Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 118 of 438
Found at i:34565302 original size:81 final size:81
Alignment explanation
Indices: 34565207--34565387 Score: 256
Period size: 81 Copynumber: 2.2 Consensus size: 81
34565197 ACCCCACAAA
* * * ** * *
34565207 GGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCGGT
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGT
*
34565272 AATTCTATCCTATAGG
66 AATTCTATCCTACAGG
*
34565288 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTATCCTACAAGGGTATTTCGGT
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGT
*
34565353 AATTCTATCTTACAGG
66 AATTCTATCCTACAGG
34565369 GGTATTTC-AGTAATTCTAC
1 GGTATTTCGA-TAATTCTAC
34565388 AACTTATCCA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 88 0.99
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (81 bp):
GGTATTTCGATAATTCTACCCTACAGGGGTATTTCAATAATTCTACCCTACAAGGGTATTTCGGT
AATTCTATCCTACAGG
Found at i:34570607 original size:12 final size:12
Alignment explanation
Indices: 34570590--34570626 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
34570580 TCAATCAGCT
34570590 TTCCTTGAGTAA
1 TTCCTTGAGTAA
34570602 TTCCTTGAGTAA
1 TTCCTTGAGTAA
**
34570614 GACCTTGAGTAA
1 TTCCTTGAGTAA
34570626 T
1 T
34570627 GCCTAAGAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (12 bp):
TTCCTTGAGTAA
Found at i:34575966 original size:17 final size:18
Alignment explanation
Indices: 34575924--34575972 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
34575914 AGTTGAAAAG
34575924 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
34575943 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
34575960 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
34575973 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:34576860 original size:40 final size:40
Alignment explanation
Indices: 34576794--34576960 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34576784 AAATTGAATG
* * *
34576794 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
34576833 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
34576873 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34576913 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34576953 ATATCCGG
1 ATATCCGG
34576961 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34583965 original size:17 final size:18
Alignment explanation
Indices: 34583923--34583971 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
34583913 AGTTGAAAAG
34583923 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
34583942 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
34583959 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
34583972 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:34584859 original size:40 final size:40
Alignment explanation
Indices: 34584793--34584959 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
34584783 AAATTGAATG
* * *
34584793 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
34584832 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
34584872 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
34584912 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
34584952 ATATCCGG
1 ATATCCGG
34584960 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:34586599 original size:29 final size:29
Alignment explanation
Indices: 34586566--34586696 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
34586556 GTGACGAGAT
34586566 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
34586595 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
34586624 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
34586653 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
34586682 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
34586697 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:34594074 original size:45 final size:46
Alignment explanation
Indices: 34593911--34594085 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
34593901 TGGTTGAGCA
*
34593911 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
34593957 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
34594002 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
34594050 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34594086 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:34601530 original size:46 final size:46
Alignment explanation
Indices: 34601480--34601655 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
34601470 TGGTTGAGCA
34601480 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34601526 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34601571 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34601619 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34601656 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34601636 original size:93 final size:93
Alignment explanation
Indices: 34601477--34601648 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
34601467 GGATGGTTGA
* *
34601477 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34601542 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
34601570 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
34601635 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
34601649 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34603902 original size:17 final size:18
Alignment explanation
Indices: 34603867--34603902 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34603857 TATTTTAAAG
34603867 AAGGTTTTCAATGAAAAC
1 AAGGTTTTCAATGAAAAC
*
34603885 AAGGTTTTCGAT-AAAAC
1 AAGGTTTTCAATGAAAAC
34603902 A
1 A
34603903 CTTCAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
AAGGTTTTCAATGAAAAC
Found at i:34609873 original size:19 final size:19
Alignment explanation
Indices: 34609846--34609883 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34609836 AACGCAAGTA
*
34609846 TTTTGAAATTATGGCATGT
1 TTTTAAAATTATGGCATGT
34609865 TTTTAAAATTATGGCATGT
1 TTTTAAAATTATGGCATGT
34609884 ATAGGGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (19 bp):
TTTTAAAATTATGGCATGT
Found at i:34613128 original size:18 final size:18
Alignment explanation
Indices: 34613105--34613141 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34613095 CCGTGTGGAT
34613105 TGAATAATATTTCTCGAA
1 TGAATAATATTTCTCGAA
34613123 TGAATAATATTTCTCGAA
1 TGAATAATATTTCTCGAA
34613141 T
1 T
34613142 TGGCTTCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TGAATAATATTTCTCGAA
Found at i:34618371 original size:39 final size:39
Alignment explanation
Indices: 34618280--34618407 Score: 157
Period size: 39 Copynumber: 3.3 Consensus size: 39
34618270 GACTATTAGC
* * ** * **
34618280 CCGGATATAATTCCAGCACATAGCCGGCGAACCCGAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
* * *
34618319 TCGAATATGATTCCCGCATATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
*
34618358 CTGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
1 CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
34618397 CCGGATATAAT
1 CCGGATATAAT
34618408 CACCATATAT
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCCGCATATAGCCTACGGACCTTAAGT
Found at i:34631657 original size:68 final size:67
Alignment explanation
Indices: 34631585--34631734 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
34631575 CATCATGTGT
* * * *
34631585 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
34631647 ATGTAG
62 ATGTAG
** * *
34631653 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
34631718 AG
66 AG
34631720 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
34631735 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:34631690 original size:64 final size:64
Alignment explanation
Indices: 34631609--34631792 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
34631599 AGACATTATG
* *
34631609 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
34631673 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
34631738 AA
63 AA
* * * *
34631740 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
34631793 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:34633139 original size:22 final size:22
Alignment explanation
Indices: 34633111--34633154 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34633101 GAGACACAGT
34633111 ATGATGACATACAAATGCTATG
1 ATGATGACATACAAATGCTATG
34633133 ATGATGACATACAAATGCTATG
1 ATGATGACATACAAATGCTATG
34633155 TTTGTGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
ATGATGACATACAAATGCTATG
Found at i:34636113 original size:68 final size:67
Alignment explanation
Indices: 34636041--34636190 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
34636031 CATCATGTGT
* * * *
34636041 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
34636103 ATGTAG
62 ATGTAG
** * *
34636109 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
34636174 AG
66 AG
34636176 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
34636191 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:34636146 original size:64 final size:64
Alignment explanation
Indices: 34636065--34636248 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
34636055 AGACATTATG
* *
34636065 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
34636129 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
34636194 AA
63 AA
* * * *
34636196 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
34636249 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:34644752 original size:42 final size:42
Alignment explanation
Indices: 34644686--34644799 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
34644676 CACATCGGTG
* *
34644686 TCGATGTCATGTCCCAGACATGGTCTTACACGAGACCTCACA
1 TCGATGCCATGTCCCAGACATGGTCTTACACGAAACCTCACA
* * * *
34644728 TTGATGCCATGTCCTAGACATGGTCTTACACGAAATCTCATA
1 TCGATGCCATGTCCCAGACATGGTCTTACACGAAACCTCACA
* * *
34644770 TCAATGCCATATCCCAGATATGGTCTTACA
1 TCGATGCCATGTCCCAGACATGGTCTTACA
34644800 TAAAATCACA
