Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 185 of 444
Found at i:51860889 original size:56 final size:54
Alignment explanation
Indices: 51860786--51860925 Score: 153
Period size: 56 Copynumber: 2.6 Consensus size: 54
51860776 TCACACAACT
* * *
51860786 AAAGCTTTTCTTTCATA-TTTCTCCACAAAGGGTTTCCTTTTATATTTC-TCCAAA
1 AAAGCTTTTCATTCATATTTTCTCCACAAAGGCTTTCCATTTATATTTCGT-C-AA
* *
51860840 AAAGCTTTTCATTCATATTTTTTGCCACAAAGGCTTTTCATTTATATTTCGTCAA
1 AAAGCTTTTCATTCATATTTTCT-CCACAAAGGCTTTCCATTTATATTTCGTCAA
* *
51860895 AAAGACTATTCATTCATA-TCT-TCCACAAAGG
1 AAAG-CTTTTCATTCATATTTTCTCCACAAAGG
51860926 TTATTCTTTC
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
53 9 0.12
54 17 0.23
55 12 0.16
56 36 0.48
57 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
AAAGCTTTTCATTCATATTTTCTCCACAAAGGCTTTCCATTTATATTTCGTCAA
Found at i:51866391 original size:16 final size:16
Alignment explanation
Indices: 51866370--51866402 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51866360 CATAATTGAA
*
51866370 TATAATTAAATATAAT
1 TATAATTAAACATAAT
51866386 TATAATTAAACATAAT
1 TATAATTAAACATAAT
51866402 T
1 T
51866403 CACGTGAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAATTAAACATAAT
Found at i:51866875 original size:29 final size:29
Alignment explanation
Indices: 51866834--51867017 Score: 192
Period size: 29 Copynumber: 6.3 Consensus size: 29
51866824 ACCGAAACTT
51866834 TTTTCATATTCGATGGTCGTCACCATCCC
1 TTTTCATATTCGATGGTCGTCACCATCCC
***
51866863 TTTTCATATTCGATGGTCAAAACCATCCC
1 TTTTCATATTCGATGGTCGTCACCATCCC
* *
51866892 TTTTCATTAATCGATGGTTGTCACCATCCC
1 TTTTCA-TATTCGATGGTCGTCACCATCCC
*
51866922 TTTTCATAGTT-GATGTTCGTCACCATCCC
1 TTTTCATA-TTCGATGGTCGTCACCATCCC
* * ** *
51866951 TTTTCATAGTC-AGTAGTCGAAACTATCCC
1 TTTTCATATTCGA-TGGTCGTCACCATCCC
* * *
51866980 TTTTTCATATTCAATAGTTGTCACCATCCC
1 -TTTTCATATTCGATGGTCGTCACCATCCC
51867010 TTTTCATA
1 TTTTCATA
51867018 GTCAATAGTC
Statistics
Matches: 127, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
28 2 0.02
29 77 0.61
30 47 0.37
31 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (29 bp):
TTTTCATATTCGATGGTCGTCACCATCCC
Found at i:51866908 original size:30 final size:30
Alignment explanation
Indices: 51866855--51866928 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
51866845 GATGGTCGTC
*
51866855 ACCATCCCTTTTCA-TATTCGATGGTCAAA
1 ACCATCCCTTTTCATTAATCGATGGTCAAA
****
51866884 ACCATCCCTTTTCATTAATCGATGGTTGTC
1 ACCATCCCTTTTCATTAATCGATGGTCAAA
51866914 ACCATCCCTTTTCAT
1 ACCATCCCTTTTCAT
51866929 AGTTGATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 14 0.36
30 25 0.64
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.38
Consensus pattern (30 bp):
ACCATCCCTTTTCATTAATCGATGGTCAAA
Found at i:51866915 original size:59 final size:59
Alignment explanation
Indices: 51866834--51866957 Score: 171
Period size: 59 Copynumber: 2.1 Consensus size: 59
51866824 ACCGAAACTT
*
51866834 TTTTCA-TATTCGATGGTCGTCACCATCCCTTTTCATA-TTCGATGGTCAAAACCATCCC
1 TTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATAGTT-GATGGTCAAAACCATCCC
* * ***
51866892 TTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATAGTTGATGTTCGTCACCATCCC
1 TTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCAAAACCATCCC
51866951 TTTTCAT
1 TTTTCAT
51866958 AGTCAGTAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
58 6 0.10
59 50 0.86
60 2 0.03
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.40
Consensus pattern (59 bp):
TTTTCATTAATCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCAAAACCATCCC
Found at i:51866983 original size:88 final size:89
Alignment explanation
Indices: 51866834--51867019 Score: 254
Period size: 88 Copynumber: 2.1 Consensus size: 89
51866824 ACCGAAACTT
* *
51866834 TTTTCATA-TTCGATGGTCGTCACCATCCCTTTTCATATTCGATGGTCAAAACCATCCC-TTTTC
1 TTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCCCTTTTTC
* *
51866897 ATTAATCGATGGTTGTCACCATCCC
66 A-TAATCAATAGTTGTCACCATCCC
* * *
51866922 TTTTCATAGTT-GATGTTCGTCACCATCCCTTTTCATAGTC-AGTAGTCGAAACTATCCCTTTTT
1 TTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAGTCGA-TAGTCAAAACCATCCCTTTTT
*
51866985 CATATTCAATAGTTGTCACCATCCC
65 CATAATCAATAGTTGTCACCATCCC
51867010 TTTTCATAGT
1 TTTTCATAGT
51867020 CAATAGTCGA
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
87 1 0.01
88 78 0.90
89 8 0.09
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (89 bp):
TTTTCATAGTTCGATGGTCGTCACCATCCCTTTTCATAGTCGATAGTCAAAACCATCCCTTTTTC
ATAATCAATAGTTGTCACCATCCC
Found at i:51866985 original size:59 final size:57
Alignment explanation
Indices: 51866917--51867054 Score: 181
Period size: 59 Copynumber: 2.4 Consensus size: 57
51866907 GGTTGTCACC
*
51866917 ATCCC-TTTTCATAGTTGATGTTCGTCACCATCCCTTTTCATAGTCAGTAGTCGAAACT
1 ATCCCTTTTTCATA-TTGATGTT-GTCACCATCCCTTTTCATAGTCAATAGTCGAAACT
*
51866975 ATCCCTTTTTCATATTCAATAGTTGTCACCATCCCTTTTCATAGTCAATAGTCGAAACT
1 ATCCCTTTTTCATATT-GAT-GTTGTCACCATCCCTTTTCATAGTCAATAGTCGAAACT
*
51867034 AT-CTTTTTTCATTAATTGATG
1 ATCCCTTTTTCA-T-ATTGATG
51867055 GTCCTCGATA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
58 16 0.23
59 49 0.69
60 6 0.08
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (57 bp):
ATCCCTTTTTCATATTGATGTTGTCACCATCCCTTTTCATAGTCAATAGTCGAAACT
Found at i:51866987 original size:30 final size:29
Alignment explanation
Indices: 51866946--51867045 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
51866936 GTTCGTCACC
*
51866946 ATCCCTTTTCATAGTCAGTAGTCGAAACT
1 ATCCCTTTTCATAGTCAATAGTCGAAACT
* * ** *
51866975 ATCCCTTTTTCATATTCAATAGTTGTCACC
1 ATCCC-TTTTCATAGTCAATAGTCGAAACT
51867005 ATCCCTTTTCATAGTCAATAGTCGAAACT
1 ATCCCTTTTCATAGTCAATAGTCGAAACT
**
51867034 ATCTTTTTTCAT
1 ATCCCTTTTCAT
51867046 TAATTGATGG
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
29 34 0.60
30 23 0.40
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATAGTCAATAGTCGAAACT
Found at i:51874474 original size:16 final size:16
Alignment explanation
Indices: 51874453--51874483 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
51874443 CGGAAACATT
51874453 TTAAAGAAAATATCAC
1 TTAAAGAAAATATCAC
51874469 TTAAAGAAAATATCA
1 TTAAAGAAAATATCA
51874484 ATACCACTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (16 bp):
TTAAAGAAAATATCAC
Found at i:51887214 original size:40 final size:40
Alignment explanation
Indices: 51887012--51887233 Score: 346
Period size: 40 Copynumber: 5.7 Consensus size: 40
51887002 TATGCTAGTG
51887012 ACTAT-TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTT
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
51887050 ACTATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTT
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
*
51887089 ACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
51887129 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
* * *
51887169 ACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-T
1 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
* *
51887208 AGCTATATCC-GGCTAAATTCCGAAGG
1 A-CTATATCCGGGCTAAGTCCCGAAGG
51887234 TACTTGGTTT
Statistics
Matches: 172, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
38 5 0.03
39 65 0.38
40 102 0.59
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT
Found at i:51894685 original size:40 final size:40
Alignment explanation
Indices: 51894621--51894828 Score: 314
Period size: 40 Copynumber: 5.2 Consensus size: 40
51894611 AGTGACTCAT
51894621 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
51894660 TCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
51894700 ACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
51894740 TTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * * *
51894780 ACCGGGCTAAGTTCCGAAGGCATTTGAGCAAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
51894820 TCC-GGCTAA
1 TCCGGGCTAA
51894829 ATTCTGAAGG
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 19 0.12
40 135 0.88
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:51896281 original size:46 final size:46
Alignment explanation
Indices: 51896214--51896435 Score: 290
Period size: 46 Copynumber: 4.8 Consensus size: 46
51896204 TGGTTGAGCA
51896214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
51896260 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
51896306 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
51896351 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
51896399 CCCGAGCTCGTTGAGTTGAGTCCGAGCTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51896436 GCGGGTTACA
Statistics
Matches: 154, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.01
43 5 0.03
45 3 0.02
46 106 0.69
47 29 0.19
48 3 0.02
50 4 0.03
51 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:51900958 original size:40 final size:39
Alignment explanation
Indices: 51900790--51900960 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
51900780 AGAAATTGAA
* *
51900790 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
51900830 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
51900870 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
51900910 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
51900950 TGATATCCGGG
1 TGATATCCGGG
51900961 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:51909052 original size:40 final size:39
Alignment explanation
Indices: 51908884--51909054 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
51908874 AGAAATTGAA
* *
51908884 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
51908924 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
51908964 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
51909004 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
51909044 TGATATCCGGG
1 TGATATCCGGG
51909055 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:51922825 original size:39 final size:40
Alignment explanation
Indices: 51922767--51922867 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
51922757 AAATTGAATG
* *
51922767 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
51922806 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
51922846 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
51922868 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:51922860 original size:40 final size:40
Alignment explanation
Indices: 51922767--51922917 Score: 180
Period size: 40 Copynumber: 3.8 Consensus size: 40
51922757 AAATTGAATG
* * * * *
51922767 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
51922806 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
51922846 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* *
51922886 AAATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
