTGTCTGGGA
1 GTATTTGATTTCGTGTAAGACCTTGTCTGGGA
158596011 TAGTGGCATT
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
41 7 0.11
42 17 0.27
43 8 0.13
44 24 0.39
45 6 0.10
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
GTATTTGATTTCGTGTAAGACCTTGTCTGGGACATCGACATC
Found at i:158596019 original size:42 final size:43
Alignment explanation
Indices: 158595898--158596054 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
158595888 TTCTGGTATG
** * * * *
158595898 TGATTTCGTGTAAGACCACGTCTAGGACGTTGACATC--TATT
1 TGATTTCGTGTAAGACCATTTCTGGGACATCGGCATCGATATT
158595939 TGATATTTACGTGTAAGACCATTTCTGGGACATCGGCATCG-TATT
1 TG--ATTT-CGTGTAAGACCATTTCTGGGACATCGGCATCGATATT
* * *
158595984 TGATTTCGTGTAAGGCC-TTGTCTGGGATAGT-GGCATTGATATT
1 TGATTTCGTGTAAGACCATT-TCTGGGACA-TCGGCATCGATATT
* * **
158596027 TGATTACATGTAAGACCACATCTGGGAC
1 TGATTTCGTGTAAGACCATTTCTGGGAC
158596055 GTTGGCATTG
Statistics
Matches: 93, Mismatches: 15, Indels: 14
0.76 0.12 0.11
Matches are distributed among these distances:
41 4 0.04
42 24 0.26
43 34 0.37
44 25 0.27
45 6 0.06
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (43 bp):
TGATTTCGTGTAAGACCATTTCTGGGACATCGGCATCGATATT
Found at i:158609099 original size:40 final size:40
Alignment explanation
Indices: 158609055--158609164 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
158609045 ATATCACGAT
158609055 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
** * *
158609095 TTGCACGTATGCCTTCGGGTCTTAGCCCGGATTTAGCTAC
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
* ** *
158609135 TAGCACAGTTGCCTTCGGGTCTTAACCCGG
1 TTGCACAAATGCCTTCGGGTCTTAGCCCGG
158609165 TTATAATTTC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.19, C:0.28, G:0.24, T:0.29
Consensus pattern (40 bp):
TTGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAAC
Found at i:158620311 original size:40 final size:40
Alignment explanation
Indices: 158620252--158620420 Score: 173
Period size: 40 Copynumber: 4.2 Consensus size: 40
158620242 CGGGACTTTA
* * *
158620252 CCCGGATATCACGATTTGCACAAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* *
158620292 CCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAG
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * * * *
158620332 CCCGGATATAGCTACTAGCACAATTGCCTTCGGGTCTTAA
1 CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
* * *
158620372 CCCGGATAT-A-AA-TTTCAGCATAATTGTCTTCGGGGCTTAG
1 CCCGGATATAACAACTTGCA-CA-AA-TGCCTTCGGGTCTTAG
158620412 CCCGGATAT
1 CCCGGATAT
158620421 CATTCAATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 99 0.93
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
CCCGGATATAACAACTTGCACAAATGCCTTCGGGTCTTAG
Found at i:158623971 original size:29 final size:27
Alignment explanation
Indices: 158623937--158624039 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
158623927 TACTCGATCA
*
158623937 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
158623966 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
158623995 CGCACACTTAGTGCCATACATTTCAAGCT
1 CGCACACTTAGTGCCAT-TATTT-AAGCT
*
158624024 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
158624040 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 2 0.03
29 58 0.97
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:158626073 original size:24 final size:24
Alignment explanation
Indices: 158626041--158626089 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
158626031 CGATGTCACG
158626041 ACATTCACTTTTGTGTAAATTCAA
1 ACATTCACTTTTGTGTAAATTCAA
*
158626065 ACATTCACTTTTGTGTCAATTCAA
1 ACATTCACTTTTGTGTAAATTCAA
158626089 A
1 A
158626090 GGCTATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (24 bp):
ACATTCACTTTTGTGTAAATTCAA
Found at i:158630092 original size:2 final size:2
Alignment explanation
Indices: 158630085--158630111 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
158630075 GGATTGTGGG
158630085 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
158630112 AGTGGTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:158631851 original size:31 final size:32
Alignment explanation
Indices: 158631798--158631861 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
158631788 TAATATTAGA
* *
158631798 TTTCGGAAATTTTTTTTATCATGTTTCGGTTT
