Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 152 of 172
Found at i:49747631 original size:17 final size:18
Alignment explanation
Indices: 49747498--49747620 Score: 96
Period size: 17 Copynumber: 6.8 Consensus size: 18
49747488 AATCATATCT
* *
49747498 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
49747517 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
49747535 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
49747552 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
49747570 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
49747587 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
49747606 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
49747621 CATTGAAGAT
Statistics
Matches: 96, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
17 32 0.33
18 32 0.33
19 32 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:49748502 original size:121 final size:119
Alignment explanation
Indices: 49748238--49748871 Score: 1011
Period size: 121 Copynumber: 5.3 Consensus size: 119
49748228 TGGAGTTTGT
* * * * * **
49748238 TTGAGAACATCTGAGATTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACATAAAAATGTC
1 TTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACC
* * *
49748303 AAATCATCTTGGATCTGGCTTCAGTACAAACATCTGAAGGTTAGATCTGCCATGTG
66 AAATCATCTTGGATCT-GCTTCAGTATAAACATCTGAA-GTTAGATCTGCTATATG
*
49748359 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGGTCCTTGTAAACACAAGAATAC
1 -TTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
49748424 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATATG
65 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TTAGATCTGCTATATG
*
49748480 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGGTCCTTGTAAACACAAGAATAC
1 T-TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
49748545 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTTAGATCTGCTATATG
65 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAG-TTAGATCTGCTATATG
49748601 TCTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 T-TGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
49748666 CAAATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTACTATAT-
65 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATATG
*
49748721 TTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACT
1 TTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACC
* *
49748786 AAATCATCTTGGATCTGTTTCAGTATAAACATCTGAAAGCTAGATCTGCTATAT-
66 AAATCATCTTGGATCTGCTTCAGTATAAACATCTG-AAGTTAGATCTGCTATATG
49748840 TTGAGAACATCTGAGAGTCAAATCTGCTATGT
1 TTGAGAACATCTGAGAGTCAAATCTGCTATGT
49748872 TCAACTTGTT
Statistics
Matches: 492, Mismatches: 17, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
119 148 0.30
120 3 0.01
121 265 0.54
122 76 0.15
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (119 bp):
TTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACC
AAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGTTAGATCTGCTATATG
Found at i:49748983 original size:44 final size:44
Alignment explanation
Indices: 49748880--49748991 Score: 111
Period size: 44 Copynumber: 2.5 Consensus size: 44
49748870 GTTCAACTTG
* *
49748880 TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGC
1 TTCCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGA
* * * * **
49748924 TTCGCTGTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATCT-A
1 TTCCCTATAAACACAGGAATGCCATG--CTGAAATCTTCGATCTGA
*
49748968 TTCCCTATAAACACAGGGATGCCA
1 TTCCCTATAAACACAGGAATGCCA
49748992 AATCTTGTTT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
43 1 0.02
44 38 0.72
45 14 0.26
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
TTCCCTATAAACACAGGAATGCCATGCTGAAATCTTCGATCTGA
Found at i:49749901 original size:8 final size:8
Alignment explanation
Indices: 49749888--49749945 Score: 59
Period size: 8 Copynumber: 7.6 Consensus size: 8
49749878 GGCCTCTCCA
49749888 TTTTTCTT
1 TTTTTCTT
*
49749896 TTTTTCTC
1 TTTTTCTT
*
49749904 TTTTT-TA
1 TTTTTCTT
49749911 TTTTTC--
1 TTTTTCTT
49749917 TTTTTCTT
1 TTTTTCTT
*
49749925 TTTTTATT
1 TTTTTCTT
*
49749933 TTTTTATT
1 TTTTTCTT
49749941 TTTTT
1 TTTTT
49749946 TTAAATAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.14
7 6 0.14
8 32 0.73
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTCTT
Found at i:49749914 original size:15 final size:14
Alignment explanation
Indices: 49749896--49749947 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
49749886 CATTTTTCTT
49749896 TTTTTCTCTTTTTTA
1 TTTTTCT-TTTTTTA
49749911 TTTTTCTTTTTCTT-
1 TTTTTCTTTTT-TTA
*
49749925 TTTTTATTTTTTTA
1 TTTTTCTTTTTTTA
49749939 TTTTT-TTTT
1 TTTTTCTTTT
49749948 AAATAGAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
13 6 0.18
14 19 0.56
15 9 0.26
ACGTcount: A:0.06, C:0.08, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTCTTTTTTTA
Found at i:49749920 original size:20 final size:20
Alignment explanation
Indices: 49749896--49749948 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
49749886 CATTTTTCTT
49749896 TTTTTCTCTTTTTTATTTTTC
1 TTTTTCT-TTTTTTATTTTTC
49749917 TTTTTCTTTTTTTATTTTT-
1 TTTTTCTTTTTTTATTTTTC
*
49749936 TTATT-TTTTTTTA
1 TTTTTCTTTTTTTA
49749949 AATAGAAGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 8 0.26
19 4 0.13
20 12 0.39
21 7 0.23
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTCTTTTTTTATTTTTC
Found at i:49749920 original size:29 final size:27
Alignment explanation
Indices: 49749888--49749947 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 27
49749878 GGCCTCTCCA
*
49749888 TTTTTCTTTTTTTCTCTTTTTTATTTTT
1 TTTTTCTTTTTTTAT-TTTTTTATTTTT
49749916 CTTTTTCTTTTTTTATTTTTTTATTTTT
1 -TTTTTCTTTTTTTATTTTTTTATTTTT
49749944 TTTT
1 TTTT
49749948 AAATAGAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 4 0.13
28 12 0.40
29 14 0.47
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.87
Consensus pattern (27 bp):
TTTTTCTTTTTTTATTTTTTTATTTTT
Found at i:49753671 original size:18 final size:18
Alignment explanation
Indices: 49753648--49753778 Score: 185
Period size: 18 Copynumber: 7.3 Consensus size: 18
49753638 AAAATTGTAT
*
49753648 ATCATATCTGAGATTGCA
1 ATCATATCTAAGATTGCA
49753666 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCA
*
49753684 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCA
49753701 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGCA
*
49753719 ATCATATCTAAGATTG-T
1 ATCATATCTAAGATTGCA
*
49753736 ATCATACCTAAGATTGCA
1 ATCATATCTAAGATTGCA
*
49753754 TATCACATCTAAGATTGCA
1 -ATCATATCTAAGATTGCA
49753773 TATCAT
1 -ATCAT
49753779 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
17 31 0.31
18 49 0.49
19 21 0.21
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
ATCATATCTAAGATTGCA
Found at i:49753712 original size:35 final size:35
Alignment explanation
Indices: 49753648--49753770 Score: 192
Period size: 35 Copynumber: 3.5 Consensus size: 35
49753638 AAAATTGTAT
* *
49753648 ATCATATCTGAGATTGCAATCATATCTAAGATTGCA
1 ATCATATCTAAGATTG-TATCATATCTAAGATTGCA
49753684 ATCATATCTAAGATTGTATCATATCTAAGATTGCA
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCA
*
49753719 ATCATATCTAAGATTGTATCATACCTAAGATTGCA
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCA
*
49753754 TATCACATCTAAGATTG
1 -ATCATATCTAAGATTG
49753771 CATATCATTG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 52 0.63
36 30 0.37
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (35 bp):
ATCATATCTAAGATTGTATCATATCTAAGATTGCA
Found at i:49753786 original size:53 final size:54
Alignment explanation
Indices: 49753641--49753778 Score: 199
Period size: 53 Copynumber: 2.5 Consensus size: 54
49753631 ATCTTTTAAA
* *
49753641 ATTGTATATCATATCTGAGATTGCAATCATATCTAAGATTGCAATCATATCTAAG
1 ATTG-ATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATACCTAAG
*
49753696 ATTG-TATCATATCTAAGATTGCAATCATATCTAAGATTG-TATCATACCTAAG
1 ATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATACCTAAG
*
49753748 ATTGCATATCACATCTAAGATTGCATATCAT
1 ATTG-ATATCATATCTAAGATTGCA-ATCAT
49753779 TGAAGATTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
52 15 0.20
53 34 0.45
54 18 0.24
55 9 0.12
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (54 bp):
ATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATACCTAAG
Found at i:49758385 original size:21 final size:21
Alignment explanation
Indices: 49758360--49758424 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
49758350 TAGCCTTCGG
49758360 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
49758381 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
49758399 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
49758420 GCTTC
1 GCTTC
49758425 AGCTAGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 10 0.28
21 11 0.31
ACGTcount: A:0.11, C:0.26, G:0.23, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:49758385 original size:39 final size:39
Alignment explanation
Indices: 49758327--49758442 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
49758317 TGGGGTTTCA
* * *
49758327 GTTTAGCTCTAATGAGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
*
49758366 GTTTAGCACTTGTGTGCTTCAGTTAGCCTTCGGGCTTCC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
* *
49758405 GTTTAGCACTTATGTGCTTCAGCTAGACTTCGGGCTTC
1 GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTC
49758443 AAATCACGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.14, C:0.25, G:0.24, T:0.37
Consensus pattern (39 bp):
GTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCC
Found at i:49764028 original size:45 final size:42
Alignment explanation
Indices: 49763954--49764074 Score: 109
Period size: 41 Copynumber: 2.8 Consensus size: 42
49763944 ATGTGTTCTT
* * *
49763954 GTGTAAAACCACATCTGGGACGCTAGCATCGATATATGTGATTAC
1 GTGTAAAACCACATCTGAGACACTGGCATCGATAT-T-TGATT-C
* * *
49763999 GTGTAACACCACATCTGAGACATTGGCATCG-TATTTGATTT
1 GTGTAAAACCACATCTGAGACACTGGCATCGATATTTGATTC
* *** *
49764040 GTGTAAGACCTTGTCTGAGACAGTGGCATCGATAT
1 GTGTAAAACCACATCTGAGACACTGGCATCGATAT
49764075 GAGATAGCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 26 0.41
42 8 0.12
43 1 0.02
44 3 0.05
45 26 0.41
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
