Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 133 of 207
Found at i:40688464 original size:21 final size:21
Alignment explanation
Indices: 40688438--40688479 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
40688428 AAAGTTAGTA
*
40688438 TTAAAGTTTCGTTAATAAATT
1 TTAAAGTTTCGATAATAAATT
*
40688459 TTAAAGTTTCGATAATTAATT
1 TTAAAGTTTCGATAATAAATT
40688480 GAATAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (21 bp):
TTAAAGTTTCGATAATAAATT
Found at i:40690070 original size:23 final size:22
Alignment explanation
Indices: 40690044--40690089 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
40690034 GAAATTAATT
40690044 TGAATTG-TGAACATGAGAAATGA
1 TGAATTGATGAA-ATG-GAAATGA
40690067 TGAATTGAATGAAATGGAAATGA
1 TGAATTG-ATGAAATGGAAATGA
40690090 ATCATTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 14 0.67
24 3 0.14
25 4 0.19
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.26
Consensus pattern (22 bp):
TGAATTGATGAAATGGAAATGA
Found at i:40691270 original size:23 final size:23
Alignment explanation
Indices: 40691243--40691371 Score: 142
Period size: 23 Copynumber: 5.8 Consensus size: 23
40691233 GCTATGCCGA
40691243 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
*
40691266 TCAGGCACTTTATGTGTCGTAAT
1 TCAGGCACTTTATGTGTCGTATT
* *
40691289 T-AGGCACTTTTTGTGTCATATT
1 TCAGGCACTTTATGTGTCGTATT
* *
40691311 TCAGGCACCTCATGTGTCGTATAT
1 TCAGGCACTTTATGTGTCGTAT-T
* **
40691335 T-AGGCACCTCGTGTGTCGTA--
1 TCAGGCACTTTATGTGTCGTATT
40691355 TCAGGCAC-TTATGTGTC
1 TCAGGCACTTTATGTGTC
40691372 ATATACTGAT
Statistics
Matches: 92, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
20 8 0.09
21 6 0.07
22 19 0.21
23 57 0.62
24 2 0.02
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:40691296 original size:45 final size:45
Alignment explanation
Indices: 40691245--40691376 Score: 162
Period size: 45 Copynumber: 3.0 Consensus size: 45
40691235 TATGCCGATC
40691245 AGGCACTTTATGTGTCGTATTTCAGGCACTTTATGTGTCGTA-ATT
1 AGGCACTTTATGTGTCGTATTTCAGGCAC-TTATGTGTCGTATATT
* * *
40691290 AGGCACTTTTTGTGTCATATTTCAGGCACCTCATGTGTCGTATATT
1 AGGCACTTTATGTGTCGTATTTCAGGCA-CTTATGTGTCGTATATT
* ** *
40691336 AGGCACCTCGTGTGTCGTA--TCAGGCACTTATGTGTCATATA
1 AGGCACTTTATGTGTCGTATTTCAGGCACTTATGTGTCGTATA
40691377 CTGATCAGGT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
43 13 0.17
44 7 0.09
45 37 0.49
46 19 0.25
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (45 bp):
AGGCACTTTATGTGTCGTATTTCAGGCACTTATGTGTCGTATATT
Found at i:40691352 original size:68 final size:66
Alignment explanation
Indices: 40691243--40691375 Score: 169
Period size: 68 Copynumber: 2.0 Consensus size: 66
40691233 GCTATGCCGA
* * * * * *
40691243 TCAGGCACTTTATGTGTCGTATTTCAGGCACTTTATGTGTCGTAATTAGGCACTTTTTGTGTCAT
1 TCAGGCACCTCATGTGTCGTATTTCAGGCACCTCATGTGTCGT-ATCAGGCAC-TTATGTGTCAT
40691308 ATT
64 ATT
*
40691311 TCAGGCACCTCATGTGTCGTATATT-AGGCACCTCGTGTGTCGTATCAGGCACTTATGTGTCATA
1 TCAGGCACCTCATGTGTCGTAT-TTCAGGCACCTCATGTGTCGTATCAGGCACTTATGTGTCATA
40691375 T
65 T
40691376 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
66 12 0.21
67 8 0.14
68 35 0.61
69 2 0.04
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (66 bp):
TCAGGCACCTCATGTGTCGTATTTCAGGCACCTCATGTGTCGTATCAGGCACTTATGTGTCATAT
T
Found at i:40694925 original size:23 final size:22
Alignment explanation
Indices: 40694899--40694944 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
40694889 GAAATTAATT
40694899 TGAATTG-TGAACATGAGAAATGA
1 TGAATTGATGAA-ATG-GAAATGA
40694922 TGAATTGAATGAAATGGAAATGA
1 TGAATTG-ATGAAATGGAAATGA
40694945 AGCATTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 14 0.67
24 3 0.14
25 4 0.19
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.26
Consensus pattern (22 bp):
TGAATTGATGAAATGGAAATGA
Found at i:40694951 original size:23 final size:25
Alignment explanation
Indices: 40694906--40694954 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
40694896 ATTTGAATTG
*
40694906 TGAACATGAGAAATGATGAATTGAA
1 TGAACATGAGAAATGAAGAATTGAA
*
40694931 TGAA-ATG-GAAATGAAGCATTGAA
1 TGAACATGAGAAATGAAGAATTGAA
40694954 T
1 T
40694955 TGTTAAGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 3 0.14
25 4 0.18
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (25 bp):
TGAACATGAGAAATGAAGAATTGAA
Found at i:40700763 original size:18 final size:18
Alignment explanation
Indices: 40700740--40700797 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
40700730 ATTTAAGCCA
40700740 ATTTAAAATTTAAAAATT
1 ATTTAAAATTTAAAAATT
40700758 ATTTAAAATTATAAAAAAGTT
1 ATTTAAAATT-T-AAAAA-TT
**
40700779 ATAAAAAATTT-AAAATT
1 ATTTAAAATTTAAAAATT
40700796 AT
1 AT
40700798 AAATTTTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 4 0.11
18 14 0.40
19 1 0.03
20 6 0.17
21 10 0.29
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTTAAAATTTAAAAATT
Found at i:40700780 original size:11 final size:10
Alignment explanation
Indices: 40700751--40700793 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
40700741 TTTAAAATTT
*
40700751 AAAAATTATT
1 AAAAATTATA
*
40700761 TAAAATTATA
1 AAAAATTATA
40700771 AAAAAGTTATA
1 AAAAA-TTATA
40700782 AAAAATT-TA
1 AAAAATTATA
40700791 AAA
1 AAA
40700794 TTATAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 5 0.17
10 14 0.48
11 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAAATTATA
Found at i:40700925 original size:11 final size:11
Alignment explanation
Indices: 40700903--40700946 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
40700893 TATTTTATAA
40700903 TTTTA-AAA-T
1 TTTTAGAAATT
*
40700912 TTTTATAAATT
1 TTTTAGAAATT
*
40700923 TTTTAGAATTT
1 TTTTAGAAATT
40700934 TTTTAGAAATT
1 TTTTAGAAATT
40700945 TT
1 TT
40700947 ATGACTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 5 0.17
10 3 0.10
11 22 0.73
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (11 bp):
TTTTAGAAATT
Found at i:40731468 original size:17 final size:17
Alignment explanation
Indices: 40731446--40731480 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
40731436 GAGTATAGTA
40731446 AAATATTAAAAAAAAAG
1 AAATATTAAAAAAAAAG
* *
40731463 AAATATTCAGAAAAAAG
1 AAATATTAAAAAAAAAG
40731480 A
1 A
40731481 GAGACACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.03, G:0.09, T:0.17
Consensus pattern (17 bp):
AAATATTAAAAAAAAAG
Found at i:40733836 original size:12 final size:12
Alignment explanation
Indices: 40733821--40733861 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
40733811 GAACATAGAG
*
40733821 ATAATGATAGTA
1 ATAATGATAATA
40733833 ATAATGATAATA
1 ATAATGATAATA
40733845 TATAAT-ATAATA
1 -ATAATGATAATA
40733857 ATAAT
1 ATAAT
40733862 AATGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (12 bp):
ATAATGATAATA
Found at i:40735488 original size:132 final size:132
Alignment explanation
Indices: 40735340--40736759 Score: 1787
Period size: 132 Copynumber: 10.8 Consensus size: 132
40735330 AGATCTGCTT
* * * * * * *
40735340 TCTTCAATCGATTCCACTACCGACCAGGGAGATAGAATTACTGGCTCCAATATACTCCGCTGCAA
1 TCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* *
40735405 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
40735470 AA
131 AA
* *
40735472 TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * * * * *
40735537 CCACAGGGAGGTAAAAT-TCGCCATCTTTGATCTGCTCCACTACTGTTTAGGGAGACAATATATG
66 CCTCAGGGAGGTAAAATCT-ACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
40735601 AAA
130 AAA
* *
40735604 TCTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGCTGACCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTA
* *
40735668 ACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
65 ACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
40735733 ---
130 AAA
* * * *
40735733 TCTTTAATCTATTCCACTGCTGCCCAAGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGCA
1 TCTTCAATCTATTCCACTGCTGACCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTA
*
40735797 ACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
65 ACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
*
40735862 TAA
130 AAA
* * *
40735865 TCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAA
1 TCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
* * * *
40735930 CCTCAGGAAGGTAAAATCCACCATCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
40735995 AA
131 AA
* * *
40735997 TCTTCAATCTATTCCACTGTTG-CCTAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGCA
1 TCTTCAATCTATTCCACTGCTGACC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
* *
40736061 ACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTG
65 ACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
*
40736126 TAA
130 AAA
* * *
40736129 TCTTCAATCTATTCCACTGTTG-CCTAAGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGCTGACC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
* * *
40736193 ACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG
65 ACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
40736258 AAA
130 AAA
* *
40736261 TCTTCAATCTATTCCGCTGCT-ACCCAGGGA-AGTAGAATTATTGGCTTCAATGTACTCCACTGT
1 TCTTCAATCTATTCCACTGCTGA-CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGT
* * * *
40736324 AACCAT-AGGGAGGTAAAATCTATCGTCTTCGATCTGCTTCGCTGTCTA-TGC--A-GGA-ATGC
64 AACC-TCAGGGAGGTAAAATCTACCATCTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGAT--
*
40736383 AAGATCTAAAA
122 AAGATCTGAAA
*
40736394 TCTTCAGTCTATTCCACTGCTG-CACAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGCTGAC-CAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
* * * * * * * * *
40736458 ACCACAAGGATGTAAAATTTGCCGTCTTCGATCTGCT--TC-ACTGTTTATGCAGGA-ATGCAAG
65 ACCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTA-G--GGAGAT--AAG
*
40736519 ATCTAAAA
125 ATCTGAAA
*
40736527 TCTTCAGTCTATTCCACTGCT-ACCGAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTATTCCACTGCTGACC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTA
* *
40736591 ACCAT-AGGGAGGTAAAAT-TCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATA
65 ACC-TCAGGGAGGTAAAATCT-ACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
40736654 TGAAA
128 TGAAA
40736659 TCTTCAATCTATTCCACTGCT-ACCCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 TCTTCAATCTATTCCACTGCTGA-CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
40736722 AACCACAGGGAGGTAAAAT-TCGCCATCTTTAATCTGCT
64 AACCTCAGGGAGGTAAAATCT-ACCATCTTTGATCTGCT
40736760 TCGTTGTCTA
Statistics
Matches: 1161, Mismatches: 87, Indels: 80
0.87 0.07 0.06
Matches are distributed among these distances:
126 1 0.00
127 4 0.00
129 125 0.11
131 7 0.01
132 793 0.68
133 213 0.18
134 3 0.00
135 5 0.00
136 10 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TCTTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
CCTCAGGGAGGTAAAATCTACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGA
AA
Found at i:40735894 original size:44 final size:44
Alignment explanation
Indices: 40735846--40736290 Score: 145
Period size: 44 Copynumber: 10.1 Consensus size: 44
40735836 ACTACTGCTT
* * *
40735846 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCC
* * * *
40735890 AGGGAGAT-AGA-AT-TACTGGCTTCAATGTACTCCACTGCAACCTC
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCTACC-C
* * * **** ** * * * * **
40735934 AGGAAGGTAAAATCCACCATCTTTGATTTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCC
* * * *
40735978 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCC
* * * *
40736022 AGGGAGAT-AGAAC--TACTGGCTTCAATGTACTCCACTGCAACCTC
1 AGGGAGATAAGATCTGTAAT--CTTCAATCTACTCCACTGCTACC-C
* * **** ** * * **
40736066 AGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTACTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCC
* * * *
40736110 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCC
* * * *
40736154 AAGGAGAT-AGA-AT-TACTAGCTTCAATGTACTCCACTG-TAACCAC
1 AGGGAGATAAGATCTGTA--ATCTTCAATCTACTCCACTGCT-ACC-C
* * ** ** * * * **
40736198 AGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCC
* * * *
40736242 AGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTACCC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCC
40736286 AGGGA
1 AGGGA
40736291 AGTAGAATTA
Statistics
Matches: 270, Mismatches: 111, Indels: 40
0.64 0.26 0.10
Matches are distributed among these distances:
41 8 0.03
42 3 0.01
43 65 0.24
44 137 0.51
45 53 0.20
46 2 0.01
47 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCTACCC
Found at i:40736075 original size:393 final size:392
Alignment explanation
Indices: 40735340--40736759 Score: 1860
Period size: 393 Copynumber: 3.6 Consensus size: 392
40735330 AGATCTGCTT
* * * * * * * *
40735340 TCTTCAATCGATTCCACTACCGACCAGGGAGATAGAATTACTGGCTCCAATATACTCCGCTGCAA
1 TCTTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAA
** * *
40735405 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
