Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 152 of 352
Found at i:49849046 original size:21 final size:21
Alignment explanation
Indices: 49849020--49849067 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
49849010 TATTACTAGT
49849020 TATTATTATTATTATTATCAC
1 TATTATTATTATTATTATCAC
* * *
49849041 TATTATTTTTATTTTTATTAC
1 TATTATTATTATTATTATCAC
49849062 TATTAT
1 TATTAT
49849068 CATTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATTATTATTATTATCAC
Found at i:49850168 original size:20 final size:20
Alignment explanation
Indices: 49850143--49850184 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
49850133 GGAGCAAACA
*
49850143 TTATACTTATAATTTGTTTT
1 TTATACTTATAATTTATTTT
*
49850163 TTATACTTGTAATTTATTTT
1 TTATACTTATAATTTATTTT
49850183 TT
1 TT
49850185 TGGTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.67
Consensus pattern (20 bp):
TTATACTTATAATTTATTTT
Found at i:49850458 original size:40 final size:41
Alignment explanation
Indices: 49850384--49850460 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
49850374 GAATAACATA
* *
49850384 TAATAAATAATAAAAAATATAATTTAAAATTTAAAATTAAT
1 TAATAAATAATAAAAAATATAATTAAAAAATTAAAATTAAT
49850425 TAAT-AATAATATATAAAATAT-A-TAAAAAATTAAAAT
1 TAATAAATAATA-A-AAAATATAATTAAAAAATTAAAAT
49850461 AAAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
40 19 0.59
41 6 0.19
42 7 0.22
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (41 bp):
TAATAAATAATAAAAAATATAATTAAAAAATTAAAATTAAT
Found at i:49850464 original size:22 final size:22
Alignment explanation
Indices: 49850439--49850485 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
49850429 AATAATATAT
*
49850439 AAAATATATAAAAAATTAAAATA
1 AAAAAATA-AAAAAATTAAAATA
*
49850462 AAAAAATAAAAAAATTAAATTA
1 AAAAAATAAAAAAATTAAAATA
49850484 AA
1 AA
49850486 TTATGAATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAATAAAAAAATTAAAATA
Found at i:49850913 original size:45 final size:46
Alignment explanation
Indices: 49850821--49850913 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
49850811 TGTACTTGAT
*
49850821 AAACCTTCATATAGCATCAACATAAAATTATTGGTTAATTAATTAA
1 AAACCTTCATATAGCATCAAAATAAAATTATTGGTTAATTAATTAA
*
49850867 AAACCTTCATATAGCATTAAAATAAAA-TATTGGTTAATTAATTAA
1 AAACCTTCATATAGCATCAAAATAAAATTATTGGTTAATTAATTAA
49850912 AA
1 AA
49850914 TTGGTCTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 20 0.44
46 25 0.56
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.34
Consensus pattern (46 bp):
AAACCTTCATATAGCATCAAAATAAAATTATTGGTTAATTAATTAA
Found at i:49852478 original size:11 final size:9
Alignment explanation
Indices: 49852436--49852528 Score: 64
Period size: 9 Copynumber: 9.7 Consensus size: 9
49852426 ATAACTTTTC
49852436 AAAAATTAT
1 AAAAATTAT
49852445 AAAAATTGCA-
1 AAAAATT--AT
49852455 AAAAATTAT
1 AAAAATTAT
49852464 AAAAATTACT
1 AAAAATTA-T
*
49852474 GAAAAATAAT
1 -AAAAATTAT
*
49852484 AGAAAATTAGG
1 A-AAAATTA-T
49852495 AAAAATTATAT
1 AAAAA-T-TAT
*
49852506 AAAAACTAT
1 AAAAATTAT
*
49852515 GAAAA-TAT
1 AAAAATTAT
49852523 AAAAAT
1 AAAAAT
49852529 ATTTTTTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 20
0.71 0.07 0.21
Matches are distributed among these distances:
8 8 0.12
9 23 0.34
10 19 0.28
11 15 0.22
12 2 0.03
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (9 bp):
AAAAATTAT
Found at i:49852478 original size:19 final size:19
Alignment explanation
Indices: 49852436--49852528 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 19
49852426 ATAACTTTTC
***
49852436 AAAAATTATAAAAATTGCA
1 AAAAATTATAAAAATTATG
49852455 AAAAATTATAAAAATTACTG
1 AAAAATTATAAAAATTA-TG
* *
49852475 AAAAATAATAGAAAATTAGG
1 AAAAATTATA-AAAATTATG
*
49852495 AAAAATTATATAAAAACTATG
1 AAAAA-T-TATAAAAATTATG
49852516 -AAAA-TATAAAAAT
1 AAAAATTATAAAAAT
49852529 ATTTTTTTAT
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
17 8 0.13
19 16 0.26
20 19 0.31
21 15 0.25
22 3 0.05
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (19 bp):
AAAAATTATAAAAATTATG
Found at i:49852510 original size:21 final size:20
Alignment explanation
Indices: 49852436--49852527 Score: 70
Period size: 21 Copynumber: 4.7 Consensus size: 20
49852426 ATAACTTTTC
*
49852436 AAAAAT-TATAAAAATT-GC
1 AAAAATATATAAAAATTAGG
*
49852454 AAAAA-ATTATAAAAATTACTG
1 AAAAATA-TATAAAAATTA-GG
49852475 AAAAATA-ATAGAAAATTAGG
1 AAAAATATATA-AAAATTAGG
* *
49852495 AAAAATTATATAAAAACTATG
1 AAAAA-TATATAAAAATTAGG
49852516 -AAAATATA-AAAA
1 AAAAATATATAAAA
49852528 TATTTTTTTA
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
18 9 0.15
19 14 0.23
20 13 0.21
21 21 0.34
22 4 0.07
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
AAAAATATATAAAAATTAGG
Found at i:49852810 original size:27 final size:23
Alignment explanation
Indices: 49852780--49852830 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 23
49852770 TTAATTTTAA
49852780 TAATTTTATCTTATTTTTAATGAATTT
1 TAATTTT-T-TTATTTTT-AT-AATTT
49852807 TAATTTTTTTATTTTTATAATTT
1 TAATTTTTTTATTTTTATAATTT
49852830 T
1 T
49852831 TGAAAATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 6 0.25
24 2 0.08
25 8 0.33
26 1 0.04
27 7 0.29
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (23 bp):
TAATTTTTTTATTTTTATAATTT
Found at i:49852863 original size:69 final size:68
Alignment explanation
Indices: 49852758--49852890 Score: 155
Period size: 69 Copynumber: 1.9 Consensus size: 68
49852748 GTTTTAAATT
* ** *
49852758 TTTTTGAAAATTTTAATTTTAATAATTTTATCTTATTTTTAATGAATT-TTAATTTTTT-TATTT
1 TTTTTGAAAATTCTAATTTTAATAATTAAATCTTATTTCT-AT--ATTATTAATTTTTTATATTT
49852821 TTATAA
63 TTATAA
* *
49852827 TTTTTGAAAATTCTAATTTTTAT-ATTGAAATTTTATTTCTATATTATTAATTTTTTATATTTTT
1 TTTTTGAAAATTCTAATTTTAATAATT-AAATCTTATTTCTATATTATTAATTTTTTATATTTTT
49852891 CATTTTTTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
66 3 0.05
67 10 0.18
68 12 0.22
69 30 0.55
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (68 bp):
TTTTTGAAAATTCTAATTTTAATAATTAAATCTTATTTCTATATTATTAATTTTTTATATTTTTA
TAA
Found at i:49852887 original size:16 final size:16
Alignment explanation
Indices: 49852866--49852901 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49852856 ATTTTATTTC
49852866 TATATTATTAATTTTT
1 TATATTATTAATTTTT
* *
49852882 TATATTTTTCATTTTT
1 TATATTATTAATTTTT
49852898 TATA
1 TATA
49852902 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TATATTATTAATTTTT
Found at i:49852906 original size:16 final size:16
Alignment explanation
Indices: 49852876--49852906 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49852866 TATATTATTA
*
49852876 ATTTTTTATATTTTTC
1 ATTTTTTATAATTTTC
49852892 ATTTTTTATAATTTT
1 ATTTTTTATAATTTT
49852907 AAAAATTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTATAATTTTC
Found at i:49855837 original size:27 final size:27
Alignment explanation
Indices: 49855806--49855983 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49855796 TAAATTGTAC
49855806 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49855833 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49855859 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49855887 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49855915 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49855942 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49855969 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49855984 GACTCAGTAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49855920 original size:82 final size:81
Alignment explanation
Indices: 49855807--49855962 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49855797 AAATTGTACA
* *
49855807 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
49855871 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
49855888 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
49855953 TGCGAGTTGA
65 TGCGAATTGA
49855963 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:49855974 original size:82 final size:81
Alignment explanation
Indices: 49855803--49855983 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
49855793 GATTAAATTG
* *
49855803 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49855868 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49855884 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49855948 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49855966 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49855984 GACTCAGTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49865162 original size:16 final size:17
Alignment explanation
Indices: 49865130--49865163 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49865120 CGTAGTATTC
49865130 CAAAACAATATTGTTTT
1 CAAAACAATATTGTTTT
*
49865147 CAAAACACTA-TGTTTT
1 CAAAACAATATTGTTTT
49865163 C
1 C
49865164 GTAACTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.18, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAACAATATTGTTTT
Found at i:49872924 original size:60 final size:60
Alignment explanation
Indices: 49872829--49872952 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 60
49872819 CTTGGTCATC
* * * * *
49872829 TATCACCCCACGAACATGAGGATTAGCACCCTGACCATTCAAATTATCATTCATACCAGG
1 TATCACCCAACAAACAGGAGGATTAGCACACTGACCATTCAAATTATCATTCAAACCAGG
* * *
49872889 TATCACCCAACAAACAGGAGGATTAGCATATTGACCATTCAAATTATCATTGAAACCAGG
1 TATCACCCAACAAACAGGAGGATTAGCACACTGACCATTCAAATTATCATTCAAACCAGG
49872949 -ATCA
1 TATCA
49872953 TTCCCATTCC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 4 0.07
60 52 0.93
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (60 bp):
TATCACCCAACAAACAGGAGGATTAGCACACTGACCATTCAAATTATCATTCAAACCAGG
Found at i:49874193 original size:23 final size:24
Alignment explanation
