Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold515
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: 459219
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
File 1 of 4
Found at i:2596 original size:34 final size:34
Alignment explanation
Indices: 2553--2621 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
2543 TGTCGATGCT
*
2553 TCTTGGACTCTTTGAATAGCCATTGAAGAAAAAC
1 TCTTGGACTCTTTGAACAGCCATTGAAGAAAAAC
*
2587 TCTTGGACTCTTTGAACCGCCATTGAAGAAAAAC
1 TCTTGGACTCTTTGAACAGCCATTGAAGAAAAAC
2621 T
1 T
2622 TTACAGGATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (34 bp):
TCTTGGACTCTTTGAACAGCCATTGAAGAAAAAC
Found at i:2809 original size:2 final size:2
Alignment explanation
Indices: 2802--2834 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2792 ACAATCAAGA
2802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2835 ATCGATTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3200 original size:25 final size:25
Alignment explanation
Indices: 3171--3233 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
3161 AAACCAACTT
3171 AATTAAGTATATTAT-ATAAAAATCA
1 AATTAAGTATATTATAAT-AAAATCA
*
3196 AATTAAAGT-TATAATAATAAAATCA
1 AATT-AAGTATATTATAATAAAATCA
3221 AATTTAAG-ATATT
1 AA-TTAAGTATATT
3234 TAAGTATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
25 24 0.75
26 8 0.25
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.37
Consensus pattern (25 bp):
AATTAAGTATATTATAATAAAATCA
Found at i:4734 original size:16 final size:16
Alignment explanation
Indices: 4713--4747 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4703 CTAAAATTTG
*
4713 AAACAACTTGAATCTA
1 AAACAACTGGAATCTA
*
4729 AAACAACTGGAATTTA
1 AAACAACTGGAATCTA
4745 AAA
1 AAA
4748 TGAACTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.09, T:0.23
Consensus pattern (16 bp):
AAACAACTGGAATCTA
Found at i:6035 original size:17 final size:16
Alignment explanation
Indices: 6013--6046 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
6003 GAGTATATAA
*
6013 TTAATTAGTTTAATTCT
1 TTAATTACTTT-ATTCT
6030 TTAATTACTTTATTCT
1 TTAATTACTTTATTCT
6046 T
1 T
6047 AAGGAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (16 bp):
TTAATTACTTTATTCT
Found at i:8106 original size:29 final size:29
Alignment explanation
Indices: 8069--8132 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
8059 ATATTCTCTA
*
8069 CTTTAAGATCTTGTTGTCTTTCTATTTTT
1 CTTTCAGATCTTGTTGTCTTTCTATTTTT
*
8098 CTTTCAGATCTTGTTGTCTTTTTATTTTT
1 CTTTCAGATCTTGTTGTCTTTCTATTTTT
8127 CTTTCA
1 CTTTCA
8133 TCATTCAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.12, C:0.16, G:0.09, T:0.62
Consensus pattern (29 bp):
CTTTCAGATCTTGTTGTCTTTCTATTTTT
Found at i:9362 original size:18 final size:18
Alignment explanation
Indices: 9322--9362 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
9312 TTTTAAAGAA
* *
9322 AAAAAATCAATTATGATT
1 AAAAAATCAATAATAATT
9340 AAAAAATCAATAACTAATT
1 AAAAAATCAATAA-TAATT
9359 AAAA
1 AAAA
9363 TGCAGTCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAAATCAATAATAATT
Found at i:10164 original size:47 final size:47
Alignment explanation
Indices: 10112--10209 Score: 151
Period size: 47 Copynumber: 2.1 Consensus size: 47
10102 TAAAAGGAAA
* *
10112 ATGAAAGAAAATGGAAATGGCCTAAGTGAAGTACATATATTTAAAAG
1 ATGAAAGAAAATGAAAATAGCCTAAGTGAAGTACATATATTTAAAAG
** *
10159 ATGAAAGAAAATGAAAATAGTTTAAGTGAAGTACGTATATTTAAAAG
1 ATGAAAGAAAATGAAAATAGCCTAAGTGAAGTACATATATTTAAAAG
10206 ATGA
1 ATGA
10210 TCTTTTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (47 bp):
ATGAAAGAAAATGAAAATAGCCTAAGTGAAGTACATATATTTAAAAG
Found at i:17366 original size:10 final size:10
Alignment explanation
Indices: 17347--17380 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
17337 AAATCATGAA
*
17347 TTCTCCCATT
1 TTCTCTCATT
17357 TTCTCTCATT
1 TTCTCTCATT
17367 TTCTCTCATT
1 TTCTCTCATT
17377 TTCT
1 TTCT
17381 TTCTTCTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.09, C:0.32, G:0.00, T:0.59
Consensus pattern (10 bp):
TTCTCTCATT
Found at i:19999 original size:2 final size:2
Alignment explanation
Indices: 19992--20018 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19982 GTAATCAAGA
19992 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20019 GACGTGTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23582 original size:20 final size:20
Alignment explanation
Indices: 23554--23628 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
23544 TTTTACCCTG
23554 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
23574 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
23594 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTTTTCA
23614 ATGTATCGATACATT
1 ATGTATCGATACATT
23629 ATATCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:32171 original size:27 final size:27
Alignment explanation
Indices: 32067--32604 Score: 634
Period size: 27 Copynumber: 19.6 Consensus size: 27
32057 ACTGTGACCT
* *
32067 CTTTAAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
32094 CTTTTAGAGTCCACAACTCCGTGGCATC
1 CTTTTA-AGTCCACAACTCCGTGGCACC
* **
32122 CTTTTAAAGTCCATAACTCCGTGGCATT
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
32150 CTTTTAAGTCCACAATTTCGTGGCA-C
1 CTTTTAAGTCCACAACTCCGTGGCACC
32176 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
32204 CTTTCTGAAGTCCACAACTCCGTGGCACC