51922918 AAATCGTGAT
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
39 32 0.33
40 62 0.65
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:51922932 original size:40 final size:38
Alignment explanation
Indices: 51922763--51922934 Score: 161
Period size: 40 Copynumber: 4.4 Consensus size: 38
51922753 TGAGAAATTG
* *
51922763 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-A
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
51922802 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
51922839 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
51922879 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
51922919 AATCGTGATATCCGGG
1 AAT-GT-ATATCCGGG
51922935 TAAAGTCCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
36 2 0.02
37 4 0.04
38 2 0.02
39 26 0.24
40 74 0.68
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:51929251 original size:45 final size:45
Alignment explanation
Indices: 51929175--51929273 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
51929165 TGTAACGTAG
* *
51929175 ACTTACTGGATGCGAATGTCGAACTCGTTGAGTTGAGTCCGAGTTC
1 ACTTA-TGGATGCGAACGCCGAACTCGTTGAGTTGAGTCCGAGTTC
*
51929221 ACTTATGGATGCGAACGCCCGAGCTC-TTGAGTTGAGTCCGAGTTC
1 ACTTATGGATGCGAACG-CCGAACTCGTTGAGTTGAGTCCGAGTTC
*
51929266 GCTTATGG
1 ACTTATGG
51929274 GCGGGTTACA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
45 37 0.77
46 11 0.23
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
ACTTATGGATGCGAACGCCGAACTCGTTGAGTTGAGTCCGAGTTC
Found at i:51934111 original size:43 final size:41
Alignment explanation
Indices: 51934038--51934196 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 41
51934028 TATCACATAT
* * * * *
51934038 CGATGCCACTGTCCCAAATAGGGTCGTACACGAAATCGATGAA
1 CGATGCCAATGTCCCAGACATGGTCTTACAC-AAATCGAT-AA
*
51934081 CGATGCCAATGTCCCAGACATGGTCTTACACTTAATCGTATAA
1 CGATGCCAATGTCCCAGACATGGTCTTACAC-AAATCG-ATAA
* * *
51934124 TGATTCCAATGTCCCAGACATGGTCTTACACATAATC-ACAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACA-AATCGA-TA-A
* *
51934167 CAATGCCAATGTCCTAGACATGGTCTTACA
1 CGATGCCAATGTCCCAGACATGGTCTTACA
51934197 TGTAATCTCA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 93 0.96
44 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (41 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACAAATCGATAA
Found at i:51936138 original size:20 final size:20
Alignment explanation
Indices: 51936100--51936138 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51936090 CCCAAAAACC
*
51936100 CACACGCCCATGTGAAAAGA
1 CACACGCCCATGCGAAAAGA
*
51936120 CACACGCCCATGCGCAAAG
1 CACACGCCCATGCGAAAAG
51936139 CATTGCACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.36, G:0.21, T:0.08
Consensus pattern (20 bp):
CACACGCCCATGCGAAAAGA
Found at i:51936494 original size:13 final size:14
Alignment explanation
Indices: 51936476--51936506 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
51936466 TATAAAATCA
51936476 CCAAAA-TTAATGT
1 CCAAAATTTAATGT
51936489 CCAAAATTTAATGT
1 CCAAAATTTAATGT
51936503 CCAA
1 CCAA
51936507 TGACCATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.29
Consensus pattern (14 bp):
CCAAAATTTAATGT
Found at i:51939069 original size:25 final size:25
Alignment explanation
Indices: 51939018--51939069 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
51939008 TAAAGATCTA
* *
51939018 TATGCTCTCACGAGCTATTAATTGG
1 TATGCTCTCACGAGCTATAAATCGG
* *
51939043 TATGTTCTCACGAGCTGTAAATCGG
1 TATGCTCTCACGAGCTATAAATCGG
51939068 TA
1 TA
51939070 ACCCTAATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATAAATCGG
Found at i:51943889 original size:40 final size:40
Alignment explanation
Indices: 51943845--51944070 Score: 219
Period size: 40 Copynumber: 5.7 Consensus size: 40
51943835 GCTACTCGTT
* *
51943845 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCGCA
* *
51943885 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* * * *
51943925 CAAATGCCTTC-AGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * *
51943965 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCCCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * * *
51944005 CAATTGCCTTC-GGATCTTAGTCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
* *
51944046 CAGA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
51944071 CATCATTCGA
Statistics
Matches: 165, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.01
40 153 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:51943963 original size:80 final size:80
Alignment explanation
Indices: 51943873--51944070 Score: 276
Period size: 80 Copynumber: 2.5 Consensus size: 80
51943863 AGCCCGGTTA
* *
51943873 TAGTAGCTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCACAAATGCCTTCAG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCCCACAAATGCCTTCAG
51943938 ATCTTAGTCCGAATT
66 ATCTTAGTCCGAATT
*
51943953 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATTTAGTAACTCCCACAATTGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATTTAGTAACTCCCACAAATGCCTTC
* *
51944016 GGATCTTAGTCCGGATT
64 AGATCTTAGTCCGAATT
* * *
51944033 TAGTAACTTAGCACAGA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTATCCCGGA
51944071 CATCATTCGA
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
79 3 0.03
80 91 0.87
81 11 0.10
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCCCACAAATGCCTTCAG
ATCTTAGTCCGAATT
Found at i:51944784 original size:2 final size:2
Alignment explanation
Indices: 51944777--51944802 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
51944767 TCATGTGCAA
51944777 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
51944803 GCAAGAGCCG
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:51946009 original size:43 final size:43
Alignment explanation
Indices: 51945927--51946056 Score: 108
Period size: 43 Copynumber: 3.0 Consensus size: 43
51945917 ATATCGTACA
* *
51945927 ATGCCAACGTACCA-AATGTGGTCTTACATGTA-ATA-ACATATCG
1 ATGCCAACGTCCCAGAA-GTGGTCTTACACG-AGA-ACACATATCG
* * *
51945970 AT-CCCACTGTCCTAGATAG-GGTCTTACACGAGAACACATATTG
1 ATGCCAAC-GTCCCAGA-AGTGGTCTTACACGAGAACACATATCG
* * *
51946013 ATGCCAACGTCCCAGACGTGGTCTTACATGCGAACACATATCG
1 ATGCCAACGTCCCAGAAGTGGTCTTACACGAGAACACATATCG
51946056 A
1 A
51946057 AAATCCTATG
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
42 7 0.10
43 55 0.80
44 6 0.09
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGAAGTGGTCTTACACGAGAACACATATCG
Found at i:51952670 original size:74 final size:75
Alignment explanation
Indices: 51952559--51952699 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 75
51952549 AATATGAAGA
* * * *
51952559 ACACATAATATAAGTATTAAAGGATGCAAAAGTATTAATGCAAAACATTAAACATAGATGCATTT
1 ACACATAATACAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGCATTT
51952624 AATAAACAAG
66 AATAAACAAG
* * * *
51952634 ACACATAATGCAAGT-TTAAAAGATGCAAATGTATTAATGCAAACCAGTAAAGAAAGATGCATTT
1 ACACATAATACAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGCATTT
51952698 AA
66 AA
51952700 CCAATAGAAC
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
74 45 0.78
75 13 0.22
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.25
Consensus pattern (75 bp):
ACACATAATACAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGCATTT
AATAAACAAG
Found at i:51952712 original size:74 final size:75
Alignment explanation
Indices: 51952556--51952717 Score: 202
Period size: 74 Copynumber: 2.2 Consensus size: 75
51952546 TATAATATGA
** * * *
51952556 AGAACACATAATATAAGTATTAAAGGATGCAAAAGTATTAATGCAAAACATTAAACATAGATGCA
1 AGAACACATAATGCAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGCA
*
51952621 TTTAATAAAC
66 TTTAACAAAC
* * *
51952631 A-AGACACATAATGCAAGT-TTAAAAGATGCAAATGTATTAATGCAAACCAGTAAAGAAAGATGC
1 AGA-ACACATAATGCAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGC
* *
51952694 ATTTAACCAAT
65 ATTTAACAAAC
51952705 AGAACACATAATG
1 AGAACACATAATG
51952718 TTGCAAAACA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
74 59 0.80
75 15 0.20
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (75 bp):
AGAACACATAATGCAAGTATTAAAAGATGCAAAAGTATTAATGCAAAACAGTAAACAAAGATGCA
TTTAACAAAC
Found at i:51952762 original size:48 final size:48
Alignment explanation
Indices: 51952671--51952764 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
51952661 AATGTATTAA
* * * * *
51952671 TGCAAACCAGTAAAGAAAGATGCATTTAACCAATAGAACACATAATGT
1 TGCAAAACAGTAAAGAAAGATGCATTTAACAAACACAAAACATAATGT
* * *
51952719 TGCAAAACATTAAATAAAGATGTATTTAACAAACACAAAACATAAT
1 TGCAAAACAGTAAAGAAAGATGCATTTAACAAACACAAAACATAAT
51952765 TAAAAAAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (48 bp):
TGCAAAACAGTAAAGAAAGATGCATTTAACAAACACAAAACATAATGT
Found at i:51962937 original size:2 final size:2
Alignment explanation
Indices: 51962925--51962962 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
51962915 ACCATCAATC
*
51962925 AT AT TT AT AT AT 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 AT AT AT AT AT AT
51962963 TCTTCTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:51963262 original size:39 final size:39
Alignment explanation
Indices: 51963191--51963373 Score: 208
Period size: 39 Copynumber: 4.7 Consensus size: 39
51963181 ACCAGCTCGA
* * *
51963191 AGCCTGCAGGACCTTAA--CACGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTC-CGGATATAATTCCAGCACAT
* *
51963230 AACCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
51963269 AGCTTGCGGACCTTGAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
51963308 AGCCTACGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
* ** * *
51963347 ACCCTGTAGACCCTAAGTCCAGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
51963374 CATCACTGAA
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 9 0.07
39 114 0.92
40 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:51972687 original size:27 final size:27
Alignment explanation
Indices: 51972648--51972933 Score: 310
Period size: 27 Copynumber: 10.7 Consensus size: 27
51972638 CTAGATTGAT
* *
51972648 AAATGACTTTTTTGTCCTCATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
51972675 AAATGACAATTTTGCCCTTAT-ATGGTA
1 AAATGACTATTTTGCCCTCATGA-GGTA
51972702 AAATGACTATTTT-CCCTCATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
51972728 AAATGATTATTTTCCCCTCATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
*
51972755 AAATGACTATCTTGCCCTCATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* * **
51972782 AAATTG-TTGTTTTGCCCTTTTGAGGTA
1 AAA-TGACTATTTTGCCCTCATGAGGTA
* *
51972809 AAATGTCTATTTT-CCCTCATGAGGAA
1 AAATGACTATTTTGCCCTCATGAGGTA
* * *
51972835 AAATGATTATTTTGCCCTTATAAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* * * *