Indices: 49874162--49874208 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
49874152 ATTGCGCAAA
49874162 CCAACTTTTTAA-CTCTAAAAACAC
1 CCAACTTTTTAACCTC-AAAAACAC
49874186 CCAA-TTTTTAACCTCAAAAACAC
1 CCAACTTTTTAACCTCAAAAACAC
49874209 TACTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (24 bp):
CCAACTTTTTAACCTCAAAAACAC
Found at i:49876367 original size:99 final size:96
Alignment explanation
Indices: 49876250--49876425 Score: 230
Period size: 96 Copynumber: 1.8 Consensus size: 96
49876240 TACGAGATGT
*
49876250 GTCAGTGTAAGACTATGTCAGGGACATGGCATCGGCACAGATATGTGA-GAGCTAGTGTAAGACC
1 GTCAGTGTAAGACTATGTCAGGGACATGGCATC-G-ACAGA-ATG-GATGAGCCAGTGTAAGACC
49876314 ATGTCTGGGACATGGCGTCGACCTCAATTTTGATA
62 ATGTCTGGGACATGGCGTCGACCTCAATTTTGATA
* ** **
49876349 GTCAGTGTAAGAAC-ATGTCTGGGAGTTGGCATCGACTTAATGGATGAGCCAGTGTAAGACCATG
1 GTCAGTGTAAG-ACTATGTCAGGGACATGGCATCGACAGAATGGATGAGCCAGTGTAAGACCATG
*
49876413 TTTGGGACATGGC
65 TCTGGGACATGGC
49876426 ATCAGCATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
95 2 0.03
96 33 0.49
97 3 0.04
98 1 0.01
99 27 0.40
100 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (96 bp):
GTCAGTGTAAGACTATGTCAGGGACATGGCATCGACAGAATGGATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCGTCGACCTCAATTTTGATA
Found at i:49876419 original size:47 final size:49
Alignment explanation
Indices: 49876252--49876428 Score: 166
Period size: 49 Copynumber: 3.6 Consensus size: 49
49876242 CGAGATGTGT
* * * *
49876252 CAGTGTAAGACTATGTCAGGGACATGGCATCG-GCACAGATATGTGA-GAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCA-AT-TG-GATGAGC
* * * *
49876302 TAGTGTAAGACCATGTCTGGGACATGGCGTCGACCTCAATTTTGAT-AGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAA-TTGGATGAGC
* ** *
49876351 CAGTGTAAGAACATGTCTGGGAGTTGGCATCGA-CTTAA-TGGATGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAATTGGATGAGC
*
49876398 CAGTGTAAGACCATGTTTGGGACATGGCATC
1 CAGTGTAAGACCATGTCTGGGACATGGCATC
49876429 AGCATTATAC
Statistics
Matches: 103, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
46 4 0.04
47 29 0.28
48 4 0.04
49 32 0.31
50 30 0.29
51 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCAATTGGATGAGC
Found at i:49888592 original size:80 final size:80
Alignment explanation
Indices: 49888455--49888613 Score: 273
Period size: 80 Copynumber: 2.0 Consensus size: 80
49888445 AATTTCTTAA
49888455 TGAAATTTTAATATAACCCTAACATATTCTCGTAGACATTAAATAAATAATAGAATAATAATTCA
1 TGAAATTTTAATATAACCCTAACATATTCTCGTAGACATTAAATAAATAATAGAATAATAATTCA
*
49888520 ATCTTCGAAATTGTG
66 ATCATCGAAATTGTG
* ** *
49888535 TGAAATTTTAATATAACCCTAATATATTCTTTTAGACATTAAATAAATAATATAATAATAATTCA
1 TGAAATTTTAATATAACCCTAACATATTCTCGTAGACATTAAATAAATAATAGAATAATAATTCA
49888600 ATCATCGAAATTGT
66 ATCATCGAAATTGT
49888614 AGTCCTAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (80 bp):
TGAAATTTTAATATAACCCTAACATATTCTCGTAGACATTAAATAAATAATAGAATAATAATTCA
ATCATCGAAATTGTG
Found at i:49889664 original size:18 final size:17
Alignment explanation
Indices: 49889631--49889665 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49889621 GTTTGGATCC
*
49889631 AAATTAATAATTTAATT
1 AAATTAATAATCTAATT
49889648 AAATTAACTAATCTAATT
1 AAATTAA-TAATCTAATT
49889666 TAAACTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTAATAATCTAATT
Found at i:49890809 original size:13 final size:14
Alignment explanation
Indices: 49890791--49890824 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
49890781 TAAACTAAAC
*
49890791 AAAATAAAAAA-AT
1 AAAATAAAAAACAA
49890804 AAAATAAAAAACAA
1 AAAATAAAAAACAA
49890818 AAAATAA
1 AAAATAA
49890825 GCATGCAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAACAA
Found at i:49893582 original size:40 final size:40
Alignment explanation
Indices: 49893498--49893674 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
49893488 AAGCCAAGTA
* * * *
49893498 CCTTCGGGATTTA-ACCGAATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
49893536 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
49893576 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
49893616 CCTTCGGGACGTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49893656 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49893675 TTATCATCCG
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 12 0.10
39 16 0.13
40 95 0.77
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49899634 original size:27 final size:27
Alignment explanation
Indices: 49899604--49899780 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
49899594 ATATTGAGTC
* * *
49899604 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
49899631 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
49899657 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
49899685 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
49899712 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
49899739 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
49899766 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49899781 GTACAATTTA
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 22 0.17
27 85 0.66
28 22 0.17
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:49899769 original size:81 final size:81
Alignment explanation
Indices: 49899625--49899779 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
49899615 TGCTATATAA
* *
49899625 TCAACTCGCACACTTAGTGCTACGTAATCAATCGCACACTTAGTGCTACATAGTCAAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
49899690 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * *
49899706 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAA-TCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCA-ATCGCACACTTAGTGCAACATAGTCAAACTCGC
49899769 ACACTTAGTGC
64 ACACTTAGTGC
49899780 TGTACAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 40 0.60
82 26 0.39
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGTCAAACTCGCAC
ACTTAGTGCCGCATGG
Found at i:49904329 original size:41 final size:40
Alignment explanation
Indices: 49904192--49904359 Score: 169
Period size: 41 Copynumber: 4.1 Consensus size: 40
49904182 GCAAAAATTG
* * ** *
49904192 TAAAATACATAGCAATAGCGGCG-TTTTACCAAAAACGCCAC
1 TAAAA-ACAGAGCATTAGCGGCGCTTTTGGC-AAAACGCCGC
* **
49904233 TAAAAACAGAGCAATAGCGGCG-TTTTAGTAAAAAACGCCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTT-G-GCAAAACGCCGC
* * *
49904274 GAAAAACAGAGCATTAGCGTCGCTTTTGGCAAAACACCGC
1 TAAAAACAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGC
*
49904314 TAAAAACCAGGGCATTAGCGGCGCTTTTGGCAAAACGCCGC
1 TAAAAA-CAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGC
49904355 TAAAA
1 TAAAA
49904360 GTCATATAAC
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
40 34 0.31
41 70 0.65
42 4 0.04
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (40 bp):
TAAAAACAGAGCATTAGCGGCGCTTTTGGCAAAACGCCGC
Found at i:49904548 original size:21 final size:21
Alignment explanation
Indices: 49904524--49904603 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
49904514 CATTATAGTT
*
49904524 TATGGTTTATGGTTTAAGATA
1 TATGGTTTAGGGTTTAAGATA
49904545 TATGGTTTAGGGTTTAA-AT-
1 TATGGTTTAGGGTTTAAGATA
* *
49904564 GA--GTTAACTATGGTTTAAGATA
1 TATGGTT---TAGGGTTTAAGATA
49904586 TATGGTTTAGGGTTTAAG
1 TATGGTTTAGGGTTTAAG
49904604 GTTTATGAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
17 3 0.06
19 1 0.02
20 11 0.23
21 28 0.60
22 1 0.02
24 3 0.06
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (21 bp):
TATGGTTTAGGGTTTAAGATA
Found at i:49909455 original size:43 final size:43
Alignment explanation
Indices: 49909389--49909491 Score: 172
Period size: 43 Copynumber: 2.4 Consensus size: 43
49909379 TTAATTTTTA
*
49909389 TGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGG-CC
1 TGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCC
*
49909431 TTGACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCC
1 -TGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCC
49909475 TGACCTTTAGCGGCGTT
1 TGACCTTTAGCGGCGTT
49909492 GTTTTCAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
43 54 0.96
44 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.32, T:0.27
Consensus pattern (43 bp):
TGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCC
Found at i:49910518 original size:40 final size:40
Alignment explanation
Indices: 49910460--49910650 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
49910450 GAATATAGCT
* * *
49910460 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
* *
49910499 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
* *
49910539 GCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
* *
49910579 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAATGTAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
*
49910619 ACTCACACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
49910651 TTATCATCCG
Statistics
Matches: 141, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 7 0.05
40 134 0.95
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATA
Found at i:49910567 original size:80 final size:79
Alignment explanation
Indices: 49910434--49910650 Score: 294
Period size: 80 Copynumber: 2.7 Consensus size: 79
49910424 AAGCCAAGTA
* * * * *
49910434 CCTTCGGGATTTA-ACCGAATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGAATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
*
49910497 TAACTCGCACCAATG
65 TAACTCGCACAAATG
* *
49910512 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAA
1 CCTTCGGGACTTAGCCCGAATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAA
49910577 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* * *
49910592 CCTTCGGGACTTAGCCCGAATGTAATAACTCACACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGAATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