1 CTTT-T-AAGTCCACAACTCCGTGGCACC
*
32233 CTTTTAAGTCCACAACTCCGTGGTACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
32260 CTTTTAAGTCCACCAA-TCCGTGGCACC
1 CTTTTAAGTCCA-CAACTCCGTGGCACC
*
32287 TTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
32315 CTTTTAAGTCCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
32342 CTTTTAAGTCCACCAA-TCCGTGGCACC
1 CTTTTAAGTCCA-CAACTCCGTGGCACC
*
32369 CTTTTAAGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * * *
32396 CTTTTAAGTCCATAACTCCTTTGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
32423 TTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
32450 CTTTTAAGTTCACAATTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * *
32477 CTTTCAAAGTCTACAACTCCGTGGCACT
1 CTTT-TAAGTCCACAACTCCGTGGCACC
*
32505 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
32533 CTTTTAAGTCCACAAGTCAGTGGCA-C
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * **
32559 CTTTTCAAAGCCCACAAATTAGTGGCACC
1 CTTTT--AAGTCCACAACTCCGTGGCACC
*
32588 TCTTTTAAAGCCCACAA
1 -CTTTT-AAGTCCACAA
32605 GTTAGTGGCA
Statistics
Matches: 449, Mismatches: 46, Indels: 30
0.86 0.09 0.06
Matches are distributed among these distances:
26 13 0.03
27 247 0.55
28 144 0.32
29 40 0.09
30 5 0.01
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:32582 original size:28 final size:28
Alignment explanation
Indices: 32473--33098 Score: 335
Period size: 28 Copynumber: 21.1 Consensus size: 28
32463 AATTCCGTGA
* * * * *
32473 CACCCTTTCAAAGTCTACAACTCCGTGG
1 CACCATTTCAAAGCCCACAAATCGGTGG
* * * *
32501 CACTC-TTTTAAAGTCCACAACTCTGTGG
1 CAC-CATTTCAAAGCCCACAAATCGGTGG
* * * * *
32529 CACCCTTT-TAAGTCCACAAGTCAGTGG
1 CACCATTTCAAAGCCCACAAATCGGTGG
* **
32556 CACCTTTTCAAAGCCCACAAATTAGTGG
1 CACCATTTCAAAGCCCACAAATCGGTGG
* * * **
32584 CACCTCTTTTAAAGCCCACAAGTTAGTGG
1 CACC-ATTTCAAAGCCCACAAATCGGTGG
* *
32613 CATCATTTCAAAGCCCACAAATCAGTGG
1 CACCATTTCAAAGCCCACAAATCGGTGG
32641 CATCCA-TTCAAAGCCCACACAAGTCGGTGG
1 CA-CCATTTCAAAGCCCACA-AA-TCGGTGG
*
32671 CAACTCATTTGAAAGCCCACACAAGTCGGTGG
1 C-AC-CATTTCAAAGCCCACA-AA-TCGGTGG
*
32703 CAACCCGTTTCAAAGCCCACACAAGTCGGTGG
1 C-A-CCATTTCAAAGCCCACA-AA-TCGGTGG
* * *
32735 CACCCCTTTCAAAGCCCACAAGTCAGTGG
1 CA-CCATTTCAAAGCCCACAAATCGGTGG
*
32764 CACCCTTTCAAAGCCCACACAAGTCGGTGG
1 CACCATTTCAAAGCCCACA-AA-TCGGTGG
* * *
32794 TAACTCATTTCAAAGCCCGCACAAGTTGGTGG
1 -CAC-CATTTCAAAG-CC-CACAAATCGGTGG
* * **
32826 CAACCCATTTGAAAGTCCACACAAGTTAGTGG
1 C-A-CCATTTCAAAG-CC-CACAAATCGGTGG
* *
32858 CATCATTTCAAAGCCCACACAAGTTGGTGG
1 CACCATTTCAAAGCCCACA-AA-TCGGTGG
* *
32888 CAACCCATTTTAAAGCCCACACAAGTTGGTGG
1 C-A-CCATTTCAAAGCCCACA-AA-TCGGTGG
*
32920 CAACTCATTTGAAAGCCCACACAAGTCGGTGG
1 C-AC-CATTTCAAAGCCCACA-AA-TCGGTGG
32952 CAACCCATTTCAAAGCCCACACAAGTC-GTGG
1 C-A-CCATTTCAAAGCCCACA-AA-TCGGTGG
** *
32983 CAACCTATTTTGAAGCCCACAAGTCGGTGG
1 C-ACC-ATTTCAAAGCCCACAAATCGGTGG
* * * **
33013 CATCTTTTCAAAGCCCACAAGTTAGTGG
1 CACCATTTCAAAGCCCACAAATCGGTGG
* * *
33041 CACCCTTTCAAAGCCCACAAGTCAGTGG
1 CACCATTTCAAAGCCCACAAATCGGTGG
* * * *
33069 CATTC-TTTCAATGTCCACAAGTCGGTGG
1 CA-CCATTTCAAAGCCCACAAATCGGTGG
33097 CA
1 CA
33099 TCTTTTGGCA
Statistics
Matches: 507, Mismatches: 63, Indels: 56
0.81 0.10 0.09
Matches are distributed among these distances:
27 24 0.05
28 172 0.34
29 46 0.09
30 39 0.08
31 46 0.09
32 170 0.34
33 6 0.01
34 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (28 bp):
CACCATTTCAAAGCCCACAAATCGGTGG
Found at i:32691 original size:32 final size:32
Alignment explanation
Indices: 32543--33383 Score: 568
Period size: 28 Copynumber: 28.0 Consensus size: 32
32533 CTTTTAAGTC
* *
32543 CACAAGTCAGTGGC-AC-CTTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
** * *
32573 CA-AA-TTAGTGGCACCTC-TTTTAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
**
32600 CACAAGTTAGTGGC-A-TCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
32630 CA-AA-TCAGTGGCATC-CA-TTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
32658 CACAAGTCGGTGGCAACTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
32690 CACAAGTCGGTGGCAACCCGTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
32722 CACAAGTCGGTGGC-ACCCCTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
32751 CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
32781 CACAAGTCGGTGGTAACTCATTTCAAAGCCCG
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * * *
32813 CACAAGTTGGTGGCAACCCATTTGAAAGTCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
**
32845 CACAAGTTAGTGGC-A-TCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
32875 CACAAGTTGGTGGCAACCCATTTTAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
32907 CACAAGTTGGTGGCAACTCATTTGAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
32939 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
**
32971 CACAAGTC-GTGGCAAC-CTATTTTGAAG-CC-
1 CACAAGTCGGTGGCAACTC-ATTTCAAAGCCCA
*
33000 CACAAGTCGGTGGC-A-TCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
** *
33028 CACAAGTTAGTGGC-AC-CCTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * * *
33056 CACAAGTCAGTGGC-ATTC-TTTCAATG-TC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * *
33084 CACAAGTCGGTGGCATCTTTTGGCATCTTTTCCACG-CC-
1 CACAAGTCGGTGGCAAC---T--CA---TTTCAAAGCCCA
*
33122 CACAAGTCAGTGGCAACT--TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* ** *