51972862 AAATGACTGTTTTGCCTTTATGTGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
51972889 AAATGATTGTTTTGCCCTCATGAGGTA
1 AAATGACTATTTTGCCCTCATGAGGTA
* *
51972916 AAATGATTGTTTTGCCCT
1 AAATGACTATTTTGCCCT
51972934 TATATGGTGA
Statistics
Matches: 219, Mismatches: 34, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
26 46 0.21
27 171 0.78
28 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTCATGAGGTA
Found at i:51972782 original size:80 final size:79
Alignment explanation
Indices: 51972663--51972960 Score: 341
Period size: 80 Copynumber: 3.7 Consensus size: 79
51972653 ACTTTTTTGT
* * *
51972663 CCTCATGAGGTAAAATGACAATTTTGCCCTTATATGGTAAAATGACTATTTT-CCCTCATGAGGT
1 CCTCATGAGGTAAAATGACTATTTTGCCCTTATA-GGTAAAATGACTGTTTTGCCCTTATGAGGT
51972727 AAAATGATTATTTTCC
65 AAAATGATTATTTT-C
* * * *
51972743 CCTCATGAGGTAAAATGACTATCTTGCCCTCATGAGGTAAAATTG-TTGTTTTGCCCTTTTGAGG
1 CCTCATGAGGTAAAATGACTATTTTGCCCTTAT-AGGTAAAA-TGACTGTTTTGCCCTTATGAGG
51972807 TAAAATG-TCTATTTTC
64 TAAAATGAT-TATTTTC
* * * *
51972823 CCTCATGAGGAAAAATGATTATTTTGCCCTTATAAGGTAAAATGACTGTTTTGCCTTTATGTGGT
1 CCTCATGAGGTAAAATGACTATTTTGCCCTTAT-AGGTAAAATGACTGTTTTGCCCTTATGAGGT
*
51972888 AAAATGATTGTTTTGC
65 AAAATGATTATTTT-C
* * * * * *
51972904 CCTCATGAGGTAAAATGATTGTTTTGCCCTTATATGGTGAGATGATTGTTTTTCCCT
1 CCTCATGAGGTAAAATGACTATTTTGCCCTTATA-GGTAAAATGACTGTTTTGCCCT
51972961 ATGTGATTTA
Statistics
Matches: 186, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
79 2 0.01
80 109 0.59
81 75 0.40
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (79 bp):
CCTCATGAGGTAAAATGACTATTTTGCCCTTATAGGTAAAATGACTGTTTTGCCCTTATGAGGTA
AAATGATTATTTTC
Found at i:51972838 original size:107 final size:107
Alignment explanation
Indices: 51972648--51972921 Score: 363
Period size: 107 Copynumber: 2.6 Consensus size: 107
51972638 CTAGATTGAT
* * ***
51972648 AAATGACTTTTTTGTCCTCATGAGGTAAAATGACAATTTTGCCCTTAT-ATGGTAAAATGACTAT
1 AAATGACTATTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTATGA-GGTAAAATGACTAT
* *
51972712 TTTCCCTCATGAGGTAAAATGATTATTTTCCCCTCATGAGGTA
65 TTTCCCTCATGAGGAAAAATGATTATTTTCCCCTCATAAGGTA
* * *
51972755 AAATGACTATCTTGCCCTCATGAGGTAAAATTG-TTGTTTTGCCCTTTTGAGGTAAAATGTCTAT
1 AAATGACTATTTTGCCCTCATGAGGTAAAA-TGATTGTTTTGCCCTTATGAGGTAAAATGACTAT
* *
51972819 TTTCCCTCATGAGGAAAAATGATTATTTTGCCCTTATAAGGTA
65 TTTCCCTCATGAGGAAAAATGATTATTTTCCCCTCATAAGGTA
* * * * *
51972862 AAATGACTGTTTTGCCTTTATGTGGTAAAATGATTGTTTTGCCCTCATGAGGTAAAATGA
1 AAATGACTATTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTATGAGGTAAAATGA
51972922 TTGTTTTGCC
Statistics
Matches: 144, Mismatches: 20, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
106 2 0.01
107 139 0.97
108 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (107 bp):
AAATGACTATTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTATGAGGTAAAATGACTATT
TTCCCTCATGAGGAAAAATGATTATTTTCCCCTCATAAGGTA
Found at i:51980078 original size:27 final size:27
Alignment explanation
Indices: 51980042--51980238 Score: 219
Period size: 27 Copynumber: 7.5 Consensus size: 27
51980032 GCAAATTGCT
51980042 AAATGATTGTTTTGCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTA
51980069 AAATGATTGTTTTGCCCTTC-T-ATGGTA
1 AAATGATTGTTTTGCCC-TCATGA-GGTA
*
51980096 AAATAATTGTTTTGCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTA
* * *
51980123 AAATGACTATTTTTCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTA
* * * *
51980150 AAATGGTTTTTTTGCCCTCTTGAGGTT
1 AAATGATTGTTTTGCCCTCATGAGGTA
* * *
51980177 AAATGACTATTTTTCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTA
51980204 AAATGA-----TTGCCCTCATGAGGTA
1 AAATGATTGTTTTGCCCTCATGAGGTA
*
51980226 AAATGACTGTTTT
1 AAATGATTGTTTT
51980239 TCCTTTATAT
Statistics
Matches: 143, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
22 21 0.15
26 3 0.02
27 116 0.81
28 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (27 bp):
AAATGATTGTTTTGCCCTCATGAGGTA
Found at i:51980195 original size:81 final size:81
Alignment explanation
Indices: 51980042--51980270 Score: 247
Period size: 81 Copynumber: 2.9 Consensus size: 81
51980032 GCAAATTGCT
* * * *
51980042 AAATGATTGTTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTCTATGGTAAAATAATTGTT
1 AAATGACTATTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTCTATGGTAAAATAACTATT
51980107 TTGCCCTCATGAGGTA
66 TTGCCCTCATGAGGTA
* * * * *
51980123 AAATGACTATTTTTCCCTCATGAGGTAAAATGGTTTTTTTGCCC-TCT-TGAGGTTAAATGACTA
1 AAATGACTATTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTCTAT--GGTAAAATAACTA
*
51980186 TTTTTCCCTCATGAGGTA
64 TTTTGCCCTCATGAGGTA
* * * * * *
51980204 AAATG---A--TTGCCCTCATGAGGTAAAATGACTGTTTTTCCTTTATATGGTAAGATGACTATT
1 AAATGACTATTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTCTATGGTAAAATAACTATT
51980264 TTGCCCT
66 TTGCCCT
51980271 ATTTGATGTA
Statistics
Matches: 124, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
76 46 0.37
77 2 0.02
78 2 0.02
79 1 0.01
80 3 0.02
81 70 0.56
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (81 bp):
AAATGACTATTTTGCCCTCATGAGGTAAAATGATTGTTTTGCCCTTCTATGGTAAAATAACTATT
TTGCCCTCATGAGGTA
Found at i:51985082 original size:27 final size:27
Alignment explanation
Indices: 51985049--51985104 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
51985039 AGATGGTAGA
*
51985049 GAAAGAAAGATTTGAGAACCCAAGACC
1 GAAAGAAAGATTTCAGAACCCAAGACC
51985076 GAAAGAAAGATTTCAGAACCCAAGACC
1 GAAAGAAAGATTTCAGAACCCAAGACC
51985103 GA
1 GA
51985105 GTGGCACAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.48, C:0.20, G:0.21, T:0.11
Consensus pattern (27 bp):
GAAAGAAAGATTTCAGAACCCAAGACC
Found at i:51987045 original size:40 final size:40
Alignment explanation
Indices: 51986967--51987190 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
51986957 ACCCAAGTAT
* *
51986967 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
51987006 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
51987046 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
51987086 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
51987129 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
51987169 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
51987191 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:51987163 original size:83 final size:80
Alignment explanation
Indices: 51986967--51987190 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
51986957 ACCCAAGTAT
* * * *
51986967 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
51987031 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
51987046 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
51987110 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
51987129 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
51987191 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:51995281 original size:40 final size:40
Alignment explanation
Indices: 51995203--51995426 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
51995193 ACCCAAGTAT
* *
51995203 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
51995242 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
51995282 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
51995322 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
51995365 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
51995405 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
51995427 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:51995399 original size:83 final size:80
Alignment explanation
Indices: 51995203--51995426 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
51995193 ACCCAAGTAT
* * * *
51995203 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
51995267 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
51995282 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
51995346 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
51995365 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
51995427 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:52003213 original size:50 final size:49
Alignment explanation
Indices: 52003094--52003285 Score: 224
Period size: 50 Copynumber: 3.9 Consensus size: 49
52003084 ATTGTGAATA
* * * *
52003094 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTA-TCAGATG--GTAGGT
* *
52003145 CACGTGTGTAGTAGTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGT-AGGT
* * * *
52003195 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTAGGT
* * *
52003244 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGAT
52003286 AGCTTCGGCT
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
49 41 0.33
50 47 0.38
51 36 0.29
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTATCAGATGGTAGGT
Found at i:52003281 original size:99 final size:100
Alignment explanation
Indices: 52003094--52003285 Score: 264
Period size: 99 Copynumber: 1.9 Consensus size: 100
52003084 ATTGTGAATA
* * *
52003094 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGTGTGTAGTAG
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAATGA-TTCGATCACATGTGTAGTAC
*
52003159 TAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT
65 TAAGTGCAGGCTACTACGCGTATCAGATGGTGAGGT
* * *
52003195 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG-TT-GGTCGCATGTGTAGTA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCA-A-TGATTCGATCACATGTGTAGTA
*
52003257 CTAAGTGCAGGCTACTATGCGTATCAGAT
64 CTAAGTGCAGGCTACTACGCGTATCAGAT
52003286 AGCTTCGGCT
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
99 39 0.48
100 4 0.05
101 36 0.44
102 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAATGATTCGATCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTATCAGATGGTGAGGT
Found at i:52007871 original size:29 final size:29
Alignment explanation
Indices: 52007838--52007969 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
52007828 GTGACGAGAT
*
52007838 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
52007867 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
52007896 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
52007925 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
52007954 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52007970 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:52015750 original size:29 final size:29
Alignment explanation
Indices: 52015717--52015790 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
52015707 GTGACGAGAT
52015717 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
52015746 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
52015775 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52015791 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:52015806 original size:29 final size:29