49910651 TTATCATCCG
Statistics
Matches: 123, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
78 14 0.11
79 15 0.12
80 93 0.76
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGAATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAAT
AACTCGCACAAATG
Found at i:49913398 original size:14 final size:14
Alignment explanation
Indices: 49913379--49913406 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49913369 ATCTCTTAAT
49913379 CCCTCATCCCTCAC
1 CCCTCATCCCTCAC
49913393 CCCTCATCCCTCAC
1 CCCTCATCCCTCAC
49913407 ATCTCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.64, G:0.00, T:0.21
Consensus pattern (14 bp):
CCCTCATCCCTCAC
Found at i:49913412 original size:14 final size:14
Alignment explanation
Indices: 49913380--49913413 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
49913370 TCTCTTAATC
*
49913380 CCTCATCCCTCACC
1 CCTCATCCCTCACA
49913394 CCTCATCCCTCACA
1 CCTCATCCCTCACA
*
49913408 TCTCAT
1 CCTCAT
49913414 TTCTCTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.56, G:0.00, T:0.26
Consensus pattern (14 bp):
CCTCATCCCTCACA
Found at i:49920589 original size:20 final size:20
Alignment explanation
Indices: 49920564--49920605 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
49920554 ATAAATTGCA
49920564 TTAGGGATCATTGCATTTAG
1 TTAGGGATCATTGCATTTAG
49920584 TTAGGGATCATTGCATTTAG
1 TTAGGGATCATTGCATTTAG
49920604 TT
1 TT
49920606 TCATATACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.43
Consensus pattern (20 bp):
TTAGGGATCATTGCATTTAG
Found at i:49925895 original size:39 final size:40
Alignment explanation
Indices: 49925823--49925966 Score: 184
Period size: 39 Copynumber: 3.6 Consensus size: 40
49925813 CTCGCACAAG
* * * * *
49925823 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
49925863 GCCTTCGGGACTTAGCCC-GATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
49925902 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
49925943 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
49925967 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 26 0.29
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:49927197 original size:38 final size:38
Alignment explanation
Indices: 49927155--49927230 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
49927145 CAAGAACTCC
49927155 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
49927193 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
49927231 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:49928548 original size:43 final size:44
Alignment explanation
Indices: 49928428--49928597 Score: 170
Period size: 43 Copynumber: 4.0 Consensus size: 44
49928418 AGCTTGTACA
*
49928428 ATGTCAATGTCCCAGACATGGTCTTACATGT-AATCAAATATCG
1 ATGTCAATGTCCCAGACATGGTCTTACAAGTAAATCAAATATCG
* * * *
49928471 ATGCCACTGTCCCAGACAAGGTCTTACACG-AAATCAAATAT-G
1 ATGTCAATGTCCCAGACATGGTCTTACAAGTAAATCAAATATCG
* * *
49928513 ATGTCGATGTACCAGACATGGTCTTACAAGTAAATCTCAA-ATCG
1 ATGTCAATGTCCCAGACATGGTCTTACAAGTAAATC-AAATATCG
** ** * *
49928557 ATGTCAACATCCCAGATGTGGTCTTACACG-AAATCACATAT
1 ATGTCAATGTCCCAGACATGGTCTTACAAGTAAATCAAATAT
49928598 GGAATCCTAT
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.25
43 50 0.49
44 26 0.25
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (44 bp):
ATGTCAATGTCCCAGACATGGTCTTACAAGTAAATCAAATATCG
Found at i:49928583 original size:86 final size:85
Alignment explanation
Indices: 49928428--49928598 Score: 211
Period size: 86 Copynumber: 2.0 Consensus size: 85
49928418 AGCTTGTACA
* * * *
49928428 ATGTCAATGTCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAAGGT
1 ATGTCAATGTACCAGACATGGTCTTACAAGTAATCAAATATCGATGCAACTATCCCAGACAAGGT
49928493 CTTACACGAAATCAAATATG
66 CTTACACGAAATCAAATATG
* * ***
49928513 ATGTCGATGTACCAGACATGGTCTTACAAGTAAATCTCAA-ATCGATGTCAAC-ATCCCAGATGT
1 ATGTCAATGTACCAGACATGGTCTTACAAGT-AATC-AAATATCGATG-CAACTATCCCAGACAA
*
49928576 GGTCTTACACGAAATCACATATG
63 GGTCTTACACGAAATCAAATATG
49928599 GAATCCTATG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 28 0.38
86 40 0.55
87 5 0.07
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (85 bp):
ATGTCAATGTACCAGACATGGTCTTACAAGTAATCAAATATCGATGCAACTATCCCAGACAAGGT
CTTACACGAAATCAAATATG
Found at i:49929324 original size:11 final size:11
Alignment explanation
Indices: 49929303--49929331 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
49929293 TCAAAAACGT
49929303 AAAAATC-ATC
1 AAAAATCAATC
49929313 AAAAATCAATC
1 AAAAATCAATC
49929324 AAAAATCA
1 AAAAATCA
49929332 TACCTCAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATCAATC
Found at i:49933667 original size:48 final size:47
Alignment explanation
Indices: 49933612--49933769 Score: 142
Period size: 48 Copynumber: 3.3 Consensus size: 47
49933602 CAACCGATTT
49933612 CGCACACATAGTGCTAATCAAATTCGCACACATAGTGCCATTCTAAAC
1 CGCACACATAGTGCTAATCAAATTCGCACACATAGTGCCATTC-AAAC
* * * * *
49933660 CGCACACATAGTGCT-TTGGAAA-TC-CACTCATTTATTGACATTCAAAC
1 CGCACACATAGTGCTAAT-CAAATTCGCACACA--TAGTGCCATTCAAAC
* * * *
49933707 CAGCATACATAGTGCCAATCGATTTCGCACACATAGTGCCATTCAAATC
1 C-GCACACATAGTGCTAATCAAATTCGCACACATAGTGCCATTCAAA-C
* *
49933756 CGCAGACTTAGTGC
1 CGCACACATAGTGC
49933770 CAATGTTGGC
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
46 5 0.06
47 8 0.09
48 63 0.73
49 5 0.06
50 5 0.06
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (47 bp):
CGCACACATAGTGCTAATCAAATTCGCACACATAGTGCCATTCAAAC
Found at i:49933759 original size:24 final size:24
Alignment explanation
Indices: 49933612--49933771 Score: 110
Period size: 24 Copynumber: 6.7 Consensus size: 24
49933602 CAACCGATTT
* * *
49933612 CGCACACATAGTGCTAATCAAATT
1 CGCACACATAGTGCCATTCAAATC
49933636 CGCACACATAGTGCCATTCTAAA-C
1 CGCACACATAGTGCCATTC-AAATC
* *
49933660 CGCACACATAGTG-CTTTGGAAATC
1 CGCACACATAGTGCCATT-CAAATC
* * ** * *
49933684 CACTCATTTATTGACATTCAAA-C
1 CGCACACATAGTGCCATTCAAATC
* * * * *
49933707 CAGCATACATAGTGCCAATCGATTT
1 C-GCACACATAGTGCCATTCAAATC
49933732 CGCACACATAGTGCCATTCAAATC
1 CGCACACATAGTGCCATTCAAATC
* *
49933756 CGCAGACTTAGTGCCA
1 CGCACACATAGTGCCA
49933772 ATGTTGGCTC
Statistics
Matches: 100, Mismatches: 30, Indels: 12
0.70 0.21 0.08
Matches are distributed among these distances:
23 8 0.08
24 85 0.85
25 7 0.07
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.25
Consensus pattern (24 bp):
CGCACACATAGTGCCATTCAAATC
Found at i:49944217 original size:50 final size:49
Alignment explanation
Indices: 49944154--49944443 Score: 339
Period size: 50 Copynumber: 5.9 Consensus size: 49
49944144 CAAAGCTATT
* * **
49944154 TGGTACGCATAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC
* * *
49944204 TGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAGTTAT-
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAATTATC
* * *
49944253 TGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATC
1 T-GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATC
* ** * * *
49944303 CGGTACATGTAGTAGCCTGAACTTAGTACTACACACGTGATCGAGTTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAATTATC
* * * * *
49944353 GGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCAATTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATC
*
49944402 TGGTACACTTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
49944444 TCACAGCAAA
Statistics
Matches: 198, Mismatches: 38, Indels: 9
0.81 0.16 0.04
Matches are distributed among these distances:
49 83 0.42
50 114 0.58
51 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (49 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATC
Found at i:49944338 original size:99 final size:99
Alignment explanation
Indices: 49944150--49944441 Score: 460
Period size: 99 Copynumber: 2.9 Consensus size: 99
49944140 TAGCCAAAGC
* * * * ** *
49944150 TATTTGGTACGCATAGTAGCTTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACGTA
1 TATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGGTACATGTA
49944215 GTAGCCTGCACTTAGTACTACACACGTGATCGAGT
65 GTAGCCTGCACTTAGTACTACACACGTGATCGAGT
*
49944250 TATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAG
1 TATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACATGTAG
*
49944315 TAGCCTGAACTTAGTACTACACACGTGATCGAGT
66 TAGCCTGCACTTAGTACTACACACGTGATCGAGT
* *
49944349 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACAAATGCGACCAATTATCTGGTACACT-TA
1 TATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACA-TGTA
49944413 GTAGCCTGCACTTAGTACTACACACGTGA
65 GTAGCCTGCACTTAGTACTACACACGTGA
49944442 CCTCACAGCA
Statistics
Matches: 178, Mismatches: 13, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
99 135 0.76
100 43 0.24
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (99 bp):
TATTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACATGTAG
TAGCCTGCACTTAGTACTACACACGTGATCGAGT
Found at i:49947378 original size:27 final size:27
Alignment explanation
Indices: 49947321--49947434 Score: 81
Period size: 27 Copynumber: 4.2 Consensus size: 27
49947311 TAGTTTACCA
* *
49947321 AATTACTAAAATACCCTCGACTTGTA-A-
1 AATTACCAAAGTACCCTCGA-TT-TACAG
49947348 AATTACCAAAGTACCC-CTGATTTACAG
1 AATTACCAAAGTACCCTC-GATTTACAG
****
49947375 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
*** * *
49947402 AATTACCATTTTACCCTCGATTTAAAA
1 AATTACCAAAGTACCCTCGATTTACAG
49947429 AATTAC
1 AATTAC
49947435 TGAAATACCC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
25 2 0.03
26 4 0.05
27 67 0.91
28 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:49947459 original size:27 final size:27
Alignment explanation
Indices: 49947429--49947678 Score: 329
Period size: 27 Copynumber: 9.3 Consensus size: 27