33150 CACGAGTTAGTGGTAACT--TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * * * *
33178 CACGAGTCAGTGGC-A-TCCTTCCGAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
33208 CACAAGTCGGTGGTAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
33238 CACAAGTCGGTGGC-A-TCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* * * *
33266 CACGAGTCAGTGGC-A-TCCTTCCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
33296 CACAAGTCGGTGGCAACCCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
*
33326 CACAAGTCGGTGGC-A-TCTTTTCAAAG-CC-
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
* *
33354 CACAAGTCAGTGGC-AC-CCTTTCAAAGCCCA
1 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
33384 TAAGTTAGTG
Statistics
Matches: 675, Mismatches: 89, Indels: 94
0.79 0.10 0.11
Matches are distributed among these distances:
26 1 0.00
27 5 0.01
28 233 0.35
29 62 0.09
30 111 0.16
31 39 0.06
32 200 0.30
34 1 0.00
35 1 0.00
38 22 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
Found at i:33069 original size:56 final size:56
Alignment explanation
Indices: 32478--33609 Score: 705
Period size: 56 Copynumber: 19.2 Consensus size: 56
32468 CGTGACACCC
* * * * * * * * * *
32478 TTTCAAAGTCTACAACTCCGTGGCACTCTTTTAAAGTCCACAACTCTGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCT
* * * *
32535 TTT--AAGTCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAATTAGTGGCACCTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA--TCT
* * * * *
32591 TTT-AAAGCCCACAAGTTAGTGGCATCATTTCAAAGCCCACAAATCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * * * *
32646 ATTCAAAGCCCACACAAGTCGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCG
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
* * *
32710 TTTCAAAGCCCACACAAGTCGGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * ** * *
32769 TTTCAAAGCCCACACAAGTCGGTGGTAACTCATTTCAAAGCCCGCACAAGTTGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGG-CAC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
* * * * ** *
32833 TTTGAAAGTCCACACAAGTTAGTGGCATCATTTCAAAGCCCACACAAGTTGGTGGCAACCCAT
1 TTTCAAAG-CC-CACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TC-T
** * * * * *
32896 TTT-AAAGCCCACACAAGTTGGTGGCAACTCATTTGAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-AC-CCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
* ** *
32959 TTTCAAAGCCCACACAAGTC-GTGGCAACCTATTTTGAAGCCCACAAGTCGGTGGCATCT
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ACC-CTTTCAAAGCCCACAAGTCAGTGGCATCT
*
33018 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCAT-T
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * * *
33073 CTTTCAATGTCCACAAGTCGGTGGCATCTTTTGGCATCTTTTCCACGCCCACAAGTCAGTGGCAA
1 -TTTCAAAGCCCACAAGTCAGTGGCA-C------C--C-TTTCAAAGCCCACAAGTCAGTGGCAT
33138 CT
55 CT
* * * * * * *
33140 TTTCAAAGCCCACGAGTTAGTGGTAACTTTTCAAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * *
33196 TTCCGAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCACAAGTCGGTGGCATCT
1 TTTCAAAG-CC-CACAAGTCAGTGG-CACCC-TTTCAAAGCCCACAAGTCAGTGGCATCT
* * * * * *
33256 TTTCAAAGCCCACGAGTCAGTGGCATCCTTCCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
* * * * *
33316 TTTCAAAGCCCACAAGTCGGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * ** * *
33372 TTTCAAAGCCCATAAGTTAGTGGCATTCTTTCAATGTCCACAAGTCAGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * ** * * * *
33428 TTTCCAAGCTCACAAGTCAGTGATAACTTTTCAAAGCCCACGAGTCAGTGGCAACT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
* * * *
33484 TTTCAAAGCCCACGAGTCTGTGGCATCC-TTCAAAAGCCCACGAGTCAGTGGCATC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCATCT
* *
33539 CTTCTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCT
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
*
33596 CTTCAAAGCCCACA
1 TTTCAAAGCCCACA
33610 CAAGTTAGTG
Statistics
Matches: 886, Mismatches: 141, Indels: 97
0.79 0.13 0.09
Matches are distributed among these distances:
55 49 0.06
56 278 0.31
57 74 0.08
58 67 0.08
59 46 0.05
60 85 0.10
61 31 0.03
62 81 0.09
63 35 0.04
64 96 0.11
65 1 0.00
66 42 0.05
67 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCT
Found at i:33099 original size:28 final size:27
Alignment explanation
Indices: 32477--33103 Score: 268
Period size: 32 Copynumber: 21.1 Consensus size: 27
32467 CCGTGACACC
* * * *
32477 CTTTCAAAGTCTACAACTCCGTGGCACT
1 CTTTCAAAGCCCACAAGTCAGTGGCA-T
* * * * *
32505 CTTTTAAAGTCCACAACTCTGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-T
* * *
32533 CTTT-TAAGTCCACAAGTCAGTGGCAC
1 CTTTCAAAGCCCACAAGTCAGTGGCAT
* *
32559 CTTTTCAAAGCCCACAAATTAGTGGCACCT
1 C-TTTCAAAGCCCACAAGTCAGTGGCA--T
* *
32589 CTTTTAAAGCCCACAAGTTAGTGGCAT
1 CTTTCAAAGCCCACAAGTCAGTGGCAT
*
32616 CATTTCAAAGCCCACAAATCAGTGGCAT
1 C-TTTCAAAGCCCACAAGTCAGTGGCAT
* *
32644 CCATTCAAAGCCCACACAAGTCGGTGGCAACT
1 -CTTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* * *
32676 CATTTGAAAGCCCACACAAGTCGGTGGCAACC
1 C-TTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* *
32708 CGTTTCAAAGCCCACACAAGTCGGTGGCACCC
1 C-TTTCAAAG-CC-CACAAGTCAGTGGCA--T
*
32740 CTTTCAAAGCCCACAAGTCAGTGGCACC
1 CTTTCAAAGCCCACAAGTCAGTGGCA-T
* *
32768 CTTTCAAAGCCCACACAAGTCGGTGGTAACT
1 CTTTCAAAG-CC-CACAAGTCAGTGG-CA-T
** *
32799 CATTTCAAAGCCCGCACAAGTTGGTGGCAACC