Alignment explanation
Indices: 52015774--52015849 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
52015764 CTGGAAATAT
* *
52015774 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
52015803 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
52015832 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
52015850 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:52015817 original size:58 final size:58
Alignment explanation
Indices: 52015717--52015849 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
52015707 GTGACGAGAT
* * * * * *
52015717 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
52015775 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
52015833 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
52015850 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:52020720 original size:50 final size:50
Alignment explanation
Indices: 52020645--52020870 Score: 208
Period size: 50 Copynumber: 4.5 Consensus size: 50
52020635 TGAATACACG
* * *
52020645 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCGCA
* ** * * *
52020695 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTGAGTCGCA
* ** * * *
52020746 TGTGTAGTACTAAGTGCAGGCTACTTCGTGTATGAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGA-GTCGCA
* * * * *
52020796 TGTGTAGTTCCAAGTTCAGGCTACTACGTGTACCGGATTGTTG-GTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCGCA
52020845 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
52020871 TGCGTATCAG
Statistics
Matches: 139, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 28 0.20
50 65 0.47
51 35 0.25
52 3 0.02
53 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCGCA
Found at i:52022997 original size:13 final size:13
Alignment explanation
Indices: 52022981--52023006 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52022971 ATATGTTTCA
52022981 TGATTGTTTTGGT
1 TGATTGTTTTGGT
52022994 TGATTGTTTTGGT
1 TGATTGTTTTGGT
52023007 ATGGATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.31, T:0.62
Consensus pattern (13 bp):
TGATTGTTTTGGT
Found at i:52027160 original size:38 final size:38
Alignment explanation
Indices: 52027109--52027351 Score: 144
Period size: 38 Copynumber: 5.9 Consensus size: 38
52027099 GGAATGAAAA
*
52027109 AACGTGGTGCTAAGTGGATACACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
* **
52027147 AACGTGGTGCTAAGTGGATACACCATGATTACACATATTGATACGTGT
1 AACGTGGTGCTAAGTGGAT-----AT-A--CCAC-GGTT-ATACGTGT
* * * *
52027195 AACGTGGTGCTAAGTGAATATACCATGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
* * * * *
52027233 AACGTGGTGCTGAGTTGATATGCCACGGTTACAAATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT----ATA-CG--T--GT
* * *
52027280 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
* **
52027318 AACGTGGTGCTAAGTGGACATGTCACGGTTATAC
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAC
52027352 ATGTTAATTT
Statistics
Matches: 153, Mismatches: 33, Indels: 38
0.68 0.15 0.17
Matches are distributed among these distances:
38 80 0.52
39 2 0.01
40 3 0.02
42 3 0.02
43 5 0.03
44 1 0.01
45 1 0.01
46 3 0.02
47 29 0.19
48 26 0.17
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
Found at i:52027199 original size:48 final size:48
Alignment explanation
Indices: 52027139--52027230 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
52027129 CACCACGGTT
* *
52027139 ATACGTGTAACGTGGTGCTAAGTGGATACACCATGATTACACATATTG
1 ATACGTGTAACGTGGTGCTAAGTGAATACACCATGATTAAACATATTG
* *
52027187 ATACGTGTAACGTGGTGCTAAGTGAATATACCATGGTTAAACAT
1 ATACGTGTAACGTGGTGCTAAGTGAATACACCATGATTAAACAT
52027231 GTAACGTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (48 bp):
ATACGTGTAACGTGGTGCTAAGTGAATACACCATGATTAAACATATTG
Found at i:52027311 original size:85 final size:86
Alignment explanation
Indices: 52027109--52027348 Score: 329
Period size: 86 Copynumber: 2.8 Consensus size: 86
52027099 GGAATGAAAA
* * * * ** *
52027109 AACGTGGTGCTAAGTGGATACACCACGGTTATACGTGTAACGTGGTGCTAAGTGGATACACCATG
1 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
* * *
52027174 ATTACACATATTGATACGTGT
66 GTTACAAATATTGATACATGT
* * *
52027195 AACGTGGTGCTAAGTGAATATACCATGGTTAAACATGTAACGTGGTGCTGAGTTGATATGCCACG
1 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
*
52027260 GTTACAAATATTGATTCAT-T
66 GTTACAAATATTGATACATGT
* *
52027280 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGACATGTCACG
1 AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
52027345 GTTA
66 GTTA
52027349 TACATGTTAA
Statistics
Matches: 135, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
85 65 0.48
86 70 0.52
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (86 bp):
AACGTGGTGCTAAGTGGATATACCATGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCACG
GTTACAAATATTGATACATGT
Found at i:52032029 original size:46 final size:45
Alignment explanation
Indices: 52031884--52032038 Score: 181
Period size: 46 Copynumber: 3.4 Consensus size: 45
52031874 TGGTTGAGCA
* *
52031884 TCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTTGAG
1 TCCGAGTTCACTTATGGATGCAACGCCCGAACTCGTTGAGTTGAG
* * *
52031929 TCCGAGTTC-GTGA--GATGTAACTAGGCATCCGAACTCGTTGAGTTGAG
1 TCCGAGTTCACTTATGGATGCAAC---GC--CCGAACTCGTTGAGTTGAG
*
52031976 TCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAG
1 TCCGAGTTCACTTATGGATGC-AACGCCCGAACTCGTTGAGTTGAG
52032022 TCCGAGTTCACTTATGG
1 TCCGAGTTCACTTATGG
52032039 GCGGGTTACA
Statistics
Matches: 92, Mismatches: 9, Indels: 17
0.78 0.08 0.14
Matches are distributed among these distances:
42 6 0.07
44 2 0.02
45 10 0.11
46 35 0.38
47 28 0.30
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAGTTCACTTATGGATGCAACGCCCGAACTCGTTGAGTTGAG
Found at i:52035012 original size:15 final size:15
Alignment explanation
Indices: 52034992--52035060 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
52034982 GTATCTTGGG
52034992 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
52035007 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
52035022 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
52035037 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
52035052 TTTCTTTAT
1 TTTCTTTAT
52035061 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:52035061 original size:30 final size:30
Alignment explanation
Indices: 52034983--52035070 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
52034973 CATAGTATCG
* * * *
52034983 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
52035013 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
52035043 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
52035071 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:52037609 original size:46 final size:46
Alignment explanation
Indices: 52037446--52037618 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
52037436 TGGTTGGCAT
*
52037446 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
52037490 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
52037535 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
52037583 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52037619 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
41 5 0.05
43 2 0.02
44 28 0.25
45 1 0.01
46 35 0.32
47 28 0.25
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:52041729 original size:38 final size:38
Alignment explanation
Indices: 52041678--52041876 Score: 245
Period size: 38 Copynumber: 5.0 Consensus size: 38
52041668 GGAATGAAAA
*
52041678 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
52041716 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
52041754 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
52041801 AACGTGGTGCTAAGTGGATATCCCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
52041839 AACGTGGTGCTAAGTGGATATGCCACAGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
52041877 TAATTTGAAA
Statistics
Matches: 141, Mismatches: 11, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
38 101 0.72
40 3 0.02
41 2 0.01
44 2 0.01
45 3 0.02
47 30 0.21
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:52043627 original size:19 final size:18
Alignment explanation
Indices: 52043603--52043638 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
52043593 CCCCCTTTTT
*
52043603 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
52043622 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
52043639 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:52047350 original size:44 final size:42
Alignment explanation
Indices: 52047300--52047472 Score: 197
Period size: 44 Copynumber: 3.9 Consensus size: 42
52047290 GGATGGGAGA
52047300 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATG
1 CATCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATG
* * *
52047343 CAGTCCGAACTCGTTGAGTTGAGT-CGAGTTC-GTGAGATGTAACTAGG
1 CA-TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T--G
52047390 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
* *
52047432 CGAACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 C--ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52047473 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
41 1 0.01
42 5 0.05
43 9 0.08
44 59 0.53
45 2 0.02
46 24 0.22
47 10 0.09
48 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (42 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG
Found at i:52047453 original size:90 final size:91
Alignment explanation
Indices: 52047300--52047464 Score: 280
Period size: 90 Copynumber: 1.8 Consensus size: 91
52047290 GGATGGGAGA
**
52047300 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGCAGTCCGAACTCGTTGAGTTGA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGCAACCCGAACTCGTTGAGTTGA
52047365 GT-CGAGTTCGTGAGATGTAACTAGG
66 GTCCGAGTTCGTGAGATGTAACTAGG
*
52047390 CATCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCGAACCCGAGCTCGTTGAGTTG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGC-AACCCGAACTCGTTGAGTTG
52047454 AGTCCGAGTTC
65 AGTCCGAGTTC
52047465 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
89 15 0.21
90 48 0.69
91 7 0.10
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (91 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTTCACTTATGGATGCAACCCGAACTCGTTGAGTTGA
GTCCGAGTTCGTGAGATGTAACTAGG
Found at i:52050432 original size:15 final size:15
Alignment explanation
Indices: 52050412--52050480 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
52050402 GTATCTTGGG
52050412 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
52050427 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
52050442 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
52050457 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