49947419 CGATTTAAAA
*
49947429 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
49947456 AATTACTGAAATATCCCTGTACGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
49947483 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49947510 AATTACCGAACTACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
49947537 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49947564 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
49947591 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
49947618 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
49947645 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
49947672 AATTACC
1 AATTACC
49947679 AGTTTTCCCC
Statistics
Matches: 196, Mismatches: 27, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 196 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:49947946 original size:27 final size:26
Alignment explanation
Indices: 49947875--49947990 Score: 151
Period size: 27 Copynumber: 4.3 Consensus size: 26
49947865 TGGAGGAAGC
49947875 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
49947902 GTTTCTGGTGGCTATGCCACAAATATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
*
49947930 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
49947956 GTATCTGGTGACTCTATCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
49947983 GTTCTGGT
1 GTTCTGGT
49947991 AGCCATGCTG
Statistics
Matches: 83, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
26 15 0.18
27 41 0.49
28 27 0.33
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:49948197 original size:12 final size:12
Alignment explanation
Indices: 49948180--49948219 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
49948170 TTTTGTCACT
49948180 TGATTCTAATTC
1 TGATTCTAATTC
* *
49948192 TGATTCTCATTT
1 TGATTCTAATTC
*
49948204 TGATTCTAGTTC
1 TGATTCTAATTC
49948216 TGAT
1 TGAT
49948220 AATGTTTCTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (12 bp):
TGATTCTAATTC
Found at i:49960972 original size:16 final size:16
Alignment explanation
Indices: 49960951--49960986 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
49960941 CCAAAATGCC
49960951 GAAATACCGAAAAGCT
1 GAAATACCGAAAAGCT
49960967 GAAATACCGAAAAGCT
1 GAAATACCGAAAAGCT
49960983 GAAA
1 GAAA
49960987 GTTTGGCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.17, G:0.19, T:0.11
Consensus pattern (16 bp):
GAAATACCGAAAAGCT
Found at i:49961245 original size:29 final size:28
Alignment explanation
Indices: 49961212--49961311 Score: 128
Period size: 29 Copynumber: 3.5 Consensus size: 28
49961202 AATTTGACTA
*
49961212 GGCCTAACGGGCCATATAAATGTGAGTTG
1 GGCCTAATGGGCCATATAAATGTGA-TTG
* *
49961241 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGA-TTG
* *
49961270 GGCCTAATGGGCCATATGAATATGATTG
1 GGCCTAATGGGCCATATAAATGTGATTG
*
49961298 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
49961312 GATACTGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 16 0.26
29 46 0.74
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAAATGTGATTG
Found at i:49971226 original size:12 final size:12
Alignment explanation
Indices: 49971209--49971243 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
49971199 TTTTCAAAAT
49971209 TTTTATTTTTAG
1 TTTTATTTTTAG
49971221 TTTTATTTTTAG
1 TTTTATTTTTAG
49971233 TTTTCATTTTT
1 TTTT-ATTTTT
49971244 TTTGGCCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (12 bp):
TTTTATTTTTAG
Found at i:49975945 original size:43 final size:42
Alignment explanation
Indices: 49975859--49975978 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
49975849 ATCAATTTGA
* * *
49975859 GATTTACGTGTAAGAGCACGTCTAGGACA-TCAGCATCG-TATTT
1 GATTT-CGTGTAAGA-CCCGTCTGGGACAGT-AGCATTGATATTT
49975902 GATTTCGTGTAAGACCCTGTCTGGGACAGTAGCATTGATATTT
1 GATTTCGTGTAAGACCC-GTCTGGGACAGTAGCATTGATATTT
* * *
49975945 GATTACATGTAAGACCACGTCTGGGACATTAGCA
1 GATTTCGTGTAAGACC-CGTCTGGGACAGTAGCA
49975979 CTGTACGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
41 2 0.03
42 24 0.36
43 40 0.60
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (42 bp):
GATTTCGTGTAAGACCCGTCTGGGACAGTAGCATTGATATTT
Found at i:49977424 original size:12 final size:12
Alignment explanation
Indices: 49977409--49977443 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
49977399 GAGGAATTGT
*
49977409 AGGAGGGATTTG
1 AGGAGAGATTTG
*
49977421 AGGAGAGATATG
1 AGGAGAGATTTG
49977433 AGGAGAGATTT
1 AGGAGAGATTT
49977444 TACGAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.43, T:0.23
Consensus pattern (12 bp):
AGGAGAGATTTG
Found at i:49978899 original size:27 final size:27
Alignment explanation
Indices: 49978820--49978893 Score: 139
Period size: 27 Copynumber: 2.7 Consensus size: 27
49978810 CCTTATGTGA
49978820 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
49978847 TAAAATGATCGAAATACCCCCATAGGG
1 TAAAATGATCGAAATACCCCCATAGGG
*
49978874 TAGAATGATCGAAATACCCC
1 TAAAATGATCGAAATACCCC
49978894 TGTAGGATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.19
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCCCATAGGG
Found at i:49982537 original size:26 final size:26
Alignment explanation
Indices: 49982507--49982613 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
49982497 TGAAATTCCC
49982507 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49982533 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
49982559 ATCATGAAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
*
49982584 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
49982610 ATCA
1 ATCA
49982614 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49982599 original size:51 final size:52
Alignment explanation
Indices: 49982507--49982613 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
49982497 TGAAATTCCC
* *
49982507 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAAACCATT
49982559 ATCATGAAACATTTACCTAA-CCATTATCATGGAACATTTACCTAAACCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAAACCATT
49982610 ATCA
1 ATCA
49982614 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 34 0.64
52 19 0.36
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAAACCATT
Found at i:49983088 original size:43 final size:43
Alignment explanation
Indices: 49982976--49983098 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
49982966 CGCATTGTAT
* **
49982976 TGTGATTACGTGTAAGACCATGTCTGAGAAATTGGCATCGTTA
1 TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGCATCAATA
* * *
49983019 TATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCAATA
1 TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGCATCAATA
* * * *
49983062 TGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGCAT
49983099 TGTATGAGCT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 6 0.09
43 62 0.91
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACGTGTAAGACCATGTCTGGGAAATTGGCATCAATA
Found at i:49986664 original size:46 final size:44
Alignment explanation
Indices: 49986611--49986732 Score: 167
Period size: 45 Copynumber: 2.7 Consensus size: 44
49986601 ACTGTGAGCT
*
49986611 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTAAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGACGT-A-TC
*
49986657 AGTGTAAGACATG-CTGGGACATGCACCAGCTACGAGACGTATC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGTATC
49986700 AGTGTAAGACCATGTCTGGGACATGGCATCAGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC
49986733 ACAGATATGC
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
43 11 0.16
44 7 0.10
45 31 0.45
46 20 0.29
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGTATC
Found at i:49993838 original size:46 final size:44
Alignment explanation
Indices: 49993661--49993869 Score: 188
Period size: 46 Copynumber: 4.5 Consensus size: 44
49993651 ATTGTGAGCT
* * *
49993661 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTGTGA-GAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTC---GAGACGTGTC
* * ** *
49993707 AGTGTAAGACCATGTCTGGGACATGGCATCAGCATTAAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTGT-C
* *
49993754 TAGTGTAAGACATGTCTCGGACATGCATCGGCCTCGAGATGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGT--GTC
* *
49993801 AGTGTAAGACAAGTCTGGGACATGCATTGG-CTACGAGACGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTGTC
*
49993845 AGTATAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
49993870 GTATCAGCAC
Statistics
Matches: 135, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 11 0.08
45 18 0.13
46 58 0.43
47 29 0.21
48 19 0.14
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTGTC
Found at i:49998131 original size:43 final size:44
Alignment explanation
Indices: 49998049--49998134 Score: 106
Period size: 43 Copynumber: 1.9 Consensus size: 44
49998039 GACACTCGGA
49998049 TAATCACATATCGTAAATGCCAACGTCCCAGACGTGGTCTTACATG
1 TAATCACATATCG--AATGCCAACGTCCCAGACGTGGTCTTACATG
*
49998095 TAATCACATATCG-ATGCC-ACTGTCCCTGACAG-GGTCTTAC
1 TAATCACATATCGAATGCCAAC-GTCCCAGAC-GTGGTCTTAC
49998135 TCGCACACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
42 2 0.05
43 21 0.57
44 1 0.03
46 13 0.35
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (44 bp):
TAATCACATATCGAATGCCAACGTCCCAGACGTGGTCTTACATG
Found at i:49999658 original size:24 final size:23
Alignment explanation
Indices: 49999614--49999658 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
49999604 GGATAGCAAA
* **
49999614 TATCGGGAAGTTCAAGCGAGCAC
1 TATCGGGAAGCTCAAAAGAGCAC
49999637 TATCGGGAAGCTCACAAAGAGC
1 TATCGGGAAGCTCA-AAAGAGC
49999659 CAATTTAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 13 0.72
24 5 0.28
ACGTcount: A:0.33, C:0.22, G:0.29, T:0.16
Consensus pattern (23 bp):
TATCGGGAAGCTCAAAAGAGCAC