1 TTTCGGAAATTTTTATTATCATGTCTCGGTTT
*
158631830 TTTCGGAAA-TTTTATTATCATGTCTGGGTTT
1 TTTCGGAAATTTTTATTATCATGTCTCGGTTT
158631861 T
1 T
158631862 AAACATTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 20 0.69
32 9 0.31
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.56
Consensus pattern (32 bp):
TTTCGGAAATTTTTATTATCATGTCTCGGTTT
Found at i:158633706 original size:24 final size:24
Alignment explanation
Indices: 158633662--158633707 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
158633652 TTAAATGAAA
* *
158633662 ATATACTCATTGAGCTTTAATTTC
1 ATATACTCATTCAGCTCTAATTTC
158633686 ATAT-CTCATTCAGCCTCTAATT
1 ATATACTCATTCAG-CTCTAATT
158633708 AAATTCCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.28, C:0.22, G:0.07, T:0.43
Consensus pattern (24 bp):
ATATACTCATTCAGCTCTAATTTC
Found at i:158641710 original size:41 final size:41
Alignment explanation
Indices: 158641583--158641807 Score: 314
Period size: 41 Copynumber: 5.5 Consensus size: 41
158641573 CTCGCACAAG
* * * * * * *
158641583 GCCTTCGGGTCTTAGCCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
* *
158641623 GCCTTCGGGA-CTTAGTCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
158641663 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
158641704 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
158641745 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
*
158641786 GCCTTCAGGA-CTTAGCCCGGAT
1 GCCTTC-GGATCTTAGTCCGGAT
158641808 ATCATTCGAG
Statistics
Matches: 173, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 3 0.02
40 57 0.33
41 110 0.64
42 3 0.02
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (41 bp):
GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
Found at i:158645257 original size:16 final size:16
Alignment explanation
Indices: 158645236--158645266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
158645226 ATAACCTTGA
*
158645236 TAAACCTCATTTCATG
1 TAAACCTCATATCATG
158645252 TAAACCTCATATCAT
1 TAAACCTCATATCAT
158645267 CAACTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.35
Consensus pattern (16 bp):
TAAACCTCATATCATG
Found at i:158649205 original size:40 final size:40
Alignment explanation
Indices: 158649168--158649391 Score: 183
Period size: 40 Copynumber: 5.7 Consensus size: 40
158649158 GCTACTCGTT
*
158649168 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
158649208 CAGATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* **
158649248 CAAATGCCTTC--GATC-TTAGTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * **
158649286 CGAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * ** * * *
158649326 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
158649367 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
158649392 CATCATTCGA
Statistics
Matches: 161, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 32 0.20
39 5 0.03
40 112 0.70
41 12 0.07
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:158649298 original size:78 final size:79
Alignment explanation
Indices: 158649168--158649391 Score: 285
Period size: 78 Copynumber: 2.8 Consensus size: 79
158649158 GCTACTCGTT
* * * *
158649168 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTAACTCGCACA-ATGCCTTCGGGACTTAGCCCG
158649232 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* *
158649248 CAAATGCCTTC-GATCTTAGT-CGGATTTAGTAACTCGCACGAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTCGCAC-AATGCCTTCGGGA-CTTAGCCCG
158649310 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * * *
158649326 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGATCTTAGTCCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
158649391 A
65 A
158649392 CATCATTCGA
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
77 3 0.02
78 60 0.48
79 14 0.11
80 40 0.32
81 8 0.06
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:158657380 original size:43 final size:41
Alignment explanation
Indices: 158657242--158657428 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 41
158657232 TACTCGTTCA
* *
158657242 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACCG
* *
158657283 -ATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA-CA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCG
*