52050472 TTTCTTTAT
1 TTTCTTTAT
52050481 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:52050481 original size:30 final size:30
Alignment explanation
Indices: 52050403--52050490 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
52050393 CATAGTATCG
* * * *
52050403 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
52050433 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
52050463 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
52050491 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:52052923 original size:46 final size:46
Alignment explanation
Indices: 52052873--52053045 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
52052863 TGGTTGAGCA
*
52052873 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
52052919 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
52052966 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
52053012 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52053046 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:52053029 original size:93 final size:93
Alignment explanation
Indices: 52052870--52053040 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
52052860 GGATGGTTGA
* *
52052870 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
52052935 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
52052963 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
52053028 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52053041 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52057161 original size:38 final size:38
Alignment explanation
Indices: 52057110--52057308 Score: 245
Period size: 38 Copynumber: 5.0 Consensus size: 38
52057100 GGAATGAAAA
*
52057110 AACGTGGTGCTAAGTGGATATACCACGGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
52057148 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
52057186 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
52057233 AACGTGGTGCTAAGTGGATATCCCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* *
52057271 AACGTGGTGCTAAGTGGATATGCCACAGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
52057309 TAATTTGAAA
Statistics
Matches: 141, Mismatches: 11, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
38 101 0.72
40 3 0.02
41 2 0.01
44 2 0.01
45 3 0.02
47 30 0.21
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:52058829 original size:40 final size:39
Alignment explanation
Indices: 52058726--52059012 Score: 400
Period size: 40 Copynumber: 7.3 Consensus size: 39
52058716 CCTTTGGAAT
* * *
52058726 TTAGCCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGAC
1 TTAGCCCGATATAG-TAACTCGCACAAATGCCTTCGGGAC
*
52058765 TTAGCCCGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGAC
52058804 TTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCC-GATATAGTAACTCGCACAAATGCCTTCGGGAC
*
52058844 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAGCCC-GATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
52058884 TTAGCCTGATTATAGTAACTCGCACAAATGCCCTCGGGAC
1 TTAGCCCGA-TATAGTAACTCGCACAAATGCCTTCGGGAC
*
52058924 TTAGCTCGAATATAGTAACTCGCACAAATGCCTTCGGG-C
1 TTAGCCCG-ATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
52058963 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCC-GATA-TAGTAACTCGCACAAATGCCTTCGGGAC
52059003 TTAGCCCGAT
1 TTAGCCCGAT
52059013 TATCATCCGA
Statistics
Matches: 224, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 75 0.33
40 146 0.65
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TTAGCCCGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:52058999 original size:119 final size:120
Alignment explanation
Indices: 52058726--52059015 Score: 439
Period size: 119 Copynumber: 2.4 Consensus size: 120
52058716 CCTTTGGAAT
* *
52058726 TTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCG-TTATAGTAACTCGCA
1 TTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
*
52058788 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGAC
65 CAAATGCCCTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
52058844 TTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCTGATTATAGTAACTCGCAC
1 TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCAC
*
52058909 AAATGCCCTCGGGACTTAGCTC-GAATATAGTAACTCGCACAAATGCCTTCGGG-C
66 AAATGCCCTCGGGACTTAGCCCAG-ATATAGTAACTCGCACAAATGCCTTCGGGAC
*
52058963 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGATTAT
1 TTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGATTAT
52059016 CATCCGAATA
Statistics
Matches: 157, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
118 6 0.04
119 86 0.55
120 65 0.41
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
TTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCAC
AAATGCCCTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:52067104 original size:16 final size:16
Alignment explanation
Indices: 52067085--52067116 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52067075 CAATTTTTAT
*
52067085 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
52067101 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
52067117 TAAACCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:52068170 original size:27 final size:26
Alignment explanation
Indices: 52068121--52068190 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
52068111 GATACAGATC
*
52068121 GTGGCAGAGCGACCAAAATAGAT-ATAT
1 GTGGCAGAGCCACC-AAATAGATAAT-T
*
52068148 GTGGCAGAGCCACCAGATCAGATAATT
1 GTGGCAGAGCCACCAAAT-AGATAATT
*
52068175 GTGGCATAGCCACCAA
1 GTGGCAGAGCCACCAA
52068191 GACGCTTCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 3 0.08
27 32 0.86
28 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (26 bp):
GTGGCAGAGCCACCAAATAGATAATT
Found at i:52068358 original size:28 final size:26
Alignment explanation
Indices: 52068296--52068358 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
52068286 AAAGTACCCC
** * *
52068296 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
52068322 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
52068350 TAGGGGTAT
1 TAGGGGTAT
52068359 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:52075193 original size:40 final size:40
Alignment explanation
Indices: 52075066--52075195 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52075056 ATGCTGGAAA
* *
52075066 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
52075106 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
52075146 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
52075186 TTATATCCGG
1 TTATATCCGG
52075196 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:52083249 original size:40 final size:40
Alignment explanation
Indices: 52083122--52083251 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
52083112 ATGCTGGAAA
* *
52083122 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
52083162 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
52083202 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
52083242 TTATATCCGG
1 TTATATCCGG
52083252 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:52090551 original size:56 final size:54
Alignment explanation
Indices: 52090412--52090571 Score: 194
Period size: 56 Copynumber: 2.9 Consensus size: 54
52090402 TTTGATGACA
* * *
52090412 TGATACATGCTAGGTCCGGGAGCTTGTGTAGCCCTGTTGAGAGCCATGTAATTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGC--GTGATTATG
* * ** *
52090468 TGGTACACGCTAGGTCTAGGAGCTTATGTAGCCCTGTTGAGAGGCGTGGTTATG
1 TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGATTATG
* *
52090522 TGATGCATGCTAGGTCCGGGTGCTTTTATGTAGCCCTGTTGAGAGGCGTG
1 TGATACATGCTAGGTCCGGGAGC--TTATGTAGCCCTGTTGAGAGGCGTG
52090572 CTATGTTAGG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 24 0.27
56 64 0.73
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (54 bp):
TGATACATGCTAGGTCCGGGAGCTTATGTAGCCCTGTTGAGAGGCGTGATTATG
Found at i:52092049 original size:2 final size:2
Alignment explanation
Indices: 52092042--52092071 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
52092032 GTGGCTTAGT
52092042 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
52092072 AGTTTGTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52096452 original size:6 final size:6
Alignment explanation
Indices: 52096443--52096485 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
52096433 AATTAGGTGA
*
52096443 CAGAAT CAGAAT CAGTAT CAGGTAAT -AGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
52096486 GTGAATACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 25 0.78
7 2 0.06
8 2 0.06
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (6 bp):
CAGAAT
Found at i:52096642 original size:27 final size:26
Alignment explanation
Indices: 52096604--52096737 Score: 160
Period size: 27 Copynumber: 5.0 Consensus size: 26
52096594 GCATAGCTGT
** *
52096604 CAGAACAGATATTGTGATAGAGTCAC
1 CAGAACAGATATTGTGGCAGAGCCAC
52096630 CAGAAACAGATATTGTGGCAGAGCCAC
1 CAG-AACAGATATTGTGGCAGAGCCAC
*
52096657 CAGAACAGATATTTGTGGCATAGCCAC
1 CAGAACAGATA-TTGTGGCAGAGCCAC
**
52096684 CAGAACAGATATTTGTGGCATCGCCAC
1 CAGAACAGATA-TTGTGGCAGAGCCAC
* *
52096711 CAGAAACAGATAATGTGGCAAAGCCAC
1 CAG-AACAGATATTGTGGCAGAGCCAC
52096738 TTAACAGAAT
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 11 0.11
27 78 0.80
28 8 0.08
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGAACAGATATTGTGGCAGAGCCAC
Found at i:52096924 original size:22 final size:22
Alignment explanation
Indices: 52096896--52096953 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
52096886 GCAAATACGT
52096896 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAGAGCCATATGTAGG
52096918 TTGGCACAGAGCCATATGTAGG
1 TTGGCACAGAGCCATATGTAGG
*
52096940 TTGGCACAAAGCCA
1 TTGGCACAGAGCCA
52096954 CAATCAGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (22 bp):
TTGGCACAGAGCCATATGTAGG
Found at i:52097415 original size:38 final size:38
Alignment explanation
Indices: 52097364--52097439 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
52097354 TTTCCCCACA
52097364 AGGGTATCTCGGTAATCCTACCATACAGGGGTATTTCG
1 AGGGTATCTCGGTAATCCTACCATACAGGGGTATTTCG
* * *
52097402 AGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCG
1 AGGGTATCTCGGTAATCCTACCATACAGGGGTATTTCG
52097440 GTAATTCTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (38 bp):
AGGGTATCTCGGTAATCCTACCATACAGGGGTATTTCG
Found at i:52097439 original size:27 final size:27
Alignment explanation
Indices: 52097403--52097504 Score: 195
Period size: 27 Copynumber: 3.8 Consensus size: 27
52097393 GGTATTTCGA
52097403 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
52097430 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
52097457 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