GTGTAAAACCACATCTGAGACACTGGCATCGATATTTGATTC
Found at i:49767050 original size:56 final size:56
Alignment explanation
Indices: 49766983--49767094 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
49766973 AAACTTTTGG
*
49766983 TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTATAATATAAACCTGATGA
1 TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTAAAATATAAACCTGATGA
49767039 TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTAAAATATAAACCTGATGA
1 TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTAAAATATAAACCTGATGA
49767095 AAAAGTAGGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (56 bp):
TTTGTAGTAACATGTGACTCAATTGCACTAATATGCGTAAAATATAAACCTGATGA
Found at i:49769460 original size:19 final size:20
Alignment explanation
Indices: 49769426--49769464 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
49769416 GATATGATAC
*
49769426 TAAAACTATTTAAAAAAAAT
1 TAAAACTATATAAAAAAAAT
49769446 TAAAA-TATATAAAAAAAAT
1 TAAAACTATATAAAAAAAAT
49769465 CAGGGAAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
TAAAACTATATAAAAAAAAT
Found at i:49769753 original size:22 final size:21
Alignment explanation
Indices: 49769718--49769793 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
49769708 AAAAGGTATC
* *
49769718 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
49769739 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
49769762 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
49769781 TGC-AATCATATCT
1 TACAAATCATATCT
49769794 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:49769810 original size:35 final size:37
Alignment explanation
Indices: 49769747--49769825 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
49769737 ATTACAAAAT
49769747 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
49769783 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
49769818 CATATCAT
1 CATATCAT
49769826 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:49769823 original size:14 final size:15
Alignment explanation
Indices: 49769768--49769823 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
49769758 AGATTGCATA
49769768 TCATATCTAAGATTG
1 TCATATCTAAGATTG
49769783 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
49769801 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
49769818 -CATATC
1 TCATATC
49769824 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:49769833 original size:17 final size:19
Alignment explanation
Indices: 49769754--49769825 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
49769744 AATCATATCT
49769754 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
49769773 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
49769791 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
49769808 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
49769826 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:49769982 original size:21 final size:20
Alignment explanation
Indices: 49769944--49769983 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
49769934 TTGGACTTCG
**
49769944 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
49769964 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
49769984 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:49770238 original size:45 final size:45
Alignment explanation
Indices: 49770182--49770449 Score: 247
Period size: 45 Copynumber: 5.9 Consensus size: 45
49770172 CGAAACCTGC
* * *
49770182 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACACTAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
*
49770227 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * * *
49770272 T-TCTTCAATCTGCTCCTCGTCTAATATAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * * *
49770316 TATCTCCAATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
* * * * * * * * *
49770361 CATCTTGGATTTGCT--TCGATGTAA-ACACATGAAGCTCAGATCTGC
1 TATCTTCGATCTGCTCCCCG-TCTAATACAGA-GACGC-CAAATCTGT
* * *
49770406 TATGCCTTCGATCTGCTCCCCGTCTACTACAAAGATGCCAAATC
1 TAT--CTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATC
49770450 ATCTTAGATC
Statistics
Matches: 182, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
43 6 0.03
44 47 0.26
45 101 0.55
47 15 0.08
48 7 0.04
49 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
Found at i:49770293 original size:44 final size:45
Alignment explanation
Indices: 49770190--49770366 Score: 248
Period size: 45 Copynumber: 4.0 Consensus size: 45
49770180 GCTATCTTTG
* * *
49770190 ATCTGCTCCCCGTCTAATACAGAGACACTAAATCTGTTATCTTCG
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
*
49770235 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
* * * *
49770279 ATCTGCTCCTCGTCTAATATAGAGATGCCAAATCTGTTATCTCCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
* * *
49770324 ATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTCATCTT
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTT
49770367 GGATTTGCTT
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
44 39 0.33
45 78 0.67
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
Found at i:49770297 original size:89 final size:89
Alignment explanation
Indices: 49770190--49770359 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 89
49770180 GCTATCTTTG
* * *
49770190 ATCTGCTCCCCGTCTAATACAGAGACACTAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATAC
49770255 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* * ** *
49770279 ATCTGCTCCTCGTCTAATATAGAGATGCCAAATCTGTTATCTCCAATTTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATAC
*
49770344 AGAGATGCCAAATCTG
66 AGAGACGCCAAATCTG
49770360 TCATCTTGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTCCAATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:49770520 original size:78 final size:78
Alignment explanation
Indices: 49770389--49770683 Score: 428
Period size: 78 Copynumber: 3.8 Consensus size: 78
49770379 ATGTAAACAC
* * * * *
49770389 ATGAAGCTCAGATCTGCTATGCCTTCGATCTGCTCCCCGTCTACTACAAAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
* * *
49770454 TAGATCTGCTTCA
66 TGGATCTACTTTA
* * **
49770467 ATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCTTGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
49770532 TGGATCTACTTTA
66 TGGATCTACTTTA
*
49770545 ATGAAGGTCAAATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
49770610 TGGATCTACTTTA
66 TGGATCTACTTTA
* * * **
49770623 ATGAAGGTCAAATCTGCTGTGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
49770684 TGTTTCTTCG
Statistics
Matches: 196, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 196 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAAATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTACTTTA
Found at i:49771230 original size:220 final size:219
Alignment explanation
Indices: 49770634--49771341 Score: 1265
Period size: 219 Copynumber: 3.2 Consensus size: 219
49770624 TGAAGGTCAA
* *
49770634 ATCTGCTGTGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTG
49770699 TTCTCTAACAGTACAGAGATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCTA
66 TTCTCTAACAGTACAGAGATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCTA
49770764 AATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTT
131 AATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTT
49770829 CGATGTGAAACATCCAAAGGTTAG
196 CGATGTGAAACATCCAAAGGTTAG
49770853 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTG
49770918 TTCTCTAACAGTACAGAGATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCTA
66 TTCTCTAACAGTACAGAGATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCTA
*
49770983 AATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATATTGGATCTACTT
131 AATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTT
* * *
49771048 CGATGTAAAGACATCCGAATGTTAG
196 CGATGTGAA-ACATCCAAAGGTTAG
* *
49771073 ATCTGATATGTCTTTGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTG
1 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTG
* * * * * *
49771138 TTCTCTGACAATTCAGAAATGT-TAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCC
66 TTCTCTAACAGTACAGAGAT-TCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCT
49771202 AAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACT
130 AAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACT
49771267 TCGATGTGAAACATCCAAAGGTTAG
195 TCGATGTGAAACATCCAAAGGTTAG
49771292 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
1 ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATC
49771342 ATCTTAGATC
Statistics
Matches: 467, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
219 261 0.56
220 205 0.44
221 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (219 bp):
ATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTTCGATTTG
TTCTCTAACAGTACAGAGATTCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCTA
AATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTT
CGATGTGAAACATCCAAAGGTTAG
Found at i:49771488 original size:89 final size:91
Alignment explanation
Indices: 49771204--49771533 Score: 371
Period size: 89 Copynumber: 3.7 Consensus size: 91
49771194 TGAAAGCCAA
* *
49771204 ATCTGCTATGTCTTCGATCTGCTCCTTGTC-AACGCAAG-GATGCCAAATCATCTTGGATCTACT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCAAACACAAGAGATGCCAAATCATCTTGGATCTACT
*
49771267 TCGATGTG-AAACATCCAAAGGTTAG
66 TCGATGTGAAAACATCCGAAGGTTAG
* * * * *
49771292 ATCTGCTATGTCTTCGATCTGCT-CTCCGTCGAATA-TAGAGATGCCAAATCATCTTAGATCTGC
1 ATCTGCTATGTCTTCGATCTGCTCCT-CGTCAAACACAAGAGATGCCAAATCATCTTGGATCTAC
* * ** *
49771355 TTC-A-GCGTAAACACAT--GAAAGCCAA
65 TTCGATGTG-AAA-ACATCCGAAGGTTAG
* *
49771380 ATCTGCTATGTCTTCGATCTGCTCCTTGT-AAACACAAG-GATGCTAAATCATCTTGGATCTACT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCAAACACAAGAGATGCCAAATCATCTTGGATCTACT
49771443 TCGATGTGAAAACATCCGAAGGTTAG
66 TCGATGTGAAAACATCCGAAGGTTAG
* * * *
49771469 ATCTGATATGTCTTCGATCTGCTCC-CGTCTAATAC-AGAGATGCCAAATCATCTTGGATCTGCT
1 ATCTGCTATGTCTTCGATCTGCTCCTCGTCAAACACAAGAGATGCCAAATCATCTTGGATCTACT
49771532 TC
66 TC
49771534 AATGAAGGTC
Statistics
Matches: 198, Mismatches: 30, Indels: 27
0.78 0.12 0.11
Matches are distributed among these distances:
87 35 0.18
88 68 0.34