158657322 AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACGCACCG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACT--CGCACCG
* * * *
158657365 AATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA-C-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACCG
*
158657405 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
158657429 CATCATTCGA
Statistics
Matches: 126, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
39 3 0.02
40 77 0.61
41 6 0.05
42 7 0.06
43 32 0.25
44 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCG
Found at i:158657412 original size:83 final size:80
Alignment explanation
Indices: 158657240--158657428 Score: 215
Period size: 83 Copynumber: 2.3 Consensus size: 80
158657230 GCTACTCGTT
*
158657240 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAGATGCCTTCGGGACTTAACCCG
* *
158657304 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* * *
158657320 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACGCACCGAATGCCTTC-GGATCTTAG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACT--CGCACAG-ATGCCTTCGGGA-CTTAA
* *
158657383 TCCGGATATAGTCACTTAGCA
61 CCCGGATATAGTAAC-TAGCA
158657404 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
158657429 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
79 3 0.03
80 27 0.29
81 2 0.02
82 9 0.10
83 40 0.43
84 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:158662858 original size:41 final size:41
Alignment explanation
Indices: 158662813--158662974 Score: 156
Period size: 41 Copynumber: 3.9 Consensus size: 41
158662803 TCTTAGCACC
158662813 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACTACT
1 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACTACT
* * *
158662854 GGCTCGAAGGCCCTTCG-GAACTAAG-TCCGG-TTATGAC-ACT
1 GGCTCAAAAGCCCTTCGAG-ACCAAGCT-CGGATTA-GACTACT
* * *
158662894 GGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG--TACT
1 GGCTC--AAAAGCCCTTCGAGACCAAGCTCGG--ATTAGACTACT
158662937 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTTAGAC
1 GGCTCAAAAGCCCTTCGAGACCAAGCTCGGA-TTAGAC
158662975 CCCGATTAGC
Statistics
Matches: 98, Mismatches: 9, Indels: 27
0.73 0.07 0.20
Matches are distributed among these distances:
39 1 0.01
40 17 0.17
41 48 0.49
42 19 0.19
43 9 0.09
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
GGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAGACTACT
Found at i:158667808 original size:32 final size:32
Alignment explanation
Indices: 158667771--158667858 Score: 140
Period size: 32 Copynumber: 2.8 Consensus size: 32
158667761 CAACCTATTA
* * *
158667771 CAATATCAATTGGGCCTAGCCCATCTCAGAAT
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
*
158667803 TAATATCAGTTGGGCCTAGCCCATATCAGAAC
1 CAATATCAGTTGGGCCTAGCCCATATCAGAAC
158667835 CAATATCAGTTGGGCCTAGCCCAT
1 CAATATCAGTTGGGCCTAGCCCAT
158667859 TTCAATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (32 bp):
CAATATCAGTTGGGCCTAGCCCATATCAGAAC
Found at i:158670296 original size:21 final size:21
Alignment explanation
Indices: 158670270--158670324 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
158670260 AGCGATTTAT
158670270 TAAGGTCAAGTGGTATGACCC
1 TAAGGTCAAGTGGTATGACCC
158670291 TAAGGTCAAGTGGTATGACCC
1 TAAGGTCAAGTGGTATGACCC
158670312 TAAGGTCAAGTGG
1 TAAGGTCAAGTGG
158670325 GTTTAGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (21 bp):
TAAGGTCAAGTGGTATGACCC
Found at i:158671968 original size:39 final size:39
Alignment explanation
Indices: 158671883--158672149 Score: 409
Period size: 39 Copynumber: 7.0 Consensus size: 39
158671873 AAGACACTAA
158671883 AAATGTATCCGGGCTAAAGTCCCGCAGGC-T--T-CTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
158671918 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
158671957 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
158671996 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
158672035 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
158672074 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCT-G
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
158672112 AAATGTTTCCGGGTTAAAGTCCCGCTGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
158672150 ATAATATAAT
Statistics
Matches: 213, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