66 CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
* *
40735470 AATCTTCAATCTATTCCACTGTTGCCCAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTG
131 AATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTG
* * * * * *
40735534 TAACCACAGGGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGTTTAGGGAGACAATATA
195 TAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
*
40735599 TGAAATCTTCAATCTATTCCACTGCTGCCCAGGGA-AGTAGAATTATTGGCTTCAATGTACTCCA
260 TGAAATCTTCAATCTATTCCACTGCTG-CCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCA
40735663 CTGTAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
323 CTGTAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
40735728 ATCTG
388 ATCTG
*
40735733 TCTTTAATCTATTCCACTGCTGCCCAAGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGCA
1 TCTTCAATCTATTCCACTGCTGCCCAAGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGCA
*
40735797 ACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
65 ACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG
* * *
40735862 TAATCTTCAATCTATTCCACTGTTGCCCAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACT
130 AAATCTTCAATCTATTCCACTGCTACCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACT
* * * *
40735926 GCAACCTCAGGAAGGTAAAATCCACCATCTTTGATTTGCTCCACTACTGCTTAGGGAGATAAGAT
194 GTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
* * *
40735991 CTGTAATCTTCAATCTATTCCACTGTTGCCTAGGGAGATAGAACTACTGGCTTCAATGTACTCCA
259 CTGAAATCTTCAATCTATTCCACTGCTGCC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCA
* * *
40736056 CTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAG
323 CTGTAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
40736121 ATCTG
388 ATCTG
* * *
40736126 TAATCTTCAATCTATTCCACTGTTGCCTAAGGAGATAGAATTACTAGCTTCAATGTACTCCACTG
1 ---TCTTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTG
* * **
40736191 TAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATC
63 CAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATC
* *
40736256 TGAAATCTTCAATCTATTCCGCTGCTACCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCAC
128 TGAAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCAC
* * * * * *
40736321 TGTAACCATAGGGAGGTAAAATCTATCGTCTTCGATCTGCTTCGCTGTCTA-TGC--A-GGA-AT
193 TGTAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGC-TC-C--ACTACTGCTTAGGGAGAT
* *
40736381 GCAAGATCTAAAATCTTCAGTCTATTCCACTGCTGCACAGGGAGATAGAATTACTGGCTTCAATG
254 --AAGATCTGAAATCTTCAATCTATTCCACTGCTGC-CAGGGAGATAGAATTACTGGCTTCAATG
* * * *** * * *
40736446 TACTCCACTGTAACCACAAGGATGTAAAATTTGCCGTCTTCGATCTGCT--TC-ACTGTTTATGC
316 TACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTA-G-
*
40736508 AGGA-ATGCAAGATCTAAAA
379 -GGAGAT--AAGATCT---G
* * * * *
40736527 TCTTCAGTCTATTCCACTGCTACCGAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAA
1 TCTTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAA
* *
40736592 CCAT-AGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATATG
66 CC-TCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG
40736656 AAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
130 AAATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
* * *
40736721 TAACCACAGGGAGGTAAAATTCGCCATCTTTAATCTGCT
195 TAACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCT
40736760 TCGTTGTCTA
Statistics
Matches: 912, Mismatches: 91, Indels: 44
0.87 0.09 0.04
Matches are distributed among these distances:
392 3 0.00
393 358 0.39
394 7 0.01
395 4 0.00
396 209 0.23
397 106 0.12
398 219 0.24
399 3 0.00
400 3 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (392 bp):
TCTTCAATCTATTCCACTGCTGCCCAAGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAA
CCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGA
AATCTTCAATCTATTCCACTGCTACCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GAAATCTTCAATCTATTCCACTGCTGCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTG
TAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC
TG
Found at i:40741734 original size:16 final size:16
Alignment explanation
Indices: 40741713--40741743 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
40741703 TTCTATAATG
40741713 AAATGCCATGCAGTCT
1 AAATGCCATGCAGTCT
*
40741729 AAATGCTATGCAGTC
1 AAATGCCATGCAGTC
40741744 AAAGTGAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (16 bp):
AAATGCCATGCAGTCT
Found at i:40743713 original size:12 final size:12
Alignment explanation
Indices: 40743698--40743739 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
40743688 GAACATAGAG
*
40743698 ATAATGATAGTA
1 ATAATGATAATA
40743710 ATAATGATAATA
1 ATAATGATAATA
40743722 TATAAT-ATAATA
1 -ATAATGATAATA
40743734 ATAATG
1 ATAATG
40743740 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (12 bp):
ATAATGATAATA
Found at i:40745948 original size:3 final size:3
Alignment explanation
Indices: 40745940--40745964 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
40745930 TTAGTCAAAT
40745940 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
40745965 CATACCCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:40750053 original size:91 final size:95
Alignment explanation
Indices: 40749953--40750168 Score: 214
Period size: 96 Copynumber: 2.3 Consensus size: 95
40749943 TATTAAAATA
40749953 AAAATTTTATTTATAAT-TTT-TTT-TT-AAAAAAAC-CA-CAAACAAGACTTAAAGCATATTCA
1 AAAATTTTATTTAT-ATGTTTGTTTATTCAAAAAAACTCATCAAACAAG-CTTAAAGCATATTCA
40750012 AACTTTTCATTTTAGTCTATTTTATAATTAAT
64 AACTTTTCATTTTAGTCTATTTTATAATTAAT
*** *** *** *
40750044 AAAATTTTA-TTATATGTTTGGCTTTATTCCCTAGTCCTCATCAAATTTGTTTAAAGCATATTCA
1 AAAATTTTATTTATATGTTT-G-TTTATTCAAAAAAACTCATCAAACAAGCTTAAAGCATATTCA
*
40750108 AACTTTTTATTTTAGTCTATTTTATAATTAAT
64 AACTTTTCATTTTAGTCTATTTTATAATTAAT
*
40750140 AAAATTTTA-TTCTATGTTTGGCTTTATTC
1 AAAATTTTATTTATATGTTT-G-TTTATTC
40750169 CCTAGTCCTC
Statistics
Matches: 105, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
89 2 0.02
90 7 0.07
91 9 0.09
93 3 0.03
94 2 0.02
95 2 0.02
96 75 0.71
97 5 0.05
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (95 bp):
AAAATTTTATTTATATGTTTGTTTATTCAAAAAAACTCATCAAACAAGCTTAAAGCATATTCAAA
CTTTTCATTTTAGTCTATTTTATAATTAAT
Found at i:40750109 original size:96 final size:96
Alignment explanation
Indices: 40749998--40750190 Score: 368
Period size: 96 Copynumber: 2.0 Consensus size: 96
40749988 CAAACAAGAC
40749998 TTAAAGCATATTCAAACTTTTCATTTTAGTCTATTTTATAATTAATAAAATTTTATTATATGTTT
1 TTAAAGCATATTCAAACTTTTCATTTTAGTCTATTTTATAATTAATAAAATTTTATTATATGTTT
40750063 GGCTTTATTCCCTAGTCCTCATCAAATTTGT
66 GGCTTTATTCCCTAGTCCTCATCAAATTTGT
* *
40750094 TTAAAGCATATTCAAACTTTTTATTTTAGTCTATTTTATAATTAATAAAATTTTATTCTATGTTT
1 TTAAAGCATATTCAAACTTTTCATTTTAGTCTATTTTATAATTAATAAAATTTTATTATATGTTT
40750159 GGCTTTATTCCCTAGTCCTCATCAAATTTGT
66 GGCTTTATTCCCTAGTCCTCATCAAATTTGT
40750190 T
1 T
40750191 GAGCGCAACG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 95 1.00
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (96 bp):
TTAAAGCATATTCAAACTTTTCATTTTAGTCTATTTTATAATTAATAAAATTTTATTATATGTTT
GGCTTTATTCCCTAGTCCTCATCAAATTTGT
Found at i:40750666 original size:19 final size:19
Alignment explanation
Indices: 40750637--40750686 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
40750627 ATTCATTTAT
* *
40750637 TTATATATTTTTTAAT-TT
1 TTATGTATTTTTTAATGTC
*
40750655 TGTATGTATTTTATAATGTC
1 T-TATGTATTTTTTAATGTC
40750675 TTATGTATTTTT
1 TTATGTATTTTT
40750687 ATAGAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.04
19 23 0.88
20 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (19 bp):
TTATGTATTTTTTAATGTC
Found at i:40750815 original size:21 final size:21
Alignment explanation
Indices: 40750791--40750833 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
40750781 ACACCAAAGA
* *
40750791 AGGCTTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
40750812 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
40750833 A
1 A
40750834 ACGCCGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.12, C:0.19, G:0.28, T:0.42
Consensus pattern (21 bp):
AGGCCTTTAGCGGCGCTTTTT
Found at i:40750962 original size:43 final size:42
Alignment explanation
Indices: 40750914--40751051 Score: 136
Period size: 43 Copynumber: 3.3 Consensus size: 42
40750904 TTAAAAATAG
40750914 ACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTAACACAA
1 ACGCCGCTAAAGAA-AAGACCTTTAGCGGCGCTTCTAACACAA
* * * *
40750957 ACGCCGCTAAAGATAATGACCTTTAGCAGCGCTTCTACCTCAA
1 ACGCCGCTAAAGA-AAAGACCTTTAGCGGCGCTTCTAACACAA
* * * * ***
40751000 ACGCCACTATAA-ATAGGACTTTTAGCGGCGCTT-TTTGACAA
1 ACGCCGCTA-AAGAAAAGACCTTTAGCGGCGCTTCTAACACAA
40751041 ACGCCGCTAAA
1 ACGCCGCTAAA
40751052 TACTTGACTT
Statistics
Matches: 79, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
40 2 0.03
41 12 0.15
42 16 0.20
43 46 0.58
44 3 0.04
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
ACGCCGCTAAAGAAAAGACCTTTAGCGGCGCTTCTAACACAA
Found at i:40752984 original size:194 final size:194
Alignment explanation
Indices: 40752570--40753015 Score: 511
Period size: 194 Copynumber: 2.3 Consensus size: 194
40752560 CGACAAACAG
* * * * * *
40752570 ATTCCCGTTCTTAAAAGTCGTTTTTCTTCGACTCTTGAAAAACTCAAAAGCAATATATAGCAACA
1 ATTCCCATTCTTAAAA-ACATTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACA
*
40752635 AACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACATTAAGGAATCAAGATTTCATA
65 AACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATA
* * * * ** * * * *
40752700 GCTTCGGATATGTCATAAGATGGGGTTTTGTTGAGAAGAAATTCGGATAGTTAAACAACACCTGA
130 ACGTCAGAAATGTCATAAGATGGGGTTTTGTCAAGAAGAAATTCAGACAGTTAAACAAAACCCGA
** *
40752765 ATTCCCATTCTTAAAAATGTTTCTCTTCGACTTTTGTAAAACTCAAAAGCAATATACAGCAACAA
1 ATTCCCATTCTTAAAAACATTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACAA
* * * * * *
40752830 ACAGCATATATCGACAATCATAAACACAAATTCAGTAGAATCAGTAAGGAATCAAGATTTTATAA
66 ACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATAA
** * *
40752895 CGTCAGAAATGTTGTAA-ACT-GGGTTTTGTCAAGAAGCAATTCAGACAGTTAAACAAAACCCGT
131 CGTCAGAAATGTCATAAGA-TGGGGTTTTGTCAAGAAGAAATTCAGACAGTTAAACAAAACCCGA
** * * * * *
40752958 ATTCCTGTTTTTCAAAGACATTTCTCTTTGATTTTTGAAAAACTC-AAAGTAATATACA
1 ATTCCCATTCTT-AAAAACATTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACA
40753016 ACAATATTTC
Statistics
Matches: 211, Mismatches: 38, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
193 57 0.27
194 139 0.66
195 15 0.07
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (194 bp):
ATTCCCATTCTTAAAAACATTTCTCTTCGACTTTTGAAAAACTCAAAAGCAATATACAGCAACAA
ACAACATATATCAACAATCATAAACACAAATCCAGCAGAAACAGTAAGGAATCAAGATTTCATAA
CGTCAGAAATGTCATAAGATGGGGTTTTGTCAAGAAGAAATTCAGACAGTTAAACAAAACCCGA
Found at i:40756568 original size:7 final size:7
Alignment explanation
Indices: 40756558--40756624 Score: 62
Period size: 7 Copynumber: 8.6 Consensus size: 7
40756548 CCCCAAATCA
40756558 CTAACCC
1 CTAACCC
40756565 CTAACCC
1 CTAACCC
40756572 CTAAATCCC
1 CT-AA-CCC
40756581 CTAACCC
1 CTAACCC
*
40756588 CTAGATCTC
1 CTA-A-CCC
40756597 CTAACCC
1 CTAACCC
40756604 CTAAATCCCC
1 CT-AA--CCC
40756614 CTAACCC
1 CTAACCC
40756621 CTAA
1 CTAA
40756625 AGCATAACAC
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
7 26 0.51
8 8 0.16
9 12 0.24
10 5 0.10
ACGTcount: A:0.30, C:0.49, G:0.01, T:0.19
Consensus pattern (7 bp):
CTAACCC
Found at i:40756583 original size:16 final size:16
Alignment explanation
Indices: 40756562--40756625 Score: 101
Period size: 16 Copynumber: 3.9 Consensus size: 16
40756552 AAATCACTAA
40756562 CCCCTAACCCCTAAAT
1 CCCCTAACCCCTAAAT
*
40756578 CCCCTAACCCCTAGAT
1 CCCCTAACCCCTAAAT
*
40756594 CTCCTAACCCCTAAAT
1 CCCCTAACCCCTAAAT
40756610 CCCCCTAACCCCTAAA
1 -CCCCTAACCCCTAAA
40756626 GCATAACACT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
16 29 0.67
17 14 0.33
ACGTcount: A:0.30, C:0.50, G:0.02, T:0.19
Consensus pattern (16 bp):
CCCCTAACCCCTAAAT
Found at i:40757139 original size:115 final size:113
Alignment explanation
Indices: 40756871--40757665 Score: 1114
Period size: 113 Copynumber: 7.0 Consensus size: 113
40756861 ACAATTATTT
* *
40756871 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* * *
40756936 GGCGCCGTTGGGCTTAGTTTTTTTGTGGCACTATCCCAAAAACGCCGC
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
40756984 TAAAGCCTTGAACATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
40757049 GGCGCCGTTGGGCTTAGTTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGCCGTTGGGCTTAG--TTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
40757099 TAAAGCCCTGAACATTAGCGGCGCTTTCTTAAAAATGCCGCTAAATCCCTGAAAACTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
40757164 GGCGCCGTTGGG-TT--TTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * *
40757209 TAAAGCCCTGAGCATTAGCGGCGCTTTATAAAAAACCCCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* * * * *