52097484 GGGTATTTTGGTAATTCTACC
1 GGGTATTTCGGTAATTCTACC
52097505 ATAAATGTAA
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:52098183 original size:6 final size:6
Alignment explanation
Indices: 52098153--52098351 Score: 142
Period size: 6 Copynumber: 32.3 Consensus size: 6
52098143 AAGAAACATT
* * *
52098153 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
52098201 ATCAG- GTGACAGA ATCAAA ATCAGA ATCAGA ATCAGA ATTCGGTA A-CAGA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* *
52098251 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
52098300 A-CTAGGTA A-CAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATAAGA
1 ATC-A-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
52098350 AT
1 AT
52098352 GTCAATGCAA
Statistics
Matches: 155, Mismatches: 20, Indels: 36
0.73 0.09 0.17
Matches are distributed among these distances:
5 11 0.07
6 121 0.78
7 15 0.10
8 8 0.05
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:52098216 original size:25 final size:24
Alignment explanation
Indices: 52098153--52098351 Score: 142
Period size: 25 Copynumber: 8.1 Consensus size: 24
52098143 AAGAAACATT
* *
52098153 ATCAGAA-CTAGAATCAAAATGAGA
1 ATCAGAATC-AGAATCAGAATCAGA
*
52098177 ATTAGAATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGAATCAGA
* *
52098201 ATCAG-GTGACAGAATCAAAATCAGA
1 ATCAGAAT--CAGAATCAGAATCAGA
*
52098226 ATCAGAATCAGAATTCGGTAA-CAGA
1 ATCAGAATCAGAA-TCAG-AATCAGA
*
52098251 ATCAGAATCAGTATCAGGTAA-CAGA
1 ATCAGAATCAGAATCA-G-AATCAGA
*
52098276 ATCAGAATCAGAACCAGAATCAGA
1 ATCAGAATCAGAATCAGAATCAGA
* *
52098300 A-CTAGGTAA-CAAAATCAGAATCAGT
1 ATC-A-G-AATCAGAATCAGAATCAGA
*
52098325 ATCAGGTAA-CAGAATCAGAATAAGA
1 ATCA-G-AATCAGAATCAGAATCAGA
52098350 AT
1 AT
52098352 GTCAATGCAA
Statistics
Matches: 144, Mismatches: 19, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
23 4 0.03
24 37 0.26
25 97 0.67
26 6 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (24 bp):
ATCAGAATCAGAATCAGAATCAGA
Found at i:52098260 original size:62 final size:62
Alignment explanation
Indices: 52098185--52098351 Score: 262
Period size: 62 Copynumber: 2.7 Consensus size: 62
52098175 GAATTAGAAT
* * * * *
52098185 CAGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAGAATCAGAATCAGAATTCGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAACTAGGTAA
*
52098247 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAACTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAACTAGGTAA
* *
52098309 CAAAATCAGAATCAGTATCAGGTAACAGAATCAGAATAAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
52098352 GTCAATGCAA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 96 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAACTAGGTAA
Found at i:52098288 original size:37 final size:37
Alignment explanation
Indices: 52098174--52098300 Score: 145
Period size: 37 Copynumber: 3.4 Consensus size: 37
52098164 AATCAAAATG
* *
52098174 AGAATTAGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
*
52098211 AGAATCAAAATCAGAATCAGAATCAGAATTC-GGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAA-TCAGGTAAC
*
52098248 AGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-C
*
52098285 AGAACCAGAATCAGAA
1 AGAATCAGAATCAGAA
52098301 CTAGGTAACA
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
36 2 0.03
37 66 0.85
38 8 0.10
39 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:52098307 original size:37 final size:37
Alignment explanation
Indices: 52098247--52098323 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
52098237 AATTCGGTAA
* * *
52098247 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGTAACAGGTAACAAAATCAGAAT
52098284 CAGAACCAGAATCAG-AACTAGGTAACAAAATCAGAAT
1 CAGAACCAGAATCAGTAAC-AGGTAACAAAATCAGAAT
52098321 CAG
1 CAG
52098324 TATCAGGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.06
37 34 0.94
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (37 bp):
CAGAACCAGAATCAGTAACAGGTAACAAAATCAGAAT
Found at i:52098517 original size:27 final size:26
Alignment explanation
Indices: 52098469--52098528 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
52098459 GCGAGGCTGC
*
52098469 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
52098496 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
52098522 CAGATAT
1 CAGATAT
52098529 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:52098573 original size:71 final size:67
Alignment explanation
Indices: 52098496--52098637 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
52098486 TCACCAGATA
* * * *
52098496 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACAAAGCCACCAGAACAG--ATAT-T-TGTAGCGAAGCCACCAGATTGCAGCGA
*
52098561 GGTTGC
62 GGCTGC
* * *
52098567 CAGATATTGTGACAAAGTCACCAGAACAGATATTTGTAGTGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACAAAGCCACCAGAACAGATATTTGTAGCGAAGCCACCAGATTGCAGCGAGGCT
52098632 GC
66 GC
52098634 CAGA
1 CAGA
52098638 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 33 0.52
68 1 0.02
69 4 0.06
71 25 0.40
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACAAAGCCACCAGAACAGATATTTGTAGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:52098893 original size:27 final size:27
Alignment explanation
Indices: 52098863--52099087 Score: 192
Period size: 27 Copynumber: 8.3 Consensus size: 27
52098853 GGGGTAAAAT
* *
52098863 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
52098890 GGTAATTCTACCTTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
* *
52098917 AGTAATTCTACCCTAC-AGAGGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTC
*
52098944 GAT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
52098971 GATAATTATACCCTAC-AGGAGTATTTT
1 GGTAATTTTACCCTACAAGG-GTATTTC
* * *
52098998 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
52099025 GGT-ATTTCTACCCTACAGGGGTGTTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
52099052 GGT-ATTTCTACACTATAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
52099079 GGTAATTTT
1 GGTAATTTT
52099088 GTAAATCGAG
Statistics
Matches: 167, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
26 12 0.07
27 143 0.86
28 12 0.07
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:52098929 original size:54 final size:53
Alignment explanation
Indices: 52098863--52099085 Score: 248
Period size: 54 Copynumber: 4.1 Consensus size: 53
52098853 GGGGTAAAAT
* * * * *
52098863 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTAC-AGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * *
52098917 AGTAATTCTACCCTACAGAGGTATTTCGATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAG-GGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * **
52098971 GATAATTATACCCTACAGGAGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGG-GTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * * * *
52099025 GGTATTTCTACCCTACAGGGGTGTTTCGGTATTTCTACACTATAGGGGTATTTC
1 GGTAATTCTACCCTACA-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
52099079 GGTAATT
1 GGTAATT
52099086 TTGTAAATCG
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
53 3 0.02
54 134 0.96
55 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (53 bp):
GGTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:52099006 original size:81 final size:81
Alignment explanation
Indices: 52098867--52099085 Score: 278
Period size: 81 Copynumber: 2.7 Consensus size: 81
52098857 TAAAATGGTA
* * * * *
52098867 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTATACCCTACAGGAGTATTTCAGTAATTCTACCCT
52098931 ACAGAGGTATTTCGAT
66 ACAGAGGTATTTCGAT
*
52098947 ATTTCTACCCTACAAGGGTATTTCGATAATTATACCCTACAGGAGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTATACCCTACAGGAGTATTTCAGTAATTCTACCCT
* *
52099012 ACAGGGGTATTTCGGT
66 ACAGAGGTATTTCGAT
* * * * * * * * *
52099028 ATTTCTACCCTACAGGGGTGTTTCGGTATTTCTACACTATAGGGGTATTTCGGTAATT
1 ATTTCTACCCTACAAGGGTATTTCGATAATTATACCCTACAGGAGTATTTCAGTAATT
52099086 TTGTAAATCG
Statistics
Matches: 120, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 4 0.03
81 116 0.97
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGATAATTATACCCTACAGGAGTATTTCAGTAATTCTACCCT
ACAGAGGTATTTCGAT
Found at i:52099153 original size:27 final size:27
Alignment explanation
Indices: 52099121--52099436 Score: 265
Period size: 27 Copynumber: 11.7 Consensus size: 27
52099111 TTCTGTAAAT
* **
52099121 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAA
* *** ***
52099148 CGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAA
** ** * *
52099175 TGAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAA
* *
52099202 TAGGGGTATTTTGGTAATTTT-CAAAA
1 CAAGGGTATTTTGGTAATTTTACAAAA
* * *
52099228 CTAGGGGTATTTTGATAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAA
* * * *
52099256 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAA
* *
52099283 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAA
* ** *
52099310 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAA
*
52099337 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAA
* * * *
52099364 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAA
* *
52099391 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAA
*
52099418 CAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
52099437 CGGTAAACTA
Statistics
Matches: 244, Mismatches: 43, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.02
27 235 0.96
28 5 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAA
Found at i:52099444 original size:27 final size:27
Alignment explanation
Indices: 52099178--52099436 Score: 340
Period size: 27 Copynumber: 9.6 Consensus size: 27
52099168 TACAGGTTGA
** * **
52099178 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52099205 GGGTATTTTGGTAATTTT-CAAAACTAG
1 GGGTATTTTGGTAATTTTAC-AAACCAG
*
52099232 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
52099259 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52099286 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
52099313 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
52099340 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
52099367 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52099394 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
52099421 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
52099437 CGGTAAACTA
Statistics
Matches: 201, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.00
27 199 0.99
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:52099444 original size:54 final size:54
Alignment explanation
Indices: 52099177--52099436 Score: 398
Period size: 54 Copynumber: 4.8 Consensus size: 54
52099167 TTACAGGTTG
* * ** *