35 29 0.14
36 1 0.00
38 34 0.16
39 149 0.70
ACGTcount: A:0.22, C:0.26, G:0.28, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:158684145 original size:30 final size:30
Alignment explanation
Indices: 158684090--158684249 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
158684080 ATAGTGAATC
158684090 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
158684119 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
158684149 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
158684178 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
158684206 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
158684236 CGCACACTTAGTGC
1 CGCACACTTAGTGC
158684250 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:158684182 original size:59 final size:57
Alignment explanation
Indices: 158684090--158684249 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
158684080 ATAGTGAATC
*
158684090 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
158684149 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
158684206 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
158684250 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:158692029 original size:29 final size:29
Alignment explanation
Indices: 158691997--158692097 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
158691987 ATAGTGAATC
*
158691997 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAACT
*
158692026 CGCACACTTAGTGCTATATA--ATCAAACT
1 CGCACACTTAGTGCTATATATTTTC-AACT
* * * *
158692054 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATA-TATTTTCAACT
158692084 CGCACACTTAGTGC
1 CGCACACTTAGTGC
158692098 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 20 0.33
29 21 0.34
30 17 0.28
31 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAACT
Found at i:158692090 original size:30 final size:29
Alignment explanation
Indices: 158691996--158692097 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
158691986 TATAGTGAAT
* * *
158691996 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
158692025 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
158692053 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
158692083 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
158692098 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:158694644 original size:22 final size:22
Alignment explanation
Indices: 158694611--158694654 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
158694601 AGGGGATTTC
158694611 AACAATAATGGGTTA-TGGGTT
1 AACAATAATGGGTTATTGGGTT
158694632 AACAATGAATGGGTTATTGGGTT
1 AACAAT-AATGGGTTATTGGGTT
158694655 TGAGGTGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.34
Consensus pattern (22 bp):
AACAATAATGGGTTATTGGGTT
Found at i:158699641 original size:24 final size:24
Alignment explanation
Indices: 158699609--158699671 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
158699599 AATCTCAATT
158699609 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
158699633 GCACTATGTGTGCGATTTATTATG
1 GCACTATGTGTGCGATTTACTATG
158699657 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
158699672 ACATAATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:158716443 original size:29 final size:28
Alignment explanation
Indices: 158716388--158716540 Score: 155
Period size: 29 Copynumber: 5.4 Consensus size: 28
158716378 GTGAGCATGA
*
158716388 ATATGAATGTGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
158716416 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* * *
158716445 ATATGAATGTGAATTTGGCTTAGTGGGCC
1 ATATGAATGTG-ATTGGGCCTAATGGGCC
* * *
158716474 ATAAGAATATGAACTGGGCC-ATATGGGCC
1 ATATGAATGTG-ATTGGGCCTA-ATGGGCC
* * *
158716503 ATATGAATGAGATTGGGCCCAGTGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
158716531 ATATGCATGT
1 ATATGAATGT
158716541 ATCTAGGGGT
Statistics
Matches: 102, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
28 33 0.32
29 68 0.67
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:158718690 original size:43 final size:42
Alignment explanation
Indices: 158718570--158718701 Score: 115
Period size: 43 Copynumber: 3.1 Consensus size: 42
158718560 TGTGAGCTAG
** * * *
158718570 TGTAAGACCATGTCTGGGACATGGCAACGGCATGAGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATTGGTATGAGACATCA
* ** **
158718612 TGTAAGACCGTAG-CTGGG-CTATTGGCATTAATATGAGATTTCCA
1 TGTAAGACCAT-GTCTGGGAC-A-TGGCATTGGTATGAGACAT-CA
*
158718656 TGTAAGACCATGTCTGGGACATGGCATTGGTATGATACATCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGTATGAGACATCA
158718698 TGTA
1 TGTA
158718702 CGAGTTTTCC
Statistics
Matches: 68, Mismatches: 16, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
41 1 0.01
42 22 0.32
43 27 0.40
44 17 0.25
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGTATGAGACATCA
Found at i:158721654 original size:20 final size:20
Alignment explanation
Indices: 158721629--158721667 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
158721619 ATAATTCAAG
158721629 TTTTTACATTGCAACAAATA
1 TTTTTACATTGCAACAAATA
158721649 TTTTTACATTGCAACAAAT
1 TTTTTACATTGCAACAAAT
158721668 GAATACACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TTTTTACATTGCAACAAATA
Found at i:158724591 original size:31 final size:31
Alignment explanation
Indices: 158724553--158724627 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
158724543 GAAACAGGGT
158724553 CACACGCCCGTGTGGGTACGCCGTGTGGTCA
1 CACACGCCCGTGTGGGTACGCCGTGTGGTCA
* * *
158724584 CACACGCCTGTGCGGGTAGGCCGTGTGGTCA
1 CACACGCCCGTGTGGGTACGCCGTGTGGTCA
158724615 CACACGCCCGTGT
1 CACACGCCCGTGT
158724628 CCTCAGCCCG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.13, C:0.33, G:0.35, T:0.19
Consensus pattern (31 bp):
CACACGCCCGTGTGGGTACGCCGTGTGGTCA
Found at i:158724639 original size:31 final size:30
Alignment explanation
Indices: 158724573--158724640 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
158724563 TGTGGGTACG
* * *
158724573 CCGTGTGGTCACACACGCCTGTGCGGGTAGG
1 CCGTGTGGTCACACACGCCCGTGC-GCTAGC
158724604 CCGTGTGGTCACACACGCCCGTGTC-CTCAGC
1 CCGTGTGGTCACACACGCCCGTG-CGCT-AGC
158724635 CCGTGT
1 CCGTGT
158724641 AACTCTCTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 1 0.03
31 30 0.94
32 1 0.03
ACGTcount: A:0.12, C:0.35, G:0.32, T:0.21
Consensus pattern (30 bp):
CCGTGTGGTCACACACGCCCGTGCGCTAGC
Found at i:158726416 original size:41 final size:40
Alignment explanation
Indices: 158726289--158726433 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
158726279 CTCGCACAAG
* * * * *
158726289 GCCTTCGGGTCTTAGCACGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
158726329 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
158726369 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
158726410 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
158726434 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:158734300 original size:39 final size:39
Alignment explanation
Indices: 158734242--158734420 Score: 175
Period size: 40 Copynumber: 4.6 Consensus size: 39
158734232 AATCAAGCAT
** * *
158734242 CTTCGGGT-TTAG-CCGGATATAACCACTCGCACAAGGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATGC
* *
158734279 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCA-CAATGC
* *
158734319 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCAC-AATGC
* * * * *
158734359 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCAC-AATGC
*
158734400 CTTC-GGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
158734421 CATTCGAGTA
Statistics
Matches: 118, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
37 8 0.07
38 4 0.03
39 15 0.13
40 76 0.64
41 15 0.13
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAATGC
Found at i:158734324 original size:40 final size:40
Alignment explanation
Indices: 158734277--158734420 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
158734267 CTCGCACAAG
* * * *
158734277 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
158734317 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
158734357 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
158734398 GCCTTC-GGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
158734421 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.03
40 72 0.77
41 18 0.19
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:158735136 original size:2 final size:2
Alignment explanation
Indices: 158735129--158735154 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
158735119 ATGTGCAAAC