40757274 GGCGTCGTTTGGTTTAGTTTTTTTGC-GCACTTTACCAAAAACGCCGC
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * *
40757321 TAAAGCCCTGAACATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAAT
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
*
40757386 GACGCCGTTAGGG-TTAGTTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGCCGTT-GGGCTTAG--TTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* *
40757436 TAAAGCCCTGAGCATTAGCGGCGCTTTATAAAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAA
* * *
40757501 CGGCGCTGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAATGCTGC
65 CGGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
* * * * * * *
40757550 TAAAGCCCTGAGCATTAGTGGCGCTTTATAAAAAACACCGCTAAATCTCCGAAAGCTCGGTAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
** * ** *
40757615 GGCATCGTTGGGCTTAGGTTTTTTGCGGCGCTTTCCGGAAAACACCGC
66 GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
40757663 TAA
1 TAA
40757666 TTCTTATTTT
Statistics
Matches: 611, Mismatches: 60, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
110 99 0.16
111 2 0.00
112 88 0.14
113 162 0.27
114 68 0.11
115 148 0.24
116 44 0.07
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (113 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
GGCGCCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
Found at i:40758246 original size:45 final size:43
Alignment explanation
Indices: 40758181--40758264 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 43
40758171 GCCACATGTT
40758181 AAAAATTTAAATTTAAAAAA-TATAAAAATCCAAAAAAAAACTC
1 AAAAATTTAAATTTAAAAAATTATAAAAA-CCAAAAAAAAACTC
* *
40758224 AAAAATATTAAAATTTATAAAATTATAAAAACTAAAAAAAA
1 AAAAAT-TT-AAATTTAAAAAATTATAAAAACCAAAAAAAA
40758265 TCATAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
43 6 0.17
44 2 0.06
45 20 0.56
46 8 0.22
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (43 bp):
AAAAATTTAAATTTAAAAAATTATAAAAACCAAAAAAAAACTC
Found at i:40759825 original size:123 final size:124
Alignment explanation
Indices: 40759606--40759955 Score: 585
Period size: 123 Copynumber: 2.8 Consensus size: 124
40759596 TTATTTCGAG
40759606 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* * * * **
40759671 AAATCGCGCCATTGTGGATGCGATTTTGCTACGGTAGGTCATGTAAGAAATAA-TTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATAAAAGAAATAATTTTTT
*
40759729 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGCG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
40759794 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATAAAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATAAAAGAAATAATTTTTT
* *
40759853 TTGACGTTTTCTGAGCAAATAGTATAAAATCACTTCTACCAGGATGTTATTTGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
40759918 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
40759956 CAAGTTTGGG
Statistics
Matches: 211, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
123 109 0.52
124 11 0.05
125 91 0.43
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATAAAAGAAATAATTTTTT
Found at i:40763081 original size:10 final size:10
Alignment explanation
Indices: 40763066--40763090 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
40763056 CAAATCTAAC
40763066 ATTATGTAAA
1 ATTATGTAAA
40763076 ATTATGTAAA
1 ATTATGTAAA
40763086 ATTAT
1 ATTAT
40763091 TAAGTCCAAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:40763133 original size:55 final size:55
Alignment explanation
Indices: 40763074--40763254 Score: 344
Period size: 55 Copynumber: 3.3 Consensus size: 55
40763064 ACATTATGTA
40763074 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
* *
40763129 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTGGAAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
40763184 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
40763239 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
40763255 GGTTAGAGTT
Statistics
Matches: 122, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 122 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.38
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:40763283 original size:29 final size:29
Alignment explanation
Indices: 40763249--40764054 Score: 951
Period size: 29 Copynumber: 27.3 Consensus size: 29
40763239 AAATTATGTA
*
40763249 AAATTAGGTTAGAGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
40763278 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763307 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
*
40763337 AAATTAGGTTAGGGTTAGGGTTTTGGGTTAGGTTTTT
1 AAATTAGGTTAGGGTTAGGG-TTT---TTA----ATT
* **
40763374 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTA-----GGGTTAGGGTTTTTAATT
*
40763408 AAATTAGGTTAGGG-CAGTGTGTTTTTAATT
1 AAATTAGGTTAGGGTTAG-G-GTTTTTAATT
*
40763438 AAATTAGGTTA-GGATAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
40763466 AAATTATGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
*
40763496 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
**
40763526 ATGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763555 AAATTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
40763584 -AA--A--TTA-GGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
**
40763607 AAATTAGGTTAGGGCTGT-GAATTTTTAATT
1 AAATTAGGTTAGGG-T-TAGGGTTTTTAATT
**
40763637 ATGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763666 AAATTAGGTTATGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
40763695 AAATTAGGTTAGGG-TAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
40763725 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763754 AAATTAGGTTAGGGTTAAGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763783 AAATTAAGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* *
40763812 AAATTAGGTTATGGTTAGGGTTTCTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763841 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
** *
40763871 AGGTTAGGATAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
40763900 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763929 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
*
40763959 AAATTAGGTTAGGGTTAAGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763988 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
40764018 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
40764047 AAATTAGG
1 AAATTAGG
40764055 GTTTTTATTA
Statistics
Matches: 679, Mismatches: 54, Indels: 88
0.83 0.07 0.11
Matches are distributed among these distances:
23 17 0.03
24 5 0.01
26 2 0.00
28 35 0.05
29 347 0.51
30 227 0.33
31 8 0.01
33 3 0.00
34 10 0.01
37 10 0.01
38 3 0.00
41 3 0.00
42 9 0.01
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.44
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:40763336 original size:59 final size:58
Alignment explanation
Indices: 40763249--40764054 Score: 960
Period size: 59 Copynumber: 13.6 Consensus size: 58
40763239 AAATTATGTA
*
40763249 AAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763307 AAATTAGGTTAGGG-CAGTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTGGGTTAGGTT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGTTAGGG-TTT---TTA----
*
40763371 TTT
56 ATT
* * *
40763374 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-CAGTGTGTTTTTAATT
1 AAATT--A--GG-TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG-G-GTTTTTAATT
* * *
40763438 AAATTAGGTTA-GGATAGGGTTTTTAATTAAATTATGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATT
* **
40763496 AAATTAGGTTAGGG-CAGTGGGTTTTTAATTATGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763555 AAATTAGGTTATGGTTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
** **
40763607 AAATTAGGTTAGGGCTGT-GAATTTTTAATTATGTTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGG-T-TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763666 AAATTAGGTTATGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-TAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATT
*
40763725 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
* * *
40763783 AAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTATGGTTAGGGTTTCTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
* ** *
40763841 AAATTAGGTTAGGG-CAGTGGGTTTTTAATTAGGTTAGGATAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
*
40763900 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATT
* *
40763959 AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATT
40764018 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
40764055 GTTTTTATTA
Statistics
Matches: 655, Mismatches: 51, Indels: 83
0.83 0.06 0.11
Matches are distributed among these distances:
52 30 0.05
53 14 0.02
54 1 0.00
55 1 0.00
56 1 0.00
57 6 0.01
58 205 0.31
59 303 0.46
60 32 0.05
61 1 0.00
62 1 0.00
63 3 0.00
64 6 0.01
67 6 0.01
68 3 0.00
69 1 0.00
70 2 0.00
71 31 0.05
72 7 0.01
73 1 0.00
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.44
Consensus pattern (58 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:40763347 original size:88 final size:88
Alignment explanation
Indices: 40763249--40764054 Score: 1018
Period size: 88 Copynumber: 9.1 Consensus size: 88
40763239 AAATTATGTA
*
40763249 AAATTAGGTTAGAGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
40763314 GTTAGGGCAGTGGGTTTTTAATT
66 GTTAGGGCAGTGGGTTTTTAATT
* * *
40763337 AAATTAGGTTAGGGTTAGGGTTTTGGGTTAGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGTTT
1 AAATTAGGTTAGGGTTAGGG-TTT---TTA----ATTAAATT--A--GG-TTAGGGTTAGGGTTT
*
40763402 TTAATTAAATTAGGTTAGGGCAGTGTGTTTTTAATT
53 TTAATTAAATTAGGTTAGGGCAGTGGGTTTTTAATT
* * *
40763438 AAATTAGGTTA-GGATAGGGTTTTTAATTAAATTATGTTAGGG-CAGTGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATT
40763501 AGGTTAGGGCAGTGGGTTTTTAATT
64 AGGTTAGGGCAGTGGGTTTTTAATT
** *
40763526 ATGTTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTATGGTTAGGGTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
40763591 GTT-----A--GGGTTTTTAATT
66 GTTAGGGCAGTGGGTTTTTAATT
** **
40763607 AAATTAGGTTAGGGCTGT-GAATTTTTAATTATGTTAGGTTAGGGTTAGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGG-T-TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
* *
40763671 AGGTTATGG--TTAGGGTTTTTAATT
64 AGGTTAGGGCAGT-GGGTTTTTAATT
40763695 AAATTAGGTTAGGG-TAGTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATT
* *
40763759 AGGTTAGGG--TTAAGGTTTTTAATT
64 AGGTTAGGGCAGT-GGGTTTTTAATT
* * *
40763783 AAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTATGGTTAGGGTTTCTAATTAAATTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
40763848 GTTAGGGCAGTGGGTTTTTAATT
66 GTTAGGGCAGTGGGTTTTTAATT
** *
40763871 AGGTTAGGATAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
40763936 GTTAGGGCAGTGGGTTTTTAATT
66 GTTAGGGCAGTGGGTTTTTAATT
* *
40763959 AAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAGGG-CAGTGGGTTTTTAATTAAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATT
*
40764023 AGGTTAGGG--TTAGGGTTTTTAATT
64 AGGTTAGGGCAGT-GGGTTTTTAATT
40764047 AAATTAGG
1 AAATTAGG
40764055 GTTTTTATTA
Statistics
Matches: 636, Mismatches: 47, Indels: 70
0.84 0.06 0.09
Matches are distributed among these distances:
81 24 0.04
82 47 0.07
83 2 0.00
85 1 0.00
86 1 0.00
87 61 0.10
88 347 0.55
89 60 0.09
90 2 0.00
92 9 0.01
96 9 0.01
98 1 0.00
99 3 0.00
100 8 0.01
101 61 0.10
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.44
Consensus pattern (88 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
GTTAGGGCAGTGGGTTTTTAATT
Found at i:40763613 original size:18 final size:21
Alignment explanation
Indices: 40763568--40763620 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 21
40763558 TTAGGTTATG
40763568 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
40763590 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
40763613 GGTTAGGG
1 -GTTAGGG
40763621 CTGTGAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.45
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:40763629 original size:23 final size:23
Alignment explanation
Indices: 40763580--40763629 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
40763570 TAGGGTTTTT
* * *
40763580 AATTAAATTAGGTTAGGGTTTTT
1 AATTAAATTAGGTTAGGGCTGTG
40763603 AATTAAATTAGGTTAGGGCTGTG
1 AATTAAATTAGGTTAGGGCTGTG
40763626 AATT
1 AATT
40763630 TTTAATTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.42
Consensus pattern (23 bp):
AATTAAATTAGGTTAGGGCTGTG
Found at i:40764160 original size:71 final size:71
Alignment explanation
Indices: 40764060--40764244 Score: 307
Period size: 71 Copynumber: 2.6 Consensus size: 71
40764050 TTAGGGTTTT
* * *
40764060 TATTACATCAAATAGAACTTCTATTTTATTATATTAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATTAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
*
40764125 CTATGCC
65 CTATGCA
* *