52099177 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTCA-AAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTT-ATAAACCA
* *
52099231 GGGGTATTTT-GATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
52099285 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
52099339 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
52099393 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
52099437 CGGTAAACTA
Statistics
Matches: 188, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
53 2 0.01
54 185 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:52099444 original size:108 final size:108
Alignment explanation
Indices: 52099177--52099436 Score: 439
Period size: 108 Copynumber: 2.4 Consensus size: 108
52099167 TTACAGGTTG
* * ** ** * *
52099177 AGGGTATTTCAGTAATTTCACAAATTAGGGGTATTTTGGTAATTTTCAAAACTAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
52099242 ATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
66 ATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
52099285 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
*
52099350 GTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
66 ATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
52099393 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
52099437 CGGTAAACTA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 143 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (108 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
ATAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
Found at i:52101443 original size:6 final size:6
Alignment explanation
Indices: 52101413--52101611 Score: 142
Period size: 6 Copynumber: 32.3 Consensus size: 6
52101403 AAGAAACATT
* * *
52101413 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
52101461 ATCAG- GTGACAGA ATCAAA ATCAGA ATCAGA ATCAGA ATTCGGTA A-CAGA
1 ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA A-TCAG-A ATCAGA
* *
52101511 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
52101560 A-CTAGGTA A-CAAA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATAAGA
1 ATC-A-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
52101610 AT
1 AT
52101612 GTCAATGCAA
Statistics
Matches: 155, Mismatches: 20, Indels: 36
0.73 0.09 0.17
Matches are distributed among these distances:
5 11 0.07
6 121 0.78
7 15 0.10
8 8 0.05
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:52101476 original size:25 final size:24
Alignment explanation
Indices: 52101413--52101611 Score: 142
Period size: 25 Copynumber: 8.1 Consensus size: 24
52101403 AAGAAACATT
* *
52101413 ATCAGAA-CTAGAATCAAAATGAGA
1 ATCAGAATC-AGAATCAGAATCAGA
*
52101437 ATTAGAATCAGAATCAGAATCAGA
1 ATCAGAATCAGAATCAGAATCAGA
* *
52101461 ATCAG-GTGACAGAATCAAAATCAGA
1 ATCAGAAT--CAGAATCAGAATCAGA
*
52101486 ATCAGAATCAGAATTCGGTAA-CAGA
1 ATCAGAATCAGAA-TCAG-AATCAGA
*
52101511 ATCAGAATCAGTATCAGGTAA-CAGA
1 ATCAGAATCAGAATCA-G-AATCAGA
*
52101536 ATCAGAATCAGAACCAGAATCAGA
1 ATCAGAATCAGAATCAGAATCAGA
* *
52101560 A-CTAGGTAA-CAAAATCAGAATCAGT
1 ATC-A-G-AATCAGAATCAGAATCAGA
*
52101585 ATCAGGTAA-CAGAATCAGAATAAGA
1 ATCA-G-AATCAGAATCAGAATCAGA
52101610 AT
1 AT
52101612 GTCAATGCAA
Statistics
Matches: 144, Mismatches: 19, Indels: 23
0.77 0.10 0.12
Matches are distributed among these distances:
23 4 0.03
24 37 0.26
25 97 0.67
26 6 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (24 bp):
ATCAGAATCAGAATCAGAATCAGA
Found at i:52101520 original size:62 final size:62
Alignment explanation
Indices: 52101445--52101611 Score: 262
Period size: 62 Copynumber: 2.7 Consensus size: 62
52101435 GAATTAGAAT
* * * * *
52101445 CAGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAGAATCAGAATCAGAATTCGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAACTAGGTAA
*
52101507 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAACTAGGTAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAACTAGGTAA
* *
52101569 CAAAATCAGAATCAGTATCAGGTAACAGAATCAGAATAAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
52101612 GTCAATGCAA
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 96 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAACTAGGTAA
Found at i:52101548 original size:37 final size:37
Alignment explanation
Indices: 52101434--52101560 Score: 145
Period size: 37 Copynumber: 3.4 Consensus size: 37
52101424 AATCAAAATG
* *
52101434 AGAATTAGAATCAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
*
52101471 AGAATCAAAATCAGAATCAGAATCAGAATTC-GGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAA-TCAGGTAAC
*
52101508 AGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-C
*
52101545 AGAACCAGAATCAGAA
1 AGAATCAGAATCAGAA
52101561 CTAGGTAACA
Statistics
Matches: 78, Mismatches: 7, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
36 2 0.03
37 66 0.85
38 8 0.10
39 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.17
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:52101567 original size:37 final size:37
Alignment explanation
Indices: 52101507--52101583 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
52101497 AATTCGGTAA
* * *
52101507 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGTAACAGGTAACAAAATCAGAAT
52101544 CAGAACCAGAATCAG-AACTAGGTAACAAAATCAGAAT
1 CAGAACCAGAATCAGTAAC-AGGTAACAAAATCAGAAT
52101581 CAG
1 CAG
52101584 TATCAGGTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 2 0.06
37 34 0.94
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (37 bp):
CAGAACCAGAATCAGTAACAGGTAACAAAATCAGAAT
Found at i:52101778 original size:27 final size:26
Alignment explanation
Indices: 52101730--52101789 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
52101720 GCGAGGCTGC
*
52101730 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
52101757 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
52101783 CAGATAT
1 CAGATAT
52101790 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:52101834 original size:71 final size:67
Alignment explanation
Indices: 52101757--52101898 Score: 194
Period size: 67 Copynumber: 2.1 Consensus size: 67
52101747 TCACCAGATA
* * *
52101757 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACAAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
*
52101822 GGTTGC
62 GGCTGC
* *
52101828 CAGATATTGTGACAAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACAAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
52101893 GC
66 GC
52101895 CAGA
1 CAGA
52101899 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 40 0.62
71 25 0.38
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACAAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:52102250 original size:81 final size:81
Alignment explanation
Indices: 52102128--52102337 Score: 282
Period size: 81 Copynumber: 2.6 Consensus size: 81
52102118 TAAAATGGTA
* *
52102128 ATTT-TACCC-ACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
52102191 ACAGAGGTATTTC-GAT
66 ACAGAGGTATTTCAG-T
* * * *
52102207 ATTTCTACCCTACAAGGATATTTCGATAATTATACCCTACAGGAGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
*
52102272 ACAGGGGTATTTCAGT
66 ACAGAGGTATTTCAGT
* * * * *
52102288 ATTTCTACCCTACAGGGGTGTTTCGGTATTTCTACCCTATAGGGGTATTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTT
52102338 TGGTAATTTT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 4 0.04
80 5 0.04
81 103 0.91
82 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCCT
ACAGAGGTATTTCAGT
Found at i:52102342 original size:27 final size:27
Alignment explanation
Indices: 52102124--52102345 Score: 239
Period size: 27 Copynumber: 8.3 Consensus size: 27
52102114 GGGGTAAAAT
* * *
52102124 GGTAATTTTACCC-ACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52102150 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
52102177 AGTAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
52102204 GATATTTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
52102231 GATAATTATACCCTACAGGAGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
52102258 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
52102285 AGTATTTCTACCCTACAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
52102312 GGTATTTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
52102339 GGTAATT
1 GGTAATT
52102346 TTGTAAATCG
Statistics
Matches: 162, Mismatches: 33, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
26 11 0.07
27 151 0.93
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:52102398 original size:27 final size:27
Alignment explanation
Indices: 52102330--52102399 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 27
52102320 TACCCTATAG
* * *
52102330 GGGTATTTTGGTAATTTTGTAAATCGA
1 GGGTAATTTGGTAATTCTGTAAATCAA
*** *
52102357 GGGTAAAACGATAATTCTGTAAATCAA
1 GGGTAATTTGGTAATTCTGTAAATCAA
*
52102384 GGGTACTTTGGTAATT
1 GGGTAATTTGGTAATT
52102400 TTACAAGTTG
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (27 bp):
GGGTAATTTGGTAATTCTGTAAATCAA
Found at i:52102413 original size:27 final size:26
Alignment explanation
Indices: 52102383--52102513 Score: 86
Period size: 27 Copynumber: 4.8 Consensus size: 26
52102373 CTGTAAATCA
52102383 AGGGTACTTTGGTAATTTTACAAGTTG
1 AGGGTA-TTTGGTAATTTTACAAGTTG
** *
52102410 AGGGTATTTCAATAATTTTACAGGTTG
1 AGGGTATTT-GGTAATTTTACAAGTTG
* * * *
52102437 AGGGTATTTCAGTAATTTCACAA-ATC
1 AGGGTATTT-GGTAATTTTACAAGTTG
* * *
52102463 AGGGGTATTTTGGTAATTTTCAAAACTAG
1 A-GGGTA-TTTGGTAATTTT-ACAAGTTG
*
52102492 -GGGTATTTTGATAATTTTACAA
1 AGGGTA-TTTGGTAATTTTACAA
52102514 ACCAGAGGTA
Statistics
Matches: 83, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
26 8 0.10
27 69 0.83
28 6 0.07
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (26 bp):
AGGGTATTTGGTAATTTTACAAGTTG
Found at i:52102704 original size:27 final size:27
Alignment explanation
Indices: 52102438--52102696 Score: 340
Period size: 27 Copynumber: 9.6 Consensus size: 27
52102428 TACAGGTTGA
** * *
52102438 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52102465 GGGTATTTTGGTAATTTT-CAAAACTAG
1 GGGTATTTTGGTAATTTTAC-AAACCAG
*
52102492 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
52102519 AGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52102546 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** *
52102573 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
52102600 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
52102627 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
52102654 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
52102681 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
52102697 CGGTAAACTA
Statistics
Matches: 198, Mismatches: 32, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 196 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:52102704 original size:54 final size:54