158735129 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
158735155 GTGCAAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:158742185 original size:41 final size:41
Alignment explanation
Indices: 158742128--158742277 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
158742118 TCGGGGTTTA
*
158742128 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
158742169 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
* * * * * * *
158742210 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
158742250 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
158742278 TGAGTCAGCG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 33 0.35
41 61 0.65
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCAT
Found at i:158750443 original size:40 final size:40
Alignment explanation
Indices: 158750344--158750445 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 40
158750334 TCGGGGTTTA
* * *
158750344 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAA-GGCCTTCGAGCCAATGTCAT
* * * * *
158750385 AA-CCGAACCTAGTTTCGAAGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGCCTTCGAGCCAATGTCAT
158750424 AATCCGAGCTTGGTCTCGAAGG
1 AATCCGAGCTTGGTCTCGAAGG
158750446 GCTTTTTGAG
Statistics
Matches: 48, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
39 18 0.38
40 28 0.58
41 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (40 bp):
AATCCGAGCTTGGTCTCGAAGGCCTTCGAGCCAATGTCAT
Found at i:158754693 original size:26 final size:25
Alignment explanation
Indices: 158754581--158754715 Score: 200
Period size: 26 Copynumber: 5.2 Consensus size: 25
158754571 CATGAAATTC
*
158754581 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCA
*
158754607 TTATCATGTAAATCATTTACCTAACCA
1 TTATCATG-GAA-CATTTACCTAACCA
158754634 TTATCAT-GAACATTTACCTAACCA
1 TTATCATGGAACATTTACCTAACCA
158754658 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACC-A
158754684 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACC-A
158754710 TTATCA
1 TTATCA
158754716 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
24 21 0.20
25 18 0.17
26 41 0.39
27 13 0.12
28 11 0.11
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGGAACATTTACCTAACCA
Found at i:158758700 original size:52 final size:51
Alignment explanation
Indices: 158758643--158758805 Score: 186
Period size: 52 Copynumber: 3.1 Consensus size: 51
158758633 AGCATGGCTG
* * *
158758643 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGAAATCGTGGCAGGCCA
1 CCAGAACAGATAATGTGGCAGAGCCACCAGAT-CAGAAATTGTGGCAGGCCA
*
158758695 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-AGATATTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCACCAGATCAGAAATTGTGGCAG-GCCA
* * * * *
158758747 CCAGATCATAT-TTGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATAATGTGGCAGAGCCACCAGATCAGA-AATTGTGGCA-GGCCA
158758799 CCAGAAC
1 CCAGAAC
158758806 GCTTCCTCCA
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
50 19 0.20
51 15 0.16
52 43 0.45
53 18 0.19
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (51 bp):
CCAGAACAGATAATGTGGCAGAGCCACCAGATCAGAAATTGTGGCAGGCCA
Found at i:158758725 original size:27 final size:27
Alignment explanation
Indices: 158758643--158758805 Score: 180
Period size: 27 Copynumber: 6.3 Consensus size: 27
158758633 AGCATGGCTG
* *
158758643 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
158758669 CCAGATACAGA-A-ATCGTGGCAG-GCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
158758695 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
*
158758722 CCAG-ATAGATAT-TGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
158758747 CCAGATC--ATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
158758772 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
158758799 CCAGAAC
1 CCAGAAC
158758806 GCTTCCTCCA
Statistics
Matches: 121, Mismatches: 7, Indels: 17
0.83 0.05 0.12
Matches are distributed among these distances:
24 4 0.03
25 42 0.35
26 31 0.26
27 44 0.36
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:158758742 original size:25 final size:25
Alignment explanation
Indices: 158758650--158758803 Score: 159
Period size: 25 Copynumber: 6.0 Consensus size: 25
158758640 CTGCCAGAAC
* * *
158758650 AGATAATGTGACAGAGTCACCAGAT
1 AGATATTGTGGCAGAGCCACCAGAT
* * *