89 91 0.46
90 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (91 bp):
ATCTGCTATGTCTTCGATCTGCTCCTCGTCAAACACAAGAGATGCCAAATCATCTTGGATCTACT
TCGATGTGAAAACATCCGAAGGTTAG
Found at i:49771510 original size:176 final size:176
Alignment explanation
Indices: 49771161--49771534 Score: 651
Period size: 176 Copynumber: 2.1 Consensus size: 176
49771151 CAGAAATGTT
*
49771161 AAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTGC
1 AAATCATCTTAGATCTGCTTCAGCGTAAACACATGAAAGCCAAATCTGCTATGTCTTCGATCTGC
* *
49771226 TCCTTGTCAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAAACATCCAAAGGTTA
66 TCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAAACATCCAAAGGTTA
* *
49771291 GATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCC
131 GATCTGATATGTCTTCGATCTGCTCTCCGTCGAATACAGAGATGCC
49771337 AAATCATCTTAGATCTGCTTCAGCGTAAACACATGAAAGCCAAATCTGCTATGTCTTCGATCTGC
1 AAATCATCTTAGATCTGCTTCAGCGTAAACACATGAAAGCCAAATCTGCTATGTCTTCGATCTGC
* *
49771402 TCCTTGTAAACACAAGGATGCTAAATCATCTTGGATCTACTTCGATGTGAAAACATCCGAAGGTT
66 TCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCGATGTG-AAACATCCAAAGGTT
*
49771467 AGATCTGATATGTCTTCGATCTGCTC-CCGTCTAATACAGAGATGCC
130 AGATCTGATATGTCTTCGATCTGCTCTCCGTCGAATACAGAGATGCC
*
49771513 AAATCATCTTGGATCTGCTTCA
1 AAATCATCTTAGATCTGCTTCA
49771535 ATGAAGGTCC
Statistics
Matches: 188, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
176 149 0.79
177 39 0.21
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
AAATCATCTTAGATCTGCTTCAGCGTAAACACATGAAAGCCAAATCTGCTATGTCTTCGATCTGC
TCCTTGTAAACACAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAAACATCCAAAGGTTA
GATCTGATATGTCTTCGATCTGCTCTCCGTCGAATACAGAGATGCC
Found at i:49771604 original size:78 final size:78
Alignment explanation
Indices: 49771460--49771673 Score: 315
Period size: 78 Copynumber: 2.8 Consensus size: 78
49771450 GAAAACATCC
* * *
49771460 GAAGGTTAGATCTGATATGTCTTCGATCTGCT-CCCGTCTAATACAGAGATGCCAAATCATCTTG
1 GAAGGTCAGATCTGATATGTCTTCGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCCTG
49771524 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* *
49771537 GAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCCT
1 GAAGGT-CAGATCTGATATGTCTTCGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCCT
49771601 GGATCTGCTTCAAT
65 GGATCTGCTTCAAT
* * * **
49771615 GAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 GAAGGTCAGATCTGATATGTCTTCGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATC
49771674 TGTTTCTTCG
Statistics
Matches: 123, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
77 29 0.24
78 94 0.76
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (78 bp):
GAAGGTCAGATCTGATATGTCTTCGATCTGCTCCCCGTCTAATAAAGAGATGCCAAATCATCCTG
GATCTGCTTCAAT
Found at i:49779747 original size:18 final size:19
Alignment explanation
Indices: 49779714--49779749 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49779704 GATATGATAC
*
49779714 TAAAATTATTTAAAAAAAT
1 TAAAATTATATAAAAAAAT
49779733 TAAAA-TATATAAAAAAA
1 TAAAATTATATAAAAAAA
49779750 ATCAGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATTATATAAAAAAAT
Found at i:49780063 original size:19 final size:19
Alignment explanation
Indices: 49780039--49780148 Score: 199
Period size: 19 Copynumber: 5.9 Consensus size: 19
49780029 AATCATATCT
49780039 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
49780058 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
49780077 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
49780095 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
49780112 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
49780131 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
49780149 TGAAGATTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
17 16 0.18
18 16 0.18
19 56 0.64
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:49780120 original size:54 final size:56
Alignment explanation
Indices: 49780032--49780148 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 56
49780022 ATTAAAAAAT
49780032 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTGCATATCATATCTAAGATTG
49780087 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTG
49780141 CATATCAT
1 CATATCAT
49780149 TGAAGATTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
54 41 0.69
55 8 0.14
56 10 0.17
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (56 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:49782132 original size:26 final size:26
Alignment explanation
Indices: 49782103--49782165 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
49782093 ATTTAAATAT
*
49782103 TTTTAATAAAAA-TAAAAAATATTTTA
1 TTTTAA-AAAAACAAAAAAATATTTTA
49782129 TTTTAAAAAAACAAAAAAATATTTTA
1 TTTTAAAAAAACAAAAAAATATTTTA
* *
49782155 ATATAAAAAAA
1 TTTTAAAAAAA
49782166 AGAGTTGCGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 5 0.15
26 28 0.85
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (26 bp):
TTTTAAAAAAACAAAAAAATATTTTA
Found at i:49784159 original size:26 final size:24
Alignment explanation
Indices: 49784101--49784160 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
49784091 AGCATGATTT
*
49784101 TTGGAGATAATTTATTCAAAATAC
1 TTGGAGATAATTTATTCAAAAGAC
**
49784125 TTAAAGATAATTTATTCGAAAACGAC
1 TTGGAGATAATTTATTC-AAAA-GAC
49784151 TTGGAGATAA
1 TTGGAGATAA
49784161 AACTTCAAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 15 0.52
25 4 0.14
26 10 0.34
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (24 bp):
TTGGAGATAATTTATTCAAAAGAC
Found at i:49784949 original size:11 final size:10
Alignment explanation
Indices: 49784933--49784975 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
49784923 CATATTTACA
49784933 TTTTATGTTAT
1 TTTTA-GTTAT
* *
49784944 TTTTATTTGT
1 TTTTAGTTAT
49784954 TTTTAGTTAAT
1 TTTTAGTT-AT
49784965 TTTTAGTTAT
1 TTTTAGTTAT
49784975 T
1 T
49784976 CTGAGTAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 13 0.48
11 14 0.52
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (10 bp):
TTTTAGTTAT
Found at i:49787106 original size:46 final size:46
Alignment explanation
Indices: 49787024--49787115 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 46
49787014 AGTGATATGA
* * *
49787024 ACAAAATATGTTTAACTAAATATAGTAGAAAGTGTAAGAATAGTTG
1 ACAAAATATGTTTAACTAAAGATAGTACAAAATGTAAGAATAGTTG
* * *
49787070 ACAAAATGTGTTTAACTCAAGATATTACAAAATGTAAGAATAGTTG
1 ACAAAATATGTTTAACTAAAGATAGTACAAAATGTAAGAATAGTTG
49787116 GCATATCTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.30
Consensus pattern (46 bp):
ACAAAATATGTTTAACTAAAGATAGTACAAAATGTAAGAATAGTTG
Found at i:49801681 original size:588 final size:587
Alignment explanation
Indices: 49800566--49801741 Score: 2219
Period size: 588 Copynumber: 2.0 Consensus size: 587
49800556 GAAGTTAATT
49800566 TCATGTAGATTGTAATATGCATATTGGTCTCCTTTAGGAGTTAGTTTGATTGGTATCACTTTCCT
1 TCATGTAGATTGTAATATGCATATTGGTCTCCTTTAGGAGTTAGTTTGATTGGTATCACTTTCCT
49800631 TTAGAGGTGTTAATCTCCAAAATTATTTGGAGATTAAGCCCATATGCATATTAGTAACCTTTTCT
66 TTAGAGGTGTTAATCTCCAAAATTATTTGGAGATTAAGCCCATATGCATATTAGTAACCTTTTCT
49800696 GTAGTAACCTTGCAAGAGATTCTGGAATGACTTGTAAGCGAGATAAATTTTAATTTACTTTTCTG
131 GTAGTAACCTTGCAAGAGATTCTGGAATGACTTGTAAGCGAGATAAATTTTAATTTACTTTTCTG
* *
49800761 GAGGGTATTGCAATATTGATGTAATATCTAAGGTTGTTTTCTTTGTCAAGTTAGAGTATAATGTT
196 GAAGGTATTGCAATATTGAAGTAATATCTAAGGTTGTTTTCTTTGTCAAGTTAGAGTATAATGTT
* *
49800826 TTGAGTATCTACTCCAAAATAAGTGGTCAACTGGTTCCTGTTATTGGTATGCATGACATGAAAAC
261 TTGAGTATCTACTCCAAAAAAAGTGGTCAACTGGTTCCTGTTATTGGCATGCATGACATGAAAAC
*
49800891 TAAGGCTAATGGTAATAGAGCACTCTTTTCTTACTTAAAACTCCCACCAAATTTATTCATTCACC
326 TAAGGCTAATGGTAAAAGAGCACTCTTTTCTTACTTAAAACTCCCACCAAATTTATTCATTCACC
49800956 TAAGGTGAACAAATTTCCAATGTCCTACAAAGTATTTGTTTAAGTTTTAATGCGGATCAGATTCT
391 TAAGGTGAACAAATTTCCAATGTCCTACAAAGTATTTGTTTAAGTTTTAATGCGGATCAGATTCT
*
49801021 AGACATGTTTATCTGAGTTGGAATAAACTGTGGCTGCTAAGAATTAATAAATACAATAATTTCAA
456 AGACACGTTTATCTGAGTTGGAATAAACTGTGGCTGCTAAGAATTAATAAATACAATAATTTCAA
*
49801086 GTTCTATGTTGCATAGAATTGAGATAAGATGATGGCTAGAAATTGGTTGACAACATAATAGTTTC
521 GTTCTATGTTGCATAGAATCGAGATAAGATGATGGCTAGAAATTGGTTGACAACATAATAGTTTC
49801151 TC
586 TC
49801153 TCATGTAGATTGTAATATGCATATTGGTCTCCTTTAGGAGTTAGTTTGATTGGTATCACTTTCCT
1 TCATGTAGATTGTAATATGCATATTGGTCTCCTTTAGGAGTTAGTTTGATTGGTATCACTTTCCT
49801218 TTAGAGGTGTTAATCTCCAAAATTATTTGGAGATTAAGCCCATATGCATATTAGTAACCTTTTCT
66 TTAGAGGTGTTAATCTCCAAAATTATTTGGAGATTAAGCCCATATGCATATTAGTAACCTTTTCT
*
49801283 GTAGTAACCTTGCAAGAGATTCTGGAATGACTTGTAAGCGAGATAAATTTTAATTTACTTTTGTG
131 GTAGTAACCTTGCAAGAGATTCTGGAATGACTTGTAAGCGAGATAAATTTTAATTTACTTTTCTG
*
49801348 GAAGGTATTGCAATATTGAAGTAATATCTAAGGTTGTTTTTCTTTTTCAAGTTAGAGTATAATGT
196 GAAGGTATTGCAATATTGAAGTAATATCTAAGGTTG-TTTTCTTTGTCAAGTTAGAGTATAATGT
49801413 TTTGAGTATCTACTCCAAAAAAAGTGGTCAACTGGTTCCTGTTATTGGCATGCATGACATGAAAA
260 TTTGAGTATCTACTCCAAAAAAAGTGGTCAACTGGTTCCTGTTATTGGCATGCATGACATGAAAA
49801478 CTAAGGCTAATGGTAAAAGAGCACTCTTTTCTTACTTAAAA-TCCCCACCAAATTTATTCATTCA
325 CTAAGGCTAATGGTAAAAGAGCACTCTTTTCTTACTTAAAACT-CCCACCAAATTTATTCATTCA
* * *
49801542 CCTAAGGTGAACAAATTTCCAATTTCCTACGAAGTGTTTGTTTAAGTTTTAATGCGGATCAGATT
389 CCTAAGGTGAACAAATTTCCAATGTCCTACAAAGTATTTGTTTAAGTTTTAATGCGGATCAGATT
49801607 CTAGACACGTTTATCTGAGTTGGAATAAACTGTGGCTGCTAAGAATTAATAAATACAATAATTTC
454 CTAGACACGTTTATCTGAGTTGGAATAAACTGTGGCTGCTAAGAATTAATAAATACAATAATTTC
49801672 AAGTTCTATGTTGCATAGAATCGAGATAAGATGATGGCTAGAAATTGGTTGACAACATAATAGTT
519 AAGTTCTATGTTGCATAGAATCGAGATAAGATGATGGCTAGAAATTGGTTGACAACATAATAGTT
49801737 TCTC
584 TCTC
49801741 T
1 T
49801742 ATTGAGCCCC
Statistics
Matches: 575, Mismatches: 12, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
587 229 0.40
588 346 0.60
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (587 bp):
TCATGTAGATTGTAATATGCATATTGGTCTCCTTTAGGAGTTAGTTTGATTGGTATCACTTTCCT
TTAGAGGTGTTAATCTCCAAAATTATTTGGAGATTAAGCCCATATGCATATTAGTAACCTTTTCT
GTAGTAACCTTGCAAGAGATTCTGGAATGACTTGTAAGCGAGATAAATTTTAATTTACTTTTCTG
GAAGGTATTGCAATATTGAAGTAATATCTAAGGTTGTTTTCTTTGTCAAGTTAGAGTATAATGTT
TTGAGTATCTACTCCAAAAAAAGTGGTCAACTGGTTCCTGTTATTGGCATGCATGACATGAAAAC
TAAGGCTAATGGTAAAAGAGCACTCTTTTCTTACTTAAAACTCCCACCAAATTTATTCATTCACC