Found at i:50003974 original size:5 final size:5
Alignment explanation
Indices: 50003964--50003990 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
50003954 CTTTGGACGC
50003964 TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TT
50003991 CATGGTGACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:50012706 original size:25 final size:25
Alignment explanation
Indices: 50012672--50012721 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
50012662 AGGTATTATT
50012672 TTGAGTTAGAATTCACAAGTTTAAA
1 TTGAGTTAGAATTCACAAGTTTAAA
50012697 TTGAGTTAGAATTCACAAGTTTAAA
1 TTGAGTTAGAATTCACAAGTTTAAA
50012722 CATAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (25 bp):
TTGAGTTAGAATTCACAAGTTTAAA
Found at i:50013153 original size:23 final size:23
Alignment explanation
Indices: 50013127--50013174 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
50013117 TAAAAAAAAC
50013127 ATGTGTACTTATTAGTAGTAGTA
1 ATGTGTACTTATTAGTAGTAGTA
50013150 ATGTGTACTTATTAGTAGTAGTA
1 ATGTGTACTTATTAGTAGTAGTA
50013173 AT
1 AT
50013175 CTTCTAAGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.21, T:0.44
Consensus pattern (23 bp):
ATGTGTACTTATTAGTAGTAGTA
Found at i:50014091 original size:13 final size:13
Alignment explanation
Indices: 50014073--50014099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50014063 GAAGTAATCG
50014073 CACACGGGCATGT
1 CACACGGGCATGT
50014086 CACACGGGCATGT
1 CACACGGGCATGT
50014099 C
1 C
50014100 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.33, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGGCATGT
Found at i:50022277 original size:27 final size:27
Alignment explanation
Indices: 50022152--50022281 Score: 100
Period size: 27 Copynumber: 4.8 Consensus size: 27
50022142 CCTTAATTGA
* ** *
50022152 TAAAATGACAGTTTTGCCCCTATGTGC
1 TAAAATGACTGTTTTGCCCCTACATGG
* *
50022179 TAAAATGATTGTTTTGCCCTTACGA-GG
1 TAAAATGACTGTTTTGCCCCTAC-ATGG
** * * * *
50022206 TAAAATGTTTGTTCTACCCTTATATGG
1 TAAAATGACTGTTTTGCCCCTACATGG
***
50022233 TAAAATGACTGAAATGCCCCTACATGG
1 TAAAATGACTGTTTTGCCCCTACATGG
*
50022260 TAAATTGACTGTTTTGCCCCTA
1 TAAAATGACTGTTTTGCCCCTA
50022282 TGTGAGGTAT
Statistics
Matches: 79, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
26 1 0.01
27 78 0.99
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCCTACATGG
Found at i:50022648 original size:18 final size:18
Alignment explanation
Indices: 50022625--50022672 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
50022615 TACTATTTAA
50022625 ACTGTTACTGCACTGATT
1 ACTGTTACTGCACTGATT
* * *
50022643 ACTGTTACTACTCTGTTT
1 ACTGTTACTGCACTGATT
*
50022661 ACTGTTAATGCA
1 ACTGTTACTGCA
50022673 ATGGGCCAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.42
Consensus pattern (18 bp):
ACTGTTACTGCACTGATT
Found at i:50031686 original size:47 final size:47
Alignment explanation
Indices: 50031614--50031880 Score: 203
Period size: 47 Copynumber: 5.6 Consensus size: 47
50031604 TTTGTGCGCT
* *
50031614 AGTGTAAGA-CATGTCTGGGATAT-GCATCGACCACATTATGACAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-CCACATTATGAGAGCC
* * *
50031660 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTACA--A-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTATGA-GAGCC
** * ** *
50031705 AGTGTAAGACCATGTCAAGGACATGGCATCGGCATGGTTAAGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCA-CATT-A-TGAGAGCC
* * * **
50031755 AGTGTAAGACCATG-CTTGGGACATGGCATCGGCCTCAATTTTGATATTC
1 AGTGTAAGACCATGTC-TGGGACATGGCATC-GCCAC-ATTATGAGAGCC
50031804 AGTGTAAGACCATGTCTGGGACATGGCATCG--A-ATTAATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCACATT-AT-GA-GAGCC
*
50031851 AGTGTAAGACTATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
50031881 AGCATTACAC
Statistics
Matches: 173, Mismatches: 31, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
44 5 0.03
45 28 0.16
46 16 0.09
47 53 0.31
48 2 0.01
49 34 0.20
50 29 0.17
51 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCACATTATGAGAGCC
Found at i:50031879 original size:96 final size:95
Alignment explanation
Indices: 50031656--50031880 Score: 259
Period size: 96 Copynumber: 2.4 Consensus size: 95
50031646 ACATTATGAC
*
50031656 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTACAAGATGTGTCAGTGTAAGACCATGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATATGTCAGTGTAAGACCATGT
*
50031720 CAAGGACATGGCATCGGCATGGTTAAGTGAG
66 CAAGGACATGGCATCGGCA-GATTAAGTGAG
*
50031751 AGCTAGTGTAAGACCATG-CTTGGGACATGGCATCGGCCT-CAATTTTGATAT-TCAGTGTAAGA
1 AGCCAGTGTAAGACCATGTC-TGGGACATGGCATCGG-CTACAA----GATATGTCAGTGTAAGA
**
50031813 CCATGTCTGGGACATGGCATC-G-A-ATTAA-TGGATG
60 CCATGTCAAGGACATGGCATCGGCAGATTAAGT-GA-G
*
50031847 AGCCAGTGTAAGACTATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
50031881 AGCATTACAC
Statistics
Matches: 113, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
94 2 0.02
95 31 0.27
96 41 0.36
97 4 0.04
98 1 0.01
99 30 0.27
100 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTACAAGATATGTCAGTGTAAGACCATGT
CAAGGACATGGCATCGGCAGATTAAGTGAG
Found at i:50033926 original size:41 final size:41
Alignment explanation
Indices: 50033869--50033952 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
50033859 CTTTCTATCA
50033869 TTCTTGTACTACCTTCTCTAAATTATTAATGAAACTAACAT
1 TTCTTGTACTACCTTCTCTAAATTATTAATGAAACTAACAT
*
50033910 TTCTTGTATTACCTTCTCTAAATTATTAATGAAACTAACAT
1 TTCTTGTACTACCTTCTCTAAATTATTAATGAAACTAACAT
50033951 TT
1 TT
50033953 TGTTCCCTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.44
Consensus pattern (41 bp):
TTCTTGTACTACCTTCTCTAAATTATTAATGAAACTAACAT
Found at i:50035894 original size:25 final size:25
Alignment explanation
Indices: 50035845--50035913 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 25
50035835 TCCAAACTAT
* *
50035845 ATAAT-GAGAAGCTCA-TAAGAGCC
1 ATAATCGAGAAGCTCACAAAGAACC
*
50035868 ATAATCGAGAAGTTCACAAAGAACC
1 ATAATCGAGAAGCTCACAAAGAACC
50035893 AT-ATCCGA-AAGCTCACAAAGA
1 ATAAT-CGAGAAGCTCACAAAGA
50035914 GCAATGTAAC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 5 0.13
24 23 0.59
25 11 0.28
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.16
Consensus pattern (25 bp):
ATAATCGAGAAGCTCACAAAGAACC
Found at i:50037716 original size:43 final size:41
Alignment explanation
Indices: 50037626--50037748 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 41
50037616 TTAGGGTTAT
*
50037626 TTGAG-TTTACGTGTAAGACCATATCTAGGATATGGCATCGA
1 TTGAGATTT-CGTGTAAGACCATATCTGGGATATGGCATCGA
* * *
50037667 TATGAGATTTCGTGTAAGACTATAGCTGGGCTATTGGCATCGAA
1 T-TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCG-A
** *
50037711 TTGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TTGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
50037749 TGGTATGGTA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.43
43 36 0.53
44 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (41 bp):
TTGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGA
Found at i:50046389 original size:47 final size:45
Alignment explanation
Indices: 50046236--50046460 Score: 163
Period size: 47 Copynumber: 4.9 Consensus size: 45
50046226 CATATATACG
* * *
50046236 TGCTGATACATGTCCC-GAACATGTCTTACACTAGCATA-A-CTCT
1 TGCTGATGCATGTCCCAG-ACATGTCTTACACTGGCACACATCTCT
* * * *
50046279 TAG-TCGATGCATGTCCTAGACACGTCTTACACTGGCTA-TCATCGTCGA
1 T-GCT-GATGCATGTCCCAGACATGTCTTACACTGGC-ACACATC-TC-T
* *
50046327 GGCTGATGCAAGTCCCAGACATGTCTTACACTGGCACACATCTCT
1 TGCTGATGCATGTCCCAGACATGTCTTACACTGGCACACATCTCT
* * * * *
50046372 ATGCTGATGCCATGTCCCAGACTTGGTCTTACATTGGCACTCATAATGT
1 -TGCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCACACAT-CTCT
* ** *
50046421 GGCCAATGCATGTCCCAAACATGTCTTACACTGGCACACA
1 TGCTGATGCATGTCCCAGACATGTCTTACACTGGCACACA
50046461 AGAAGTCTAA
Statistics
Matches: 142, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 26 0.18
45 3 0.02
46 27 0.19
47 59 0.42
48 23 0.16
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (45 bp):
TGCTGATGCATGTCCCAGACATGTCTTACACTGGCACACATCTCT
Found at i:50046831 original size:30 final size:30
Alignment explanation
Indices: 50046797--50046853 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
50046787 AATTCACATA
50046797 TTTGGCAAAATGACCATTTTACCCCTAGAC
1 TTTGGCAAAATGACCATTTTACCCCTAGAC
50046827 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
50046854 TGCTCGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAC
Found at i:50048418 original size:47 final size:48
Alignment explanation
Indices: 50048204--50048424 Score: 174
Period size: 47 Copynumber: 4.6 Consensus size: 48
50048194 TTTGTGTGCT
* *
50048204 AGTGTAAGA-CATGTCTAGGACAT-GCATCAGCAACATT-ATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GGAAC-TTGATGATGAGCC
* * * *
50048250 AGTGTAAGACCATGTCTGGGACATCGCATCGGTA-TTGA-GACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGAACTTGATGA--TGAGCC
* ** * * *
50048298 AGTATAAGACCATGTCTGGGACATGGTGTCGG-CCTTAATCGCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGAACTTGAT---GATGAGCC
*
50048347 AGTGTAAGACCATGTCTGGAACATGGCATC-G-ACTTGATGTATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGAACTTGATG-ATGAGCC
*
50048394 AGTGTAAGATCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
50048425 TCATCCTACC
Statistics
Matches: 139, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
45 5 0.04
46 12 0.09
47 46 0.33
48 46 0.33
49 28 0.20
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGAACTTGATGATGAGCC
Found at i:50055453 original size:14 final size:14
Alignment explanation
Indices: 50055434--50055474 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
50055424 TTTCAAACTC
50055434 TTTTTATTTTTATT
1 TTTTTATTTTTATT
*
50055448 TTTTTACTTTTATT
1 TTTTTATTTTTATT