1 C-TTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* *
32831 CATTTGAAAGTCCACACAAGTTAGTGGCAT
1 C-TTTCAAAG-CC-CACAAGTCAGTGGCAT
** *
32861 CATTTCAAAGCCCACACAAGTTGGTGGCAACC
1 C-TTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* **
32893 CATTTTAAAGCCCACACAAGTTGGTGGCAACT
1 C-TTTCAAAG-CC-CACAAGTCAGTGGC-A-T
* * *
32925 CATTTGAAAGCCCACACAAGTCGGTGGCAACC
1 C-TTTCAAAG-CC-CACAAGTCAGTGGC-A-T
32957 CATTTCAAAGCCCACACAAGTC-GTGGCAACCT
1 C-TTTCAAAG-CC-CACAAGTCAGTGGC-A--T
* ** *
32989 ATTTTGAAGCCCACAAGTCGGTGGCAT
1 CTTTCAAAGCCCACAAGTCAGTGGCAT
* *
33016 CTTTTCAAAGCCCACAAGTTAGTGGCACC
1 C-TTTCAAAGCCCACAAGTCAGTGGCA-T
33045 CTTTCAAAGCCCACAAGTCAGTGGCATT
1 CTTTCAAAGCCCACAAGTCAGTGGCA-T
* * *
33073 CTTTCAATGTCCACAAGTCGGTGGCAT
1 CTTTCAAAGCCCACAAGTCAGTGGCAT
33100 CTTT
1 CTTT
33104 TGGCATCTTT
Statistics
Matches: 512, Mismatches: 64, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.00
27 29 0.06
28 154 0.30
29 52 0.10
30 59 0.12
31 29 0.06
32 187 0.37
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
CTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:33150 original size:28 final size:28
Alignment explanation
Indices: 33104--33628 Score: 516
Period size: 28 Copynumber: 18.4 Consensus size: 28
33094 TGGCATCTTT
* *
33104 TGGCATCTTTTCCACGCCCACAAGTCAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* * *
33132 TGGCAACTTTTCAAAGCCCACGAGTTAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* * *
33160 TGGTAACTTTTCAAAGCCCACGAGTCAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* * * *
33188 TGGCATCCTTCCGAAGCCCACACAAGTCGG
1 TGGCATCTTTTCAAAG-CC-CACAAGTCAG
* * * *
33218 TGGTAACCCATTTCAAAGCCCACAAGTCGG
1 TGG-CA-TCTTTTCAAAGCCCACAAGTCAG
*
33248 TGGCATCTTTTCAAAGCCCACGAGTCAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* * *
33276 TGGCATCCTTCCAAAGCCCACACAAGTCGG
1 TGGCATCTTTTCAAAG-CC-CACAAGTCAG
* * *
33306 TGGCAACCCATTTCAAAGCCCACAAGTCGG
1 TGGC-A-TCTTTTCAAAGCCCACAAGTCAG
33336 TGGCATCTTTTCAAAGCCCACAAGTCAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* * * *
33364 TGGCACCCTTTCAAAGCCCATAAGTTAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* *
33392 TGGCAT-TCTTTCAATGTCCACAAGTCAG
1 TGGCATCT-TTTCAAAGCCCACAAGTCAG
* *
33420 TGGCATCTTTTCCAAGCTCACAAGTCAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
** * *
33448 TGATAACTTTTCAAAGCCCACGAGTCAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* * *
33476 TGGCAACTTTTCAAAGCCCACGAGTCTG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* *
33504 TGGCATC-CTTCAAAAGCCCACGAGTCAG
1 TGGCATCTTTTC-AAAGCCCACAAGTCAG
*
33532 TGGCATC-CTTCTAAAGCCCACAAGTCAG
1 TGGCATCTTTTC-AAAGCCCACAAGTCAG
*
33560 TGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCATCTTTTCAAAGCCCACAAGTCAG
* *
33588 TGGCATCTCTTCAAAGCCCACACAAGTTAG
1 TGGCATCTTTTCAAAG-CC-CACAAGTCAG
33618 TGGCATCTTTT
1 TGGCATCTTTT
33629 TTTTTACAAG
Statistics
Matches: 416, Mismatches: 67, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
27 3 0.01
28 311 0.75
29 12 0.03
30 69 0.17
31 6 0.01
32 15 0.04
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (28 bp):
TGGCATCTTTTCAAAGCCCACAAGTCAG
Found at i:33172 original size:94 final size:94
Alignment explanation
Indices: 33010--33628 Score: 297
Period size: 84 Copynumber: 7.0 Consensus size: 94
33000 CACAAGTCGG
* * * *
33010 TGGCATCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATTCT
1 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGAACTCT
* * *
33075 TTCAATGTCCACAAGTCGGTGGCATCTTT
66 TTCAAAGCCCACAAGTCAGTGGCATCTTT
* * * * *
33104 TGGCATCTTTTCCACGCCCACAAGTCAGTGGCAACTTTTCAAAGCCCACGAGTTAGTGGTAACT-
1 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGG-AACTC
*
33168 TTTCAAAGCCCACGAGTCAGTGGCA-----
65 TTTCAAAGCCCACAAGTCAGTGGCATCTTT
* * * * * *
33193 T--C--C-TTCCGAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCACAAGTCGGTGGCA
1 TGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGCAA-CC-TTTCAAAGCCCACAAGTCAGTGGAA
*
33253 -TCTTTTCAAAGCCCACGAGTCAGTGGCA-----
62 CTC-TTTCAAAGCCCACAAGTCAGTGGCATCTTT
* * * *
33281 T--C--C-TTCCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACAAGTCGGTGGCA
1 TGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGCAA-CC-TTTCAAAGCCCACAAGTCAGTGGAA
33341 -TCTTTTCAAAGCCCACAAGTCAGTGGCA-C---
62 CTC-TTTCAAAGCCCACAAGTCAGTGGCATCTTT
* * ** * * *
33370 ---C--C-TTTCAAAGCCCATAAGTTAGTGGCATTCTTTCAATGTCCACAAGTCAGTGGCA-TCT
1 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGAACTC-
* *
33428 TTTCCAAGCTCACAAGTCAGT-G-A-----
65 TTTCAAAGCCCACAAGTCAGTGGCATCTTT
* * * * * * *
33451 T---AACTTTTCAAAGCCCACGAGTCAGTGGCAACTTTTCAAAGCCCACGAGTCTGTGGCA-TCC
1 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGAACTCT
*
33512 TTCAAAAGCCCACGAGTCAGTGGCA-----
66 TTC-AAAGCCCACAAGTCAGTGGCATCTTT
* * *
33537 T--C--CTTCT-AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-TCT
1 TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGAACTCT
*
33596 CTTCAAAGCCCACACAAGTTAGTGGCATCTTT
66 -TTCAAAG-CC-CACAAGTCAGTGGCATCTTT
33628 T
1 T
33629 TTTTTACAAG
Statistics
Matches: 441, Mismatches: 60, Indels: 51
0.80 0.11 0.09
Matches are distributed among these distances:
82 1 0.00
83 5 0.01
84 158 0.36
85 14 0.03
86 42 0.10
87 5 0.01
88 139 0.32
89 1 0.00
91 1 0.00
94 73 0.17
95 2 0.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (94 bp):
TGGCATCTTTTCAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGAACTCT
TTCAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:33843 original size:95 final size:96
Alignment explanation
Indices: 33734--33912 Score: 243
Period size: 96 Copynumber: 1.9 Consensus size: 96
33724 GGAACCTTTA
* * * * *
33734 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATT-GTCCATTTTTCCCTTAGCTCAATGTCGCT
1 TTAGCCCAATGTCGCGGGACTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCGCT
33798 GCCCTGGAATCAGCACATTATCTATTTTCCT
66 GCCCTGGAATCAGCACATTATCTATTTTCCT
* * *
33829 TTAGCCCAATGTCGCGGGATTTGAATCAGCACATTGGTCCACTTTTCCTTTAGCCCAATGTTGCT
1 TTAGCCCAATGTCGCGGGACTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCGCT
* * **
33894 GGCCTTGAATTGGCACATT
66 GCCCTGGAATCAGCACATT
33913 GGCACTCCTC
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 31 0.44
96 40 0.56
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (96 bp):
TTAGCCCAATGTCGCGGGACTTGAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCGCT
GCCCTGGAATCAGCACATTATCTATTTTCCT
Found at i:33855 original size:47 final size:48
Alignment explanation
Indices: 33734--33913 Score: 218
Period size: 48 Copynumber: 3.8 Consensus size: 48
33724 GGAACCTTTA
* * *
33734 TTAGCTCAATGTCGCTGGCCTTGAATCAGCACATTGTCCATTTTTCCC
1 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCT
* * * * *
33782 TTAGCTCAATGTCGCTGCCCTGGAATCAGCACATTATCTA-TTTTCCT
1 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCT
* **
33829 TTAGCCCAATGTCGCGGGATTTGAATCAGCACATTGGTCCACTTTTCCT
1 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATT-GTCCACTTTTCCT
* **
33878 TTAGCCCAATGTTGCTGGCCTTGAATTGGCACATTG
1 TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTG
33914 GCACTCCTCT
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 35 0.32
48 40 0.36
49 36 0.32
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (48 bp):
TTAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCT
Found at i:34320 original size:20 final size:20
Alignment explanation
Indices: 34292--34387 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
34282 TTTTACCTTG
34292 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * **
34312 ATATATCGATACATGTATGT
1 ATGTATCGATACATTTTTCA
* * *
34332 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTTTTCA
* *
34352 ATGTATCGATACATTATGTCTT
1 ATGTATCGATACATT-TTTC-A
34374 ATGTATCGATACAT
1 ATGTATCGATACAT
34388 CTAGTTAAAA
Statistics
Matches: 56, Mismatches: 18, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
20 41 0.73
21 1 0.02
22 14 0.25
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:34359 original size:40 final size:40
Alignment explanation
Indices: 34292--34387 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
34282 TTTTACCTTG
* *
34292 ATGTATCGATACATTTTTCAATATATCGATACATGTATG-T
1 ATGTATCGATACATTCTGCAATATATCGATACAT-TATGTT
* *
34332 ATGTATCGATATATTCTGCAATGTATCGATACATTATGTCTT
1 ATGTATCGATACATTCTGCAATATATCGATACATTATG--TT
34374 ATGTATCGATACAT
1 ATGTATCGATACAT
34388 CTAGTTAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 4 0.08
40 30 0.62
42 14 0.29
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (40 bp):
ATGTATCGATACATTCTGCAATATATCGATACATTATGTT
Found at i:41567 original size:79 final size:79
Alignment explanation
Indices: 41447--41731 Score: 328
Period size: 79 Copynumber: 3.6 Consensus size: 79
41437 ATATGTCCCG
* * * * *
41447 ATGAGAAATTTGATATCTT-GGAGATAATAA-CGGGGTTGGAGTATCCCCTTGAAAATAACGGGG
1 ATGA-AAAATTGATAT-TTAGGAAATAA-AATCGGGATTGGAGTATCCCCTCGGAAATAACGGGG
*
41510 TTGGAGTATCCCCGGTT
63 TTGGAGTATCCCCGATT
*
41527 ATGAAAAATTGATGA-TTAGGAAATAAAATCGGGATTGGAGTATCCCCTGGGAAATAACGGGGTT
1 ATGAAAAATTGAT-ATTTAGGAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTT
41591 GGAGTATCCCCGATT
65 GGAGTATCCCCGATT
* * ** * *
41606 ACGAGAAATCAATATTTTA-GAAATAAAAACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTT
1 ATGAAAAATTGATA-TTTAGGAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTT
* *
41670 AGAATATCCCCGATT
65 GGAGTATCCCCGATT
* *
41685 ATGAAAAATTGGTATTTCGGAAATAAAATC-GGAGTTGGAGTATCCCC
1 ATGAAAAATTGATATTTAGGAAATAAAATCGGGA-TTGGAGTATCCCC
41732 GATTATAGAA
Statistics
Matches: 175, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
78 10 0.06
79 157 0.90
80 8 0.05
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (79 bp):
ATGAAAAATTGATATTTAGGAAATAAAATCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTG
GAGTATCCCCGATT
Found at i:41734 original size:51 final size:51
Alignment explanation
Indices: 41663--41833 Score: 236
Period size: 51 Copynumber: 3.4 Consensus size: 51
41653 TCGGAAATAA
* * * * *
41663 CGGGGTTAGAATATCCCCGATTATGAAAAATTGGTATTTCGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAAC
* *
41714 CGGAGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAAC
* * *
41765 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAAC
41816 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
41834 TCGAAAATAA
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.01
51 104 0.98
52 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAAC
Found at i:41808 original size:181 final size:181
Alignment explanation
Indices: 41584--41912 Score: 532
Period size: 181 Copynumber: 1.8 Consensus size: 181
41574 TGGGAAATAA
*