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (42 bp):
TCGATGCCATGTCCCAGACATGGTCTTACACGAAACCTCACA
Found at i:34644763 original size:90 final size:90
Alignment explanation
Indices: 34644603--34644767 Score: 217
Period size: 90 Copynumber: 1.8 Consensus size: 90
34644593 ATTCCAAAGC
* ** * *
34644603 CATGTCCCAGACATGGTCTTACATGGGTCTACATATAGATGCCATATCCCAAATATGGTCTTATA
1 CATGTCCCAGACATGGTCTTACACGGACCTACATATAGATGCCATATCCCAAACATGGTCTTACA
*
34644668 TGAAATCTCACATCGGTGTCGATGT
66 CGAAATCTCACATCGGTGTCGATGT
* * *
34644693 CATGTCCCAGACATGGTCTTACACGAGACCTCACAT-T-GATGCCATGTCCTAGACATGGTCTTA
1 CATGTCCCAGACATGGTCTTACACG-GACCT-ACATATAGATGCCATATCCCAAACATGGTCTTA
34644756 CACGAAATCTCA
64 CACGAAATCTCA
34644768 TATCAATGCC
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
90 56 0.88
91 4 0.06
92 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (90 bp):
CATGTCCCAGACATGGTCTTACACGGACCTACATATAGATGCCATATCCCAAACATGGTCTTACA
CGAAATCTCACATCGGTGTCGATGT
Found at i:34644806 original size:42 final size:42
Alignment explanation
Indices: 34644697--34644811 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
34644687 CGATGTCATG
** * *
34644697 TCCCAGACATGGTCTTACACGAGACCTCACAT-T-GATGCCATG
1 TCCCAGACATGGTCTTACAC-A-AAATCACATATCAATGCCATA
* * *
34644739 TCCTAGACATGGTCTTACACGAAATCTCATATCAATGCCATA
1 TCCCAGACATGGTCTTACACAAAATCACATATCAATGCCATA
* *
34644781 TCCCAGATATGGTCTTACATAAAATCACATA
1 TCCCAGACATGGTCTTACACAAAATCACATA
34644812 CCGGGGCCGA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
40 6 0.10
41 1 0.02
42 52 0.88
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACAAAATCACATATCAATGCCATA
Found at i:34644841 original size:132 final size:132
Alignment explanation
Indices: 34644601--34644848 Score: 311
Period size: 132 Copynumber: 1.9 Consensus size: 132
34644591 GAATTCCAAA
* **
34644601 GCCATGTCCCAGACATGGTCTTACATGGGTCTACATATAGATGCCATATCCCAAATATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTACACGAATCTACATATAGATGCCATATCCCAAATATGGTCTTA
* * * * * * * * * *
34644666 TATGAAATCTCACATCGGTGTCGATGTCATGTCCCAGACATGGTCTTACACGAGACCTCACATTG
66 CATAAAATCACACACCGGGGCCGACGCCATATCCCAAACATGGTCTTACACGAGACCTCACATTG
34644731 AT
131 AT
* *
34644733 GCCATGTCCTAGACATGGTCTTACACGAAATCT-CATATCA-ATGCCATATCCCAGATATGGTCT
1 GCCATGTCCCAGACATGGTCTTACACG-AATCTACATAT-AGATGCCATATCCCAAATATGGTCT
* *
34644796 TACATAAAATCACATACCGGGGCCGACGCCATATCCCAAATATGGTCTTACAC
64 TACATAAAATCACACACCGGGGCCGACGCCATATCCCAAACATGGTCTTACAC
34644849 TAGGATATAT
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
132 93 0.96
133 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (132 bp):
GCCATGTCCCAGACATGGTCTTACACGAATCTACATATAGATGCCATATCCCAAATATGGTCTTA
CATAAAATCACACACCGGGGCCGACGCCATATCCCAAACATGGTCTTACACGAGACCTCACATTG
AT
Found at i:34644867 original size:132 final size:132
Alignment explanation
Indices: 34644601--34644896 Score: 290
Period size: 132 Copynumber: 2.2 Consensus size: 132
34644591 GAATTCCAAA
* **
34644601 GCCATGTCCCAGACATGGTCTTACATGGGTCTACATATAGATGCCATATCCCAAATATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTACACGAATCTACATATAGATGCCATATCCCAAATATGGTCTTA
* * * * * * * * * * * **
34644666 TATGAAATCTCACATCGGTGTCGATGTCATGTCCCAGACATGGTCTTACACGAGACCTCACATTG
66 CATAAAATCACACACCGGGGCCGACGCCATATCCCAAACATGGTCTTACACGAGACATCACATCA
34644731 AT
131 AT
* *
34644733 GCCATGTCCTAGACATGGTCTTACACGAAATCT-CATATCA-ATGCCATATCCCAGATATGGTCT
1 GCCATGTCCCAGACATGGTCTTACACG-AATCTACATAT-AGATGCCATATCCCAAATATGGTCT
* * * * *
34644796 TACATAAAATCACATACCGGGGCCGACGCCATATCCCAAATATGGTCTTACACTAGGATATATAT
64 TACATAAAATCACACACCGGGGCCGACGCCATATCCCAAACATGGTCTTACACGA-GACAT-CA-
*
34644861 CAATGCCGAT
126 C-AT--CAAT
34644871 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
34644897 TGGCTATCAT
Statistics
Matches: 133, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
132 94 0.71
133 7 0.05
134 1 0.01
135 1 0.01
136 2 0.02
138 28 0.21
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (132 bp):
GCCATGTCCCAGACATGGTCTTACACGAATCTACATATAGATGCCATATCCCAAATATGGTCTTA
CATAAAATCACACACCGGGGCCGACGCCATATCCCAAACATGGTCTTACACGAGACATCACATCA
AT
Found at i:34644869 original size:48 final size:48
Alignment explanation
Indices: 34644817--34644911 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
34644807 ACATACCGGG
*
34644817 GCCGACGCCATATCCCAAATATGGTCTTACACTAGGATAT-ATATCAAT
1 GCCGACGCCATATCCCAAACATGGTCTTACACT-GGATATCATATCAAT
* * * *
34644865 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATCAA
1 GCCGACGCCATATCCCAAACATGGTCTTACACTGGATATCATATCAA
34644912 CACTGATGAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
47 5 0.12
48 36 0.88
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (48 bp):
GCCGACGCCATATCCCAAACATGGTCTTACACTGGATATCATATCAAT
Found at i:34644925 original size:48 final size:48
Alignment explanation
Indices: 34644837--34644954 Score: 148
Period size: 48 Copynumber: 2.5 Consensus size: 48
34644827 TATCCCAAAT
* ** *
34644837 ATGGTCTTACACTAGGATAT-ATATCAATGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACT-GGCTATCATATCAACACCGATGACATGTCCCAGAC
* **
34644885 ATGGTCTTACACTGGCTATCATATCAACACTGATGACATGTCTGAGAC
1 ATGGTCTTACACTGGCTATCATATCAACACCGATGACATGTCCCAGAC
*
34644933 ATGGTCTTACACTGGCTCTCAT
1 ATGGTCTTACACTGGCTATCAT
34644955 TAATCGTGGC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
47 5 0.08
48 56 0.92
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (48 bp):
ATGGTCTTACACTGGCTATCATATCAACACCGATGACATGTCCCAGAC
Found at i:34652083 original size:79 final size:76
Alignment explanation
Indices: 34651957--34652158 Score: 219
Period size: 79 Copynumber: 2.6 Consensus size: 76
34651947 TCTTCGGAAT
* * *** *
34651957 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGAT-TTGTAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTCG-AC
34652020 AAATGCCTTCGGGTC
63 AAATGCCTTC-GGTC
* *
34652035 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGACG
1 TTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGACA
34652100 AATGCCTTCGGTC
64 AATGCCTTCGGTC
* * *
34652113 TTAGCCCGGATATAATCATTAGCATAAATGCCTTCGGGACTTAGCC
1 TTAGCCCGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCC
34652159 GGGTATCATT
Statistics
Matches: 106, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
78 48 0.45
79 50 0.47
80 8 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (76 bp):
TTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTCGACAAA
TGCCTTCGGTC
Found at i:34652122 original size:38 final size:40
Alignment explanation
Indices: 34651957--34652158 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
34651947 TCTTCGGAAT
* **
34651957 TTAG-CCGGATATAACCACAAGCAC-AATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTC
* *** * *
34651996 TTAACCCGGAT-TTGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
34652035 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
34652075 TTAGCCCGGATATAACAACTCG-ACGAATGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
* * ** *
34652113 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
34652153 TTAGCC
1 TTAGCC
34652159 GGGTATCATT
Statistics
Matches: 139, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
38 22 0.16
39 55 0.40
40 62 0.45
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
Found at i:34660240 original size:79 final size:77
Alignment explanation
Indices: 34660083--34660286 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 77
34660073 TTTCTTCAAT
* * * *** *
34660083 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCAC
1 TTAGCCCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTT-AGCCGGATATAACAACTCGCAC
34660147 AAATGCCTTCGGGTC
63 AAATGCCTTCGGGTC
* *
34660162 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCGGATATAACAACTCGCACG
1 TTAGCCCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCGGATATAACAACTCGCACA
34660227 AATGCCTTCGGGTC
64 AATGCCTTCGGGTC
* * *
34660241 TTAGCCCGGATATAATCATTAGCATAAATGCCTTCGGGACTTAGCC
1 TTAGCCCGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCC
34660287 CGGGTATCAT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
79 74 0.69
80 31 0.29
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (77 bp):
TTAGCCCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCGGATATAACAACTCGCACAAA
TGCCTTCGGGTC
Found at i:34660271 original size:40 final size:39
Alignment explanation
Indices: 34660083--34660289 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 39
34660073 TTTCTTCAAT
* *
34660083 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTC
* * * *
34660122 TTAACCCGGATTTGGTA-ACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT--AACACTAGCACAAATGCCTTCGGGTC
* *
34660162 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTC
* *
34660202 TTAG-CCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTC
* * *
34660241 TTAGCCCGGATATAATCATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTC
34660281 TTAGCCCGG
1 TTAGCCCGG
34660290 GTATCATTCA
Statistics
Matches: 145, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 42 0.29
40 100 0.69
41 1 0.01
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTC
Found at i:34665721 original size:42 final size:42
Alignment explanation
Indices: 34665619--34665774 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 42
34665609 AATAAGTACA
** * *
34665619 ATGCCGATGTCCCGGAC-GTGGTCTTACATGTAACTCAATATCT
1 ATGCCGATGTCCCAAACAG-GGTCTTACATGTAAATCAATAT-G
**
34665662 ATGCCTCTGTCCCAAACAGGGTCTTACATG-AAATCAAATATG
1 ATGCCGATGTCCCAAACAGGGTCTTACATGTAAATC-AATATG
* *
34665704 ATGCCGATGTCCCAAACATGGTCTTATATGTAAATCTCAATA-G
1 ATGCCGATGTCCCAAACAGGGTCTTACATGTAAA--TCAATATG
* * *
34665747 AGGCCTG-TGTCCCAGACATGGTCTTACA
1 ATGCC-GATGTCCCAAACAGGGTCTTACA
34665775 CGATGTCTCA
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 30 0.32
43 56 0.60
44 6 0.06
45 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (42 bp):
ATGCCGATGTCCCAAACAGGGTCTTACATGTAAATCAATATG