40764132 TATTATATTAAATAAACTTCTATTTTATTACATCAGATAATATCAAAATAACTCGAAAAAATTTC
1 TATTACATTAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
40764197 TATGCA
66 TATGCA
40764203 TATTACATTAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATTAAATAAACTTCTATTTTATTACATCAAATAATA
40764245 AATTTAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 93 0.89
72 12 0.11
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (71 bp):
TATTACATTAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCA
Found at i:40764673 original size:18 final size:18
Alignment explanation
Indices: 40764646--40764680 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
40764636 CGGAAAAGGA
* *
40764646 TACATGTAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
40764664 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
40764681 AAACACACCT
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:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:40765342 original size:7 final size:7
Alignment explanation
Indices: 40765332--40765356 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
40765322 TTATATACAT
40765332 AATACTA
1 AATACTA
40765339 AATACTA
1 AATACTA
40765346 AATACTA
1 AATACTA
40765353 AATA
1 AATA
40765357 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:40770270 original size:45 final size:44
Alignment explanation
Indices: 40770221--40770408 Score: 186
Period size: 45 Copynumber: 4.2 Consensus size: 44
40770211 TTAGCCCCGA
*
40770221 TCTTATTTATTTCTGATATGATGTCATAGTGTCTTTCAACTATGG
1 TCTTATTTATTTCCGATAT-ATGTCATAGTGTCTTTCAACTATGG
* * * *
40770266 TCTTATTCATTTCCG-TCATGTTGCCATAGTGTTTTTCAACTATGG
1 TCTTATTTATTTCCGAT-AT-ATGTCATAGTGTCTTTCAACTATGG
* * *
40770311 TCTTATTCATTTCCGGTATA-GTTCCATAGTGTCTTTCAATTATGG
1 TCTTATTTATTTCCGATATATG-T-CATAGTGTCTTTCAACTATGG
* *
40770356 TCTTATTCT-TTT-CTAGTATAGTGTCATAATGTCTTTCAACTATGG
1 TCTTATT-TATTTCCGA-TATA-TGTCATAGTGTCTTTCAACTATGG
40770401 TCTTATTT
1 TCTTATTT
40770409 GTTTTTCAAG
Statistics
Matches: 121, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 114 0.94
46 2 0.02
47 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.49
Consensus pattern (44 bp):
TCTTATTTATTTCCGATATATGTCATAGTGTCTTTCAACTATGG
Found at i:40772694 original size:21 final size:20
Alignment explanation
Indices: 40772670--40772732 Score: 60
Period size: 21 Copynumber: 3.2 Consensus size: 20
40772660 TTAGGCTCAT
40772670 AAATAATTAATTAAAGTATTA
1 AAATAATTAA-TAAAGTATTA
*
40772691 AAATAATATAATCAAGTATTA
1 AAATAAT-TAATAAAGTATTA
* *
40772712 TAAT-ATTAA-AGAGT-TTA
1 AAATAATTAATAAAGTATTA
40772729 AAAT
1 AAAT
40772733 GAAACTTGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 6 0.17
18 3 0.08
19 3 0.08
20 2 0.06
21 19 0.53
22 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (20 bp):
AAATAATTAATAAAGTATTA
Found at i:40774151 original size:28 final size:28
Alignment explanation
Indices: 40774103--40774268 Score: 164
Period size: 28 Copynumber: 6.0 Consensus size: 28
40774093 AACCATCTAT
* *
40774103 CCCCTATTTTTTCAAAATTTATAGTTTTG
1 CCCCTATTTTTT-AAATTTTATAATTTTG
40774132 CCCCTATTTTTTAAATTTTATAATTTTG
1 CCCCTATTTTTTAAATTTTATAATTTTG
* * *
40774160 CCCTTATTTTTTGAATTTTATATTTTTG
1 CCCCTATTTTTTAAATTTTATAATTTTG
* *
40774188 CCTCTATTTTTTAGATTTTATAATTTTG
1 CCCCTATTTTTTAAATTTTATAATTTTG
* * *
40774216 --CCTATATTTTCAAATTTTACAGTATTT-
1 CCCCTAT-TTTTTAAATTTTATAAT-TTTG
40774243 --CCT-TTTTTTCAAATTTTATAATTTTG
1 CCCCTATTTTTT-AAATTTTATAATTTTG
40774269 TCCACTGCTT
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
25 7 0.06
26 15 0.13
27 16 0.14
28 65 0.57
29 12 0.10
ACGTcount: A:0.23, C:0.13, G:0.05, T:0.58
Consensus pattern (28 bp):
CCCCTATTTTTTAAATTTTATAATTTTG
Found at i:40774195 original size:56 final size:55
Alignment explanation
Indices: 40774105--40774268 Score: 183
Period size: 56 Copynumber: 3.0 Consensus size: 55
40774095 CCATCTATCC
* * * *
40774105 CCTATTTTTTCAAAATTTATAGTTTTGCCCCTATTTTTTAAATTTTATAATTTTG
1 CCTATATTTTCAAATTTTATATTTTTGCCTCTATTTTTTAAATTTTATAATTTTG
** *
40774160 CCCT-TATTTTTTGAATTTTATATTTTTGCCTCTATTTTTTAGATTTTATAATTTTG
1 -CCTATA-TTTTCAAATTTTATATTTTTGCCTCTATTTTTTAAATTTTATAATTTTG
* * *
40774216 CCTATATTTTCAAATTTTACAGTATTT-CCT-T-TTTTTCAAATTTTATAATTTTG
1 CCTATATTTTCAAATTTTATA-TTTTTGCCTCTATTTTTTAAATTTTATAATTTTG
40774269 TCCACTGCTT
Statistics
Matches: 92, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
53 20 0.22
54 1 0.01
55 19 0.21
56 52 0.57
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (55 bp):
CCTATATTTTCAAATTTTATATTTTTGCCTCTATTTTTTAAATTTTATAATTTTG
Found at i:40774588 original size:34 final size:33
Alignment explanation
Indices: 40774550--40774623 Score: 80
Period size: 34 Copynumber: 2.2 Consensus size: 33
40774540 AGAATGACTT
40774550 TTGCTACCGAGTT-GAACTGTTATAAGCATATTAA
1 TTGCTACC-AGTTCGAACTGTTATAAGCATATT-A
* **
40774584 TTGCTA-CTGTTCCGATTTGTTATAAGCATATTA
1 TTGCTACCAGTT-CGAACTGTTATAAGCATATTA
40774617 TTGCTAC
1 TTGCTAC
40774624 TATATTATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
32 3 0.09
33 8 0.24
34 23 0.68
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (33 bp):
TTGCTACCAGTTCGAACTGTTATAAGCATATTA
Found at i:40788251 original size:90 final size:90
Alignment explanation
Indices: 40788136--40788509 Score: 597
Period size: 90 Copynumber: 4.1 Consensus size: 90
40788126 TCGACAGCGA
** *
40788136 AGCAGATCGAAGATACCAGCCTAGTCTCCCTGAGCAGCAATGGAGTAGGTTGAAAGACATTACAG
1 AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
*
40788201 ATCTTATCTCCCTAAACAGTAGTGG
66 ATCTTATCTCCCTAAGCAGTAGTGG
*
40788226 AGCAAATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
1 AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
*
40788291 ATCTTATCTCCCTAAGTAGTAGTGG
66 ATCTTATCTCCCTAAGCAGTAGTGG
** *
40788316 AGCAGATCGAAGACCCTGGCCTAGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAGACATTACAG
1 AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
*
40788381 ATCTTATCTCCCTAAGTAGTAGTGG
66 ATCTTATCTCCCTAAGCAGTAGTGG
* * * *
40788406 AGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGTTTAAGAAA-ACATTAC
1 AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTT--GAAAGACATTAC
40788470 AGATCTTATCTCCCTAAGCAGTAGTGG
64 AGATCTTATCTCCCTAAGCAGTAGTGG
40788497 AGCAGATCGAAGA
1 AGCAGATCGAAGA
40788510 TGGCGGATTT
Statistics
Matches: 263, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
90 214 0.81
91 45 0.17
92 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (90 bp):
AGCAGATCGAAGACCCCAGCCTAGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAG
ATCTTATCTCCCTAAGCAGTAGTGG
Found at i:40788268 original size:43 final size:43
Alignment explanation
Indices: 40788207--40788453 Score: 165
Period size: 43 Copynumber: 5.6 Consensus size: 43
40788197 ACAGATCTTA
* * *
40788207 TCTCCCTAAACAGTAGTGGAGCAAATCGAAGACCCCAGCCTAG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTAG
* * * * ** *
40788250 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAGACATTACAGATCTTA-
1 TCTCCCTAAGCAGTAGTGGAGTAGATCG-AAGAC--CCCAG--CCTAG
* * **
40788297 TCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACCCTGGCCTAG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTAG
* * * ** *
40788340 TCTCCCTGAGCAGTAGTGGAGTAGGTTGAAAGACATTACAGATCTTA-
1 TCTCCCTAAGCAGTAGTGGAGTAGATCG-AAGAC--CCCAG--CCTAG
* *
40788387 TCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACCCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTAG
* * *
40788430 TCTCCCTGAGTAGCAGTGGAGTAG
1 TCTCCCTAAGCAGTAGTGGAGTAG
40788454 TTTAAGAAAA
Statistics
Matches: 151, Mismatches: 41, Indels: 24
0.70 0.19 0.11
Matches are distributed among these distances:
42 5 0.03
43 66 0.44
44 14 0.09
46 14 0.09
47 46 0.30
48 6 0.04
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (43 bp):
TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTAG
Found at i:40797803 original size:39 final size:39
Alignment explanation
Indices: 40797739--40797828 Score: 126
Period size: 39 Copynumber: 2.3 Consensus size: 39
40797729 CACCAGTTTT
* * *
40797739 ACCACCACCACCTCCTGTGCCTAGAAGTGCATCATTACC
1 ACCACCACCACCTCCTATGCATAGAACTGCATCATTACC
* * *
40797778 ACCCCCACCACCTCCTATTCATAGAACTGCCTCATTACC
1 ACCACCACCACCTCCTATGCATAGAACTGCATCATTACC
40797817 ACCACCACCACC
1 ACCACCACCACC
40797829 ACCACCTATG
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.27, C:0.47, G:0.08, T:0.19
Consensus pattern (39 bp):
ACCACCACCACCTCCTATGCATAGAACTGCATCATTACC
Found at i:40804933 original size:40 final size:40
Alignment explanation
Indices: 40804695--40804919 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
40804685 TTGAATGATG
* ** * * *
40804695 TCCGGGCTAAGTCCCAAAGGC-TTTGTGTTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGTTACTAAA
* * *
40804735 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
40804775 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40804814 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40804854 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40804895 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40804920 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40804937 original size:80 final size:80
Alignment explanation
Indices: 40804734--40804952 Score: 243
Period size: 80 Copynumber: 2.8 Consensus size: 80
40804724 AAGTGACCAT
* ** * *
40804734 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
40804796 TTTGTGCGAGTTACTAA
64 TTTGTGCGAGTTACTAA
* ** *
40804813 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
40804878 TGTGCGAGTTACTATA
66 TGTGCGAGTTACTA-A
* * * *
40804894 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
40804953 TACGTGATTT
Statistics
Matches: 123, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 59 0.48
80 60 0.49
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
TGTGCGAGTTACTAA
Found at i:40812224 original size:40 final size:39
Alignment explanation
Indices: 40812140--40812322 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
40812130 TTGAATGATG
* * * *
40812140 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
40812180 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
40812220 TCCGGGCTAAGCCCGAAGGCA-TTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
40812258 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
40812299 -CCGGGCTATGTCCCGAA-GCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
40812323 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 25 0.20
39 25 0.20
40 63 0.51
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40812279 original size:78 final size:80
Alignment explanation
Indices: 40812140--40812320 Score: 219
Period size: 78 Copynumber: 2.3 Consensus size: 80
40812130 TTGAATGATG
* *
40812140 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
40812205 GTGCGAGATACTA-A
66 GTGCGAGATACTATA
* * * **
40812219 TTCCGGGCTAAG-CCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
*
40812281 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
40812298 ACCGGGCTATGTCCCGAA-GCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
40812321 TGAACGAGGA
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 54 0.61
79 22 0.25
80 11 0.12
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATA
Found at i:40827122 original size:43 final size:42
Alignment explanation
Indices: 40827073--40827187 Score: 126
Period size: 41 Copynumber: 2.7 Consensus size: 42
40827063 TCCCACACGA
* * * * *
40827073 GGTCTTACAGGCAATAACATATCGATTCCACTATCCTAGACAT
1 GGTCTTACACG-AATAACATATCGATGCCAATACCCCAGACAT
*
40827116 GGTCTTACACGAATCAA-ATAT-GATGCCAATGCCCCAGACAT
1 GGTCTTACACGAAT-AACATATCGATGCCAATACCCCAGACAT
*
40827157 GGTCTTACATGTAATAACATATCGATGCCAA
1 GGTCTTACACG-AATAACATATCGATGCCAA
40827188 CGTCCCAGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
41 27 0.44
42 14 0.23
43 20 0.33
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAATAACATATCGATGCCAATACCCCAGACAT
Found at i:40827204 original size:43 final size:42
Alignment explanation
Indices: 40827059--40827196 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 42
40827049 ATATACTGCA
* * *
40827059 AACGTCCCACACGA-GGTCTTACAGGCAATAACATATCGATTCC
1 AACGTCCCAGAC-ATGGTCTTACACG-AATAACATATCGATGCC
* *
40827102 -ACTATCCTAGACATGGTCTTACACGAATCAA-ATAT-GATGCC
1 AAC-GTCCCAGACATGGTCTTACACGAAT-AACATATCGATGCC
* * *
40827143 AATGCCCCAGACATGGTCTTACATGTAATAACATATCGATGCC
1 AACGTCCCAGACATGGTCTTACACG-AATAACATATCGATGCC
40827186 AACGTCCCAGA
1 AACGTCCCAGA
40827197 TGTGGTCTAG
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
41 25 0.33
42 18 0.24
43 33 0.43
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
AACGTCCCAGACATGGTCTTACACGAATAACATATCGATGCC
Found at i:40832632 original size:24 final size:24
Alignment explanation
Indices: 40832550--40832654 Score: 119
Period size: 23 Copynumber: 4.4 Consensus size: 24
40832540 TTCAAGCTAT