50055462 TCTATTTATTTTT
1 T-T-TTTATTTTT
50055475 GAAAACTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 14 0.61
15 1 0.04
16 8 0.35
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTTTATT
Found at i:50055460 original size:20 final size:21
Alignment explanation
Indices: 50055435--50055473 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
50055425 TTCAAACTCT
*
50055435 TTTTATTTTTATTT-TTTTAC
1 TTTTATTTCTATTTATTTTAC
50055455 TTTTATTTCTATTTATTTT
1 TTTTATTTCTATTTATTTT
50055474 TGAAAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTCTATTTATTTTAC
Found at i:50059782 original size:7 final size:7
Alignment explanation
Indices: 50059770--50059804 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
50059760 GCCGAAGCCT
50059770 TTTCATA
1 TTTCATA
50059777 TTTCATA
1 TTTCATA
50059784 TTTCATA
1 TTTCATA
50059791 TTTCATA
1 TTTCATA
50059798 TTTCATA
1 TTTCATA
50059805 ACACTGGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:50060087 original size:25 final size:25
Alignment explanation
Indices: 50060053--50060114 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
50060043 ATAATTGGGT
*
50060053 CAAAGCCCTTTT-GATAAACTGGGG
1 CAAAGCCCTTTTCGATAAACTGAGG
*
50060077 CAAAAGCCCTTTTCGGTAAACTGAGG
1 C-AAAGCCCTTTTCGATAAACTGAGG
*
50060103 CATAGCCCTTTT
1 CAAAGCCCTTTT
50060115 TTCACTTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 21 0.64
26 11 0.33
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (25 bp):
CAAAGCCCTTTTCGATAAACTGAGG
Found at i:50060185 original size:20 final size:20
Alignment explanation
Indices: 50060162--50060228 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
50060152 TTATGAATAC
50060162 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50060182 ATCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
50060202 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
50060222 ATCATGT
1 ATCATGT
50060229 ATATCAAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:50060191 original size:40 final size:39
Alignment explanation
Indices: 50060147--50060226 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 39
50060137 TCCCAACCTA
50060147 ATGCATTATGAATAC-ATCATGTGCATATCATA-CATATCAT
1 ATGCA-TAT-AATACAATCATGTGCATATCATATCA-ATCAT
*
50060187 ATGCATATCATACATATCATGTGCATATCATATCAATCAT
1 ATGCATATAATACA-ATCATGTGCATATCATATCAATCAT
50060227 GTATATCAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
38 4 0.11
39 3 0.08
40 27 0.75
41 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (39 bp):
ATGCATATAATACAATCATGTGCATATCATATCAATCAT
Found at i:50060193 original size:11 final size:11
Alignment explanation
Indices: 50060162--50060219 Score: 70
Period size: 11 Copynumber: 5.6 Consensus size: 11
50060152 TTATGAATAC
*
50060162 ATCATGTGCAT
1 ATCATATGCAT
50060173 ATCATA--CAT
1 ATCATATGCAT
50060182 ATCATATGCAT
1 ATCATATGCAT
50060193 ATCATA--CAT
1 ATCATATGCAT
*
50060202 ATCATGTGCAT
1 ATCATATGCAT
50060213 ATCATAT
1 ATCATAT
50060220 CAATCATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 17 0.43
11 23 0.57
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:50060225 original size:9 final size:10
Alignment explanation
Indices: 50060170--50060226 Score: 66
Period size: 9 Copynumber: 5.8 Consensus size: 10
50060160 ACATCATGTG
50060170 CATATCATA-
1 CATATCATAT
50060179 CATATCATAT
1 CATATCATAT
50060189 GCATATCATA-
1 -CATATCATAT
*
50060199 CATATCATGT
1 CATATCATAT
50060209 GCATATCATAT
1 -CATATCATAT
50060220 CA-ATCAT
1 CATATCAT
50060227 GTATATCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
9 22 0.52
10 2 0.05
11 18 0.43
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (10 bp):
CATATCATAT
Found at i:50067835 original size:7 final size:7
Alignment explanation
Indices: 50067823--50067857 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
50067813 GCCGAAGCCT
50067823 TTTCATA
1 TTTCATA
50067830 TTTCATA
1 TTTCATA
50067837 TTTCATA
1 TTTCATA
50067844 TTTCATA
1 TTTCATA
50067851 TTTCATA
1 TTTCATA
50067858 ACACTGGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:50068174 original size:26 final size:25
Alignment explanation
Indices: 50068085--50068182 Score: 119
Period size: 25 Copynumber: 3.9 Consensus size: 25
50068075 CTGGAGGCCT
*
50068085 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
50068109 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* * *
50068134 AGCCTTTTTAATAAACTAGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
50068159 AGCCCTTTTCGGTAAACTGGGGCA
1 AGCCCTTTT-GATAAACTGGGGCA
50068183 TAGCCTTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
23 7 0.11
24 13 0.21
25 32 0.51
26 11 0.17
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:50068263 original size:20 final size:20
Alignment explanation
Indices: 50068240--50068326 Score: 149
Period size: 20 Copynumber: 4.3 Consensus size: 20
50068230 TTATGAATAC
*
50068240 ATCATGTGCATATCACACAT
1 ATCATGTGCATATCATACAT
50068260 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
50068280 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
50068300 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
50068320 ATCATGT
1 ATCATGT
50068327 ATATCAAATA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:50068270 original size:40 final size:40
Alignment explanation
Indices: 50068226--50068326 Score: 127
Period size: 40 Copynumber: 2.5 Consensus size: 40
50068216 CCCAACCCAA
50068226 TGCATTATGAATAC-ATCATGTGCATATCACACATATCATG
1 TGCATTAT-AATACAATCATGTGCATATCACACATATCATG
* *
50068266 TGCA-TATCATACATATCATGTGCATATCATACATATCATG
1 TGCATTATAATACA-ATCATGTGCATATCACACATATCATG
*
50068306 TGCA-TATCATATCAATCATGT
1 TGCATTATAATA-CAATCATGT
50068327 ATATCAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
38 4 0.07
39 3 0.05
40 47 0.84
41 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (40 bp):
TGCATTATAATACAATCATGTGCATATCACACATATCATG
Found at i:50068271 original size:11 final size:11
Alignment explanation
Indices: 50068240--50068315 Score: 74
Period size: 11 Copynumber: 7.5 Consensus size: 11
50068230 TTATGAATAC
50068240 ATCATGTGCAT
1 ATCATGTGCAT
**
50068251 ATCA--CACAT
1 ATCATGTGCAT
50068260 ATCATGTGCAT
1 ATCATGTGCAT
*
50068271 ATCA--TACAT
1 ATCATGTGCAT
50068280 ATCATGTGCAT
1 ATCATGTGCAT
*
50068291 ATCA--TACAT
1 ATCATGTGCAT
50068300 ATCATGTGCAT
1 ATCATGTGCAT
50068311 ATCAT
1 ATCAT
50068316 ATCAATCATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 23 0.45
11 28 0.55
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:50068280 original size:9 final size:9
Alignment explanation
Indices: 50068248--50068304 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
50068238 ACATCATGTG
*
50068248 CATATCACA
1 CATATCATA
*
50068257 CATATCATGTG
1 CATATCA--TA
50068268 CATATCATA
1 CATATCATA
*
50068277 CATATCATGTG
1 CATATCA--TA
50068288 CATATCATA
1 CATATCATA
50068297 CATATCAT
1 CATATCAT
50068305 GTGCATATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 24 0.62
11 15 0.38
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (9 bp):
CATATCATA
Found at i:50075937 original size:27 final size:27
Alignment explanation
Indices: 50075906--50076083 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
50075896 ATATTGAGTC
* *
50075906 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
50075933 TGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
50075960 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
50075988 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
50076015 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
50076042 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
50076069 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50076084 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:50078478 original size:62 final size:62
Alignment explanation
Indices: 50078381--50078509 Score: 240
Period size: 62 Copynumber: 2.1 Consensus size: 62
50078371 CACATCATTA
*
50078381 TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGATTCTCTGATGGATATCTCAT
1 TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGATTCTCTAATGGATATCTCAT
*
50078443 TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGGTTCTCTAATGGATATCTCAT
1 TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGATTCTCTAATGGATATCTCAT
50078505 TTCCC
1 TTCCC
50078510 GTCAATTCAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (62 bp):
TTCCCAATTTACATCTGATGTTAGTCCCATTGAATTTCTCGATTCTCTAATGGATATCTCAT
Found at i:50078480 original size:35 final size:35
Alignment explanation
Indices: 50078381--50078480 Score: 92
Period size: 35 Copynumber: 3.1 Consensus size: 35
50078371 CACATCATTA
50078381 TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
1 TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
* * * *
50078416 TTCTCGA-TT-C-TCTGATG-GA-T---ATCT-CAT
1 TTCCCAATTTACATCTGATGTTAGTCCCAT-TGAAT
50078443 TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
1 TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
50078478 TTC
1 TTC
50078481 TCGGTTCTCT
Statistics
Matches: 47, Mismatches: 8, Indels: 20
0.63 0.11 0.27
Matches are distributed among these distances:
27 9 0.19
28 3 0.06
29 1 0.02
30 8 0.17
31 2 0.04
32 8 0.17
33 1 0.02
34 3 0.06
35 12 0.26
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (35 bp):
TTCCCAATTTACATCTGATGTTAGTCCCATTGAAT
Found at i:50084016 original size:48 final size:48
Alignment explanation
Indices: 50083954--50084524 Score: 907
Period size: 48 Copynumber: 11.9 Consensus size: 48
50083944 TATATATGTG
*
50083954 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
50084002 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
*
50084050 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