Found at i:34665770 original size:85 final size:84
Alignment explanation
Indices: 34665619--34665774 Score: 197
Period size: 85 Copynumber: 1.8 Consensus size: 84
34665609 AATAAGTACA
** * * *
34665619 ATGCCGATGTCCCGGACGTGGTCTTACATGTAACTCAATATCTATGCCTCTGTCCCAAACAGGGT
1 ATGCCGATGTCCCAAACATGGTCTTACATGTAACTCAATA-CGAGGCCTCTGTCCCAAACAGGGT
34665684 CTTACATGAAATCAAATATG
65 CTTACATGAAATCAAATATG
* * * *
34665704 ATGCCGATGTCCCAAACATGGTCTTATATGTAAATCTCAATA-GAGGCCTGTGTCCCAGACATGG
1 ATGCCGATGTCCCAAACATGGTCTTACATGT-AA-CTCAATACGAGGCCTCTGTCCCAAACAGGG
34665768 TCTTACA
64 TCTTACA
34665775 CGATGTCTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
85 51 0.85
86 2 0.03
87 7 0.12
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (84 bp):
ATGCCGATGTCCCAAACATGGTCTTACATGTAACTCAATACGAGGCCTCTGTCCCAAACAGGGTC
TTACATGAAATCAAATATG
Found at i:34670876 original size:81 final size:81
Alignment explanation
Indices: 34670787--34670947 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 81
34670777 TTACTGTATA
34670787 ATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCATAGTAAATAGGGTGAAACACTTTGTTTCTTC
1 ATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCATAGTAAATAGGGTGAAACACTTTGTTTCTTC
34670852 TTTGACGCATCACAGT
66 TTTGACGCATCACAGT
34670868 ATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCATAGTAAATAGGGTGAAACACTTTGTTTCTTC
1 ATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCATAGTAAATAGGGTGAAACACTTTGTTTCTTC
*
34670933 TTTGACGCGTCACAG
66 TTTGACGCATCACAG
34670948 CTTGTAACAG
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (81 bp):
ATTGAGTTGGGCTCCAGTCAAAGTTCTACTTGCATAGTAAATAGGGTGAAACACTTTGTTTCTTC
TTTGACGCATCACAGT
Found at i:34676306 original size:66 final size:68
Alignment explanation
Indices: 34676230--34676416 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
34676220 TAGTACCACT
*
34676230 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
34676292 CACG
65 CACG
34676296 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
34676361 ATCACG
63 ATCACG
34676367 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
34676417 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:34676341 original size:71 final size:71
Alignment explanation
Indices: 34676253--34676416 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
34676243 CGATTTGTCT
34676253 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34676318 CTTTCA
66 CTTTCA
34676324 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
34676389 CTTTCA
66 CTTTCA
34676395 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
34676417 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:34676454 original size:71 final size:70
Alignment explanation
Indices: 34676253--34676450 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
34676243 CGATTTGTCT
* * *
34676253 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
34676318 CTTTCA
65 CTTTCA
* * *
34676324 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
34676389 CTTTCA
65 CTTTCA
* *
34676395 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
34676451 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:34680725 original size:40 final size:40
Alignment explanation
Indices: 34680651--34680796 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
34680641 CCGCACCAAG
* * * * * *
34680651 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
34680691 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
34680731 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
34680771 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
34680797 TTTCCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:34680811 original size:40 final size:40
Alignment explanation
Indices: 34680683--34680834 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
34680673 ATCACGATTT
* * * **
34680683 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
34680723 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
34680763 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
34680803 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
34680835 CATTCAATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 93 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:34686140 original size:28 final size:29
Alignment explanation
Indices: 34686104--34686163 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
34686094 TAAATGATTT
*
34686104 TTGACAAAAATGTCAATT-A-GGGATTAAA
1 TTGACAAAAATGTAAATTGATGGG-TTAAA
* *
34686132 TTGAGAAAAGTGTAAATTGATGGGTTAAA
1 TTGACAAAAATGTAAATTGATGGGTTAAA
34686161 TTG
1 TTG
34686164 TAAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.56
29 9 0.33
30 3 0.11
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGATGGGTTAAA
Found at i:34689834 original size:29 final size:29
Alignment explanation
Indices: 34689792--34689873 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
34689782 TGCCGTATTT
**
34689792 TTTCCAGCTTGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
34689821 TTTCCAGCACGCACACTTAGTGCCATATA
1 TTTCCAGCACGCACACTTAGTGCCATATA
34689850 TTTCCAGCACGCACACTTAGTGCC
1 TTTCCAGCACGCACACTTAGTGCC
34689874 GATCTCGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (29 bp):
TTTCCAGCACGCACACTTAGTGCCATATA
Found at i:34692591 original size:48 final size:49
Alignment explanation
Indices: 34692520--34692693 Score: 221
Period size: 48 Copynumber: 3.6 Consensus size: 49
34692510 TAAAGTATCA
* *
34692520 ATGCCATGTCCCAAACATGGTCTTACA-TGAATC-CACATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTG-AGCACACATATCATCGCCG
* *
34692568 ATGCCATGTCCCAGATATGGTCTTACACT-AGCACACATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
* * *
34692616 ATGCCATGTCCCGGACAGGGTCTTACACTG-GCACACATATCATCGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
* * *
34692664 ATCCCATGTCTCAGGCATGGTCTTACACTG
1 ATGCCATGTCCCAGACATGGTCTTACACTG
34692694 GAACATTTAG
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
47 2 0.02
48 106 0.97
49 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGAGCACACATATCATCGCCG
Found at i:34696278 original size:40 final size:39
Alignment explanation
Indices: 34696151--34696280 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
34696141 ATGCCGGAAA
* *
34696151 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
34696191 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
34696231 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
34696271 TTATATCCGG
1 TTATATCCGG
34696281 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:34702068 original size:27 final size:27
Alignment explanation
Indices: 34701755--34702240 Score: 595
Period size: 27 Copynumber: 18.0 Consensus size: 27
34701745 AAAGTACTCC
34701755 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
34701782 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
34701809 TGATTTTTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
34701836 CGATTTACAAAATTACCATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
34701863 C-ATTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
34701890 CGATTTACAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
34701917 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
34701944 CGATTTATAGAATTACAGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
34701971 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
34701998 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
34702025 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
34702052 CGATTTACAGAATTACTGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
34702079 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
34702106 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
34702133 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
34702160 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
34702187 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
34702214 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
34702241 TAATTGTGAA
Statistics
Matches: 398, Mismatches: 51, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
26 5 0.01
27 388 0.97
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:34702280 original size:27 final size:27
Alignment explanation
Indices: 34702250--34702444 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
34702240 TTAATTGTGA
34702250 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * *
34702277 AATTTCCGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
34702304 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
** *
34702331 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
34702358 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
34702385 AAATA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * * * *
34702412 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
34702439 AATTAC
1 AATTAC
34702445 CATTTTGCCC
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:34702318 original size:54 final size:54
Alignment explanation
Indices: 34702250--34702442 Score: 246
Period size: 54 Copynumber: 3.6 Consensus size: 54
34702240 TTAATTGTGA
* *
34702250 AATTACTGAAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
* * * *
34702304 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
* *
34702358 AATTA-TCGAAATACCCTTGTAGGGTAGAAATAT-CGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG-AATTTCCGAAATACCCCTATAGGGTAG
* * * *
34702412 AATTACCGAGATACCCTTGTGGGGTAAAATT
1 AATTACTGAAATACCCTTGTAGGGTAGAATT
34702443 ACCATTTTGC
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
53 4 0.03
54 112 0.94
55 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAG
Found at i:34702437 original size:81 final size:82
Alignment explanation
Indices: 34702250--34702443 Score: 232
Period size: 81 Copynumber: 2.4 Consensus size: 82
34702240 TTAATTGTGA
* *
34702250 AATTACTGAAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCCTATAAGGTAGAATTACTGAA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAAGGTAGAAATACTGAA
*
34702314 ATACCCTTATAGGATAG
66 ATACCCCTATAGGATAG
* * * * *
34702331 AATTACCAAAATACCCCTATAGGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATA-TCGA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAAGGTAGAAATACT-GA
* *
34702394 AATACCCCTGTAGGGTAG
65 AATACCCCTATAGGATAG
* * * *
34702412 AATTACCGAGATACCCTTGTGGGGTAAAATTA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTA
34702444 CCATTTTGCC
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
80 1 0.01
81 93 0.98
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (82 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAAGGTAGAAATACTGAA
ATACCCCTATAGGATAG
Found at i:34702682 original size:27 final size:26
Alignment explanation
Indices: 34702644--34702726 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
34702634 CGGAGGAAGC
*
34702644 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
34702671 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
34702697 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
34702724 GTT
1 GTT
34702727 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:34702846 original size:22 final size:22
Alignment explanation
Indices: 34702814--34702872 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
34702804 CCCGTTATTA
*
34702814 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * * *
34702836 ATGGTTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
34702858 ATGGCTTTGTGCCAA
1 ATGGCTTTGTGCCAA
34702873 ACGTATTTAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:34703059 original size:27 final size:27
Alignment explanation
Indices: 34703037--34703110 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
34703027 TAGGTGGGTT
*
34703037 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
34703064 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
34703091 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
34703111 CATTCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:34703237 original size:6 final size:6
Alignment explanation
Indices: 34703228--34703365 Score: 133
Period size: 6 Copynumber: 22.8 Consensus size: 6
34703218 TTGCATTCAC
* * *
34703228 ATTCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* *
34703276 ATTCTG ATTCT- ATTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
*
34703325 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCT
34703366 CATTTTGGTT
Statistics
Matches: 110, Mismatches: 11, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
5 9 0.08
6 92 0.84
7 7 0.06
8 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:34703383 original size:79 final size:79
Alignment explanation
Indices: 34703240--34703386 Score: 233
Period size: 79 Copynumber: 1.9 Consensus size: 79
34703230 TCTAATTCTG
**
34703240 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTATTACTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTATTACTGATTCCAATTCT
34703305 GATTCTGTCACCTA
66 GATTCTGTCACCTA
* * *
34703319 ATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTGATTCTCATT-TTGGTTCCAATTC
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCT-ATTACTGATTCCAATTC
34703383 TGAT
65 TGAT
34703387 AATGTTTCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
79 59 0.95
80 3 0.05
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (79 bp):
ATTCTGATTCTGATTCTGTTACTAATACTGATTCTGATTCTGATTCTATTACTGATTCCAATTCT
GATTCTGTCACCTA
Found at i:34714311 original size:24 final size:24
Alignment explanation
Indices: 34714279--34714327 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
34714269 ACAACCGAAC
34714279 ATCAAATATCATCTATTTACAGTA
1 ATCAAATATCATCTATTTACAGTA
34714303 ATCAAATATCATCTATTTACAGTA
1 ATCAAATATCATCTATTTACAGTA
34714327 A
1 A
34714328 AAGTCATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.04, T:0.37
Consensus pattern (24 bp):
ATCAAATATCATCTATTTACAGTA
Found at i:34715422 original size:14 final size:15
Alignment explanation
Indices: 34715403--34715435 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
34715393 TTAATAGTAT
34715403 ATAAAACAT-AAAAC
1 ATAAAACATCAAAAC
*
34715417 ATAAAACATCAACAC
1 ATAAAACATCAAAAC
34715432 ATAA
1 ATAA
34715436 GTATTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.67, C:0.18, G:0.00, T:0.15
Consensus pattern (15 bp):
ATAAAACATCAAAAC
Found at i:34719830 original size:29 final size:29
Alignment explanation
Indices: 34719784--34719876 Score: 107
Period size: 31 Copynumber: 3.1 Consensus size: 29
34719774 TTAGTCTTGA
* * *
34719784 CATATACTGGGCCGAAGCCTTTCGTTTAAT
1 CATATACTGGGCCAAAGCCTTTC-ATAAAT
*
34719814 GAT-TACTGGGCCAAAGCCTTTTCATAAAT
1 CATATACTGGGCCAAAGCC-TTTCATAAAT
34719843 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATAT-ACTGGGCCAAAGCC-TTTCATAAAT
34719874 CAT
1 CAT
34719877 TTCACTAGGC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
29 20 0.36
30 7 0.13
31 28 0.51
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (29 bp):
CATATACTGGGCCAAAGCCTTTCATAAAT
Found at i:34719856 original size:31 final size:31
Alignment explanation
Indices: 34719818--34719896 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
34719808 TTTAATGATT
34719818 ACTGGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
34719849 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
* **
34719880 ACTAGGCTGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
34719897 GCCATAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:34719979 original size:42 final size:42
Alignment explanation
Indices: 34719920--34720011 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
34719910 TGGCCTATAG
* ** *
34719920 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
34719962 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
34720004 GCCCATTT
1 GCCCATTT
34720012 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:34720207 original size:26 final size:26
Alignment explanation
Indices: 34720155--34720300 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
34720145 CCTCTTTAAT
34720155 AACTGGGGCA-AAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
34720180 AACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
34720206 AACT-GGGCATAAGCCCTTTT-GGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
34720230 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
34720256 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
34720282 AA-T-GGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
34720301 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
24 22 0.20
25 42 0.39
26 45 0.41
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:34720231 original size:50 final size:52
Alignment explanation
Indices: 34720155--34720300 Score: 239
Period size: 50 Copynumber: 2.9 Consensus size: 52
34720145 CCTCTTTAAT
* *
34720155 AACTGGGGCA-AAGCCCTTTTCAGTAAACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
34720206 AACT-GGGCATAAGCCCTTTT-GGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
34720256 AACTGGGGCATAAGCCCTTTTCGGTAAA-T-GGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
34720301 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
50 53 0.59
51 31 0.34
52 6 0.07
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:34721188 original size:27 final size:26
Alignment explanation
Indices: 34721097--34721180 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 26
34721087 GGGCATATTC
* * *
34721097 GTCATTTTACCATACAGGGGTATTACG
1 GTCACTTTACCCTACAGGGCT-TTACG
34721124 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACA-GGGCTTTACG
*
34721151 ATCACTTTACCCTACAGAGGCTTTACG
1 GTCACTTTACCCTACAG-GGCTTTACG
34721178 GTC
1 GTC
34721181 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.02
27 45 0.90
28 4 0.08
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (26 bp):
GTCACTTTACCCTACAGGGCTTTACG
Found at i:34721343 original size:81 final size:82
Alignment explanation
Indices: 34721219--34721454 Score: 216
Period size: 81 Copynumber: 2.9 Consensus size: 82
34721209 TTTCATCCTA
* * * * * ** ** *
34721219 CAAGGGTGTTTTGGTAAATCTACAAACCA-AGGTATTTCAGTAATTTTGTAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * *
34721283 CTATAATTTTTAGAAAGT
66 CTATAATTTTCACAAA-C
* ***
34721301 CAAGGGTATTTT-GTAACTTTGTA-AATC-A-GGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTTTGGTAA-TTT-TACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
**
34721362 TTCGGTAA-TTTCACAAAC
64 TTCTATAATTTTCACAAAC
34721380 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
34721445 -TAGTAATTTT
66 CTA-TAATTTT
34721455 GTAAATCGAG
Statistics
Matches: 122, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
78 2 0.02
79 18 0.15
80 12 0.10
81 70 0.57
82 18 0.15
83 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
CTATAATTTTCACAAAC
Found at i:34721466 original size:27 final size:27
Alignment explanation
Indices: 34721249--34721495 Score: 162
Period size: 27 Copynumber: 9.1 Consensus size: 27
34721239 TACAAACCAA
** * *
34721249 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTGGTAATTTTGTAAATCAAG
*
34721276 GGTATTTCT-ATAATTTT-TAGAAAGTCAAG
1 GGTATTT-TGGTAATTTTGT--AAA-TCAAG
*
34721305 GGTATTTT-GTAACTTTGTAAATC-AG
1 GGTATTTTGGTAATTTTGTAAATCAAG
** **
34721330 GGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
* *** *
34721357 GGTATTTCGGTAATTTCACAAACCAAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
** *
34721384 GGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTTGGTAATTTTGTAAATC-AAG
** *
34721411 GGTATTTTGGTAATTTTACAAACCAAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
* *
34721438 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
*** * *
34721465 GGTAAAATAGTAATTCTGTAAATCAAG
1 GGTATTTTGGTAATTTTGTAAATCAAG
34721492 GGTA
1 GGTA
34721496 AAACAGTAAT
Statistics
Matches: 182, Mismatches: 29, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
25 10 0.05
26 15 0.08
27 135 0.74