40832550 GAACAGTAAGCTCCTCT-TGAGCTGA
1 GAACAGTAAGCT-CT-TATGAGCTGA
*
40832575 TGAACAATAAGCT-TTATTGAGCTGA
1 -GAACAGTAAGCTCTTA-TGAGCTGA
*
40832600 -AACAGTAAGCTCTGATGAGCTGA
1 GAACAGTAAGCTCTTATGAGCTGA
40832623 GAACAGTAAGCTCTTATGAGCTGA
1 GAACAGTAAGCTCTTATGAGCTGA
*
40832647 -AATAGTAA
1 GAACAGTAA
40832655 TCTCCAACTA
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
23 26 0.37
24 25 0.36
25 8 0.11
26 11 0.16
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (24 bp):
GAACAGTAAGCTCTTATGAGCTGA
Found at i:40832643 original size:47 final size:49
Alignment explanation
Indices: 40832551--40832659 Score: 143
Period size: 47 Copynumber: 2.3 Consensus size: 49
40832541 TCAAGCTATG
*
40832551 AACAGTAAGCTCCTCTTGAGCTGATGAACAATAAGCTTTATTGAGCTGA
1 AACAGTAAGCTCCTCATGAGCTGATGAACAATAAGCTTTATTGAGCTGA
* *
40832600 AACAGTAAGCT-CTGATGAGCTGA-GAACAGTAAGCTCTTA-TGAGCTGA
1 AACAGTAAGCTCCTCATGAGCTGATGAACAATAAGCT-TTATTGAGCTGA
* *
40832647 AATAGTAATCTCC
1 AACAGTAAGCTCC
40832660 AACTAGCTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
47 28 0.53
48 14 0.26
49 11 0.21
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (49 bp):
AACAGTAAGCTCCTCATGAGCTGATGAACAATAAGCTTTATTGAGCTGA
Found at i:40842716 original size:43 final size:41
Alignment explanation
Indices: 40842606--40842716 Score: 98
Period size: 43 Copynumber: 2.6 Consensus size: 41
40842596 GATTTATGTA
* * * *
40842606 TAAGACCATGTCTGGGACAACGGTATCATATCTAATTTCGTG
1 TAAGACCATGTCTGGGAC-GCGGCATCATATCTAATTACATG
* * * *
40842648 TAAGACCCTATCTGGGATAGAGGCATCGATAT-TGAATTACATG
1 TAAGACCATGTCTGGGA-CGCGGCATC-ATATCT-AATTACATG
40842691 TAAGACCATGTCTGGGACGTCGGCAT
1 TAAGACCATGTCTGGGACG-CGGCAT
40842717 TGTACTTGTT
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
42 22 0.42
43 31 0.58
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (41 bp):
TAAGACCATGTCTGGGACGCGGCATCATATCTAATTACATG
Found at i:40848902 original size:40 final size:40
Alignment explanation
Indices: 40848814--40848952 Score: 244
Period size: 40 Copynumber: 3.5 Consensus size: 40
40848804 GGATGATAAT
*
40848814 CGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTAGTTC
40848855 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTC
40848895 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTC
40848935 CGGGCTAAGTCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
40848953 TACTTGGCTT
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
40 69 0.72
41 23 0.24
42 4 0.04
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTC
Found at i:40850556 original size:15 final size:15
Alignment explanation
Indices: 40850538--40850566 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
40850528 ATATTTATAA
40850538 AATTATTATTATTAT
1 AATTATTATTATTAT
40850553 AATTATTATTATTA
1 AATTATTATTATTA
40850567 GATAGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:40851858 original size:20 final size:21
Alignment explanation
Indices: 40851821--40851859 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
40851811 GCAATTCGGT
*
40851821 AATTGGGCCTCGATAGGCTAA
1 AATTGGGCCTCAATAGGCTAA
40851842 AATTGGGCC-CAATAGGCT
1 AATTGGGCCTCAATAGGCT
40851860 TACGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (21 bp):
AATTGGGCCTCAATAGGCTAA
Found at i:40852225 original size:65 final size:65
Alignment explanation
Indices: 40852121--40852251 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
40852111 CCCCAAGGGT
*
40852121 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCTATGTTATTATTAACTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTAACTGA
* *
40852186 TAAGGTTGACTTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTAACTGA
40852251 T
1 T
40852252 GCATGGGACT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTACATGCCATGTTATTATTAACTGA
Found at i:40856163 original size:45 final size:45
Alignment explanation
Indices: 40856113--40856200 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
40856103 AAACATGTGT
*
40856113 CACATACATCATGAACTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
*
40856158 CACATATATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
40856201 CACATAGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.39, C:0.26, G:0.12, T:0.23
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGC
Found at i:40856198 original size:21 final size:21
Alignment explanation
Indices: 40856129--40856204 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
40856119 CATCATGAAC
*
40856129 TCAGACCATAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* **
40856150 TCAGATGCCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
40856174 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
*
40856195 TCAGATCACA
1 TCAGACCACA
40856205 TAGTTCCTCG
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
20 2 0.05
21 19 0.45
22 5 0.12
23 4 0.10
24 10 0.24
25 2 0.05
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:40866130 original size:27 final size:26
Alignment explanation
Indices: 40866100--40866212 Score: 102
Period size: 27 Copynumber: 4.3 Consensus size: 26
40866090 TGGAGGAAGA
40866100 GTTCTGGTGGCTATGCCATAAATATCT
1 GTTCTGGTGGCTATGCCA-AAATATCT
40866127 GTTCTGGTGGCTATG-CACAAATATCT
1 GTTCTGGTGGCTATGCCA-AAATATCT
* ** * *
40866153 ATTCTCTTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCAAAATATCT
* * * * *
40866179 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTATGCCAAAATATCT
40866206 GTTCTGG
1 GTTCTGG
40866213 CAGCTTTGCT
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 34 0.47
27 38 0.53
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCAAAATATCT
Found at i:40866157 original size:26 final size:26
Alignment explanation
Indices: 40866100--40866212 Score: 104
Period size: 26 Copynumber: 4.3 Consensus size: 26
40866090 TGGAGGAAGA
*
40866100 GTTCTGGTGGCTATGCCATAAATATCT
1 GTTCTGGTGGCTATG-CACAAATATCT
40866127 GTTCTGGTGGCTATGCACAAATATCT
1 GTTCTGGTGGCTATGCACAAATATCT
* ** *
40866153 ATTCTCTTGGCTCTGC-CACAATATCT
1 GTTCTGGTGGCTATGCACA-AATATCT
* * *
40866179 GTATCTGGTGACTCTGTCAC-ATTATCT
1 GT-TCTGGTGGCTATG-CACAAATATCT
40866206 GTTCTGG
1 GTTCTGG
40866213 CAGCTTTGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
25 2 0.03
26 35 0.49
27 33 0.46
28 1 0.01
29 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.38
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCACAAATATCT
Found at i:40871442 original size:46 final size:46
Alignment explanation
Indices: 40871375--40871545 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
40871365 ACCCGCCCCC
* *
40871375 AAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAT
* * *
40871421 AAGTGAACTCTGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-T
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCAT
* * * ** *
40871469 CA-CGAACTCGGAGTCAACTCAACGAGTTCGAACATTCGCATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAT
40871514 AAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 AAGTGAACTCGGACTCAACTCAACGAGTTCGG
40871546 ATGCTCAACC
Statistics
Matches: 99, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 55 0.56
47 24 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCAT
Found at i:40871492 original size:93 final size:93
Alignment explanation
Indices: 40871379--40871549 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
40871369 GCCCCCAAGT
** * *
40871379 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCTGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
40871444 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
40871472 GAACTCGGAGTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
40871537 CGAGTTCGGATGC
66 CGAGTTCGGATGC
40871550 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:40877705 original size:39 final size:40
Alignment explanation
Indices: 40877604--40877828 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
40877594 TTGAATGATG
** * * *
40877604 TCCGGGCTAAGTCCCGAAGGC-TTTGTGTTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGTTACTAAA
* * *
40877644 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
40877684 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40877723 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40877763 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40877804 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40877829 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40877846 original size:80 final size:79
Alignment explanation
Indices: 40877611--40877861 Score: 217
Period size: 79 Copynumber: 3.2 Consensus size: 79
40877601 ATGTCCGGGC
** * * * * * **
40877611 TAAGTCCCGAAGGC-TTTGTGTTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTG-CGAGTTACTAAATCCGGGCTAAG-TCCCAAAGGCATTTGAACG
* *
40877674 AGAT-ACTAATTCCGGGC
64 AG-TGACTAAATCC-GGT
* **
40877691 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAG
*
40877755 TTACTAAATCCGAGT
66 TGACTAAATCCG-GT
* *
40877770 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCAAAGGCATTTGAACGA
*
40877834 G-GAGCTATATCCGGT
65 GTGA-CTAAATCCGGT
* *
40877849 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
40877862 TACGTGATTT
Statistics
Matches: 145, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.02
79 70 0.48
80 70 0.48
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCAAAGGCATTTGAACGAG
TGACTAAATCCGGT
Found at i:40882250 original size:6 final size:6
Alignment explanation
Indices: 40882236--40882267 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
40882226 AGTCGTAACC
*
40882236 TTTCAT TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
40882268 ACATCGTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCCT
Found at i:40886931 original size:41 final size:41
Alignment explanation
Indices: 40886875--40886956 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
40886865 ACAACAGAGA
40886875 ATATATTCGCTGGCATGACACTTGGTGATTCCTTTACTTCT
1 ATATATTCGCTGGCATGACACTTGGTGATTCCTTTACTTCT
40886916 ATATATTCGCTGGCATGACACTTGGTGATTCCTTTACTTCT
1 ATATATTCGCTGGCATGACACTTGGTGATTCCTTTACTTCT
40886957 TCAATGATAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (41 bp):
ATATATTCGCTGGCATGACACTTGGTGATTCCTTTACTTCT
Found at i:40887665 original size:56 final size:56
Alignment explanation
Indices: 40887579--40887698 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
40887569 ACAAGGGATG
40887579 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
40887635 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
40887691 ATGGGCAA
1 ATGGGCAA
40887699 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:40889058 original size:40 final size:40
Alignment explanation
Indices: 40888827--40889051 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
40888817 TCGAATGATG
* * * *
40888827 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAATTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTAAA
* * *
40888867 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40888907 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40888946 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
40888986 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
40889027 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40889052 AACGAGTATC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.72
41 12 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40889073 original size:119 final size:119
Alignment explanation
Indices: 40888827--40889084 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
40888817 TCGAATGATG
* * *
40888827 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAATTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAATTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
40888892 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * **
40888946 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT-ACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAATTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
40889009 TTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TATCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
40889066 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40889085 TACGTGATTC
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 81 0.69
120 33 0.28
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAATTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:40893261 original size:18 final size:18
Alignment explanation
Indices: 40893232--40893275 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
40893222 GTTCGTTTTC
*
40893232 AAAACATTATTC-ATTTA
1 AAAACGTTATTCAATTTA
*
40893249 AAAATCGTTATTCAATTTC
1 AAAA-CGTTATTCAATTTA
40893268 AAAACGTT
1 AAAACGTT
40893276 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 4 0.17
18 11 0.48
19 8 0.35
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (18 bp):
AAAACGTTATTCAATTTA