TAAGGTGAACAAATTTCCAATGTCCTACAAAGTATTTGTTTAAGTTTTAATGCGGATCAGATTCT
AGACACGTTTATCTGAGTTGGAATAAACTGTGGCTGCTAAGAATTAATAAATACAATAATTTCAA
GTTCTATGTTGCATAGAATCGAGATAAGATGATGGCTAGAAATTGGTTGACAACATAATAGTTTC
TC
Found at i:49808739 original size:15 final size:15
Alignment explanation
Indices: 49808719--49808754 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
49808709 TCTTCGATCT
49808719 ACGATGACGATGATG
1 ACGATGACGATGATG
49808734 ACGATGACGATGATG
1 ACGATGACGATGATG
*
49808749 ATGATG
1 ACGATG
49808755 TTGAGAAGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (15 bp):
ACGATGACGATGATG
Found at i:49826352 original size:5 final size:5
Alignment explanation
Indices: 49826342--49826369 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
49826332 GTATTTGTGA
49826342 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
49826370 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:49840836 original size:26 final size:26
Alignment explanation
Indices: 49840805--49840886 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
49840795 TGAAATGCCC
*
49840805 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
49840831 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49840857 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49840883 ATCA
1 ATCA
49840887 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49843181 original size:27 final size:26
Alignment explanation
Indices: 49843137--49843194 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
49843127 AATATTAAAT
* *
49843137 TATTTATATAATTTTATTATATATTA
1 TATTTTTAAAATTTTATTATATATTA
* *
49843163 TATTTTTAAAATTTGTATTTTTTATTA
1 TATTTTTAAAATTT-TATTATATATTA
49843190 T-TTTT
1 TATTTT
49843195 AATGGTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTTTTAAAATTTTATTATATATTA
Found at i:49843666 original size:19 final size:18
Alignment explanation
Indices: 49843618--49843676 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
49843608 CTCAACAAAA
*
49843618 TTTAC-ATTTTATAAATT
1 TTTACAATTTTTTAAATT
* *
49843635 TTTACAAATTTTTAATTT
1 TTTACAATTTTTTAAATT
49843653 TTTAACAATTTTTTTAAAATT
1 TTT-ACAA-TTTTTT-AAATT
49843674 TTT
1 TTT
49843677 TAAATAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 5 0.15
18 12 0.36
19 4 0.12
20 5 0.15
21 7 0.21
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTACAATTTTTTAAATT
Found at i:49843675 original size:21 final size:20
Alignment explanation
Indices: 49843624--49843718 Score: 79
Period size: 21 Copynumber: 4.7 Consensus size: 20
49843614 AAAATTTACA
49843624 TTTTATAAATTTTT-ACAAAT
1 TTTTA-AAATTTTTAACAAAT
* *
49843644 TTTT-AATTTTTTAACAATTT
1 TTTTAAAATTTTTAACAA-AT
*
49843664 TTTTAAAATTTTTTAA-ATAAA
1 TTTTAAAA-TTTTTAACA-AAT
* *
49843685 ATTTAAAATTTATTAACTAAT
1 TTTTAAAATTT-TTAACAAAT
49843706 TTTTAAAATTTTT
1 TTTTAAAATTTTT
49843719 TTATTTTTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
18 7 0.12
19 4 0.07
20 14 0.24
21 26 0.44
22 8 0.14
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAAAATTTTTAACAAAT
Found at i:49843719 original size:10 final size:10
Alignment explanation
Indices: 49843624--49843719 Score: 58
Period size: 10 Copynumber: 9.4 Consensus size: 10
49843614 AAAATTTACA
49843624 TTTTATAAA-T
1 TTTTA-AAATT
49843634 TTTTACAAA-T
1 TTTTA-AAATT
49843644 TTTT--AATT
1 TTTTAAAATT
49843652 TTTTAACAATTT
1 TTTTAA-AA-TT
49843664 TTTTAAAATT
1 TTTTAAAATT
**
49843674 TTTTAAATAAA
1 TTTTAAA-ATT
*
49843685 ATTTAAAATT
1 TTTTAAAATT
*
49843695 TATTAACTAA-T
1 TTTTAA--AATT
49843706 TTTTAAAATT
1 TTTTAAAATT
49843716 TTTT
1 TTTT
49843720 TATTTTTCAA
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
7 2 0.03
8 5 0.07
9 2 0.03
10 32 0.47
11 17 0.25
12 10 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:49848487 original size:11 final size:11
Alignment explanation
Indices: 49848473--49848519 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
49848463 GTCATGTTTG
49848473 GGTTTTCTTTT
1 GGTTTTCTTTT
49848484 GG--TTCTTTT
1 GGTTTTCTTTT
49848493 GGTTTTC-TTT
1 GGTTTTCTTTT
*
49848503 GGTTTTTTTTT
1 GGTTTTCTTTT
*
49848514 TGTTTT
1 GGTTTT
49848520 TCTCTAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 9 0.29
10 9 0.29
11 13 0.42
ACGTcount: A:0.00, C:0.06, G:0.19, T:0.74
Consensus pattern (11 bp):
GGTTTTCTTTT
Found at i:49848512 original size:20 final size:20
Alignment explanation
Indices: 49848473--49848510 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
49848463 GTCATGTTTG
49848473 GGTTTTCTTTTGGTTCTTTT
1 GGTTTTCTTTTGGTTCTTTT
49848493 GGTTTTC-TTTGGTT-TTTT
1 GGTTTTCTTTTGGTTCTTTT
49848511 TTTTGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 7 0.39
20 7 0.39
ACGTcount: A:0.00, C:0.08, G:0.21, T:0.71
Consensus pattern (20 bp):
GGTTTTCTTTTGGTTCTTTT
Found at i:49848529 original size:22 final size:22
Alignment explanation
Indices: 49848489--49848530 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
49848479 CTTTTGGTTC
* *
49848489 TTTTGGTTTTCTTTGGTTTTTT
1 TTTTGGTTTTCTCTAGTTTTTT
*
49848511 TTTTGTTTTTCTCTAGTTTT
1 TTTTGGTTTTCTCTAGTTTT
49848531 ATTCCCCGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.02, C:0.07, G:0.14, T:0.76
Consensus pattern (22 bp):
TTTTGGTTTTCTCTAGTTTTTT
Found at i:49854321 original size:17 final size:17
Alignment explanation
Indices: 49854297--49854331 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49854287 CAATATCATC
*
49854297 CAAAAAAAAGAAAAAATA
1 CAAAAAAAA-TAAAAATA
49854315 CAAAAAAAATAAAAATA
1 CAAAAAAAATAAAAATA
49854332 AGTTACACAA
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:0.83, C:0.06, G:0.03, T:0.09
Consensus pattern (17 bp):
CAAAAAAAATAAAAATA
Found at i:49854772 original size:30 final size:30
Alignment explanation
Indices: 49854738--49854794 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
49854728 GTATATTATT
*
49854738 AATATTTTGATA-AATTAAATATAAATTTTA
1 AATATTTTGAAATAATT-AATATAAATTTTA
49854768 AATATTTTGAAATAATTAATATAAATT
1 AATATTTTGAAATAATTAATATAAATT
49854795 ATTTGTAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (30 bp):
AATATTTTGAAATAATTAATATAAATTTTA
Found at i:49856124 original size:16 final size:16
Alignment explanation
Indices: 49856103--49856134 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49856093 CGTTTAGTTC
49856103 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
49856119 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
49856135 ATTGTAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:49856140 original size:16 final size:16
Alignment explanation
Indices: 49856104--49856142 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
49856094 GTTTAGTTCG
*
49856104 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAA
49856120 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
*
49856136 TTGTAAT
1 CTGTAAT
49856143 CAGTAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:49858541 original size:51 final size:52
Alignment explanation
Indices: 49858471--49858583 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 52
49858461 AATAAAGAAA
* * * * *
49858471 GAAAGAAAAAGGTTGCAACTCTGCAACTAAAGGGTTTTGTTGGCTTAAAGGGT
1 GAAA-AAAAAGGTTACAACTCTACAACCAAAGGATCTTGTTGGCTTAAAGGGT
*
49858524 GAAAAAAAA-GTTACAACTCTACAACCAAATGATCTTGTTGGCTTAAAGGGT
1 GAAAAAAAAGGTTACAACTCTACAACCAAAGGATCTTGTTGGCTTAAAGGGT
*
49858575 GAAGAAAAA
1 GAAAAAAAA
49858584 TGTAACACCC
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
51 44 0.83
52 5 0.09
53 4 0.08
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (52 bp):
GAAAAAAAAGGTTACAACTCTACAACCAAAGGATCTTGTTGGCTTAAAGGGT
Found at i:49859232 original size:17 final size:17
Alignment explanation
Indices: 49859210--49859243 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49859200 CAGTTTAGCC
49859210 GATGAGAAACTGGGCAT
1 GATGAGAAACTGGGCAT
49859227 GATGAGAAACTGGGCAT
1 GATGAGAAACTGGGCAT
49859244 CAAATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.35, T:0.18
Consensus pattern (17 bp):
GATGAGAAACTGGGCAT
Found at i:49862652 original size:6 final size:6
Alignment explanation
Indices: 49862609--49862680 Score: 65
Period size: 6 Copynumber: 11.8 Consensus size: 6
49862599 AGAAACAACC
* * * * *
49862609 ATAAAA ATAGAAA GAGAAAA ATAACA AGAAAG ATAAAA ATAAAA AAAAAA
1 ATAAAA ATA-AAA -ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
49862659 AT-AAA ATAAAA ATAAAG ATAAA
1 ATAAAA ATAAAA ATAAAA ATAAA
49862681 TAGACTCAAT
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
5 5 0.10
6 39 0.75
7 6 0.12
8 2 0.04
ACGTcount: A:0.78, C:0.01, G:0.08, T:0.12
Consensus pattern (6 bp):
ATAAAA
Found at i:49862664 original size:17 final size:17
Alignment explanation
Indices: 49862644--49862680 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
49862634 AAGAAAGATA
49862644 AAAATAAAAAAAAAAAT
1 AAAATAAAAAAAAAAAT
* *
49862661 AAAATAAAAATAAAGAT
1 AAAATAAAAAAAAAAAT
49862678 AAA
1 AAA
49862681 TAGACTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAATAAAAAAAAAAAT
Found at i:49863579 original size:40 final size:40
Alignment explanation
Indices: 49863511--49863622 Score: 188
Period size: 40 Copynumber: 2.8 Consensus size: 40
49863501 AATTTAGTGG
* * *
49863511 CTTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTATAC
1 CTTTAGCGACGC-TTTTTAAAAAACGCCGCTATAAGTACAC
49863552 CTTTAGCGACGCTTTTTAAAAAACGCCGCTATAAGTACAC
1 CTTTAGCGACGCTTTTTAAAAAACGCCGCTATAAGTACAC
49863592 CTTTAGCGACGCTTTTTAAAAAACGCCGCTA
1 CTTTAGCGACGCTTTTTAAAAAACGCCGCTA
49863623 ATGCTCGATC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
40 57 0.84
41 11 0.16
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (40 bp):
CTTTAGCGACGCTTTTTAAAAAACGCCGCTATAAGTACAC
Found at i:49863608 original size:133 final size:129
Alignment explanation
Indices: 49863377--49863623 Score: 329
Period size: 133 Copynumber: 1.9 Consensus size: 129
49863367 TGAGCCTTTG
* *
49863377 GTGGCTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCACTTTTCTAAAA
1 GTGGCTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATC-ACTATTAGCGACACTTTTCTAAAA
* * * *
49863442 AGCCGCTATATGTACACCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAAGAATTTTGTAATTTA
65 AGCCGCTATAAGTACACCTTTAGCGACGCTTTTTAAAAAACGCCGCTAAAGAATTTTGTAATTTA
* *