28 11 0.06
29 11 0.06
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTGTAAATCAAG
Found at i:34721468 original size:54 final size:54
Alignment explanation
Indices: 34721249--34721468 Score: 205
Period size: 54 Copynumber: 4.1 Consensus size: 54
34721239 TACAAACCAA
* ** * * *
34721249 GGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTCAAG
1 GGTATTTCGGTAATTTTACAAACCAAGGGTATTT-TAGTAA-TTTTACAAA-TCGAG
* * ** * * *
34721305 GGTATTT-TGTAACTTTGTAAATC-AGGGTATTTTGGTAATTTTACAAATTGAG
1 GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCGAG
* * *
34721357 GGTATTTCGGTAATTTCACAAACCAAGGGTATTTTGGTAATTTTACAAA-CTAGG
1 GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCGA-G
* **
34721411 GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCGAG
34721465 GGTA
1 GGTA
34721469 AAATAGTAAT
Statistics
Matches: 137, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
52 10 0.07
53 20 0.15
54 85 0.62
55 15 0.11
56 7 0.05
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAATCGAG
Found at i:34721478 original size:54 final size:54
Alignment explanation
Indices: 34721328--34721533 Score: 173
Period size: 54 Copynumber: 3.8 Consensus size: 54
34721318 TTTGTAAATC
* * * ** *
34721328 AGGGTATTTTGGTAATTTTACAAATTGAGGGT-ATTTCGGTAATTTCACAAACCA
1 AGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAAT-GGTAATTTTACAAACCA
* * * ***
34721382 AGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTAGTAATTTTATAAATCGA-GGGTAAAATGGTAATTTTACAAACCA
* * * ** *
34721436 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCA
1 AGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTACAAACCA
**** *
34721490 AGGGTAAAACAGTAATTATATAAATCGAGGGTAAAATGGTAATT
1 AGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATT
34721534 CTGTAAATCG
Statistics
Matches: 126, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 120 0.95
55 5 0.04
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (54 bp):
AGGGTATTTTAGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTACAAACCA
Found at i:34721496 original size:27 final size:27
Alignment explanation
Indices: 34721445--34721655 Score: 196
Period size: 27 Copynumber: 7.9 Consensus size: 27
34721435 AAGGGTATTT
*
34721445 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
34721472 TAGTAATTCTGTAAATCAAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
34721499 CAGTAATTATATAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
*
34721526 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** * * *
34721553 CGGTAATTTTGTAAGTCGAGGGTATAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
* * *
34721580 -CGATATTTAC-GTAAATCGGGGGTAAAA
1 TAG-TAATT-CTGTAAATCGAGGGTAAAA
** *
34721607 CGGTAATTATGTAAATCG-GGGTAAAA
1 TAGTAATTCTGTAAATCGAGGGTAAAA
** *
34721633 CGGTAATTCTATAAATCG-GGGTA
1 TAGTAATTCTGTAAATCGAGGGTA
34721656 CTTTGGTAAT
Statistics
Matches: 155, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
26 30 0.19
27 124 0.80
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
TAGTAATTCTGTAAATCGAGGGTAAAA
Found at i:34721505 original size:81 final size:81
Alignment explanation
Indices: 34721420--34721649 Score: 198
Period size: 81 Copynumber: 2.9 Consensus size: 81
34721410 GGGTATTTTG
* *** * *
34721420 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTATACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
34721485 AATCAAGGGTAAAACA
66 AATCAAGGGTAAAACA
* * * * * *
34721501 GTAATTATATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTGTA
1 GTAATTATACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
* * *
34721566 AGTCGAGGGTATAAC-
66 AATCAAGGGTAAAACA
* ** ** * *
34721581 G-ATATT-TACGTAAATCGGGGGTAAAACGGTAATTATGTAAATCG-GGGTAAAACGGTAATTCT
1 GTA-ATTATAC--AAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCT
*
34721643 ATAAATC
63 GTAAATC
34721650 GGGGTACTTT
Statistics
Matches: 124, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 3 0.02
80 26 0.21
81 95 0.77
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
GTAATTATACAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTA
AATCAAGGGTAAAACA
Found at i:34721534 original size:54 final size:54
Alignment explanation
Indices: 34721446--34721655 Score: 255
Period size: 54 Copynumber: 3.9 Consensus size: 54
34721436 AGGGTATTTT
* ** *
34721446 AGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* *
34721500 AGTAATTATATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
* * * * * * *
34721554 GGTAATTTTGTAAGTCGAGGGTATAACGATATTTAC-GTAAATCGGGGGTAAAAC
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATT-CTGTAAATCGAGGGTAAAAC
* *
34721608 GGTAATTATGTAAATCG-GGGTAAAACGGTAATTCTATAAATCG-GGGTA
1 AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
34721656 CTTTGGTAAT
Statistics
Matches: 135, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
52 6 0.04
53 20 0.15
54 108 0.80
55 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (54 bp):
AGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:34721690 original size:26 final size:26
Alignment explanation
Indices: 34721661--34721747 Score: 90
Period size: 25 Copynumber: 3.3 Consensus size: 26
34721651 GGGTACTTTG
*
34721661 GTAATTTTACAAGTGAAGGTATTTCA
1 GTAATTTTACAAATGAAGGTATTTCA
*
34721687 GTAA-TTTGCAAATCG-AGGTATTTCA
1 GTAATTTTACAAAT-GAAGGTATTTCA
* *
34721712 GTATTTTTACAAACT-AAGGGTATTTCG
1 GTAATTTTACAAA-TGAA-GGTATTTCA
34721739 GTAATTTTA
1 GTAATTTTA
34721748 GTAAACTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
25 20 0.40
26 13 0.26
27 17 0.34
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAATGAAGGTATTTCA
Found at i:34721746 original size:27 final size:28
Alignment explanation
Indices: 34721678--34721756 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 28
34721668 TACAAGTGAA
*
34721678 GGTATTTCAGTAA-TTT-GCAAA-T-CG
1 GGTATTTCAGTAATTTTAGCAAACTAAG
*
34721702 AGGTATTTCAGTATTTTTA-CAAACTAAG
1 -GGTATTTCAGTAATTTTAGCAAACTAAG
* *
34721730 GGTATTTCGGTAATTTTAGTAAACTAA
1 GGTATTTCAGTAATTTTAGCAAACTAA
34721757 AGTATTCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 12 0.27
26 7 0.16
27 17 0.39
28 8 0.18
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (28 bp):
GGTATTTCAGTAATTTTAGCAAACTAAG
Found at i:34721761 original size:27 final size:27
Alignment explanation
Indices: 34721661--34721762 Score: 72
Period size: 27 Copynumber: 3.9 Consensus size: 27
34721651 GGGTACTTTG
*
34721661 GTAATTTTAC-AAGTGAAG-GTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* *
34721687 GTAA-TTTGCAAA-T-CGAGGTATTTCA
1 GTAATTTTACAAACTAAGA-GTATTTCA
* * *
34721712 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
34721739 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
34721763 CTAAACAGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
23 1 0.02
25 16 0.27
26 13 0.22
27 21 0.36
28 8 0.14
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:34724005 original size:31 final size:31
Alignment explanation
Indices: 34723967--34724045 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
34723957 TTTAACGATT
34723967 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
34723998 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
34724029 ACTGGGCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
34724046 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:34724122 original size:42 final size:42
Alignment explanation
Indices: 34724069--34724159 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
34724059 TGGCCTATAG
* ** *
34724069 GCCCA-TTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
34724110 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
34724152 GCCCATTT
1 GCCCATTT
34724160 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 5 0.11
42 40 0.89
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:34724356 original size:26 final size:26
Alignment explanation
Indices: 34724304--34724453 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
34724294 CCTCTTTAAT
34724304 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
** **
34724329 AACTGGGGCATAAATCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
34724355 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
34724381 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
34724407 AATTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
34724433 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
34724454 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 10 0.09
26 99 0.91
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:34724377 original size:52 final size:52
Alignment explanation
Indices: 34724304--34724453 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
34724294 CCTCTTTAAT
*
34724304 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATAAATCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTTCAATA
*
34724355 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTTCAATA
* * *
34724407 AATTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTT
34724454 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 10 0.11
52 84 0.89
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAACCCTTTTCAATA
Found at i:34725284 original size:26 final size:26
Alignment explanation
Indices: 34725255--34725337 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 26
34725245 GGGCATATTC
*
34725255 GTCATTTTACCATATAAGG-TATTACG
1 GTCACTTTACCATATAAGGCT-TTACG
* *
34725281 GTCACTTTACCCTATAGGGCCTTTACG
1 GTCACTTTACCATATAAGG-CTTTACG
* * *
34725308 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATATA-AGGCTTTACG
34725335 GTC
1 GTC
34725338 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
26 16 0.32
27 30 0.60
28 4 0.08
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (26 bp):
GTCACTTTACCATATAAGGCTTTACG
Found at i:34725353 original size:27 final size:27
Alignment explanation
Indices: 34725276--34725354 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