50084098 TGTGGTAACGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
50084146 TGTGGTAAAGCCGAATGGCTAATATGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
* *
50084194 TGTGGTAAAGCCGAATGGCTAATATGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
50084242 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATG--TATA
* *
50084292 TATGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* * *
50084340 TGTGGTAAAGCCGAATGGGTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
50084388 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATAT-ATATGAGATATGTATA
*
50084436 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
* *
50084484 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGAT
50084525 GTGTGTATAT
Statistics
Matches: 494, Mismatches: 23, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
48 449 0.91
50 45 0.09
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.30
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATGTATA
Found at i:50084715 original size:37 final size:37
Alignment explanation
Indices: 50084665--50084836 Score: 317
Period size: 37 Copynumber: 4.6 Consensus size: 37
50084655 GGAAATATAT
50084665 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
50084702 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
50084739 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
50084776 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
50084813 TCCGGGTAAGACCCGATAACTACG
1 TCCGGGTAAGACCCGATGACTACG
50084837 CGCGGGGACT
Statistics
Matches: 131, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 131 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:50095176 original size:20 final size:22
Alignment explanation
Indices: 50095107--50095178 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
50095097 TGGAGGCAAT
50095107 GCACACGCTCGTGTGCATATGG
1 GCACACGCTCGTGTGCATATGG
50095129 GCACACGCTCGTGTGCATATGG
1 GCACACGCTCGTGTGCATATGG
* *
50095151 GCACACGCTTGTGTGTAT-TGG
1 GCACACGCTCGTGTGCATATGG
50095172 GACACAC
1 G-CACAC
50095179 CCGTGTCCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.09
22 43 0.91
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (22 bp):
GCACACGCTCGTGTGCATATGG
Found at i:50101351 original size:23 final size:24
Alignment explanation
Indices: 50101194--50101344 Score: 105
Period size: 24 Copynumber: 6.3 Consensus size: 24
50101184 CTTGTAACGA
* *
50101194 GAAGCTCACACAGAGCCATTTCGG
1 GAAGCTCACAAAGAGCCATATCGG
* *
50101218 GAAGCTCACAAAGAG-CTTATCGA
1 GAAGCTCACAAAGAGCCATATCGG
* * * *
50101241 GAAGCTTATC--TGGGCTATATAACGG
1 GAAGCTCA-CAAAGAGCCATAT--CGG
*
50101266 GAAGCTCA-TAAGAGCCATAATCGG
1 GAAGCTCACAAAGAGCCAT-ATCGG
* * *
50101290 GAAGTTCACAAAGAACCATATCGA
1 GAAGCTCACAAAGAGCCATATCGG
* *
50101314 GAAACTCACAAAGAGCC-TATTGG
1 GAAGCTCACAAAGAGCCATATCGG
50101337 GAAGCTCA
1 GAAGCTCA
50101345 ATAAGAGTCA
Statistics
Matches: 95, Mismatches: 24, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
22 2 0.02
23 26 0.27
24 43 0.45
25 22 0.23
26 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (24 bp):
GAAGCTCACAAAGAGCCATATCGG
Found at i:50104009 original size:412 final size:410
Alignment explanation
Indices: 50103213--50104040 Score: 1595
Period size: 412 Copynumber: 2.0 Consensus size: 410
50103203 TCTAAAAGAA
*
50103213 ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACT
1 ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACC
50103278 CGCCAGACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
66 CGCCAGACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
50103343 ATTTTATCTATGGTATTCATTACATCTTCCTTCTTGAAAATTCAATTACTATTAGTAATCAAGTC
131 ATTTTATCTATGGTATTCATTACATCTTCCTTCTTGAAAATTCAATTACTATTAGTAATCAAGTC
50103408 ATCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATCTGTAATGCCAATGAG
196 ATCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATCTGTAATGCCAATGAG
*
50103473 AGGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTGTA
261 AGGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTATA
50103538 GAAGTCGTATATCCAATGCACCAACTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCTAC
326 GAAGTCGTATATCCAATGCACCAACTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCTAC
50103603 ATCAAACTATACGAGTCATG
391 ATCAAACTATACGAGTCATG
50103623 ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACC
1 ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACC
50103688 CGCCAGACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
66 CGCCAGACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
*
50103753 ATTTTATCTCATGGTATTCATTACATCTTTCTTCTTGAAAATTCAATTACTATTAGTAATCAAGT
131 ATTTTATCT-ATGGTATTCATTACATCTTCCTTCTTGAAAATTCAATTACTATTAGTAATCAAGT
50103818 CATCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATCATGTAATGCCAATG
195 CATCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATC-TGTAATGCCAATG
50103883 AGAGGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTA
259 AGAGGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTA
*
50103948 TAGAAGTCGTATATCCAATGCACCAGCTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCT
324 TAGAAGTCGTATATCCAATGCACCAACTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCT
50104013 ACATCAAACTATACGAGTCATG
389 ACATCAAACTATACGAGTCATG
50104035 -CATACA
1 ACATACA
50104041 TAGTTCACCA
Statistics
Matches: 412, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
410 138 0.33
411 111 0.27
412 163 0.40
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.35
Consensus pattern (410 bp):
ACATACAGGTGGATTACACTTTGCCAAATAGATTATTTTACTAGAATACGCCTAAATTTCAAACC
CGCCAGACTTGGGATGTGACATCCTTAATCTCTTTGGGATAAATTCGTTTTCCCAATATGATCCT
ATTTTATCTATGGTATTCATTACATCTTCCTTCTTGAAAATTCAATTACTATTAGTAATCAAGTC
ATCTATCACAAAGGCAAACAACTCGTGGTCACGTTTACTTTCCATCTATCTGTAATGCCAATGAG
AGGATATCATTTACCCATTAGCTGGGCTATGAATTTCACTATTGTGAATGATGTTACATATTATA
GAAGTCGTATATCCAATGCACCAACTTTCGATTCCTTATCTATTTTAAGTCAAGCTTTTACCTAC
ATCAAACTATACGAGTCATG
Found at i:50115364 original size:21 final size:21
Alignment explanation
Indices: 50115331--50115370 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50115321 TAAATAATGA
*
50115331 TTTAAAAACATAGATATTATC
1 TTTAAAAACATAGAAATTATC
* *
50115352 TTTAAAGATATAGAAATTA
1 TTTAAAAACATAGAAATTA
50115371 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTAAAAACATAGAAATTATC
Found at i:50123042 original size:8 final size:8
Alignment explanation
Indices: 50123029--50123058 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
50123019 ATATGTTTCA
50123029 AATGAAGG
1 AATGAAGG
50123037 AATGAAGG
1 AATGAAGG
50123045 AATGAATGG
1 AATGAA-GG
50123054 AATGA
1 AATGA
50123059 GATGGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (8 bp):
AATGAAGG
Found at i:50123231 original size:45 final size:45
Alignment explanation
Indices: 50123120--50123293 Score: 170
Period size: 45 Copynumber: 3.9 Consensus size: 45
50123110 ATGCCTAAAG
* ** *
50123120 ATGAGTAATACCATAGCTAAAAGATGTTATGACATCACCA-AACTG
1 ATGAGTAAGACCATAGCTAAAAGATGTTATGACATCATGATAAC-A
* * * * *
50123165 ATGTGTAAGACCACAGTTGAAAGATGTTATGGCATCATGATAACA
1 ATGAGTAAGACCATAGCTAAAAGATGTTATGACATCATGATAACA
* * * * ** * *
50123210 ATGAGTAAAACCATGGCTGAAAGATGCTATGGTATCATGGTAATA
1 ATGAGTAAGACCATAGCTAAAAGATGTTATGACATCATGATAACA
*
50123255 ATGAGTAAGACCATAGCTAAAAGACGTTATGACATCATG
1 ATGAGTAAGACCATAGCTAAAAGATGTTATGACATCATG
50123294 TGAAAGCATA
Statistics
Matches: 103, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
45 100 0.97
46 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTAAAAGATGTTATGACATCATGATAACA
Found at i:50128045 original size:20 final size:20
Alignment explanation
Indices: 50128020--50128073 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
50128010 TTTAAGAGAC
50128020 ACACACCCGTGTGGCTTGGA
1 ACACACCCGTGTGGCTTGGA
50128040 ACACACCCGTGTGGCTTGGA
1 ACACACCCGTGTGGCTTGGA
* *
50128060 ACACGCCCGCGTGG
1 ACACACCCGTGTGG
50128074 GAAGGCCGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.33, G:0.31, T:0.17
Consensus pattern (20 bp):
ACACACCCGTGTGGCTTGGA
Found at i:50130517 original size:19 final size:19
Alignment explanation
Indices: 50130490--50130529 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50130480 TGAAAATGTG
*
50130490 TAAGTTATGCCTATAAATT
1 TAAGCTATGCCTATAAATT
*
50130509 TAAGCTATGCCTATGAATT
1 TAAGCTATGCCTATAAATT
50130528 TA
1 TA
50130530 TGATGACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (19 bp):
TAAGCTATGCCTATAAATT
Found at i:50138275 original size:42 final size:42
Alignment explanation
Indices: 50138228--50138309 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
50138218 ACTTATACAG
*
50138228 AATCTCAT-ATCGATGCCATATCACAGATATGATCTTACACGA
1 AATCTCATAAT-GATGCCATATCACAAATATGATCTTACACGA
* *
50138270 AATCTCATAATGATGCCATATCCCAAATATGGTCTTACAC
1 AATCTCATAATGATGCCATATCACAAATATGATCTTACAC
50138310 ATAGTCTCGG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.29
Consensus pattern (42 bp):
AATCTCATAATGATGCCATATCACAAATATGATCTTACACGA
Found at i:50140411 original size:31 final size:31
Alignment explanation
Indices: 50140370--50140433 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50140360 CCTTTTCATA
*
50140370 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
50140401 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
50140432 TT
1 TT
50140434 AATGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:50140673 original size:24 final size:24
Alignment explanation
Indices: 50140646--50140769 Score: 196
Period size: 24 Copynumber: 5.2 Consensus size: 24
50140636 GGCCTTGCCT
*
50140646 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
50140670 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