Alignment explanation
Indices: 52102437--52102696 Score: 398
Period size: 54 Copynumber: 4.8 Consensus size: 54
52102427 TTACAGGTTG
* * * *
52102437 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTCA-AAACTA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTT-ATAAACCA
* * *
52102491 GGGGTATTTT-GATAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAG-TAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
*
52102545 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
* *
52102599 AGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
52102653 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
52102697 CGGTAAACTA
Statistics
Matches: 187, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
53 2 0.01
54 184 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACCA
Found at i:52102704 original size:108 final size:108
Alignment explanation
Indices: 52102437--52102696 Score: 439
Period size: 108 Copynumber: 2.4 Consensus size: 108
52102427 TTACAGGTTG
* * * ** * *
52102437 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTCAAAACTAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
52102502 ATAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCA
66 ATAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCA
52102545 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
* *
52102610 GTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCA
66 ATAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCA
52102653 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
1 AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATT
52102697 CGGTAAACTA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 143 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (108 bp):
AGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
ATAATTTTACAAACCAGAGGTATTTTGGTGATTTTATAAACCA
Found at i:52103605 original size:27 final size:27
Alignment explanation
Indices: 52103567--52103668 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 27
52103557 GGTGTTACAC
52103567 TACAAGGGTATTTTAGTAATTCTACCT
1 TACAAGGGTATTTTAGTAATTCTACCT
*
52103594 TACAAGGGTATTTTGGTAATTCTACCT
1 TACAAGGGTATTTTAGTAATTCTACCT
* * * *
52103621 TATAGGGGTATTTCAGTAATTCTACCC
1 TACAAGGGTATTTTAGTAATTCTACCT
*
52103648 TATAAGGGTATTTTAGTAATT
1 TACAAGGGTATTTTAGTAATT
52103669 TTGTAAATCG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (27 bp):
TACAAGGGTATTTTAGTAATTCTACCT
Found at i:52103682 original size:27 final size:26
Alignment explanation
Indices: 52103652--52103724 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
52103642 CTACCCTATA
*
52103652 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTAATTT-GTAATTTTGTAAATCG
** *
52103679 AGGGTAAAATGATAATTCTGTAAATCG
1 AGGGTAATTTG-TAATTTTGTAAATCG
* *
52103706 GGGGTACTTTGGTAATTTT
1 AGGGTAATTT-GTAATTTT
52103725 ACAAGTCGAC
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
26 1 0.03
27 33 0.94
28 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (26 bp):
AGGGTAATTTGTAATTTTGTAAATCG
Found at i:52105930 original size:42 final size:42
Alignment explanation
Indices: 52105802--52105930 Score: 136
Period size: 42 Copynumber: 3.0 Consensus size: 42
52105792 CTCATAGTAC
* * *
52105802 CATACCAATGCC-ATATCCCAGATATGGTCTTACATGGGATCT
1 CATATCAATGCCAATATCCCAGATATGGTCTTACA-CGAATCT
* *
52105844 CATATCAATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCT
1 CATATCAATGCCAATATCCCAGATATGGTCTTACACGAA-TCT
* ** *
52105887 CATATCGATG-TTATATCCCAGATATGGTCTTGCACGTAATCT
1 CATATCAATGCCAATATCCCAGATATGGTCTTACACG-AATCT
52105929 CA
1 CA
52105931 AATGACCCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 39 0.53
43 34 0.47
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCAATATCCCAGATATGGTCTTACACGAATCT
Found at i:52108125 original size:15 final size:15
Alignment explanation
Indices: 52108105--52108134 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52108095 ATATGAAAGA
52108105 TATGTTTTGGATTGG
1 TATGTTTTGGATTGG
*
52108120 TATGTTTTGTATTGG
1 TATGTTTTGGATTGG
52108135 AATTTTTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
TATGTTTTGGATTGG
Found at i:52115716 original size:81 final size:81
Alignment explanation
Indices: 52115576--52115836 Score: 335
Period size: 81 Copynumber: 3.2 Consensus size: 81
52115566 TTAGTTTACC
* * * *
52115576 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
52115641 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTGTA
* *
52115657 AAATTACCAAAATACCCTTGGTTTGTAAAAATACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
52115722 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTGTA
* * * * *** * **
52115738 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTACTGAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
**
52115803 ATA-CCCTCGACTTGTA
66 ATACCCCT-GGTTTGTA
*
52115819 AAATTACCAAAGTACCCC
1 AAATTACCAAAATACCCC
52115837 CGATTTATAG
Statistics
Matches: 158, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
80 4 0.03
81 154 0.97
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
ATACCCCTGGTTTGTA
Found at i:52115834 original size:27 final size:27
Alignment explanation
Indices: 52115576--52115887 Score: 263
Period size: 27 Copynumber: 11.6 Consensus size: 27
52115566 TTAGTTTACC
* *
52115576 AAATCACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* **
52115603 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
52115630 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
*
52115657 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * * *
52115684 AAAATACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
52115711 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* *
52115738 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GGTTTGTA
** ***
52115765 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
** **
52115792 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * * *
52115819 AAATTACCAAAGTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
* *** * **
52115846 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
52115873 AAATTACCGAAATAC
1 AAATTACCAAAATAC
52115888 TCTTGTAGGG
Statistics
Matches: 239, Mismatches: 41, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
27 238 1.00
28 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:52115946 original size:27 final size:27
Alignment explanation
Indices: 52115903--52116026 Score: 124
Period size: 27 Copynumber: 4.6 Consensus size: 27
52115893 TAGGGTAGAA
* *
52115903 TGTAGGGTGGAAATACCGAAATACCCC
1 TGTAGGGTAGAATTACCGAAATACCCC
* *
52115930 TGTACGGTAGAATTACCGAAATACCCT
1 TGTAGGGTAGAATTACCGAAATACCCC
** *
52115957 TGTAGGGTAGAATTACTAAAATACCTC
1 TGTAGGGTAGAATTACCGAAATACCCC
* * * *
52115984 TATAGGGTGGAATTACCGAGATA-CCT
1 TGTAGGGTAGAATTACCGAAATACCCC
* *
52116010 TGTGGGGTAAAATTACC
1 TGTAGGGTAGAATTACC
52116027 ATTTTGCCCC
Statistics
Matches: 77, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
26 14 0.18
27 63 0.82
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (27 bp):
TGTAGGGTAGAATTACCGAAATACCCC
Found at i:52115997 original size:54 final size:53
Alignment explanation
Indices: 52115903--52116027 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 53
52115893 TAGGGTAGAA
* * * *
52115903 TGTAGGGTGGAAATACCGAAATACCCCTGTACGGTAGAATTACCGAAATACCCT
1 TGTAGGGTAGAATTACCAAAATACCCCTATACGGTAGAATTACCGAAATA-CCT
* * * * *
52115957 TGTAGGGTAGAATTACTAAAATACCTCTATAGGGTGGAATTACCGAGATACCT
1 TGTAGGGTAGAATTACCAAAATACCCCTATACGGTAGAATTACCGAAATACCT
* *
52116010 TGTGGGGTAAAATTACCA
1 TGTAGGGTAGAATTACCA
52116028 TTTTGCCCCT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
53 18 0.31
54 41 0.69
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (53 bp):
TGTAGGGTAGAATTACCAAAATACCCCTATACGGTAGAATTACCGAAATACCT
Found at i:52116505 original size:22 final size:21
Alignment explanation
Indices: 52116456--52116517 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
52116446 AAGCCTTCTA
* *
52116456 ATTATGGCTTTGTGTCAACCT
1 ATTATGGCTCTGTGCCAACCT
*
52116477 ACATATGGCTCTGTGCCAACCT
1 A-TTATGGCTCTGTGCCAACCT
*
52116499 GATTATGGCTGTGTGCCAA
1 -ATTATGGCTCTGTGCCAA
52116518 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.34
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:52116713 original size:27 final size:27
Alignment explanation
Indices: 52116683--52116777 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 27
52116673 TAAGTGGTTT
* * *
52116683 TGCCACATTATCTGTTTCTGGTGTCTA
1 TGCCACAATATCTGTTTCTGGTGACTC
*
52116710 TGCCACAAATATCTG-TTCTGGTGGCTC
1 TGCCAC-AATATCTGTTTCTGGTGACTC
52116737 TGCCACAATATCTGTATT-TGGTGACTC
1 TGCCACAATATCTGT-TTCTGGTGACTC
*
52116764 TGTCACAATATCTG
1 TGCCACAATATCTG
52116778 ATAACTGAGC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 8 0.13
27 43 0.72
28 9 0.15
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTTTCTGGTGACTC
Found at i:52116952 original size:6 final size:6
Alignment explanation
Indices: 52116937--52117023 Score: 79
Period size: 6 Copynumber: 14.2 Consensus size: 6
52116927 ATTCTGTTAC
* * *
52116937 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* *
52116986 CTGATT CT-ATCAC CTAATT CTGATT CTGATT CTGATT C
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT C
52117024 AAGTTCTGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
5 4 0.06
6 55 0.82
7 5 0.07
8 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.14, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:52116965 original size:31 final size:31
Alignment explanation
Indices: 52116927--52117023 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
52116917 CTGATTTTTT
*
52116927 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
52116958 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * * *
52116989 ATTCTATCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
52117020 ATTC
1 ATTC
52117024 AAGTTCTGAT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 61 1.00
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:52123191 original size:40 final size:39
Alignment explanation
Indices: 52123147--52123272 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
52123137 GGGACTCAAC
*
52123147 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* *** *
52123187 CCGGATTTAGTAACTCGCACGTGTGCCGTCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
52123227 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
52123267 CCGGAT
1 CCGGAT
52123273 ATCATTCGAA
Statistics
Matches: 70, Mismatches: 13, Indels: 6
0.79 0.15 0.07
Matches are distributed among these distances:
40 62 0.89
41 8 0.11
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Done.