49863507 GTGGCTTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTAT-ACCT-TTAGCGACGCTTTT-T
1 GTGGCTTTAGCGGCGC-TTTCTAA-AAACGCCGCTA-AAG-ATCA-CTATTAGCGACACTTTTCT
49863569 AAAAAACGCCGCTATAAGTACACCTTTAGCGACGCTTTTTAAAAAACGCCGCTAA
61 -AAAAA-GCCGCTATAAGTACACCTTTAGCGACGCTTTTTAAAAAACGCCGCTAA
49863624 TGCTCGATCT
Statistics
Matches: 102, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
130 16 0.16
131 7 0.07
132 29 0.28
133 48 0.47
134 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
GTGGCTTTAGCGGCGCTTTCTAAAAACGCCGCTAAAGATCACTATTAGCGACACTTTTCTAAAAA
GCCGCTATAAGTACACCTTTAGCGACGCTTTTTAAAAAACGCCGCTAAAGAATTTTGTAATTTA
Found at i:49863654 original size:41 final size:39
Alignment explanation
Indices: 49863511--49863658 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 39
49863501 AATTTAGTGG
* * *
49863511 CTTTAGCGGCGCTTTTTTAAGAAACGCCGCTATAAGTATAC
1 CTTTAGCGACGC-TTTTTAAAAAACGCCGCTATAAGT-CAC
49863552 CTTTAGCGACGCTTTTTAAAAAACGCCGCTATAAGTACAC
1 CTTTAGCGACGCTTTTTAAAAAACGCCGCTATAAGT-CAC
* *
49863592 CTTTAGCGACGCTTTTTAAAAAACGCCGCTA-ATGCTCGAT
1 CTTTAGCGACGCTTTTTAAAAAACGCCGCTATAAG-TC-AC
* * *
49863632 CTTTAGCGGCGTTTTTTGAAAAACGCC
1 CTTTAGCGACGCTTTTTAAAAAACGCC
49863659 ACAAAAATAG
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.03
40 83 0.86
41 11 0.11
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (39 bp):
CTTTAGCGACGCTTTTTAAAAAACGCCGCTATAAGTCAC
Found at i:49865206 original size:43 final size:44
Alignment explanation
Indices: 49865158--49865315 Score: 207
Period size: 43 Copynumber: 3.7 Consensus size: 44
49865148 AATAATTTTT
** * *
49865158 TAAAAGGTCAT-ATTTTTAGCGGCGTTTTTAGGAAAAGCGCCGC
1 TAAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
49865201 TAAAA-GTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
49865244 T-ACAGGTCATGACGTTTAGCGGCGTTTGTGGGAAAAGCGCCG-
1 TAAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
49865286 TTACAGGCCATGACCTTTAGCGGCGTTTGT
1 TAAAAGGTCATGACCTTTAGCGGCGTTTGT
49865316 TCCTGATCTT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
42 8 0.08
43 96 0.92
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (44 bp):
TAAAAGGTCATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:49869070 original size:28 final size:28
Alignment explanation
Indices: 49869038--49869094 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
49869028 AACTAAACGG
49869038 CAACCTCCGTAATAGACATCTCATTGAA
1 CAACCTCCGTAATAGACATCTCATTGAA
49869066 CAACCTCCGTAATAGACATCTCATTGAA
1 CAACCTCCGTAATAGACATCTCATTGAA
49869094 C
1 C
49869095 CAAACAAGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.30, G:0.11, T:0.25
Consensus pattern (28 bp):
CAACCTCCGTAATAGACATCTCATTGAA
Found at i:49876589 original size:23 final size:22
Alignment explanation
Indices: 49876545--49876613 Score: 97
Period size: 22 Copynumber: 3.1 Consensus size: 22
49876535 CCTGAACTGA
49876545 TGAACAGTAAGCTC-ATCGAGC
1 TGAACAGTAAGCTCTATCGAGC
49876566 TGAA-ATGGTAAGCTCTATCGAGC
1 TGAACA--GTAAGCTCTATCGAGC
*
49876589 TGAACAGTAAGCTCTTTCGAGC
1 TGAACAGTAAGCTCTATCGAGC
49876611 TGA
1 TGA
49876614 TATATATGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
20 1 0.02
21 4 0.09
22 26 0.60
23 11 0.26
24 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:49878701 original size:74 final size:74
Alignment explanation
Indices: 49878580--49878726 Score: 276
Period size: 74 Copynumber: 2.0 Consensus size: 74
49878570 AATTTTTATA
* *
49878580 AAGTGTCGACACTTAGTATGGTCTATTTTGGTCTAGCACGTGATCTTTATCTATAAAGAACAAGA
1 AAGTGACGACACTTAGTATGGTCTATTTTGGTCTAGCACATGATCTTTATCTATAAAGAACAAGA
49878645 GTCTTACTC
66 GTCTTACTC
49878654 AAGTGACGACACTTAGTATGGTCTATTTTGGTCTAGCACATGATCTTTATCTATAAAGAACAAGA
1 AAGTGACGACACTTAGTATGGTCTATTTTGGTCTAGCACATGATCTTTATCTATAAAGAACAAGA
49878719 GTCTTACT
66 GTCTTACT
49878727 TGAGTAAGGA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 71 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (74 bp):
AAGTGACGACACTTAGTATGGTCTATTTTGGTCTAGCACATGATCTTTATCTATAAAGAACAAGA
GTCTTACTC
Found at i:49878989 original size:19 final size:20
Alignment explanation
Indices: 49878956--49878997 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
49878946 TTTTCTATTC
* *
49878956 ATTAAAATATTATTTATTTA
1 ATTAAAATATAATTTAATTA
49878976 ATTAAAAT-TAATTTAATTA
1 ATTAAAATATAATTTAATTA
49878995 ATT
1 ATT
49878998 TTCTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTAAAATATAATTTAATTA
Found at i:49879015 original size:17 final size:17
Alignment explanation
Indices: 49878983--49879030 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
49878973 TTAATTAAAA
49878983 TTAATTTAATTAATTTTC
1 TTAATTTAATT-ATTTTC
*
49879001 TTAATTAAATTATTTTC
1 TTAATTTAATTATTTTC
*
49879018 TCAATTTAATTAT
1 TTAATTTAATTAT
49879031 AATTTCGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAATTTAATTATTTTC
Found at i:49882194 original size:3 final size:3
Alignment explanation
Indices: 49882186--49882211 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49882176 AAGGCCTGGG
49882186 CCT CCT CCT CCT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CC
49882212 ATGCTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
CCT
Found at i:49885899 original size:22 final size:22
Alignment explanation
Indices: 49885871--49885920 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
49885861 CTATGCAATA
49885871 GATTTGATATCCATTATTTCTT
1 GATTTGATATCCATTATTTCTT
49885893 GATTTGATATCCATTATTTCTT
1 GATTTGATATCCATTATTTCTT
*
49885915 TATTTG
1 GATTTG
49885921 CTTTTTGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (22 bp):
GATTTGATATCCATTATTTCTT
Found at i:49890413 original size:40 final size:38
Alignment explanation
Indices: 49890303--49890430 Score: 114
Period size: 40 Copynumber: 3.3 Consensus size: 38
49890293 ATTTGATGTG
* * *
49890303 TATCCGGGCTCAAAGACCCGTAGGCTATATGCTGGTATTA
1 TATCCGGG-TTAAAGTCCCGTAGGCT-TGTGCTGGTATTA
* *
49890343 TATCCGGGTTAAA-TCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAAGTCCCGTAGG-CTTGTGCTGGTATTA
* * *
49890381 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAAGTCCCGTAGGCTT-GTGCTGGTATTA
* *
49890421 TGTTCGGGTT
1 TATCCGGGTT
49890431 TTATACCTCG
Statistics
Matches: 70, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
38 23 0.33
39 17 0.24
40 30 0.43
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (38 bp):
TATCCGGGTTAAAGTCCCGTAGGCTTGTGCTGGTATTA
Found at i:49894870 original size:26 final size:26
Alignment explanation
Indices: 49894834--49894943 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
49894824 CATGAAATTC
49894834 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
49894860 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
49894886 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
49894912 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
49894938 TTATCA
1 TTATCA
49894944 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:49896766 original size:10 final size:11
Alignment explanation
Indices: 49896746--49896802 Score: 59
Period size: 10 Copynumber: 5.5 Consensus size: 11
49896736 TTAGGATTTG
49896746 TTTTCATTTATC
1 TTTT-ATTTATC
49896758 TTTTA-TTATC
1 TTTTATTTATC
*
49896768 -TTTAATTATC
1 TTTTATTTATC
49896778 -TTTATTTAT-
1 TTTTATTTATC
*
49896787 TTGTATTTATC
1 TTTTATTTATC
49896798 TTTTA
1 TTTTA
49896803 GAATTTAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 4 0.10
10 26 0.67
11 5 0.13
12 4 0.10
ACGTcount: A:0.21, C:0.09, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTTATTTATC
Found at i:49907517 original size:23 final size:25
Alignment explanation
Indices: 49907491--49907537 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
49907481 TATCATTCAT
*
49907491 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
49907514 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
49907538 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:49907858 original size:46 final size:46
Alignment explanation
Indices: 49907798--49908060 Score: 402
Period size: 46 Copynumber: 5.7 Consensus size: 46
49907788 TTTGACGTGA
* * * * * *
49907798 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
49907844 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
49907890 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
49907936 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
49907982 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
49908028 TGCCATGGTATCTTTCAACCATGGTCTTACACA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA
49908061 CAGGTTGCCA
Statistics
Matches: 203, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 199 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:49913434 original size:18 final size:19
Alignment explanation
Indices: 49913394--49913448 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
49913384 AAATTAAATC
*
49913394 TCTAAGATTGCATATCCTA
1 TCTAAGATTGCATATCATA
49913413 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
49913431 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
49913449 TGAAGATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 17 0.50
19 17 0.50
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:49913604 original size:21 final size:20
Alignment explanation
Indices: 49913567--49913605 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
49913557 TTGGACTGCG
**
49913567 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
49913587 TTTTATTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
49913606 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:49917888 original size:17 final size:18
Alignment explanation
Indices: 49917852--49917897 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
49917842 TATTGTTTGG
49917852 ATATTGTATAACTCTTGTT
1 ATATTGT-TAACTCTTGTT
*
49917871 ATATTGTTAA-TTTTGTT
1 ATATTGTTAACTCTTGTT
49917888 ACTATT-TTAA
1 A-TATTGTTAA
49917898 AGGCATCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 11 0.44
18 7 0.28
19 7 0.28
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (18 bp):
ATATTGTTAACTCTTGTT
Found at i:49922202 original size:32 final size:32
Alignment explanation
Indices: 49922161--49922225 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
49922151 GGACTGCCCC
49922161 AGCTGGCACAATTGAGGACAATAATAAAACTA