Found at i:40900005 original size:20 final size:20
Alignment explanation
Indices: 40899941--40900005 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
40899931 TACCAAAGTA
* * *
40899941 CAAACAGGGCCACAAATGTG
1 CAAACAGGGGCACGAATGGG
* * *
40899961 CAAATAGGGGTATCG-A-GGA
1 CAAACAGGGGCA-CGAATGGG
40899980 CAAACAGGGGCACGAATGGG
1 CAAACAGGGGCACGAATGGG
40900000 CAAACA
1 CAAACA
40900006 AGGGTATTGA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.06
19 12 0.36
20 18 0.55
21 1 0.03
ACGTcount: A:0.40, C:0.20, G:0.31, T:0.09
Consensus pattern (20 bp):
CAAACAGGGGCACGAATGGG
Found at i:40900023 original size:20 final size:20
Alignment explanation
Indices: 40899979--40900045 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
40899969 GGTATCGAGG
* * *
40899979 ACAAACAGGGGCACGAATGG
1 ACAAACAAGGGCATGAATGT
* *
40899999 GCAAACAAGGGTATTGAA-GT
1 ACAAACAAGGGCA-TGAATGT
*
40900019 ACAAATAAGGGCATGAATGT
1 ACAAACAAGGGCATGAATGT
40900039 ACAAACA
1 ACAAACA
40900046 TTCAATAATT
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 4 0.11
20 29 0.81
21 3 0.08
ACGTcount: A:0.45, C:0.15, G:0.27, T:0.13
Consensus pattern (20 bp):
ACAAACAAGGGCATGAATGT
Found at i:40904121 original size:22 final size:22
Alignment explanation
Indices: 40904093--40904139 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
40904083 CCGAGTACAA
40904093 ATACATCACTTTCTATAGTTTT
1 ATACATCACTTTCTATAGTTTT
40904115 ATACATCACTTTCTATAGTTTT
1 ATACATCACTTTCTATAGTTTT
40904137 ATA
1 ATA
40904140 TTGGATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.49
Consensus pattern (22 bp):
ATACATCACTTTCTATAGTTTT
Found at i:40911047 original size:27 final size:27
Alignment explanation
Indices: 40910993--40911047 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
40910983 AATATAATAT
*
40910993 AATTATAAAAAAATTAAATTGTACTTA
1 AATTATAAAAAAATTAAATTGTAATTA
* *
40911020 AATTATTAAAATATTTAAATT-TAATTA
1 AATTA-TAAAAAAATTAAATTGTAATTA
40911047 A
1 A
40911048 TTTTATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (27 bp):
AATTATAAAAAAATTAAATTGTAATTA
Found at i:40912542 original size:13 final size:13
Alignment explanation
Indices: 40912526--40912555 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
40912516 TTTTTACATT
*
40912526 TTAATTTTCTTAG
1 TTAATTTACTTAG
40912539 TTAATTTACTTAG
1 TTAATTTACTTAG
40912552 TTAA
1 TTAA
40912556 AATCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTAATTTACTTAG
Found at i:40913314 original size:85 final size:85
Alignment explanation
Indices: 40913171--40913349 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
40913161 GGCCGGCCAT
*
40913171 GAGCATTGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
40913236 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
40913256 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
40913321 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
40913341 GGGCATGGG
1 GAGCATGGG
40913350 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:40914669 original size:47 final size:47
Alignment explanation
Indices: 40914615--40915214 Score: 907
Period size: 47 Copynumber: 12.6 Consensus size: 47
40914605 TATTTGAATA
40914615 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
40914662 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
40914711 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
40914758 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
40914805 AATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATAT-GTGATAAGGCCTAATGGCCAATGTGATG
*
40914853 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
40914902 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
40914951 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
40914998 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
40915047 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
40915094 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
40915141 AATGTGAAAGTCTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * *
40915188 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
40915215 TCCCGAAGGG
Statistics
Matches: 524, Mismatches: 20, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 297 0.57
48 38 0.07
49 180 0.34
50 8 0.02
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:40914723 original size:96 final size:94
Alignment explanation
Indices: 40914615--40915214 Score: 907
Period size: 96 Copynumber: 6.3 Consensus size: 94
40914605 TATTTGAATA
40914615 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATA
* *
40914680 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
40914711 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
40914776 TGTGATAAGGCCTAATAGCCAATGTGATG
66 TGTGATAAGGCCGAATGGCCAATGTGATG
*
40914805 AATGTGAAAGTGTATATATAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATAT-GTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TAT
* *
40914870 ATATGTGATAAGGCCTAATGGCCGATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
*
40914902 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATA
40914967 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
40914998 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTAT
*
40915062 ATGTGTGATAAGGCCGAATGGCCAATGTGATG
63 ATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
40915094 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTCTATAT
1 AATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATAT
40915158 ATGTGATAAGGCCGAATGGCCAATGTGATG
65 ATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
40915188 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
40915215 TCCCGAAGGG
Statistics
Matches: 472, Mismatches: 23, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
93 2 0.00
94 147 0.31
95 39 0.08
96 190 0.40
97 47 0.10
98 40 0.08
99 7 0.01
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:40922809 original size:16 final size:15
Alignment explanation
Indices: 40922779--40922812 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
40922769 ATAACTAATA
*
40922779 TATAATTATATTTAT
1 TATAATTATAATTAT
40922794 TATAATGTATAATTAT
1 TATAAT-TATAATTAT
40922810 TAT
1 TAT
40922813 CAACTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TATAATTATAATTAT
Found at i:40927484 original size:24 final size:24
Alignment explanation
Indices: 40927457--40927505 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
40927447 TTTAGGTTGT
40927457 ATATACGTGTTTAGATTGAAAACA
1 ATATACGTGTTTAGATTGAAAACA
40927481 ATATACGTGTTTAGATTGAAAACA
1 ATATACGTGTTTAGATTGAAAACA
40927505 A
1 A
40927506 GAGGCTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (24 bp):
ATATACGTGTTTAGATTGAAAACA
Found at i:40929295 original size:47 final size:47
Alignment explanation
Indices: 40929241--40929788 Score: 871
Period size: 47 Copynumber: 11.5 Consensus size: 47
40929231 TATTTGAATA
*
40929241 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
40929288 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
40929335 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
40929384 AATGTGAAAGTGTATATATGTGATAATGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
40929431 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
40929478 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
40929527 AATGTGGAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
40929574 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
40929621 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
40929670 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
40929717 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
40929764 GATGTGAAAGTGTATAAATGTGATA
1 AATGTGAAAGTGTATATATGTGATA
40929789 TGTCCCGAAG
Statistics
Matches: 469, Mismatches: 26, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 334 0.71
49 135 0.29
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:40929367 original size:96 final size:94
Alignment explanation
Indices: 40929241--40929788 Score: 880
Period size: 96 Copynumber: 5.8 Consensus size: 94
40929231 TATTTGAATA
*
40929241 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
40929306 TGTGATAAGGCCTAATGGCCAATGTGATG
66 TGTGATAAGGCCTAATGGCCAATGTGATG
40929335 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
40929400 TATGTGATAATGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
* *
40929431 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
40929496 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
* *
40929527 AATGTGGAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
40929592 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCTAATGGCCAATGTGATG
40929621 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
40929686 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCAATGTGATG
* * * * * * *
40929717 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
40929782 TGTGATA
66 TGTGATA
40929789 TGTCCCGAAG
Statistics
Matches: 425, Mismatches: 23, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
94 154 0.36
96 271 0.64
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:40929400 original size:143 final size:143
Alignment explanation
Indices: 40929241--40929788 Score: 976
Period size: 143 Copynumber: 3.8 Consensus size: 143
40929231 TATTTGAATA
40929241 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GACCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CCGATGTGATGAATGTGAAAGTGTATAT
*
40929305 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
65 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
40929370 TGGCCGATGTGATG
130 TGGCCGATGTGATG
*
40929384 AATGTGAAAGTGTATATATGTGATAATGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
40929449 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
40929514 GGCCGATGTGATG
131 GGCCGATGTGATG
*
40929527 AATGTGGAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
40929592 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
40929657 GGCCGATGTGATG
131 GGCCGATGTGATG
* * *
40929670 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
* * * *
40929735 TGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATA
40929789 TGTCCCGAAG
Statistics
Matches: 392, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
141 8 0.02
142 1 0.00
143 382 0.97
144 1 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:40934942 original size:41 final size:40
Alignment explanation
Indices: 40934886--40935042 Score: 170
Period size: 41 Copynumber: 3.9 Consensus size: 40
40934876 GACCTTTCGG
* *
40934886 GGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGATCA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* ** * *
40934926 GGCTTTTAGTGGCGTTTTTGAAAAAGCGTAGCTAAGGCTCG
1 GGC-TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
40934967 GAGCTTTAGCGGCGTTTTTGAGAAAGCGTCGCTAATGCTCGA
1 G-GCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-A
** * *
40935009 AACTTTAGCAGCGTTTTTGAGAAAGCGCCGCTAA
1 GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
40935043 AACATTTTAT
Statistics
Matches: 98, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 3 0.03
41 93 0.95
42 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:40935024 original size:82 final size:82
Alignment explanation
Indices: 40934882--40935035 Score: 202
Period size: 82 Copynumber: 1.9 Consensus size: 82
40934872 ATCTGACCTT
* ** **
40934882 TCGGGGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGATCAGGCTTTTAGTGGCGTTTTTGA
1 TCGGAGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGATCAAACTTTTAGCAGCGTTTTTGA
40934947 AAAAGCGTAGCTAAGGC
66 AAAAGCGTAGCTAAGGC
* * * *
40934964 TCGGAGCTTTAGCGGCGTTTTTGAGAAAGCGTCGCTAATGCTCGAAAC-TTTAGCAGCGTTTTTG
1 TCGGAGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGATC-AAACTTTTAGCAGCGTTTTTG
*
40935028 AGAAAGCG
65 AAAAAGCG
40935036 CCGCTAAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
82 59 0.97
83 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (82 bp):
TCGGAGCTTTAGCAGCGTTTTTGAAAAAGCGCCGCTAATGATCAAACTTTTAGCAGCGTTTTTGA
AAAAGCGTAGCTAAGGC
Found at i:40935458 original size:14 final size:15
Alignment explanation
Indices: 40935425--40935458 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
40935415 TAACGTTTAT
40935425 AGATTATGGAATTAG
1 AGATTATGGAATTAG
*
40935440 GGATTATGG-ATTAG
1 AGATTATGGAATTAG
40935454 AGATT
1 AGATT
40935459 CTGGTTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:40935624 original size:13 final size:12
Alignment explanation
Indices: 40935606--40935649 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
40935596 AGGGGTTAGG
40935606 GGTTAGGGATTTA
1 GGTTAGGG-TTTA
40935619 GGTTAGGGTTTA
1 GGTTAGGGTTTA
*
40935631 GGGTTTAAGGTTTA
1 -GG-TTAGGGTTTA
40935645 GGTTA
1 GGTTA
40935650 ATTAGTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.25
13 12 0.43
14 9 0.32