41584 CGGGGTTGGAGTATCCCCGATTACGAGAAATCAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTACGAAAAATCAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
* ** * *
41649 CCCCTCGGAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTGGTATTTCGGAAATAAAAT
66 CCCCTCGAAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTAATATTTCAGAAATAAAAA
41714 CGGAGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
131 CGGAGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
* * * *
41765 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTACGAAAAATCAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
* * *
41830 CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAA
66 CCCCTCGAAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTAATATTTCAGAAATAAAAA
*
41895 CGGGGTTGGAGTATCCCC
131 CGGAGTTGGAGTATCCCC
41913 TCGGAAATAA
Statistics
Matches: 134, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
181 134 1.00
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (181 bp):
CGGGGTTGGAGTATCCCCGATTACGAAAAATCAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
CCCCTCGAAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTAATATTTCAGAAATAAAAA
CGGAGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
Found at i:41859 original size:79 final size:79
Alignment explanation
Indices: 41765--41990 Score: 344
Period size: 79 Copynumber: 2.9 Consensus size: 79
41755 AAAATAAAAC
* * *
41765 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAACGGGGTTGGAGTAT
41830 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* * *
41844 CGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAACGGGGTTGGAGTAT
*
41909 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * * *
41923 CGGGGTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAACGGGGTTGGAGTAT
41988 CCC
66 CCC
41991 TGATTATGAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 132 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAACGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:41940 original size:209 final size:209
Alignment explanation
Indices: 41718--42251 Score: 921
Period size: 209 Copynumber: 2.6 Consensus size: 209
41708 TAAAATCGGA
* * * * *
41718 GTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCC
1 GTTGGAATATCCCCGATTATGA-AAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCCC
41782 CGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
65 CGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGG
41847 GGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTATCCC
130 GGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTATCCC
*
41912 CTCGGAAATAACGGG
195 CTAGGAAATAACGGG
*
41927 GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCCCT
1 GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
41992 GATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGG
66 GATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGG
*
42057 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCC
131 GTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCC
42122 TAGGAAATAACGGG
196 TAGGAAATAACGGG
*
42136 GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCCTC
1 GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
* *
42201 GATTAT-AGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGAGTATCCCC
66 GATTATGA-AAAATCGATGTTTTAG-AAATAAAACCGGGGTTGGAGTATCCCC
42252 GATTATGAAA
Statistics
Matches: 310, Mismatches: 12, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
208 2 0.01
209 307 0.99
210 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (209 bp):
GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
GATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGG
GTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCC
TAGGAAATAACGGG
Found at i:41969 original size:260 final size:260
Alignment explanation
Indices: 41505--42042 Score: 893
Period size: 260 Copynumber: 2.1 Consensus size: 260
41495 TTGAAAATAA
* * *
41505 CGGGGTTGGAGTATCCCCGGTTATGAAAAATTGATGATTAGGAAATAAAATCGGGATTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATTAGGAAATAAAACCGGGATTGGAGTAT
* * *
41570 CCCCTGGGAAATAACGGGGTTGGAGTATCCCCGATTACGAGAAATCAATATTTTAGAAATAAAAA
66 CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTACGAGAAATCAATATTTTAGAAATAAAAA
41635 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTGGTAT
131 CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTGGTAT
* *
41700 TTCGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTT-GAAAATAAA
196 TTCGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGA-AAAATCGATGTTTTAG-AAATAAA
41763 AC
259 AC
* *
41765 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTA-GAAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATG-ATTAGGAAATAAAACCGGGATTGGAGTA
* *
41829 TCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAA
65 TCCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTACGAGAAATCAATATTTTAGAAATAAAA
*
41894 ACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTGGTA
130 ACGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTGGTA
* *
41959 TTTTGGAAATAAAATCGGAGTTGGAGTATCCCTGATTATGAAAAATCGATGTTTTAGAAATAAAA
195 TTTCGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAA
42024 C
260 C
42025 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
42043 TCGAAAATAA
Statistics