50140694 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
50140717 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
50140741 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
50140765 CTTTT
1 CTTTT
50140770 TCACTTCCTC
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
23 21 0.23
24 72 0.77
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:50140702 original size:47 final size:48
Alignment explanation
Indices: 50140646--50140770 Score: 207
Period size: 47 Copynumber: 2.6 Consensus size: 48
50140636 GGCCTTGCCT
*
50140646 CTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCC
* *
50140694 C-TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCC
*
50140741 CTTTTGATAACTGGGGCATAAGCCCTTTTT
1 CTTTTAATAACTGGGGCATAAGCCCTTTTT
50140771 CACTTCCTCC
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
47 44 0.63
48 26 0.37
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCC
Found at i:50140844 original size:20 final size:20
Alignment explanation
Indices: 50140819--50140885 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
50140809 TTATGGATAC
50140819 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
50140839 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50140859 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
50140879 ACCATGT
1 ATCATGT
50140886 TTACCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:50140850 original size:11 final size:11
Alignment explanation
Indices: 50140819--50140874 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
50140809 TTATGGATAC
50140819 ATCATGTGCAT
1 ATCATGTGCAT
*
50140830 ATCA--TACAT
1 ATCATGTGCAT
50140839 ATCATGTGCAT
1 ATCATGTGCAT
*
50140850 ATCA--TACAT
1 ATCATGTGCAT
*
50140859 GTCATGTGCAT
1 ATCATGTGCAT
50140870 ATCAT
1 ATCAT
50140875 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:50148536 original size:31 final size:31
Alignment explanation
Indices: 50148495--50148558 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
50148485 CCTTTTCATA
*
50148495 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
50148526 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
50148557 TT
1 TT
50148559 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:50148851 original size:24 final size:24
Alignment explanation
Indices: 50148774--50148936 Score: 244
Period size: 24 Copynumber: 7.0 Consensus size: 24
50148764 TGCCTCTTTA
*
50148774 ATAACTGGGGCAAAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
50148797 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
50148819 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
50148843 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
50148867 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
50148891 ATAAATGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
50148914 ATAACTTGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
50148937 TCACTTCCTC
Statistics
Matches: 128, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
21 3 0.02
22 17 0.13
23 37 0.29
24 71 0.55
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:50149012 original size:20 final size:20
Alignment explanation
Indices: 50148987--50149025 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
50148977 TATGAATACA
50148987 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
50149007 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
50149026 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:50149031 original size:20 final size:20
Alignment explanation
Indices: 50148988--50149032 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
50148978 ATGAATACAT
**
50148988 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
50149008 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
50149028 CATGT
1 CATGT
50149033 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:50153616 original size:40 final size:40
Alignment explanation
Indices: 50153567--50153770 Score: 157
Period size: 40 Copynumber: 5.1 Consensus size: 40
50153557 CAGAATTTAA
** *
50153567 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
50153607 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * * * *
50153647 CCGGATTTAGTAACTTGCACCAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * **
50153686 TCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CATAAC
* * * * *
50153726 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACATAAC
50153766 CCGGA
1 CCGGA
50153771 CATCATTCGA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 91 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:50153754 original size:79 final size:80
Alignment explanation
Indices: 50153586--50153770 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 80
50153576 GCTACTCGTT
* * *
50153586 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCAGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
*
50153650 GATTTAGTAACTTGCAC
64 GATATAGTAACTTGCAC
* * **
50153667 CAATGCCTTCAGG-CTTAGCTCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
50153730 ATATGGTCACTTAGCA-
65 ATATAGTAACTT-GCAC
*
50153746 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCAGGACTTAGCCCGGA
50153771 CATCATTCGA
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 3 0.03
79 59 0.68
80 22 0.25
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAAGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTGCAC
Found at i:50161777 original size:79 final size:80
Alignment explanation
Indices: 50161679--50161861 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
50161669 TACTCGTTCA
* *
50161679 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACACAAATGCCTTC-GGATCTTAACCCGG
*
50161742 ATTTAGTAACTT-GCACC
64 ATATAGTAACTTAGCA-C
* * **
50161759 AATGCCTTCAGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
* *
50161823 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
50161838 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
50161862 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.67
80 26 0.30
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:50161791 original size:39 final size:40
Alignment explanation
Indices: 50161677--50161861 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
50161667 GCTACTCGTT
* *
50161677 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
50161717 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
50161757 CCAATGCCTTCAGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
50161796 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
50161837 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50161862 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 76 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:50173727 original size:46 final size:46
Alignment explanation
Indices: 50173671--50173801 Score: 190
Period size: 46 Copynumber: 2.8 Consensus size: 46
50173661 AATATTTGGG
* *
50173671 CATCCAAACTCGTTGATTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
50173717 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
* * * * * *
50173763 CGTCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
50173802 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
Found at i:50190818 original size:22 final size:22
Alignment explanation
Indices: 50190790--50190832 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
50190780 TTTGCACTTA
50190790 AATTATTAATATACTAAATTTT
1 AATTATTAATATACTAAATTTT
**
50190812 AATTATTTTTATACTAAATTT
1 AATTATTAATATACTAAATTT
50190833 ACACAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTATTAATATACTAAATTTT
Found at i:50194696 original size:26 final size:27
Alignment explanation
Indices: 50194667--50194790 Score: 128
Period size: 27 Copynumber: 4.6 Consensus size: 27
50194657 TTAGTTTACC
*
50194667 AAATTACTGAAATACCCCCAA-TTGTA
1 AAATTACCGAAATACCCCCAATTTGTA
** *
50194693 AAATTACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCCCAATTTGTA
* * *
50194720 AAATTACCCAAATATCCTCAATTTGTA
1 AAATTACCGAAATACCCCCAATTTGTA
*
50194747 AAATTACCGAAATA-CCCTAAGTTTGTA
1 AAATTACCGAAATACCCCCAA-TTTGTA
*
50194774 AAATTACTGAAATACCC
1 AAATTACCGAAATACCC
50194791 TCGACATGTA
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.04
26 18 0.22
27 54 0.68
28 5 0.06
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AAATTACCGAAATACCCCCAATTTGTA
Found at i:50194787 original size:54 final size:53
Alignment explanation
Indices: 50194667--50194817 Score: 162
Period size: 54 Copynumber: 2.8 Consensus size: 53
50194657 TTAGTTTACC
* **
50194667 AAATTACTGAAATACCCCCAATTGTAAAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACTGAAATACCCTCAATTGTAAAATTACCAAAGTACCCCAAGTTTATA
** * * *
50194720 AAATTACCCAAATATCCTCAATTTGTAAAATTACCGAAA-TACCCTAAGTTTGTA
1 AAATTACTGAAATACCCTCAA-TTGTAAAATTACC-AAAGTACCCCAAGTTTATA
**
50194774 AAATTACTGAAATACCCTCGACA-TGTAAAATTATTAAAGTACCC
1 AAATTACTGAAATACCCTC-A-ATTGTAAAATTACCAAAGTACCC
50194818 TCGAATTACA
Statistics
Matches: 80, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
53 20 0.25
54 55 0.69
55 4 0.05
56 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCAATTGTAAAATTACCAAAGTACCCCAAGTTTATA
Found at i:50194800 original size:27 final size:28
Alignment explanation
Indices: 50194743--50194821 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 28
50194733 ATCCTCAATT
* * **
50194743 TGTAAAATTACCGAAATACCCT-AAGTT
1 TGTAAAATTACTGAAATACCCTCGAGCA
50194770 TGTAAAATTACTGAAATACCCTCGA-CA
1 TGTAAAATTACTGAAATACCCTCGAGCA
*
50194797 TGTAAAATTA-TTAAAGTACCCTCGA
1 TGTAAAATTACTGAAA-TACCCTCGA
50194822 ATTACAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
26 4 0.09
27 40 0.89
28 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (28 bp):
TGTAAAATTACTGAAATACCCTCGAGCA
Done.