1 AGCTGGCACAATTGAGGACAATAATAAAACTA
*
49922193 AGCTGGCACAATTGAGGACAATATTAAAACTA
1 AGCTGGCACAATTGAGGACAATAATAAAACTA
49922225 A
1 A
49922226 CTTCGAATGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.18, T:0.20
Consensus pattern (32 bp):
AGCTGGCACAATTGAGGACAATAATAAAACTA
Found at i:49934454 original size:30 final size:30
Alignment explanation
Indices: 49934418--49934480 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
49934408 TCAAAATATA
49934418 AGATAGTCAGCATAAAAGAAACTAAAAAGT
1 AGATAGTCAGCATAAAAGAAACTAAAAAGT
49934448 AGATAGTCAGCATAAAAGAAACTAAAAAGT
1 AGATAGTCAGCATAAAAGAAACTAAAAAGT
49934478 AGA
1 AGA
49934481 ATGTTTATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.16
Consensus pattern (30 bp):
AGATAGTCAGCATAAAAGAAACTAAAAAGT
Found at i:49939018 original size:20 final size:21
Alignment explanation
Indices: 49938965--49939027 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
49938955 AAAACGGGTA
*
49938965 TTAATA-T-TATTAAATATTT
1 TTAATATTATATTAATTATTT
* *
49938984 TTAATGTTATTTTAATTATTT
1 TTAATATTATATTAATTATTT
*
49939005 TTAA-ATTCTATTAATTATGTT
1 TTAATATTATATTAATTAT-TT
49939026 TT
1 TT
49939028 TAATCCTTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 5 0.14
20 12 0.34
21 18 0.51
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (21 bp):
TTAATATTATATTAATTATTT
Found at i:49942240 original size:24 final size:23
Alignment explanation
Indices: 49942171--49942240 Score: 56
Period size: 24 Copynumber: 3.0 Consensus size: 23
49942161 ATAATGTTAA
*
49942171 AATTA-AATTATAACTATTTTTA-
1 AATTATAATTAT-ACAATTTTTAT
* *
49942193 ACTAATAATTATA-AATTATATTAT
1 AATTATAATTATACAATT-T-TTAT
49942217 AATTATAATTATCACAATTTTTAT
1 AATTATAATTAT-ACAATTTTTAT
49942241 TATATTTTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
21 3 0.08
22 5 0.14
23 9 0.24
24 14 0.38
25 2 0.05
26 4 0.11
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
AATTATAATTATACAATTTTTAT
Found at i:49953554 original size:4 final size:4
Alignment explanation
Indices: 49953545--49953569 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
49953535 AGCAAACGTG
49953545 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
49953570 TAGAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:49954397 original size:47 final size:47
Alignment explanation
Indices: 49954333--49954443 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
49954323 GACATTGAGT
* *
49954333 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
49954380 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
49954427 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
49954444 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:49968380 original size:30 final size:30
Alignment explanation
Indices: 49968344--49968400 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
49968334 CACAGACTGG
*
49968344 CACATGGGCGTATGGCCAGCTCGTGTGACT
1 CACATGGGCGTATGGCCAGCCCGTGTGACT
*
49968374 CACATGGGCGTGTGGCCAGCCCGTGTG
1 CACATGGGCGTATGGCCAGCCCGTGTG
49968401 GAAATGCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.21
Consensus pattern (30 bp):
CACATGGGCGTATGGCCAGCCCGTGTGACT
Found at i:49970273 original size:6 final size:6
Alignment explanation
Indices: 49970227--49970294 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
49970217 CAAAATAGAC
* * * *
49970227 ATAAAA ATTAAA ATTAAA ATTAAA ATTAAA ATAAAA GATAAAA AT--AA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA -ATAAAA ATAAAA
*
49970274 A-AAAA ATAAAC ATAAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAA
49970295 TCAGACTCAA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
4 3 0.06
5 3 0.06
6 42 0.78
7 6 0.11
ACGTcount: A:0.75, C:0.01, G:0.01, T:0.22
Consensus pattern (6 bp):
ATAAAA
Found at i:49970288 original size:21 final size:22
Alignment explanation
Indices: 49970254--49970294 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
49970244 AATTAAAATT
*
49970254 AAAATAAAAGATAAAAATAAAA
1 AAAATAAAACATAAAAATAAAA
49970276 AAAAT-AAACATAAAAATAA
1 AAAATAAAACATAAAAATAA
49970295 TCAGACTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAATAAAACATAAAAATAAAA
Found at i:49971976 original size:28 final size:28
Alignment explanation
Indices: 49971928--49971982 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
49971918 ATGGAAAGAC
* * *
49971928 AATAATAATGATATATAAAGAATAAATA
1 AATAATAAAGATACATAAAGAAAAAATA
49971956 AATAATAAAGA-ACATAGAAGAAAAAAT
1 AATAATAAAGATACATA-AAGAAAAAAT
49971983 CGACTGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (28 bp):
AATAATAAAGATACATAAAGAAAAAATA
Found at i:49972376 original size:29 final size:29
Alignment explanation
Indices: 49972318--49972381 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
49972308 TTAAATGGGG
* * *
49972318 ACACGATTGTGTGAGCCTCGTGTTGAGCC
1 ACACGATAGTGTGAGCCTCCTGTGGAGCC
* *
49972347 ATACGATAGTGTGAGCCTCCTGTGGGGCC
1 ACACGATAGTGTGAGCCTCCTGTGGAGCC
49972376 ACACGA
1 ACACGA
49972382 CCGTGTGGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.23
Consensus pattern (29 bp):
ACACGATAGTGTGAGCCTCCTGTGGAGCC
Found at i:49972387 original size:29 final size:29
Alignment explanation
Indices: 49972326--49972388 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
49972316 GGACACGATT
* * * *
49972326 GTGTGAGCCTCGTGTTGAGCCATACGATA
1 GTGTGAGCCTCCTGTGGAGCCACACGACA
* *
49972355 GTGTGAGCCTCCTGTGGGGCCACACGACC
1 GTGTGAGCCTCCTGTGGAGCCACACGACA
49972384 GTGTG
1 GTGTG
49972389 GCTCGAATCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (29 bp):
GTGTGAGCCTCCTGTGGAGCCACACGACA
Found at i:49985725 original size:19 final size:16
Alignment explanation
Indices: 49985695--49985744 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
49985685 TAGTAATTGA
*
49985695 TTATTTTTTTAAAATT
1 TTATATTTTTAAAATT
49985711 TTAATATAGTTTTAATAATT
1 TT-ATAT--TTTTAA-AATT
49985731 TTATATTTTTAAAA
1 TTATATTTTTAAAA
49985745 ATTAAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
19 10 0.34
20 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTATATTTTTAAAATT
Found at i:49990008 original size:10 final size:10
Alignment explanation
Indices: 49989993--49990017 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
49989983 CACTGATGAT
49989993 GAACAATAAA
1 GAACAATAAA
49990003 GAACAATAAA
1 GAACAATAAA
49990013 GAACA
1 GAACA
49990018 CAACAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACAATAAA
Found at i:49991602 original size:985 final size:985
Alignment explanation
Indices: 49989295--49992424 Score: 4150
Period size: 985 Copynumber: 3.2 Consensus size: 985
49989285 ACACTTGTGC
49989295 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* * ** *
49989360 TTTCCAAC-AAAACAACAAGATAATAAGCTAAAACAATAATGAATTCGGATTCTTTTTAATTTTA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
* * *
49989424 AAATTTTATGTACTTTTAATTATAAAAATCATTCAAAAAATAATTTTAATA-TTTTT-AAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
* * *
49989487 AATTATATTTAATATATCTATATAACAATAATAACAATTGATTAGTGCAATACATAAACAAAATC
196 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
* * * ** *
49989552 ACAAGTACGATTGATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTCATGCACAAA
261 AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
* * * *
49989617 TAGACATATTAATAATCAACGTATATACATATATGGAACGCACGTGTTAAGATTTAAATAAAAAA
326 CAGACATATTAATAATCAACGAATATA-GT-T-T---A-GAAC-TGTTAAGA--TAAAT-AAAAA
* * *
49989682 AAACTACGTATTGGAAACGCACAAATGATATTTATGCATGGTGGGAGTCAACCTGGTATCACAAA
380 AAACTACGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAA
* *
49989747 ATTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAACATTAAAATAAACATC
445 GTTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATC
*
49989812 AAAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTT-TTTTAATACAAT
510 AAAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAAT
* *
49989876 CGTTGAATAATTCTATTAGTAAAATATAAGTTAAATATTATGTATTATATTTTGAAAGTTCTAAA
575 CGTTGAATAATTCTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCT-AA
*
49989941 ATGATACTTGCAAGCAAATTGAATAAG-ACCAACTATTTTCGACACTGATGATGAACAATAAAGA
639 ATGATACTTGCAAGCAAATTGAGT-AGTACCAACTATTTTCGACACT-A--ATG-------AAGA
* * * ***
49990005 ACAATAAAGAACACAACAATATGTTTGCGTATTTTGGTTTCCATACATCAGCAAAGCCTTAGTTC
693 ATAATAAAG-ACACAACAATATGTTTGCGTATTTTAGTTT-CATACATCAGCAAGGCCTTAGCAA
* * * ** * *
49990070 TGATATAATCTATTTTCTTAATACTTTGTACAACAAGTAGTTACAAACACTAAGTCTCATAAAAA
756 TGAGATAATCCATTATCTTAGCACTTTGTACAACAAGTAGTTACAAACACTAACTCTCACAAAAA
* * *
49990135 TAGGATTACACTTTTGTTCCTAAGATCTAGACAAGCCCTCTCTAAATTTCCTCCCTGAAAATATA
821 TAGGATTTCACTTTTGTACCTAAGATCTAGACAAGTCC-CTCTAAATTTCCTCCCTGAAAATATA
*
49990200 GGATAAAAATCAAGTAACACACTTGATTTTACACTTAGTGCAATCTAAATAAACATTCATCACTA
885 GGATAAAAATCAAGTAACACACTTGATTTTACACTTAGTGCAATCTAAATAAACATTCCTCACTA
49990265 AACAGAAATAAGTGCTCTCAAATCAGTATATAACCT
950 AACAGAAATAAGTGCTCTCAAATCAGTATATAACCT
* * * *
49990301 ATACAAGTCTTCTCAATTTATAATAAAATTAGACTTGCTAACATACTAGATCAGTGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* * * * * *
49990366 CTTCCAACTAAAACAATAAGATAATCAGCTCTAAGAATAATGGAATCGGATTCTTTCTAGTTTAA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
* * * *
49990431 AATTTTTATTTACTTTTAATTATAAAAATGACTCTAAATATCATTTTAATATTTTTTGAAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
* * *
49990496 AACTATAATTAATATA-CTTATATACCAATAATCACAATTAATTAGTGTAATACATAAACAAAAT
196 AATTATAATTAATATATC-TATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAAT
*
49990560 CACAAA-TAT-AATCAATACATCCGTACAATTATGACTAGAATCAACCAAAGCAATTTAATGCAC
260 CA-AAAGT-TCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCAC
* * *
49990623 AAACAAACATATTAATAAT-AACGCATAT-GTTTTG-A-T-TTAA-ATAAATAAATAAATAACTA
323 AAACAGACATATTAATAATCAACGAATATAGTTTAGAACTGTTAAGATAAATAAA-AAA-AACTA
* * * *
49990682 CGTATTGAAAACCCACAAATAATATTTATGCATGGTGGCAGTTGACCTGGAATCACAAAGTTTCT
386 CGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAGTTTCT
* *
49990747 ACTTTGCCATCAAACCAAAACCACATTGACAAAAGAATTTTAATATTAAAATAAACATTAAAGGT
451 ACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCAAAGGT
* *
49990812 TAAGCGACTTAGACATAAGCAAGAAATTCTTTTATTATCTAAATTTGTTTCAATACAATCGTGGA
516 TAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATCGTTGA
* * * *
49990877 CTAATTTTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTCCTACAATAATA
581 ATAATTCTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTA-AATGATA
* * *
49990942 CTTGCAAGCAAATTGAGTAGTATCAACTATTTTCGGCACTAATGAAGAATAATAAAGAGCATAAC
645 CTTGCAAGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGA-CACAAC
* * * * **
49991007 AATACGTTTGTGTATTTTAGTTTGCATACATCAACAAGGCCTTTGCAATGAGATAATCCATCGTC
709 AATATGTTTGCGTATTTTAGTTT-CATACATCAGCAAGGCCTTAGCAATGAGATAATCCATTATC
* * * * *
49991072 TTAGCACTTTGTACAAAAAATAGTTACAAATACAAACTTTCACAAAAATAGGATTTCACTTTTGT
773 TTAGCACTTTGTACAACAAGTAGTTACAAACACTAACTCTCACAAAAATAGGATTTCACTTTTGT
** * * *
49991137 ACCTAAGATGAAGACAAGTACCCTCTAAATTTCATCACTAAAAATATAGGATAAAAATCAAGTAA
838 ACCTAAGATCTAGACAAGT-CCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAGTAA
* * * *
49991202 CACACTAGATTTTACACTAAGTGCATAT-TAAATAAACATTCCTCAATAAACAGAAATAAGTGTT
902 CACACTTGATTTTACACTTAGTGCA-ATCTAAATAAACATTCCTCACTAAACAGAAATAAGTGCT
* *
49991266 CTCAAATCAGTACATAACTT
966 CTCAAATCAGTATATAACCT
49991286 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* * **
49991351 CTTCCAACTAAAACAACAAGATAATTAGCTCTAAGAATAATGGATTCGGATTCTTTTTTGTTTTA
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
49991416 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
131 AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
*
49991481 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAACCAAAATC
196 AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
* * * *
49991546 AAAAGTTCAATCAAAACATCCGTACAATTATGGCTACAATCAACCAATGGAATTTAATGCACAAA
261 AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
* * *
49991611 CAGACATATTAATAATCAATGAATATACAGATATAGAACACACGTGTTGAGATTTAAATAAAAAA
326 CAGACATATTAATAATCAACGAATAT--AG-TTTAG---A-AC-TGTTAAGA--TAAATAAAAAA
* * * *
49991676 AATTACGTATTAAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCAGTTATCACAAAG
381 AACTACGTATTGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAG
* * *
49991741 TTTCTATTTTACCATCTAACCAAGA-C-CATTGACAAAAGAATTTTAATATTAAAATAAACATCA
446 TTTCTACTTTGCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCA
* * * * *
49991804 AAGGTTAAGCTACTTAGACATAACCAAGAAATTCTTCCATTACCTAAATTTGTTTCACTACAATC
511 AAGGTTAAGCGACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATC
* * *
49991869 GTTGAATAATTCTACTGGTAAAATTTAATTTAAATATTATATATTATATTTTGAAAGTTCTAAAC
576 GTTGAATAATTCTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTAAA-
* * * * * * *
49991934 CGGTAGTCGCAAGCAAATTGAGTAGTGCCAACTATTTTCGACAATGATGAAGAATAA-AAA-ACA
640 TGATACTTGCAAGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGACA
* * * * * *
49991997 CAACAATATGTTTGCGCAGTTTAGTTTCATACATTAGCGAGGTCTTAGCAGTGAGATAATCCATT
705 CAACAATATGTTTGCGTATTTTAGTTTCATACATCAGCAAGGCCTTAGCAATGAGATAATCCATT
* *
49992062 ATCTTAGCACTTTATACAACAAGTAGTTACAAACACTAACTCTCACGAAAATAGGA--TCACTTT
770 ATCTTAGCACTTTGTACAACAAGTAGTTACAAACACTAACTCTCACAAAAATAGGATTTCACTTT
* * *
49992125 TGTACCTGAGATCTAGACAAATCTCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAACCAAG
835 TGTACCTAAGATCTAGACAAGTC-CCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAG
* * * * * *
49992190 TAACATACTTGATTCTACACTTAGTG-AACTCTAAATAAGCTTTCCTCACTAAATAAAAATAAGT
899 TAACACACTTGATTTTACACTTAGTGCAA-TCTAAATAAACATTCCTCACTAAACAGAAATAAGT
*
49992254 GCTCTCAAATTAGTATATAACCT
963 GCTCTCAAATCAGTATATAACCT
* * * * * *
49992277 ATACAAGTATTTTCAATTTATAATGAAATAAGACTTGTTATCATACTAGATCAATGACAATCAAT
1 ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
* *
49992342 CTTCCAACTAAAACAACAAG---ATCAGCTCTAACAATAATGGGATTCGGAATCTTTTTTATTTT
66 CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAAT-GGATTCGGATTCTTTTTAATTTT
49992404 AAATTTTTATTTACTTTTAAT
130 AAATTTTTATTTACTTTTAAT
49992425 CTGAACACAG
Statistics
Matches: 1867, Mismatches: 219, Indels: 93
0.86 0.10 0.04
Matches are distributed among these distances:
984 5 0.00
985 561 0.30
986 12 0.01
988 16 0.01
989 44 0.02
990 6 0.00
991 210 0.11
992 6 0.00
993 87 0.05
994 197 0.11
995 110 0.06
996 9 0.00
997 199 0.11
998 4 0.00
999 80 0.04
1000 4 0.00
1001 8 0.00
1004 1 0.00
1005 1 0.00
1006 69 0.04
1007 90 0.05
1008 14 0.01
1009 132 0.07
1010 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (985 bp):
ATACAAGTCTTCTCAATTTATAATGAAATGAGACTTGCTAACATACTAGATAAATGACAATCAAT
CTTCCAACTAAAACAACAAGATAATCAGCTCTAACAATAATGGATTCGGATTCTTTTTAATTTTA
AATTTTTATTTACTTTTAATTATAAAAATCATTCTAAAAATAATTTTAATATTTTTTGAAGTTAC
AATTATAATTAATATATCTATATAACAATAATCACAATTAATTAGTGCAATACATAAACAAAATC
AAAAGTTCAATCAATACATCCGTACAATTATGACTAGAATCAACCAATGCAATTTAATGCACAAA
CAGACATATTAATAATCAACGAATATAGTTTAGAACTGTTAAGATAAATAAAAAAAACTACGTAT
TGAAAACCCACAAATGATATTTATGCATGGTGGGAGTCGACCTGGTATCACAAAGTTTCTACTTT
GCCATCAAACCAAGACCACATTGACAAAAGAATTTTAATATTAAAATAAACATCAAAGGTTAAGC
GACTTAGACATAAGCAAGAAATTCTTTCATTATCTAAATTTGTTTCAATACAATCGTTGAATAAT
TCTATTAGTAAAATATAATTTAAATATTATATATTATATTTTGAAAGTTCTAAATGATACTTGCA
AGCAAATTGAGTAGTACCAACTATTTTCGACACTAATGAAGAATAATAAAGACACAACAATATGT
TTGCGTATTTTAGTTTCATACATCAGCAAGGCCTTAGCAATGAGATAATCCATTATCTTAGCACT
TTGTACAACAAGTAGTTACAAACACTAACTCTCACAAAAATAGGATTTCACTTTTGTACCTAAGA
TCTAGACAAGTCCCTCTAAATTTCCTCCCTGAAAATATAGGATAAAAATCAAGTAACACACTTGA
TTTTACACTTAGTGCAATCTAAATAAACATTCCTCACTAAACAGAAATAAGTGCTCTCAAATCAG
TATATAACCT
Found at i:50009365 original size:19 final size:19
Alignment explanation
Indices: 50009341--50009378 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50009331 CATAATTGAC
50009341 CATGCAAAAATATAAAAGT
1 CATGCAAAAATATAAAAGT
50009360 CATGCAAAAATATAAAAGT
1 CATGCAAAAATATAAAAGT
50009379 TTTAGAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.21
Consensus pattern (19 bp):
CATGCAAAAATATAAAAGT
Found at i:50014030 original size:39 final size:39
Alignment explanation
Indices: 50013972--50014049 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
50013962 CCTAAACCAA
* * * *
50013972 AATCCACAAGAAAGCATCCTTCGAGTTTCAAGCC-AACCT
1 AATCCAAAAGAAAGAATCCTTCAAGCTTCAA-CCTAACCT
50014011 AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
1 AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
50014050 TGAATCACTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 32 0.94
ACGTcount: A:0.40, C:0.29, G:0.10, T:0.21
Consensus pattern (39 bp):
AATCCAAAAGAAAGAATCCTTCAAGCTTCAACCTAACCT
Found at i:50034084 original size:33 final size:33
Alignment explanation
Indices: 50034039--50034104 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
50034029 TATCCAGAAA
* *
50034039 GAGTAAATTAGCACTTAGAACTTCAAGAGCTAC
1 GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
*
50034072 GAGTAAAGTAGCACTTAGAACTTCTACAGCTAC
1 GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
50034105 TTGGACTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (33 bp):
GAGTAAAGTAGCACTTAGAACTTCAACAGCTAC
Found at i:50038380 original size:21 final size:20
Alignment explanation
Indices: 50038342--50038380 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50038332 ACATATACGA
*
50038342 AAACAACTTAAAACACTAGT
1 AAACAACTTAAAAAACTAGT
*
50038362 AAACCACTTGAAAAAACTA
1 AAACAACTT-AAAAAACTA
50038381 AAACACCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.18
Consensus pattern (20 bp):
AAACAACTTAAAAAACTAGT
Found at i:50040146 original size:20 final size:20
Alignment explanation
Indices: 50040121--50040158 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50040111 AAATTTTATT
50040121 TTATTTTTATATTTTGAAAA
1 TTATTTTTATATTTTGAAAA
*
50040141 TTATTTTTATTTTTTGAA
1 TTATTTTTATATTTTGAA
50040159 TTTTAAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (20 bp):
TTATTTTTATATTTTGAAAA
Found at i:50040223 original size:18 final size:18
Alignment explanation
Indices: 50040148--50040229 Score: 53
Period size: 16 Copynumber: 4.4 Consensus size: 18
50040138 AAATTATTTT
*
50040148 TATTTTTTGAATTTTAAA
1 TATTTTTTTAATTTTAAA
* *
50040166 GA--GTTTTAATTTTAATCA
1 TATTTTTTTAATTTTAA--A
**
50040184 TAATTTTTTATTTTTTTAAAA
1 T-ATTTTTT-TAATTTT-AAA
50040205 TATTTTTTTAATTTTAAA
1 TATTTTTTTAATTTTAAA
50040223 T-TTTTTT
1 TATTTTTT
50040230 ATTTAAAATA
Statistics
Matches: 48, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
16 11 0.23
17 6 0.12
18 6 0.12
19 6 0.12
20 7 0.15
21 5 0.10
22 5 0.10
23 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (18 bp):
TATTTTTTTAATTTTAAA
Found at i:50040234 original size:20 final size:20
Alignment explanation
Indices: 50040185--50040235 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
50040175 TTTTAATCAT
50040185 AATTTTTTATTT--TTTTAA
1 AATTTTTTATTTAATTTTAA
*
50040203 AATATTTT-TTTAATTTTAA
1 AATTTTTTATTTAATTTTAA
*
50040222 ATTTTTTTATTTAA
1 AATTTTTTATTTAA
50040236 AATACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 12 0.44
20 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
AATTTTTTATTTAATTTTAA
Found at i:50042642 original size:18 final size:18
Alignment explanation
Indices: 50042606--50042641 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
50042596 ATTAAAGGAG
*
50042606 GGAAGAAGAAAGGTAAAA
1 GGAAGAAGAAAGATAAAA
50042624 GGAAGAAGAAAAGATAAA
1 GGAAGAAG-AAAGATAAA
50042642 GTACTGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.06
Consensus pattern (18 bp):
GGAAGAAGAAAGATAAAA
Found at i:50056336 original size:21 final size:21
Alignment explanation
Indices: 50056310--50056349 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50056300 TACTGGAAAA
*
50056310 TGACCAATATAAAAATAATTG
1 TGACCAAAATAAAAATAATTG
*
50056331 TGACCAAAATAGAAATAAT
1 TGACCAAAATAAAAATAAT
50056350 AAAAAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (21 bp):
TGACCAAAATAAAAATAATTG
Found at i:50058951 original size:15 final size:15
Alignment explanation
Indices: 50058920--50058954 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
50058910 ATCTTAATTT
*
50058920 TATATCTTAAGATTA
1 TATATCTTAAGACTA
*
50058935 TATATCTTAAGGCTA
1 TATATCTTAAGACTA
50058950 TATAT
1 TATAT
50058955 ATATATATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (15 bp):
TATATCTTAAGACTA
Found at i:50058968 original size:2 final size:2
Alignment explanation
Indices: 50058963--50058995 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50058953 ATATATATAT