158758675 ACAGAAATCGTGGCAG-GCCACCAGAAC
1 --AGATATTGTGGCAGAGCCACCAG-AT
158758702 AGATATATGTGGCAGAGCCACCAGAT
1 AGATAT-TGTGGCAGAGCCACCAGAT
158758728 AGATATTGTGGCAGAGCCACCAGAT
1 AGATATTGTGGCAGAGCCACCAGAT
*
158758753 -CATATTTGTGGCAGAGCCACCAGAT
1 AGATA-TTGTGGCAGAGCCACCAGAT
*
158758778 CAGATATTTGTGGCATAGCCACCAGA
1 -AGATA-TTGTGGCAGAGCCACCAGA
158758804 ACGCTTCCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.03
25 44 0.40
26 21 0.19
27 41 0.38
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
AGATATTGTGGCAGAGCCACCAGAT
Found at i:158760443 original size:26 final size:26
Alignment explanation
Indices: 158760407--158760562 Score: 225
Period size: 26 Copynumber: 6.2 Consensus size: 26
158760397 CATGAAATTC
158760407 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
158760433 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
158760459 TTATC------CATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
158760479 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
158760505 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
158760531 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
158760557 TTATCA
1 TTATCA
158760563 ATTTGTATCA
Statistics
Matches: 120, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
20 19 0.16
26 101 0.84
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:158760469 original size:20 final size:20
Alignment explanation
Indices: 158760444--158760483 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
158760434 TATCATGAAA
158760444 CATTTACCTAACCCATTATC
1 CATTTACCTAACCCATTATC
*
158760464 CATTTACCTAACCTATTATC
1 CATTTACCTAACCCATTATC
158760484 ATGAAACATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.38
Consensus pattern (20 bp):
CATTTACCTAACCCATTATC
Found at i:158760485 original size:46 final size:46
Alignment explanation
Indices: 158760418--158760566 Score: 208
Period size: 46 Copynumber: 3.1 Consensus size: 46
158760408 TATCATGAAA
*
158760418 CATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATC
1 CATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATC
158760464 CATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATC
1 CATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATC
* *
158760510 ATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTATTATC
1 ------CATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATC
*
158760562 AATTT
1 CATTT
158760567 GTATCAATTT
Statistics
Matches: 93, Mismatches: 4, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
46 49 0.53
52 44 0.47
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (46 bp):
CATTTACCTAACCTATTATCATGAAACATTTACCTAACCCATTATC
Found at i:158760497 original size:72 final size:73
Alignment explanation
Indices: 158760407--158760562 Score: 242
Period size: 72 Copynumber: 2.1 Consensus size: 73
158760397 CATGAAATTC
158760407 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATC-CATTTAC
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCACATTTAC
158760471 CTAACCTA
66 CTAACCTA
* *
158760479 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATC-----ACA
158760544 TTTACCTAACCTA
61 TTTACCTAACCTA
158760557 TTATCA
1 TTATCA
158760563 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
72 55 0.72
78 21 0.28
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (73 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCACATTTAC
CTAACCTA
Found at i:158764531 original size:26 final size:27
Alignment explanation
Indices: 158764502--158764664 Score: 169
Period size: 26 Copynumber: 6.3 Consensus size: 27
158764492 AGCATGGCTG
* *
158764502 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
158764528 CCAGATACAG--AT-CGTGGTAG-GCCA
1 CCAGA-ACAGATATATGTGGCAGAGCCA
158764552 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
158764579 CCAG-ATAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
158764605 CCAGATCA-ATATTTGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
158764631 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
158764658 CCAGAAC
1 CCAGAAC
158764665 GCTTCCTCCA
Statistics
Matches: 117, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
23 4 0.03
24 8 0.07
25 8 0.07
26 61 0.52
27 36 0.31
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Done.