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (12 bp):
GGTTAGGGTTTA
Found at i:40935631 original size:7 final size:7
Alignment explanation
Indices: 40935593--40935646 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
40935583 TTAAATAAGA
40935593 TTTAGGG
1 TTTAGGG
*
40935600 GTTAGGG
1 TTTAGGG
*
40935607 GTTAGGG
1 TTTAGGG
40935614 ATTTA-GG
1 -TTTAGGG
40935621 -TTAGGG
1 TTTAGGG
40935627 TTTAGGG
1 TTTAGGG
*
40935634 TTTAAGG
1 TTTAGGG
40935641 TTTAGG
1 TTTAGG
40935647 TTAATTAGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 3 0.08
6 2 0.05
7 32 0.80
8 3 0.08
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.39
Consensus pattern (7 bp):
TTTAGGG
Found at i:40935648 original size:20 final size:20
Alignment explanation
Indices: 40935599--40935642 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
40935589 AAGATTTAGG
*
40935599 GGTTAGGGGTTAGGGATTTA
1 GGTTAGGGTTTAGGGATTTA
40935619 GGTTAGGGTTTAGGG-TTTAA
1 GGTTAGGGTTTAGGGATTT-A
40935639 GGTT
1 GGTT
40935643 TAGGTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.18, C:0.00, G:0.43, T:0.39
Consensus pattern (20 bp):
GGTTAGGGTTTAGGGATTTA
Found at i:40935651 original size:88 final size:90
Alignment explanation
Indices: 40935540--40935703 Score: 235
Period size: 90 Copynumber: 1.8 Consensus size: 90
40935530 CAGTGTCAAG
* *
40935540 TTAGGCTTTAGGGTTTATATTAATTAGTGTGTTTT-AA-TT-TATATTAAATAAGATTTAGGGGT
1 TTAGGCTTTAAGGTTTAGATTAATTAGTGT-TTTTAAATTTATATATTAAATAAGATTTAGGGGT
*
40935602 TAGGGGTTAGGGATTTAGGTTAGGGT
65 TAGGAGTTAGGGATTTAGGTTAGGGT
* * *
40935628 TTAGGGTTTAAGGTTTAGGTTAATTAGTGTTTTTAAATTTATATATTAAATAAGGTTTAGGGGTT
1 TTAGGCTTTAAGGTTTAGATTAATTAGTGTTTTTAAATTTATATATTAAATAAGATTTAGGGGTT
*
40935693 AGTAGTTAGGG
66 AGGAGTTAGGG
40935704 GTTAGGGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 4 0.06
88 28 0.42
89 2 0.03
90 32 0.48
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (90 bp):
TTAGGCTTTAAGGTTTAGATTAATTAGTGTTTTTAAATTTATATATTAAATAAGATTTAGGGGTT
AGGAGTTAGGGATTTAGGTTAGGGT
Found at i:40940470 original size:42 final size:43
Alignment explanation
Indices: 40940407--40940550 Score: 179
Period size: 43 Copynumber: 3.4 Consensus size: 43
40940397 ATAATTTTTT
* * *
40940407 TAAAGGTTATGTT-TTTAGCGGCGTTT-TTACGAGAAGCGTCGC
1 TAAAGGTTATGTTCTTTTGCGGCGTTTGTGAC-AAAAGCGTCGC
40940449 TAAAGGTT-TGTTCTTTTGCGGCGTTTGTGACAAAAGCGTCGC
1 TAAAGGTTATGTTCTTTTGCGGCGTTTGTGACAAAAGCGTCGC
* * *
40940491 TAAATGTCATGTTCTTTAT-CGGCGTTTGTGACAAAAGCGCCGC
1 TAAAGGTTATGTTCTTT-TGCGGCGTTTGTGACAAAAGCGTCGC
*
40940534 TAAAGGTTATGATCTTT
1 TAAAGGTTATGTTCTTT
40940551 AGCGATATTT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
41 4 0.04
42 36 0.40
43 48 0.54
44 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (43 bp):
TAAAGGTTATGTTCTTTTGCGGCGTTTGTGACAAAAGCGTCGC
Found at i:40943482 original size:17 final size:17
Alignment explanation
Indices: 40943460--40943493 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
40943450 CACTAACACT
* *
40943460 AAAATGTAATGACAATG
1 AAAATGCAATGAAAATG
40943477 AAAATGCAATGAAAATG
1 AAAATGCAATGAAAATG
40943494 TATACTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGAAAATG
Found at i:40956870 original size:659 final size:658
Alignment explanation
Indices: 40955598--40956900 Score: 2232
Period size: 659 Copynumber: 2.0 Consensus size: 658
40955588 CTTCTTACTT
40955598 CCTTATTTCTACCCATGGCTTGTCAGACTTGGTTTTCTGGGTCTGACCATCACCATTCTTTGTTG
1 CCTTATTTCTACCCATGGCTTGTCAGACTTGGTTTTCTGGGTCTGACCATCACCATTCTTTGTTG
* * *
40955663 GCTTGTCTTTTTCTTCCCTACCATTGCCCTTGGGTTTGAATTTGGACTTAGAGGTCTCATGATTA
66 CCTTGTCTTTGTCTTCCCCACCATTGCCCTTGGGTTTGAATTTGGACTTAGAGGTCTCATGATTA
* * *
40955728 TCAGACTTTCTTCCTCTAAAGTCAAAGAATGTCTCAAACATGGCCATAGCTACAGTAAGTTTAGT
131 TCAGAATTTCTTCCCCTAAAGTCAAAGAATGTCACAAACATGGCCATAGCTACAGTAAGTTTAGT
* * *
40955793 GATACCTTGTCGTCACAACTCTTATTTTTCCCAAAATTAAGTCCATTTTTAATCCAGTAGAATGC
196 GATACCTTGTCGTCACAACTCTTATTTTGCCCAAAATTAAGTCCATTTTCAAACCAGTAGAATGC
40955858 TTCTTATTCATTCAAATTAGAGATCTGAAGCATCAATTCACTAAACTCTCAAACATACTATTGAA
261 TTCTTATTCATTCAAATTAGAGATCTGAAGCATCAATTCACTAAACTCTCAAACATACTATTGAA
40955923 TAATGCCTTGTGGCGTAAGCCAATGCAACTTAGCCCGAGCCTCCTTCTCGGCATACTATGAGGAA
326 TAATGCCTTGTGGCGTAAGCCAATGCAACTTAGCCCGAGCCTCCTTCTCGGCATACTATGAGGAA
*
40955988 AATTACTTCATCAACTCTCTTCGGAACTCCTACCAAGTCCTATTAGTCATCCCACCATGTTTTTT
391 AATTACTTCATCAACTCTCTTCGGAACTCCTACCAAGTCCTATTAGTCATCCCACCATGTTTGTT
* * *
40956053 ATTCGTGGACTTACGAGGCCACAACAAGAGAGTAACATTAATAAAATTAATTGAAGTAGTGTTTA
456 ATTCGTGGACTTAAGAGGCCACAACAAGAAAGTAACATCAATAAAATTAATTGAAGTAGTGTTTA
* *
40956118 CCTTAGTAACATCATCCTCAATACCTGTCACTCAAAAGTGTTGCTCTATTTCTCACAAGAAGTTG
521 CCTTAGTAACATCATCCTCAATACCTATCACTCAAAAGTATTGCTCTATTTCTCACAAGAAGTTG
*
40956183 TCCACTTCCCTCGTGGACCTTTCCCTCTTAAACTTCTCCAGTTTGGAAACATCC-TCTTAAACTT
586 TCCACTTCCCTCGTGGACCTTGCCCTCTTAAACTTCTCCAGTTTGGAAACATCCATCTTAAACTT
40956247 CTCGCGGA
651 CTCGCGGA
* * *
40956255 CCTTATTTTTACCCCATGGCTTGTCAGGCTTGGTTTTCTGGGTCTTACCATCACCATTCTTTGTT
1 CCTTATTTCTA-CCCATGGCTTGTCAGACTTGGTTTTCTGGGTCTGACCATCACCATTCTTTGTT
40956320 GCCTTGTCTTTGTCTTCCCCACCATTGCCCTTGGGTTTGAATTTGGACTTAGAGGTCTCATGATT
65 GCCTTGTCTTTGTCTTCCCCACCATTGCCCTTGGGTTTGAATTTGGACTTAGAGGTCTCATGATT
* * *
40956385 ATTAGAATTTCTTCCCCTAAAGTCAAAGAATGTCACAACCTTGGCCATAGCTACAGTAAGTTTAG
130 ATCAGAATTTCTTCCCCTAAAGTCAAAGAATGTCACAAACATGGCCATAGCTACAGTAAGTTTAG
* * *
40956450 TGATACCTTGTCGTCACAACTCTTATTTTGCCCACGACTTAAGTCTATTTTCAAACCAGTAGAAT
195 TGATACCTTGTCGTCACAACTCTTATTTTGCCCA-AAATTAAGTCCATTTTCAAACCAGTAGAAT
*
40956515 GCTTCTT-TATCATTCAAATTAGAGATCTGAAGCATCAATTCACTAAACTCTCAAACATACTCTT
259 GCTTCTTAT-TCATTCAAATTAGAGATCTGAAGCATCAATTCACTAAACTCTCAAACATACTATT
*
40956579 GAATAATGCCTTGTGGCGTAAGCCAATGTAACTTAGCCCGAGCCTCCTTCTCGGCATACTATGAG
323 GAATAATGCCTTGTGGCGTAAGCCAATGCAACTTAGCCCGAGCCTCCTTCTCGGCATACTATGAG
* * * * *
40956644 GAAAATTGCTTCATCAAGTCTCTTTGGAACTCTTAGCAAGTCCTATTAGTCATCCCACCATGTTT
388 GAAAATTACTTCATCAACTCTCTTCGGAACTCCTACCAAGTCCTATTAGTCATCCCACCATGTTT
* *
40956709 GTTATTCGTGGACTTAAGAGGTCACAACAAGAAAGTAACATCAGTAAAATTAATTGAAGTAGTGT
453 GTTATTCGTGGACTTAAGAGGCCACAACAAGAAAGTAACATCAATAAAATTAATTGAAGTAGTGT
* *
40956774 TTACCTTAGTAACATCATCCTGAATACCTATCACTTAAAAGTATTGCTCTATTTCTCACAAGAAG
518 TTACCTTAGTAACATCATCCTCAATACCTATCACTCAAAAGTATTGCTCTATTTCTCACAAGAAG
*
40956839 TTGTCCACTTCCCTCGTGGACCTTGCCCTCTTAAACTTCTCCGGTTTGGAAACATCCATCTT
583 TTGTCCACTTCCCTCGTGGACCTTGCCCTCTTAAACTTCTCCAGTTTGGAAACATCCATCTT
40956901 GTGTTGCTTT
Statistics
Matches: 605, Mismatches: 37, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
657 10 0.02
658 206 0.34
659 385 0.64
660 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.34
Consensus pattern (658 bp):
CCTTATTTCTACCCATGGCTTGTCAGACTTGGTTTTCTGGGTCTGACCATCACCATTCTTTGTTG
CCTTGTCTTTGTCTTCCCCACCATTGCCCTTGGGTTTGAATTTGGACTTAGAGGTCTCATGATTA
TCAGAATTTCTTCCCCTAAAGTCAAAGAATGTCACAAACATGGCCATAGCTACAGTAAGTTTAGT
GATACCTTGTCGTCACAACTCTTATTTTGCCCAAAATTAAGTCCATTTTCAAACCAGTAGAATGC
TTCTTATTCATTCAAATTAGAGATCTGAAGCATCAATTCACTAAACTCTCAAACATACTATTGAA
TAATGCCTTGTGGCGTAAGCCAATGCAACTTAGCCCGAGCCTCCTTCTCGGCATACTATGAGGAA
AATTACTTCATCAACTCTCTTCGGAACTCCTACCAAGTCCTATTAGTCATCCCACCATGTTTGTT
ATTCGTGGACTTAAGAGGCCACAACAAGAAAGTAACATCAATAAAATTAATTGAAGTAGTGTTTA
CCTTAGTAACATCATCCTCAATACCTATCACTCAAAAGTATTGCTCTATTTCTCACAAGAAGTTG
TCCACTTCCCTCGTGGACCTTGCCCTCTTAAACTTCTCCAGTTTGGAAACATCCATCTTAAACTT
CTCGCGGA
Found at i:40979114 original size:49 final size:49
Alignment explanation
Indices: 40979046--40979146 Score: 148
Period size: 49 Copynumber: 2.1 Consensus size: 49
40979036 TCTTATAAGG
* *
40979046 AACATATGGAAAGCATTAAACATGTTATATTCTTTCCAAAAATAATTAT
1 AACATATGGAAAGCATTAAAAATGTTATATTCTTTCCAAAAAGAATTAT
* * * *
40979095 AACATATTGACAGTATTAAAAATGTTATATTCTTTTCAAAAAGAATTAT
1 AACATATGGAAAGCATTAAAAATGTTATATTCTTTCCAAAAAGAATTAT
40979144 AAC
1 AAC
40979147 TACCATGTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.36
Consensus pattern (49 bp):
AACATATGGAAAGCATTAAAAATGTTATATTCTTTCCAAAAAGAATTAT
Found at i:40986570 original size:187 final size:186
Alignment explanation
Indices: 40986255--40986624 Score: 587
Period size: 187 Copynumber: 2.0 Consensus size: 186
40986245 TCTCTCAATT
40986255 GGAATAACCAAATCTTATCACTTGCGAAAGAGAAATAAAATGAATACTTCGATATTATAAAAGAA
1 GGAATAACCAAATCTTATCACTTGCGAAAGAGAAATAAAATGAATACTTCGATATTATAAAAGAA
* *
40986320 CTATTAGATCGAAATCAATTCCAAAAGGAAAGAAGCATTTTTGGAAAACAAAGGAAAACTTAATC
66 CTATTAGATCAAAATCAATGCCAAAAGGAAAGAAGCATTTTTGGAAAACAAAGGAAAACTTAATC
40986385 TAAATACTACTCAAAAACTTCGAGGGGGTTTTGGATGCGTCTAAGAAAACTTAGATC
131 TAAATACTACTCAAAAACTTCG-GGGGGTTTTGGATGCGTCTAAGAAAACTTAGATC
* * * * *
40986442 GGAATAATCAAATCTTATGACTTGCGAAAGAGAAATAAATTGAATACTTTGATATTATAAAATAA
1 GGAATAACCAAATCTTATCACTTGCGAAAGAGAAATAAAATGAATACTTCGATATTATAAAAGAA
* * * * *
40986507 CTCTTGGATCAAAATCGATGCCAATAGGAAAGAAGGATTTTTGGAAAACAAAGGAAAACTTAATC
66 CTATTAGATCAAAATCAATGCCAAAAGGAAAGAAGCATTTTTGGAAAACAAAGGAAAACTTAATC
** * *
40986572 TAAATACTACTCATCAACTTCGGGGGGTTTTGGATGTGTCTAAGAAGACTTAG
131 TAAATACTACTCAAAAACTTCGGGGGGTTTTGGATGCGTCTAAGAAAACTTAG
40986625 TTACATTAAA
Statistics
Matches: 167, Mismatches: 16, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
186 29 0.17
187 138 0.83
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (186 bp):
GGAATAACCAAATCTTATCACTTGCGAAAGAGAAATAAAATGAATACTTCGATATTATAAAAGAA
CTATTAGATCAAAATCAATGCCAAAAGGAAAGAAGCATTTTTGGAAAACAAAGGAAAACTTAATC
TAAATACTACTCAAAAACTTCGGGGGGTTTTGGATGCGTCTAAGAAAACTTAGATC
Found at i:40988084 original size:18 final size:19
Alignment explanation
Indices: 40988063--40988108 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
40988053 ATAATAATTT
40988063 AATTTCATAT-TGAATT-AA
1 AATTTCATATAT-AATTAAA
**
40988081 AATTTTTTATATAATTAAA
1 AATTTCATATATAATTAAA
40988100 AATTTCATA
1 AATTTCATA
40988109 ATTCAATGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (19 bp):
AATTTCATATATAATTAAA
Found at i:40989544 original size:28 final size:29
Alignment explanation
Indices: 40989462--40989544 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
40989452 CAATAAATTT
* *
40989462 TTCCTTTAATAGAGGTTGCAACAAA-GAC
1 TTCCTTTAATAGAGATTGCCACAAAGGAC
* * **
40989490 TTCCTTTAACAAAGATCACCACAAAGGA-
1 TTCCTTTAATAGAGATTGCCACAAAGGAC
40989518 TTCCTTTAATAGAGATTGCCACAAAGG
1 TTCCTTTAATAGAGATTGCCACAAAGG
40989545 CTCACTTTTG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
28 42 0.95
29 2 0.05
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (29 bp):
TTCCTTTAATAGAGATTGCCACAAAGGAC
Found at i:40991592 original size:9 final size:9
Alignment explanation
Indices: 40991576--40991627 Score: 77
Period size: 9 Copynumber: 5.8 Consensus size: 9
40991566 GGTATTTTTC
40991576 GGTAATTCG
1 GGTAATTCG
*
40991585 GTTAATTCG
1 GGTAATTCG
*
40991594 GTTAATTCG
1 GGTAATTCG
40991603 GGTAATTCG
1 GGTAATTCG
*
40991612 GATAATTCG
1 GGTAATTCG
40991621 GGTAATT
1 GGTAATT
40991628 TTTAACCAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:40991606 original size:27 final size:27
Alignment explanation
Indices: 40991576--40991627 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
40991566 GGTATTTTTC
* *
40991576 GGTAATTCGGTTAATTCGGTTAATTCG
1 GGTAATTCGGATAATTCGGGTAATTCG
40991603 GGTAATTCGGATAATTCGGGTAATT
1 GGTAATTCGGATAATTCGGGTAATT
40991628 TTTAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.38
Consensus pattern (27 bp):
GGTAATTCGGATAATTCGGGTAATTCG
Found at i:41009817 original size:13 final size:13
Alignment explanation
Indices: 41009796--41009825 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
41009786 CTACATGGGT
*
41009796 CACATGGCTGAGA
1 CACAAGGCTGAGA
41009809 CACAAGGCTGAGA
1 CACAAGGCTGAGA
41009822 CACA
1 CACA
41009826 CGCCTGTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.27, T:0.10
Consensus pattern (13 bp):
CACAAGGCTGAGA
Found at i:41012866 original size:27 final size:27
Alignment explanation
Indices: 41012830--41013006 Score: 80
Period size: 27 Copynumber: 6.6 Consensus size: 27
41012820 GTACGTTGTC
* * * *
41012830 AAGGAATTCCATTTAGAATTTGCCACG
1 AAGGCATTCCATTCAGAATCTGCCACA
* * *
41012857 AAGGCTTTCCCTTCAGAGTCTGCCACA
1 AAGGCATTCCATTCAGAATCTGCCACA
* *
41012884 AAGGCATTCCTTTC-GTATAT-TGCTACA
1 AAGGCATTCCATTCAG-A-ATCTGCCACA
* * *
41012911 AAGGCATTCCTTTCATATAT-TGCCAAA
1 AAGGCATTCCATTCAGA-ATCTGCCACA
** *
41012938 AAGGCATT-GTTTCCATATAT-TGCCACA
1 AAGGCATTCCATT-CAGA-ATCTGCCACA
* *
41012965 AAGGCATTCC-TTCCATATAT-TTCCACA
1 AAGGCATTCCATT-CAGA-ATCTGCCACA
*
41012992 AAGGCATTCCTTTCA
1 AAGGCATTCCATTCA
41013007 TAACATGTTT
Statistics
Matches: 126, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
26 4 0.03
27 119 0.94
28 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (27 bp):
AAGGCATTCCATTCAGAATCTGCCACA
Found at i:41013008 original size:27 final size:27
Alignment explanation
Indices: 41012877--41013008 Score: 194