50058963 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
50058996 TAGGAGGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50067361 original size:20 final size:21
Alignment explanation
Indices: 50067327--50067367 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50067317 TTTATAAAAG
*
50067327 CTTAAAGTTACAAAAAAAACC
1 CTTAAACTTACAAAAAAAACC
*
50067348 CTTAAACTTAAAAAAAAAAC
1 CTTAAACTTACAAAAAAAAC
50067368 ATCAAACCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.61, C:0.17, G:0.02, T:0.20
Consensus pattern (21 bp):
CTTAAACTTACAAAAAAAACC
Found at i:50069067 original size:18 final size:18
Alignment explanation
Indices: 50069046--50069080 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50069036 TTTTGAAAAT
50069046 ATTTAAAATATTAATATA
1 ATTTAAAATATTAATATA
**
50069064 ATTTATTATATTAATAT
1 ATTTAAAATATTAATAT
50069081 TCCAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTAAAATATTAATATA
Found at i:50069186 original size:17 final size:18
Alignment explanation
Indices: 50069159--50069206 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
50069149 ATTCAATATT
*
50069159 AAATATTTTAATAA-TAA
1 AAATATATTAATAATTAA
* *
50069176 AAATTTATTAA-AATTAT
1 AAATATATTAATAATTAA
50069193 AAATATATTAATAA
1 AAATATATTAATAA
50069207 ATGTTTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATATATTAATAATTAA
Found at i:50069998 original size:24 final size:23
Alignment explanation
Indices: 50069971--50070015 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
50069961 TTGGGAATAT
*
50069971 CAAAAGTTGACTTCCTAGGGTTCC
1 CAAAAATTGACTT-CTAGGGTTCC
*
50069995 CAAAAATTGACTTTTAGGGTT
1 CAAAAATTGACTTCTAGGGTT
50070016 TTGAAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (23 bp):
CAAAAATTGACTTCTAGGGTTCC
Found at i:50076409 original size:19 final size:17
Alignment explanation
Indices: 50076370--50076419 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 17
50076360 GATTAAAATC
50076370 TAGTTTTCTCTAAAGAAAA
1 TAGTTTTC-CTAAA-AAAA
50076389 TAGTTTTCCTAAAATAGAA
1 TAGTTTTCCTAAAA-A-AA
50076408 TA-TTTT-CTAAAA
1 TAGTTTTCCTAAAA
50076420 CTTCCGCGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 7 0.24
18 10 0.34
19 12 0.41
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (17 bp):
TAGTTTTCCTAAAAAAA
Found at i:50080921 original size:40 final size:39
Alignment explanation
Indices: 50080884--50080975 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
50080874 GCTACTCGTT
*
50080884 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
50080924 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
50080963 CAAATGCCTTCGG
1 CAAATGCCTTCGG
50080976 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:50080955 original size:39 final size:40
Alignment explanation
Indices: 50080865--50081028 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
50080855 CGGAATTTAA
** *
50080865 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
50080905 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
50080944 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
50080984 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
50081024 CCGGA
1 CCGGA
50081029 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:50096042 original size:2 final size:2
Alignment explanation
Indices: 50096037--50096067 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
50096027 ATATATAAAT
50096037 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
50096068 AGTTTTTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:50098651 original size:6 final size:6
Alignment explanation
Indices: 50098642--50098666 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50098632 AGAGAAAGAT
50098642 GGAGAC GGAGAC GGAGAC GGAGAC G
1 GGAGAC GGAGAC GGAGAC GGAGAC G
50098667 ATGGTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (6 bp):
GGAGAC
Found at i:50104366 original size:13 final size:13
Alignment explanation
Indices: 50104360--50104387 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50104350 TTAAAAATGT
50104360 AAATTAATAAATA
1 AAATTAATAAATA
50104373 AAATTAATAAATA
1 AAATTAATAAATA
50104386 AA
1 AA
50104388 GGTCAATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAATAAATA
Found at i:50105581 original size:15 final size:14
Alignment explanation
Indices: 50105561--50105594 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
50105551 AGCTAATGTA
50105561 AGGGTTTAGGGCTTT
1 AGGGTTTAGGG-TTT
50105576 AGGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
50105590 AGGGT
1 AGGGT
50105595 ATTGGTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.38
Consensus pattern (14 bp):
AGGGTTTAGGGTTT
Found at i:50105583 original size:7 final size:7
Alignment explanation
Indices: 50105561--50105594 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
50105551 AGCTAATGTA
50105561 AGGGTTT
1 AGGGTTT
50105568 AGGGCTTT
1 AGGG-TTT
50105576 AGGGTTT
1 AGGGTTT
50105583 AGGGTTT
1 AGGGTTT
50105590 AGGGT
1 AGGGT
50105595 ATTGGTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.15, C:0.03, G:0.44, T:0.38
Consensus pattern (7 bp):
AGGGTTT
Found at i:50111238 original size:13 final size:14
Alignment explanation
Indices: 50111221--50111282 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 14
50111211 GTATATCTAT
50111221 TTTCATATAACTGA
1 TTTCATATAACTGA
*
50111235 -TTCATATAAC-CA
1 TTTCATATAACTGA
*
50111247 TTTCATGT--CT-A
1 TTTCATATAACTGA
50111258 TTTTCATATAACTGA
1 -TTTCATATAACTGA
50111273 -TTCATATAAC
1 TTTCATATAAC
50111283 CATTTAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
11 2 0.05
12 8 0.21
13 26 0.67
14 2 0.05
15 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.44
Consensus pattern (14 bp):
TTTCATATAACTGA
Found at i:50111302 original size:27 final size:27
Alignment explanation
Indices: 50111272--50111323 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
50111262 CATATAACTG
50111272 ATTCATATAACCATTTAACATATCTGT
1 ATTCATATAACCATTTAACATATCTGT
* * *
50111299 ATTCATCTAACCATTTCATATATCT
1 ATTCATATAACCATTTAACATATCT
50111324 ATTTTTCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.21, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTCATATAACCATTTAACATATCTGT
Found at i:50111317 original size:40 final size:38
Alignment explanation
Indices: 50111204--50111320 Score: 119
Period size: 38 Copynumber: 3.0 Consensus size: 38
50111194 ATCCAATGAT
* *
50111204 CCATTTCGTATATCTATTTTCATATAACTGATTCATATAA
1 CCATTTC--ATATCTATATTCATATAACTCATTCATATAA
* * *
50111244 CCATTTCATGTCTATTTTCATATAACTGATTCATATAA
1 CCATTTCATATCTATATTCATATAACTCATTCATATAA
* *
50111282 CCATTTAACATATCTGTATTCATCTAAC-CATTTCATATA
1 CCATTT--CATATCTATATTCATATAACTCA-TTCATATA
50111321 TCTATTTTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
38 36 0.53
39 1 0.01
40 31 0.46
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (38 bp):
CCATTTCATATCTATATTCATATAACTCATTCATATAA
Found at i:50111327 original size:13 final size:13
Alignment explanation
Indices: 50111178--50111342 Score: 52
Period size: 13 Copynumber: 12.4 Consensus size: 13
50111168 ACTTACATTT
*
50111178 TATTTCAAATATC
1 TATTTCATATATC
*
50111191 TATATCCA-ATGATC
1 TAT-TTCATAT-ATC
* *
50111205 CATTTCGTATATC
1 TATTTCATATATC
*
50111218 TATTTTCATATAAC
1 TA-TTTCATATATC
*
50111232 TGA-TTCATATAAC
1 T-ATTTCATATATC
* *
50111245 CATTTC--ATGTC
1 TATTTCATATATC
*
50111256 TATTTTCATATAAC
1 TA-TTTCATATATC
*
50111270 TGA-TTCATATAAC
1 T-ATTTCATATATC
* * *
50111283 CATTTAACATATC
1 TATTTCATATATC
* * *
50111296 TGTATTCATCTAAC
1 TAT-TTCATATATC
*
50111310 CATTTCATATATC
1 TATTTCATATATC
*
50111323 TATTTTTCATATATT
1 TA--TTTCATATATC
50111338 TATTT
1 TATTT
50111343 TTCACCCAAT
Statistics
Matches: 109, Mismatches: 29, Indels: 28
0.66 0.17 0.17
Matches are distributed among these distances:
11 4 0.04
12 6 0.06
13 54 0.50
14 31 0.28
15 14 0.13
ACGTcount: A:0.32, C:0.18, G:0.04, T:0.47
Consensus pattern (13 bp):
TATTTCATATATC
Found at i:50111336 original size:17 final size:15
Alignment explanation
Indices: 50111312--50111346 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
50111302 CATCTAACCA
*
50111312 TTTCATATATCTATT
1 TTTCATATATTTATT
50111327 TTTCATATATTTATT
1 TTTCATATATTTATT
50111342 TTTCA
1 TTTCA
50111347 CCCAATGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCATATATTTATT
Found at i:50112471 original size:14 final size:14
Alignment explanation
Indices: 50112452--50112480 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50112442 CGATCTAAGG
50112452 ATAAAGATGATGAA
1 ATAAAGATGATGAA
50112466 ATAAAGATGATGAA
1 ATAAAGATGATGAA
50112480 A
1 A
50112481 AATGCCAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (14 bp):
ATAAAGATGATGAA
Found at i:50123899 original size:12 final size:12
Alignment explanation
Indices: 50123877--50123901 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50123867 ACACAAAAAG
50123877 AAAAAGAAAATA
1 AAAAAGAAAATA
50123889 AAAAAGAAAATA
1 AAAAAGAAAATA
50123901 A
1 A
50123902 GTTTAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATA
Found at i:50127981 original size:25 final size:24
Alignment explanation
Indices: 50127953--50128023 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 24
50127943 CATATAGTTC
*
50127953 AAAATATAAAAGAAAAATAAACATA
1 AAAATA-AAAAGAAAAATAAAAATA
* * *
50127978 AAAAGAAAAAAGACACATAAAAATA
1 AAAA-TAAAAAGAAAAATAAAAATA
*
50128003 AAAATAAAAA-TAAAATAAAAA
1 AAAATAAAAAGAAAAATAAAAA
50128024 CAAGCGGACT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 8 0.22
24 5 0.14
25 23 0.62
26 1 0.03
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (24 bp):
AAAATAAAAAGAAAAATAAAAATA
Found at i:50127995 original size:19 final size:18
Alignment explanation
Indices: 50127960--50128017 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
50127950 TTCAAAATAT
50127960 AAAAGAAAAATAAACATA
1 AAAAGAAAAATAAACATA
50127978 AAAAGAAAAA-AGACACATA
1 AAAAGAAAAATA-A-ACATA
* *
50127997 AAAATAAAAATAAAAATA
1 AAAAGAAAAATAAACATA
50128015 AAA
1 AAA
50128018 TAAAAACAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.03
18 18 0.51
19 15 0.43
20 1 0.03
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.10
Consensus pattern (18 bp):
AAAAGAAAAATAAACATA
Done.