34725266 ATATAAGGTA
*
34725276 TTACGGTCACTTTACCCTATAGGGCCT
1 TTACGGTCACTTTACCCTATAGGGGCT
*
34725303 TTACGGTCACTTTACCCTACAGGGGCT
1 TTACGGTCACTTTACCCTATAGGGGCT
**
34725330 TTACGGTCTTTTTA-CCTAATAGGGG
1 TTACGGTCACTTTACCCT-ATAGGGG
34725355 TATTTTAGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.07
27 43 0.93
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
TTACGGTCACTTTACCCTATAGGGGCT
Found at i:34725428 original size:27 final size:27
Alignment explanation
Indices: 34725376--34725627 Score: 150
Period size: 27 Copynumber: 9.3 Consensus size: 27
34725366 TTTCATCCTA
* * * *
34725376 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
34725403 AAAGGTATTTTAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
34725430 AATGGTATTTCT-ATAATTTT-TAGAATGTC
1 AAGGGTATTT-TGGTAATTTTATA-AA--CC
* * * * **
34725459 AATGGTATTTCT-CTAACTTTGTAAATT
1 AAGGGTATTT-TGGTAATTTTATAAACC
* **
34725486 AGGGGTATTTTGGTAATTTTATAAATT
1 AAGGGTATTTTGGTAATTTTATAAACC
* * * *
34725513 GAGGGTATTTCGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* *
34725540 AAGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
34725567 AGGGGTATTTTGGAAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * *
34725594 AAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTGGTAATTTTATAAACC
*
34725621 GAGGGTA
1 AAGGGTA
34725628 AAACAGTAAT
Statistics
Matches: 180, Mismatches: 39, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.02
27 153 0.85
28 1 0.01
29 21 0.12
30 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAACC
Found at i:34725640 original size:54 final size:54
Alignment explanation
Indices: 34725488--34725627 Score: 192
Period size: 54 Copynumber: 2.6 Consensus size: 54
34725478 TGTAAATTAG
* *
34725488 GGGTATTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCGGTAATTTTACAAACCAA
* * * *
34725542 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGAAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTATAAATCGA-GGGTATTTCGGTAATTTTACAAACCAA
* *
34725596 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTATAAATCGAGGGTA
34725628 AAACAGTAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 71 0.96
55 2 0.03
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAATCGAGGGTATTTCGGTAATTTTACAAACCAA
Found at i:34725867 original size:27 final size:27
Alignment explanation
Indices: 34725606--34725864 Score: 356
Period size: 27 Copynumber: 9.6 Consensus size: 27
34725596 GGGTATTTTA
* *
34725606 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
34725633 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
** * *
34725660 GTAATTCAATAAGTCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
34725687 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
34725714 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
34725741 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
34725768 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
34725795 ATAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
34725822 GGAATTATGTAAATCGGGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
34725849 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
34725865 GGGCTACTTG
Statistics
Matches: 207, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 207 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:34725913 original size:27 final size:27
Alignment explanation
Indices: 34725875--34725964 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
34725865 GGGCTACTTG
*
34725875 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
34725902 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
34725929 GTATTTTTACAAAT-TAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
34725956 GTAATTTTA
1 GTAATTTTA
34725965 GTAAATTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:34725978 original size:27 final size:27
Alignment explanation
Indices: 34725875--34725979 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
34725865 GGGCTACTTG
* *
34725875 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAAAT-TAAGAGTATTTCA
** *
34725902 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATTAAGAGTATTTCA
* * *
34725929 GTATTTTTACAAATTAAGGGTATTTCG
1 GTAATTTTACAAATTAAGAGTATTTCA
*
34725956 GTAATTTTAGTAAATTAA-AGTATT
1 GTAATTTTA-CAAATTAAGAGTATT
34725980 CTAAATAGGG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 2 0.03
27 57 0.86
28 7 0.11
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATTAAGAGTATTTCA
Found at i:34745751 original size:44 final size:42
Alignment explanation
Indices: 34745664--34745783 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 42
34745654 AAATGTGTTA
* *
34745664 TTGTGTAAGACCACGTCTGGGACGTTGGCATC-AACTTCTATT
1 TTGTGTAAGACCATGTCTGGGACATTGGCATCGAAC-TCTATT
* *
34745706 TTACGTGTAAGACCATGTCTTGGACATTGGCATCGTA-TCTGATT
1 TT--GTGTAAGACCATGTCTGGGACATTGGCATCGAACTCT-ATT
* * *
34745750 TTGTGTAAGACCTTGTCTGGGAAAGTGGCATCGA
1 TTGTGTAAGACCATGTCTGGGACATTGGCATCGA
34745784 TGTTTGATTA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
42 29 0.45
43 3 0.05
44 32 0.49
45 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (42 bp):
TTGTGTAAGACCATGTCTGGGACATTGGCATCGAACTCTATT
Found at i:34747418 original size:50 final size:50
Alignment explanation
Indices: 34747345--34747580 Score: 239
Period size: 50 Copynumber: 4.7 Consensus size: 50
34747335 TGAATACATG
* *
34747345 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTG-TTAAGTCGCA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGA-TGATTAAGTCACA
* * * * * *
34747395 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTA-ATGACTT-CGATCACG
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTA-TCAGATGA-TTAAG-TCACA
* * * *
34747446 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGATGAGGTCACG
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGATTAAGTCACA
* * *
34747496 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTG-TTGA-TCACA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGA-TGATTAAGTCACA
* *
34747545 TGTGTAGTACTAAGTGTAGGCTACTATGCGTATCAG
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAG
34747581 GTAGCTTCGG
Statistics
Matches: 156, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
49 38 0.24
50 74 0.47
51 44 0.28
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGATTAAGTCACA
Found at i:34747519 original size:101 final size:99
Alignment explanation
Indices: 34747344--34747580 Score: 289
Period size: 101 Copynumber: 2.4 Consensus size: 99
34747334 GTGAATACAT
* * *
34747344 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACTAAG
1 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGACTGTGAAGTCACATGTGTAGTACTAAG
* **
34747409 TGCAGGCTACTATGCGTA-CTTAATGACTTCGATCAC
66 TGCAGGCTACTACGCGTACCGGAATG--TT-GATCAC
* * *
34747445 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGTCACGTGTGTAGTACTAA
1 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGACTG-TGAAGTCACATGTGTAGTACTAA
* * *
34747509 GTGTAGGCTACTACGTGTACCGGATTGTTGATCAC
65 GTGCAGGCTACTACGCGTACCGGAATGTTGATCAC
* * *
34747544 ATGTGTAGTACTAAGTGTAGGCTACTATGCGTATCAG
1 GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAG
34747581 GTAGCTTCGG
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
99 39 0.33
100 4 0.03
101 71 0.60
102 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (99 bp):
GTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGACTGTGAAGTCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCGGAATGTTGATCAC
Found at i:34747699 original size:27 final size:26
Alignment explanation
Indices: 34747669--34747720 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
34747659 GGGAAAATCG
34747669 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGT-G-AATATGTGCAAAGTTATT
* *
34747696 ATAAGGTGAATATGTGCAAATTTAT
1 ATAAAGTGAATATGTGCAAAGTTAT
34747721 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 8 0.36
27 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (26 bp):
ATAAAGTGAATATGTGCAAAGTTATT
Found at i:34754547 original size:49 final size:48
Alignment explanation
Indices: 34754380--34754551 Score: 173
Period size: 49 Copynumber: 3.5 Consensus size: 48
34754370 TACACGTGTT
* * * * *
34754380 TAGTACTAAGTGTAGGCTACTACGTGTATCATACTATTAAGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTA-CATAATGTTGA-TCACATGTG
* * * *
34754430 TAGTACTAAGTGCAGGCTACTATGCGTACTTAATGACTTCGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACATAATG--TT-GATCACATGTG
** *
34754481 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTTGATCACATGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTA-CATAATGTTGATCACATGTG
*
34754530 TAGTACTAAGTGTAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
34754552 TACGTATCAG
Statistics
Matches: 102, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
49 35 0.34
50 27 0.26
51 35 0.34
52 5 0.05
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (48 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACATAATGTTGATCACATGTG
Found at i:34754680 original size:27 final size:26
Alignment explanation
Indices: 34754650--34754701 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
34754640 GGGAAAATCG
34754650 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGT-G-AATATGTGCAAAGTTATT
* *
34754677 ATAAGGTGAATATGTGCAAATTTAT
1 ATAAAGTGAATATGTGCAAAGTTAT
34754702 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 8 0.36
27 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.37
Consensus pattern (26 bp):
ATAAAGTGAATATGTGCAAAGTTATT
Found at i:34757842 original size:40 final size:40
Alignment explanation
Indices: 34757709--34757858 Score: 126
Period size: 40 Copynumber: 3.8 Consensus size: 40
34757699 CGAATGGTAT
* * * *
34757709 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAG-TGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAAA
* *
34757750 CCGGG-TCAA-TTCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGCTACCAAAA
* * ** *