Period size: 27 Copynumber: 4.9 Consensus size: 27
41012867 CTTCAGAGTC
*
41012877 TGCCACAAAGGCATTCCTTTCGTATAT
1 TGCCACAAAGGCATTCCTTTCATATAT
*
41012904 TGCTACAAAGGCATTCCTTTCATATAT
1 TGCCACAAAGGCATTCCTTTCATATAT
* *
41012931 TGCCAAAAAGGCATT-GTTTCCATATAT
1 TGCCACAAAGGCATTCCTTT-CATATAT
*
41012958 TGCCACAAAGGCATTCCTTCCATATAT
1 TGCCACAAAGGCATTCCTTTCATATAT
*
41012985 TTCCACAAAGGCATTCCTTTCATA
1 TGCCACAAAGGCATTCCTTTCATA
41013009 ACATGTTTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 3 0.03
27 88 0.95
28 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (27 bp):
TGCCACAAAGGCATTCCTTTCATATAT
Found at i:41015430 original size:24 final size:24
Alignment explanation
Indices: 41015398--41015445 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
41015388 TACTCAAGTA
41015398 GACGCTAGCCCAATGAACTTAAAT
1 GACGCTAGCCCAATGAACTTAAAT
41015422 GACGCTAGCCCAATGAACTTAAAT
1 GACGCTAGCCCAATGAACTTAAAT
41015446 TAGGTAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
GACGCTAGCCCAATGAACTTAAAT
Found at i:41017736 original size:27 final size:27
Alignment explanation
Indices: 41017714--41017941 Score: 250
Period size: 27 Copynumber: 8.4 Consensus size: 27
41017704 TAAAAAAAGA
*
41017714 ATTCCTTTAATATATTGCCAAAAAGGC
1 ATTCCTTTCATATATTGCCAAAAAGGC
* *
41017741 ATTCCTTTCATATATTTCCACAAAAGTC
1 ATTCCTTTCATATATTGCCA-AAAAGGC
*
41017769 -TTCC-TTCTATATATTGCCATAAAA-GA
1 ATTCCTTTC-ATATATTGCCA-AAAAGGC
* * *
41017795 ATTCCTTTCATGTATTGTCATAAAGGC
1 ATTCCTTTCATATATTGCCAAAAAGGC
* * *
41017822 ATTCCTTCCATATATTGTCACAAAGGC
1 ATTCCTTTCATATATTGCCAAAAAGGC
41017849 ATTCCTTTCATATATTG-CAACAAAGGC
1 ATTCCTTTCATATATTGCCAA-AAAGGC
* *
41017876 ATTCATTTCATATATTGCCATAAAGGC
1 ATTCCTTTCATATATTGCCAAAAAGGC
* *
41017903 ATTCC-TTCTATATATTGCCACATAGGC
1 ATTCCTTTC-ATATATTGCCAAAAAGGC
41017930 ATTCCTTTCATA
1 ATTCCTTTCATA
41017942 GCGTGTTCAC
Statistics
Matches: 171, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
26 11 0.06
27 146 0.85
28 14 0.08
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (27 bp):
ATTCCTTTCATATATTGCCAAAAAGGC
Found at i:41017799 original size:81 final size:82
Alignment explanation
Indices: 41017708--41017941 Score: 282
Period size: 81 Copynumber: 2.9 Consensus size: 82
41017698 AGTCCGTAAA
* * *
41017708 AAAAGAATTCCTTTAATATATTGCCAAAAAGGCATTCCTTTCATATATTTCCACAAAAGTC-TTC
1 AAAAGAATTCCTTTCATATATTGCCATAAAGGCATTCCTTTCATATATTTCCACAAAAGGCATTC
* *
41017772 C-TTCTATATATTGCCAT
66 CTTTC-ATATATTGCAAC
* * *
41017789 AAAAGAATTCCTTTCATGTATTGTCATAAAGGCATTCCTTCCATATATTGT-CAC-AAAGGCATT
1 AAAAGAATTCCTTTCATATATTGCCATAAAGGCATTCCTTTCATATATT-TCCACAAAAGGCATT
41017852 CCTTTCATATATTGCAAC
65 CCTTTCATATATTGCAAC
* * * * *
41017870 AAAGGCATTCATTTCATATATTGCCATAAAGGCATTCC-TTCTATATATTGCCAC-ATAGGCATT
1 AAAAGAATTCCTTTCATATATTGCCATAAAGGCATTCCTTTC-ATATATTTCCACAAAAGGCATT
41017933 CCTTTCATA
65 CCTTTCATA
41017942 GCGTGTTCAC
Statistics
Matches: 132, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
80 7 0.05
81 121 0.92
82 4 0.03
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (82 bp):
AAAAGAATTCCTTTCATATATTGCCATAAAGGCATTCCTTTCATATATTTCCACAAAAGGCATTC
CTTTCATATATTGCAAC
Found at i:41036232 original size:49 final size:47
Alignment explanation
Indices: 41036141--41036508 Score: 576
Period size: 47 Copynumber: 7.7 Consensus size: 47
41036131 TTAGGATTCT
* * * *
41036141 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGTCCTAATGGCCA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
41036188 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
41036237 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
41036286 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41036333 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41036380 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
41036427 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
41036474 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41036509 TCCCGAAGGG
Statistics
Matches: 304, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 210 0.69
49 93 0.31
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:41038246 original size:40 final size:40
Alignment explanation
Indices: 41037892--41038234 Score: 515
Period size: 40 Copynumber: 8.6 Consensus size: 40
41037882 GAGTAAAATG
* * *
41037892 TCCGGGCTAAATCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
41037932 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
41037972 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
41038012 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
41038052 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * * *
41038092 TCCAGGTTAAATCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
41038132 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * *
41038172 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
41038212 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
41038235 ATCATGCTGG
Statistics
Matches: 271, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 271 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:41042370 original size:49 final size:47
Alignment explanation
Indices: 41042280--41042736 Score: 728
Period size: 47 Copynumber: 9.7 Consensus size: 47
41042270 TTAGGATTCT
* *
41042280 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
41042327 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
41042376 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
41042425 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
41042472 ATGTGATGAATGTGAAAGTGTATA-A----ATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41042514 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41042561 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
41042608 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
41042655 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
41042702 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
41042737 TCCCGAAGGG
Statistics
Matches: 388, Mismatches: 14, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
42 40 0.10
43 1 0.00
46 2 0.01
47 250 0.64
49 95 0.24
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:41042624 original size:183 final size:185
Alignment explanation
Indices: 41042310--41042678 Score: 697
Period size: 183 Copynumber: 2.0 Consensus size: 185
41042300 CATATATGTG
*
41042310 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCC
41042375 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
65 GATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
41042440 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAA
129 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAA
41042497 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCG
1 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
41042561 ATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
66 ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
41042625 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
131 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
41042679 TATGTGACAG
Statistics
Matches: 181, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
183 98 0.54
185 47 0.26
187 36 0.20
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (185 bp):
ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAA
Found at i:41045269 original size:22 final size:22
Alignment explanation
Indices: 41045217--41045293 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
41045207 CAAATAAATC
41045217 ATTTCTCT-AATATT-CTCTCTAA
1 ATTTCTCTCAAT-TTCCTCTC-AA
41045239 GA-TTCTCTCAATTTCCTCTC-A
1 -ATTTCTCTCAATTTCCTCTCAA
*
41045260 ATTTGCTCTCAATTTCCTTTCAA
1 ATTT-CTCTCAATTTCCTCTCAA
41045283 ATTTCTCTCAA
1 ATTTCTCTCAA
41045294 ATCCCTATTT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
20 1 0.02
21 3 0.06
22 30 0.62
23 14 0.29
ACGTcount: A:0.23, C:0.27, G:0.03, T:0.47
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTCTCAA
Found at i:41045295 original size:11 final size:11
Alignment explanation
Indices: 41045243--41045293 Score: 68
Period size: 11 Copynumber: 4.6 Consensus size: 11
41045233 CTCTAAGATT
41045243 CTCTCAATTTC
1 CTCTCAATTTC
*
41045254 CTCTCAATTTG
1 CTCTCAATTTC
41045265 CTCTCAATTTC
1 CTCTCAATTTC
*
41045276 CTTTCAAATTT-
1 CTCTC-AATTTC
41045287 CTCTCAA
1 CTCTCAA
41045294 ATCCCTATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 2 0.06
11 28 0.80
12 5 0.14
ACGTcount: A:0.22, C:0.31, G:0.02, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:41045754 original size:7 final size:7
Alignment explanation
Indices: 41045742--41045767 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
41045732 TAGTCGATTG
41045742 GTATTTA
1 GTATTTA
41045749 GTATTTA
1 GTATTTA
41045756 GTATTTA
1 GTATTTA
41045763 GTATT
1 GTATT
41045768 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:41046440 original size:18 final size:18
Alignment explanation
Indices: 41046417--41046459 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
41046407 TGCCAGGTGC
* *
41046417 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
41046435 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
41046453 GTTTCCT
1 GTATCCT
41046460 TTTTCGAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:41048831 original size:126 final size:126
Alignment explanation
Indices: 41048606--41049029 Score: 668
Period size: 126 Copynumber: 3.4 Consensus size: 126
41048596 ACATGAGAGC
* * * *
41048606 TTTTTTCAGGAGTTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTACTGC
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
* * *
41048671 CAAAGCATCATACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAAAGTCTACTTGAAATTA
66 CAAAGCATCCTACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* * *
41048732 TTTTTTTAGGAGATACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
* * *
41048797 CAAAGCATCCTGCTTAAAGCGTTTTTGACACTGTTTACTCAGAAACGTCTACTCAAAATTA
66 CAAAGCATCCTACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
*
41048858 TTTTTTCAAGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
** *
41048923 CAAAATATCCTACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTA
66 CAAAGCATCCTACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
* * *
41048984 TTTTCTCAGGAGCCACTGTACCAAAAGCGCGTCCACGTGGGAGCTT
1 TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTT
41049030 CTTTAAATTA
Statistics
Matches: 272, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 272 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (126 bp):
TTTTTTCAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGA
CAAAGCATCCTACTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTA
Found at i:41049263 original size:94 final size:100
Alignment explanation
Indices: 41049066--41049301 Score: 295
Period size: 94 Copynumber: 2.4 Consensus size: 100
41049056 AGTAACCCTA
41049066 AACCCTAAACCCTAATTTATTTAAGTTTTTACTTAAAAACTCTAAACTCTAAACACTAAACCCTA
1 AACCCTAAACCCTAATTTATTTAA-TTTTTACTTAAAAACTCT--A-TCTAAACACTAAACCCTA
*
41049131 AACTAATTTATTATAAATTTGTAATTAATTTACTCAAGT
62 AACTAATTTATTATAAATTTGTAATTAAATTACTCAAGT
* * * **
41049170 AACCCTAAACCTTAATTTATTTAATTTTTCCTTAAAAA-TCT-T-T-AACTCTAAACCCTAATTT
1 AACCCTAAACCCTAATTTATTTAATTTTTACTTAAAAACTCTATCTAAACACTAAACCCTAAACT
* *
41049231 AATTT-TTA-AATTTTTTAATTAAATTACTCAAGT
66 AATTTATTATAAATTTGTAATTAAATTACTCAAGT
* * *
41049264 AACCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAA
1 AACCCTAAACCCTAATTTATTTAATTTTTACTTAAAAA
41049302 ATAATAAACA
Statistics
Matches: 120, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
94 56 0.47
95 3 0.03
96 20 0.17
97 1 0.01
98 1 0.01
102 3 0.03
103 13 0.11
104 23 0.19
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.41
Consensus pattern (100 bp):
AACCCTAAACCCTAATTTATTTAATTTTTACTTAAAAACTCTATCTAAACACTAAACCCTAAACT
AATTTATTATAAATTTGTAATTAAATTACTCAAGT
Found at i:41049299 original size:46 final size:46
Alignment explanation
Indices: 41049155--41049299 Score: 134
Period size: 51 Copynumber: 3.1 Consensus size: 46
41049145 AAATTTGTAA
* * * *
41049155 TTAATTTACTCAAGTAACCCTAAACCTTAATTTATTTAATTTTTCC
1 TTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTTC
* ** * *
41049201 TTAAA--AATC-TTTAACTCTAAACCCTAATTTAATTTTTAAATTTTTTAA
1 TTAAATTACTCAAGTAACCCTAAACCCTAATTTAA---TT-AATTTTTT-C
*
41049249 TTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTGATTTTTTC
1 TTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTTC
41049295 TTAAA
1 TTAAA
41049300 AAATAATAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 16
0.71 0.14 0.15
Matches are distributed among these distances:
43 18 0.24
44 3 0.04
46 11 0.14
47 14 0.18
48 7 0.09
50 3 0.04
51 20 0.26
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.45
Consensus pattern (46 bp):
TTAAATTACTCAAGTAACCCTAAACCCTAATTTAATTAATTTTTTC
Done.