34757789 TCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAAA
* * *
34757829 CCGGGCTATGTCCCGAAGGCTTTTGAGCGA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA
34757859 TTCGCTATAT
Statistics
Matches: 89, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
39 13 0.15
40 69 0.78
41 7 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAAA
Found at i:34765835 original size:40 final size:38
Alignment explanation
Indices: 34765703--34765853 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 38
34765693 CGAATGGTAT
*
34765703 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCTTTTGTGC-GAGT-ACTAAA
* *
34765743 TCCGGG-TCAATTCCCGAAGGC-TTTGTGCGAGTTACCAAA
1 -CCGGGCT-AAGTCCCGAAGGCTTTTGTGCGAG-TACTAAA
* * *
34765782 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAG-TACTA-AA
* *
34765822 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGT
34765854 CGCTATATCC
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
38 17 0.18
39 22 0.23
40 38 0.40
41 17 0.18
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCTTTTGTGCGAGTACTAAA
Found at i:34773050 original size:2 final size:2
Alignment explanation
Indices: 34773043--34773068 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34773033 CAGCTCTAGC
34773043 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
34773069 GTTCGCACAC
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:34773854 original size:40 final size:40
Alignment explanation
Indices: 34773775--34773932 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
34773765 TTCGAATGAT
* * * *
34773775 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
34773815 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
34773855 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
34773895 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
34773933 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:34773953 original size:80 final size:80
Alignment explanation
Indices: 34773775--34773962 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
34773765 TTCGAATGAT
* *
34773775 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
34773840 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
34773855 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
34773916 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
34773936 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
34773963 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:34780545 original size:42 final size:43
Alignment explanation
Indices: 34780439--34780587 Score: 117
Period size: 43 Copynumber: 3.5 Consensus size: 43
34780429 TGTGTTATCG
* * **
34780439 TGTAAGACCATGTCTCGGACGTTGGCATCGACT-TCT-ATTTTACA
1 TGTAAGACCATATCTGGGACAATGGCATCGA-TATCTGA--TTACA
* * * *
34780483 TGTAAGACCATGTCTTGGAC-ATCGGCATC-ATATCTGATTCCG
1 TGTAAGACCATATCTGGGACAAT-GGCATCGATATCTGATTACA
* * *
34780525 TGTAAGACCCTATCTGGGACAATGGCATCGATGTTTGATTACA
1 TGTAAGACCATATCTGGGACAATGGCATCGATATCTGATTACA
**
34780568 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCATATCTGGGAC
34780588 GTTGGCGTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 27 0.31
43 33 0.38
44 26 0.30
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAATGGCATCGATATCTGATTACA
Found at i:34784429 original size:44 final size:42
Alignment explanation
Indices: 34784356--34784468 Score: 138
Period size: 44 Copynumber: 2.6 Consensus size: 42
34784346 GGATTTCCGA
* * * *
34784356 TATTTGAGTTCATGTAAGACCACGTCTGGGACGTTGGCATCG
1 TATTTGATTTCATGTAAGACCATGTCTGGGACATCGGCATCG
34784398 -ATTTTAGATTTACATGTAAGACCATGTCTGGGACATCGGCATCG
1 TA-TTT-GATTT-CATGTAAGACCATGTCTGGGACATCGGCATCG
* *
34784442 TATTTGATTTCGTGTAAGACCCTGTCT
1 TATTTGATTTCATGTAAGACCATGTCT
34784469 AGGATACTGG
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 18 0.30
43 9 0.15
44 32 0.52
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.35
Consensus pattern (42 bp):
TATTTGATTTCATGTAAGACCATGTCTGGGACATCGGCATCG
Found at i:34786212 original size:46 final size:46
Alignment explanation
Indices: 34786145--34786315 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
34786135 ACCCGCCCCT
*
34786145 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAC
*
34786191 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTCAC
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATC-CAC
* * *
34786242 ----GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAC
*
34786284 AGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGG
34786316 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 6, Indels: 22
0.79 0.04 0.16
Matches are distributed among these distances:
42 4 0.04
43 4 0.04
44 1 0.01
46 59 0.55
47 28 0.26
48 1 0.01
49 1 0.01
50 4 0.04
51 6 0.06
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAC
Found at i:34786259 original size:93 final size:93
Alignment explanation
Indices: 34786149--34786319 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
34786139 GCCCCTAAGT
* *
34786149 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
34786214 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
34786242 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
34786307 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34786320 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:34786776 original size:30 final size:30
Alignment explanation
Indices: 34786742--34786801 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34786732 ATTTAATACG
34786742 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
34786772 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
34786802 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:34792028 original size:68 final size:69
Alignment explanation
Indices: 34791882--34792037 Score: 160
Period size: 68 Copynumber: 2.2 Consensus size: 69
34791872 AGCCGATTTG
* * * *
34791882 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGTGACCTAGCTACATA
*
34791947 TATC
66 TATA
* *
34791951 TCTCACGTAGCTCTCTTGTCTATATGG-GATACATC-C-T-GTATCACACATGTGACCTAGCTAC
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTTGGAATCACACATGTGACCTAGCTAC
34792012 TATATAGTA
63 -ATATA-TA
34792021 TCTCGTAGC-CTTCTTGT
1 TCTCGTAGCTC-TCTTGT
34792038 ACACATGATG
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
67 1 0.01
68 34 0.46
69 8 0.11
70 6 0.08
71 25 0.34
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (69 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTTGGAATCACACATGTGACCTAGCTACATA
TATA
Found at i:34805951 original size:24 final size:24
Alignment explanation
Indices: 34805924--34805969 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
34805914 GAATTTAACA
34805924 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATACA-CACACATAGTGCCT
* *
34805948 TTCAACTACACACACGTAGTGC
1 TTCAAATACACACACATAGTGC
34805970 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (24 bp):
TTCAAATACACACACATAGTGCCT
Found at i:34808817 original size:14 final size:13
Alignment explanation
Indices: 34808792--34808845 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
34808782 TTGGGAATTT
34808792 TTTTAAAATTTTGAA
1 TTTT-AAATTTT-AA
*
34808807 TATTTAATTTTTAA
1 T-TTTAAATTTTAA
*
34808821 TTTTTAATTTTAAA
1 TTTTAAATTTT-AA
34808835 TTTTAAATTTT
1 TTTTAAATTTT
34808846 TTTTGAAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
13 8 0.24
14 15 0.45
15 7 0.21
16 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:34808821 original size:7 final size:7
Alignment explanation
Indices: 34808798--34808846 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
34808788 ATTTTTTTAA
*
34808798 AATTTTG
1 AATTTTT
*
34808805 AATATTT
1 AATTTTT
34808812 AATTTTT
1 AATTTTT
34808819 AATTTTT
1 AATTTTT
*
34808826 AATTTTA
1 AATTTTT
*
34808833 AATTTTA
1 AATTTTT
34808840 AATTTTT
1 AATTTTT
34808847 TTTGAAGATT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (7 bp):
AATTTTT
Found at i:34808846 original size:21 final size:21
Alignment explanation
Indices: 34808792--34808846 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
34808782 TTGGGAATTT
*
34808792 TTTTAAAATTTTGAATATTTAA
1 TTTT-AAATTTTTAATATTTAA
*
34808814 TTTTTAATTTTTAAT-TTTAAA
1 TTTTAAATTTTTAATATTT-AA
34808835 TTTTAAATTTTT
1 TTTTAAATTTTT
34808847 TTTGAAGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.10
21 22 0.76
22 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTAAATTTTTAATATTTAA
Found at i:34809410 original size:7 final size:7
Alignment explanation
Indices: 34809400--34809433 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
34809390 AGCTAACACT
34809400 TAACCCC
1 TAACCCC
34809407 TAACCCC
1 TAACCCC
34809414 TAACCCC
1 TAACCCC
34809421 TAAACCCC
1 T-AACCCC
34809429 -AACCC
1 TAACCC
34809434 TTAAACCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 5 0.19
7 15 0.58
8 6 0.23
ACGTcount: A:0.32, C:0.56, G:0.00, T:0.12
Consensus pattern (7 bp):
TAACCCC
Found at i:34809417 original size:14 final size:15
Alignment explanation
Indices: 34809400--34809440 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
34809390 AGCTAACACT
34809400 TAACCCCT-AACCCC
1 TAACCCCTAAACCCC
34809414 TAACCCCTAAACCCC
1 TAACCCCTAAACCCC
*
34809429 -AACCCTTAAACC
1 TAACCCCTAAACC
34809441 ATAAACCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.34, C:0.51, G:0.00, T:0.15
Consensus pattern (15 bp):
TAACCCCTAAACCCC
Found at i:34809481 original size:22 final size:21
Alignment explanation
Indices: 34809421--34809481 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
34809411 CCCTAACCCC
* *
34809421 TAAACCCCAACCCTTAAACCA
1 TAAACCACAAACCTTAAACCA
* * *
34809442 TAAACCATAATCCCTAAACCTA
1 TAAACCACAAACCTTAAACC-A
*
34809464 TAATCCACAAACCTTAAA
1 TAAACCACAAACCTTAAA
34809482 ATAGTAACTC
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (21 bp):
TAAACCACAAACCTTAAACCA
Found at i:34809522 original size:14 final size:14
Alignment explanation
Indices: 34809500--34809544 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
34809490 TCATACACTT
34809500 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
34809514 TATACCCTAAACCA
1 TAAACCCTAAACCA
* *
34809528 TAAATCCTAAACTA
1 TAAACCCTAAACCA
34809542 TAA
1 TAA
34809545 TGATAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:34809650 original size:7 final size:7
Alignment explanation
Indices: 34809638--34809744 Score: 74
Period size: 7 Copynumber: 15.0 Consensus size: 7
34809628 ACTAATTAAT
34809638 CTAAACC
1 CTAAACC
34809645 CTAAACTC
1 CTAAAC-C
*
34809653 CTAATCC
1 CTAAACC
*
34809660 TTAAACC
1 CTAAACC
*
34809667 TTAAACC
1 CTAAACC
*
34809674 CTAAATC
1 CTAAACC
*
34809681 CTAAAAC
1 CTAAACC
*
34809688 ATAAACC
1 CTAAACC
*
34809695 CTTAACC
1 CTAAACC
*
34809702 CTTAACCC
1 C-TAAACC
34809710 CT-AACAC
1 CTAAAC-C
34809717 CTAAACC
1 CTAAACC
*
34809724 TTAAACC
1 CTAAACC
*
34809731 C-CAACC
1 CTAAACC
34809737 CTTAAACC
1 C-TAAACC
34809745 ACTCTTAAAC
Statistics
Matches: 77, Mismatches: 17, Indels: 11
0.73 0.16 0.10
Matches are distributed among these distances:
6 7 0.09
7 52 0.68
8 18 0.23
ACGTcount: A:0.40, C:0.38, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:34809671 original size:29 final size:28
Alignment explanation
Indices: 34809639--34809731 Score: 91
Period size: 29 Copynumber: 3.2 Consensus size: 28
34809629 CTAATTAATC
*
34809639 TAAACCCTAAACTCCTAATCCTTAAACCT
1 TAAACCCTAAACTCCTAA-CCATAAACCT
*
34809668 TAAACCCTAAA-TCCTAAAACATAAACCCT
1 TAAACCCTAAACTCCT-AACCATAAA-CCT
* * *
34809697 T-AACCCTTAACCCCTAACACCTAAACCT
1 TAAACCCTAAACTCCTAAC-CATAAACCT
34809725 TAAACCC
1 TAAACCC
34809732 CAACCCTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
28 23 0.43
29 30 0.57
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.23
Consensus pattern (28 bp):
TAAACCCTAAACTCCTAACCATAAACCT
Found at i:34809698 original size:36 final size:36
Alignment explanation
Indices: 34809658--34809744 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
34809648 AACTCCTAAT
*
34809658 CCTTAAACCTTAAACCCTAA-ATCCTAAAACATAAAC
1 CCTTAACCCTTAAACCCTAACA-CCTAAAACATAAAC
* * *
34809694 CCTTAACCCTTAACCCCTAACACCTAAACCTTAAAC
1 CCTTAACCCTTAAACCCTAACACCTAAAACATAAAC
*
34809730 CC-CAACCCTTAAACC
1 CCTTAACCCTTAAACC
34809745 ACTCTTAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 11 0.25
36 32 0.73
37 1 0.02
ACGTcount: A:0.40, C:0.39, G:0.00, T:0.21
Consensus pattern (36 bp):
CCTTAACCCTTAAACCCTAACACCTAAAACATAAAC
Found at i:34810694 original size:88 final size:88
Alignment explanation
Indices: 34810545--34810725 Score: 220
Period size: 88 Copynumber: 2.1 Consensus size: 88
34810535 GCAGTGTTTT
* * * *
34810545 TTTAAGATCACAACCTTCAAACTTCAAAGATTTTCAGACTCTTAGACTTAACGATTTAAGATCGC
1 TTTAAGATCACAACATTCAAACTTCAAAGATTTTCAGAATCTTAGACTTAACAACTTAAGATCGC
* **
34810610 AACACTCCTTTAAGGTTTTTTGA
66 AACACCCCTTTAAGGTTCATTGA
** * * *
34810633 TTTAAGATTGCAACATTCAAACTTCAAGGATTTTCAGAATCTTAG-CGTTAGCAACTTAAGATTG
1 TTTAAGATCACAACATTCAAACTTCAAAGATTTTCAGAATCTTAGAC-TTAACAACTTAAGATCG
* *
34810697 CGACTCCCCTTTAAGGTTCATTGA
65 CAACACCCCTTTAAGGTTCATTGA
34810721 TTTAA
1 TTTAA
34810726 TGTAACAACC
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
87 1 0.01
88 77 0.99
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (88 bp):
TTTAAGATCACAACATTCAAACTTCAAAGATTTTCAGAATCTTAGACTTAACAACTTAAGATCGC
AACACCCCTTTAAGGTTCATTGA
Found at i:34814264 original size:39 final size:39
Alignment explanation
Indices: 34814150--34814333 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
34814140 GCTACTCGTT
* * *
34814150 CAAATGCCTTCGGGACATAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
* *
34814190 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
34814230 CCAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GGATTAGTAACTCGCA
* * * * *
34814269 CAAATGCCTTC-GAATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
34814310 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
34814334 TCATCATTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 32 0.27
40 76 0.63
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:34814318 original size:79 final size:80
Alignment explanation
Indices: 34814150--34814333 Score: 196
Period size: 79 Copynumber: 2.3 Consensus size: 80
34814140 GCTACTCGTT
* * * *
34814150 CAAATGCCTTCGGGACATAG-CCTGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGGAT-TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCG
* * * *
34814214 GATTTGGTAACTCGCAC
64 AATATAGTAACTAGCAC
* **
34814231 CAATGCCTTCGGG-CTTAGCCCGGGATTAGTAACTCGCACAAATGCCTTC-GAATCTTAGTCCGA
1 CAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCACAAATGCCTTCGGAA-CTTAACCCGA
*
34814294 ATATAGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
34814310 CAAAGCCTTCGGGACTTAGCCCGG
1 CAAAGCCTTCGGGACTTAGCCCGG
34814334 TCATCATTCA
Statistics
Matches: 86, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.02
79 53 0.62
80 28 0.33
81 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGGATTAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGAA
TATAGTAACTAGCAC
Found at i:34819208 original size:35 final size:35
Alignment explanation
Indices: 34819130--34819200 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
34819120 ATATATAACC
*
34819130 TCAATATAAACTCACATGTAACCAAATACACATGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
* * *
34819165 TCAATATAAATTCACATGTAACCGAATACTCAAGT
1 TCAATATAAACTCACATGTAACCAAATACACAAGT
34819200 T
1 T
34819201 TGATATAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (35 bp):
TCAATATAAACTCACATGTAACCAAATACACAAGT
Found at i:34826197 original size:15 final size:15
Alignment explanation
Indices: 34826140--34826219 Score: 62
Period size: 15 Copynumber: 5.4 Consensus size: 15
34826130 TAAAGATAAC
*
34826140 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
34826154 AAGAAATTCA-AGATA
1 AAGAAATCCAGA-ATA
34826169 GAA-AAA-CACAGAATA
1 -AAGAAATC-CAGAATA
34826184 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
34826199 AA-AAGATCCAGGATA
1 AAGAA-ATCCAGAATA
34826214 AAGAAA
1 AAGAAA
34826220 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
14 12 0.23
15 35 0.66
16 6 0.11
ACGTcount: A:0.62, C:0.11, G:0.15, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:34837294 original size:46 final size:46
Alignment explanation
Indices: 34837244--34837416 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
34837234 TGGTTGAGCA
34837244 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
34837290 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
34837335 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
34837383 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
34837417 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34837400 original size:93 final size:93
Alignment explanation
Indices: 34837241--34837411 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
34837231 GGATGGTTGA
*
34837241 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
34837306 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
34837334 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
34837399 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
34837412 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:34839410 original size:21 final size:22
Alignment explanation
Indices: 34839370--34839411 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34839360 GCCTAAATGG
*
34839370 TCACACGGGCGTGTTGCCCCTC
1 TCACACGGGAGTGTTGCCCCTC
*
34839392 TCACATGGGAGTG-TGCCCCT
1 TCACACGGGAGTGTTGCCCCT
34839412 GTGTTAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.36, G:0.29, T:0.24
Consensus pattern (22 bp):
TCACACGGGAGTGTTGCCCCTC
Found at i:34843574 original size:24 final size:25
Alignment explanation
Indices: 34843537--34843585 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
34843527 AAATTTATAA
*
34843537 TTTTAAAATGTAAAAGAA-ATTAAAT
1 TTTTAAAATATAAAA-AAGATTAAAT
34843562 TTTTAAAA-ATAAAAAAGATTAAAT
1 TTTTAAAATATAAAAAAGATTAAAT
34843586 CTCAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 2 0.09
24 12 0.55
25 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (25 bp):
TTTTAAAATATAAAAAAGATTAAAT
Found at i:34848857 original size:42 final size:42
Alignment explanation
Indices: 34848798--34848898 Score: 175
Period size: 42 Copynumber: 2.4 Consensus size: 42
34848788 TCACATGGCC
*
34848798 AAGACACACGTCTGTGTTCTAGGCTGTGTAGCACACAGAGCT
1 AAGACACACGTCCGTGTTCTAGGCTGTGTAGCACACAGAGCT
*
34848840 AAGACACACGTCCGTGTTCTAGGCTGTGTAGCACACAGAGGT
1 AAGACACACGTCCGTGTTCTAGGCTGTGTAGCACACAGAGCT
*
34848882 AAGACACACGCCCGTGT
1 AAGACACACGTCCGTGT
34848899 CTCTGCCCGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.27, C:0.26, G:0.27, T:0.21
Consensus pattern (42 bp):
AAGACACACGTCCGTGTTCTAGGCTGTGTAGCACACAGAGCT
Found at i:34850512 original size:79 final size:81
Alignment explanation
Indices: 34850411--34850595 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
34850401 ACGACTCGCT
** * *
34850411 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
34850474 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
34850491 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
34850555 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
34850571 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34850596 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:34850595 original size:40 final size:39
Alignment explanation
Indices: 34850404--34850595 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
34850394 GGATATAACG
* ** * *
34850404 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34850444 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
34850484 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
34850523 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
34850563 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
34850596 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Done.