Matches: 260, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
260 255 0.98
261 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (260 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGATTAGGAAATAAAACCGGGATTGGAGTAT
CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATTACGAGAAATCAATATTTTAGAAATAAAAA
CGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTGGTAT
TTCGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAAAC
Found at i:41989 original size:51 final size:51
Alignment explanation
Indices: 41927--42042 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
41917 AAATAACGGG
* * * * *
41927 GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAACCGGA
* * *
41978 GTTGGAGTATCCCTGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAACCGGA
42029 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
42043 TCGAAAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAGAAATAAAACCGGA
Found at i:42061 original size:79 final size:79
Alignment explanation
Indices: 41978--42198 Score: 325
Period size: 79 Copynumber: 2.8 Consensus size: 79
41968 TAAAATCGGA
* * * *
41978 GTTGGAGTATCCCTGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCC
*
42043 TCGAAAATAACGGG
66 TAGAAAATAACGGG
* *
42057 GTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCC
*
42122 TAGGAAATAACGGG
66 TAGAAAATAACGGG
* * * * *
42136 GTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAATCGGAGTTGGAGTATCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAACGGGGTTGGAGTATCC
42199 TCGATTATAG
Statistics
Matches: 127, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 127 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCC
TAGAAAATAACGGG
Found at i:42108 original size:260 final size:260
Alignment explanation
Indices: 41582--42393 Score: 858
Period size: 260 Copynumber: 3.1 Consensus size: 260
41572 CCTGGGAAAT
* *
41582 AACGGGGTTGGAGTATCCCCGATTACGAGAAATCAATATTTTAGAAATAAAAACGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGT
* *
41647 ATCCCCTCGGAAATAACGGGGTTAGAATATCCCCGATTATGAAAAATTGGTATTTCGGAAATAAA
66 ATCCCCTCGGAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAA
*
41712 ATCGGAGTTGGAGTATCCCCGATTAT-AGAAAATTGGTGTTTT-GAAAATAAAACCGGGGTTGGA
131 ATCGGAGTTGGAGTATCCCCGATTATGA-AAAATTGATGTTTTAG-AAATAAAACCGGGGTTGGA
* * ** * * ** * ** * ****
41775 GTATCCCCGATTATGAAAA-ATCGATGTTTTAGAAATAAAACCGGGGT-TG-G--AGT-ATCCCC
194 GTATCCCC---T-CGAAAATAACG--GGGTT-GGAGT-ATCCCCGATTATGAGAAATTAATATTT
* *
41834 TCG-AA-AAT
251 TAGAAATAAA
*
41842 AACGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGT
41907 ATCCCCTCGGAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAA
66 ATCCCCTCGGAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAA
* *
41972 ATCGGAGTTGGAGTATCCCTGATTATGAAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGT
131 ATCGGAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGT
42037 ATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAA
196 ATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAA
* * *** **** *
42102 AACGGGGTTGGAGTATCCCCTAGGA-AATAACGGGGTTGGAATATCCCCGATTATGAAAAA----
1 AACGGGGTTGGAGTATCCCC---GATTATGA-GAAATT--AATATTTTAGA-AAT-AAAAACGGG
* * * * * *
42162 -TT-G-GTAT---TTTGGAAATAAAATCGGAGTTGGAGTATCCTCGATTAT-AGAAAATTGGTGT
58 GTTGGAGTATCCCCTCGGAAAT--AA-CGGGGTTGGAATATCCCCGATTATGA-AAAATTGGTAT
* * *
42220 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
119 TTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
42285 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
184 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
42350 TTTAGAAATAAA
249 TTTAGAAATAAA
42362 AACGGGGTTGGAGTATCCCCGATTATGGAGAA
1 AACGGGGTTGGAGTATCCCCGATTAT-GAGAA
42394 TTGAGAAACT
Statistics
Matches: 476, Mismatches: 52, Indels: 50
0.82 0.09 0.09
Matches are distributed among these distances:
253 5 0.01
254 5 0.01
255 4 0.01
256 5 0.01
257 15 0.03
258 7 0.01
259 6 0.01
260 402 0.84
261 3 0.01
262 5 0.01
263 5 0.01
265 7 0.01
266 2 0.00
267 5 0.01
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (260 bp):
AACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGT
ATCCCCTCGGAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAA
ATCGGAGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGT
ATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAA
Found at i:42198 original size:51 final size:51
Alignment explanation
Indices: 42132--42302 Score: 254
Period size: 51 Copynumber: 3.4 Consensus size: 51
42122 TAGGAAATAA
* * *
42132 CGGGGTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAAC
* * *
42183 CGGAGTTGGAGTATCCTCGATTAT-AGAAAATTGGTGTTTTGAAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGA-AAAATTGGTGTTTTGGAAATAAAAC
* *
42234 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAAC
42285 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
42303 TCGAAAATAA
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
50 1 0.01
51 105 0.98
52 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAAC
Found at i:42242 original size:181 final size:181
Alignment explanation
Indices: 42053--42396 Score: 544
Period size: 181 Copynumber: 1.9 Consensus size: 181
42043 TCGAAAATAA
*
42053 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
* ** * *
42118 CCCCTAGGAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTGGTATTTTGGAAATAAAAT
66 CCCCTAGAAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAA
*
42183 CGGAGTTGGAGTATCCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
131 CGGAGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
* * *
42234 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
* * *
42299 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAA
66 CCCCTAGAAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAA
* * *
42364 CGGGGTTGGAGTATCCCCGATTATGGAGAATTG
131 CGGAGTTGGAGTATCCCCGATTATAGAAAATTG
42397 AGAAACTCAA
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
181 147 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (181 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
CCCCTAGAAAATAACGGGGTTGGAATATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAA
CGGAGTTGGAGTATCCCCGATTATAGAAAATTGGTGTTTTGAAAATAAAAC
Found at i:42327 original size:79 final size:79
Alignment explanation
Indices: 42234--42381 Score: 260
Period size: 79 Copynumber: 1.9 Consensus size: 79
42224 AAAATAAAAC
* * *
42234 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
42299 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
42313 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
42378 CCCC
66 CCCC
42382 GATTATGGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAAACGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:44768 original size:13 final size:13
Alignment explanation
Indices: 44750--44775 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44740 ACAAAGATCC
44750 ATGTATCGATACA
1 ATGTATCGATACA
44763 ATGTATCGATACA
1 ATGTATCGATACA
44776 CAGAAAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:44788 original size:33 final size:33
Alignment explanation
Indices: 44729--44795 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
44719 AAAATTCCCA
**
44729 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGATAAATGTATCGATAC
*
44762 AATGTATCGATACACAGA-AAAGTGTATCGATAC
1 AATGTATCGATACAAAGATAAA-TGTATCGATAC
44795 A
1 A
44796 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
32 1 0.03
33 29 0.97
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGATAAATGTATCGATAC
Found at i:44840 original size:19 final size:18
Alignment explanation
Indices: 44816--44882 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 18
44806 AGTAGCTAAA
44816 TATGTATCGATACAATACT
1 TATGTATCGATACAA-ACT
44835 TATGTATCGATAC--A--
1 TATGTATCGATACAAACT
44849 T-TGTATCGATACAAAACT
1 TATGTATCGATAC-AAACT
44867 TATGTATCGATACAAA
1 TATGTATCGATACAAA
44883 TTGTTGAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.10
19 24 0.57
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (18 bp):
TATGTATCGATACAAACT
Found at i:44855 original size:13 final size:13
Alignment explanation
Indices: 44837--44861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44827 ACAATACTTA
44837 TGTATCGATACAT
1 TGTATCGATACAT
44850 TGTATCGATACA
1 TGTATCGATACA
44862 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:44859 original size:32 final size:32
Alignment explanation
Indices: 44818--44880 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
44808 TAGCTAAATA
*
44818 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
44850 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
44881 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:44944 original size:21 final size:21
Alignment explanation
Indices: 44918--44994 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
44908 GTTGGGACCC
* *
44918 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
44939 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
44960 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
44981 TGTATCGATACATT
1 TGTATCGATACATT
44995 TGAATTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:45397 original size:2 final size:2
Alignment explanation
Indices: 45392--45450 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
45382 TATTAGTAAT
* * * * * *
45392 TA TA TA TA TA TA TA TA TA TC TA TG TG TG TG TA TA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
45434 TA CA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
45451 TTCAATAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:45521 original size:15 final size:15
Alignment explanation
Indices: 45503--45603 Score: 82
Period size: 15 Copynumber: 6.6 Consensus size: 15
45493 TACATAAATT
*
45503 TAAATTGCAAGGAAA
1 TAAATTGCAAGAAAA
45518 TAAATTGCAAGAAAA
1 TAAATTGCAAGAAAA
* **
45533 TAAATTACATA-AATT
1 TAAATTGCA-AGAAAA
* *
45548 TAAATTGTATA-AATTA
1 TAAATTGCA-AGAA-AA
45564 TAAATTGCAA-AACAA
1 TAAATTGCAAGAA-AA
45579 TAAAATTGCAAGAAAA
1 T-AAATTGCAAGAAAA
45595 TAAATTGCA
1 TAAATTGCA
45604 TAAATTGAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
15 48 0.67
16 22 0.31
17 2 0.03
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (15 bp):
TAAATTGCAAGAAAA
Found at i:45584 original size:16 final size:15
Alignment explanation
Indices: 45563--45603 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
45553 TGTATAAATT
45563 ATAAATTGCAA-AACA
1 ATAAATTGCAAGAA-A
45578 ATAAAATTGCAAGAAA
1 AT-AAATTGCAAGAAA
45594 ATAAATTGCA
1 ATAAATTGCA
45604 TAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.42
16 12 0.50
17 2 0.08
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (15 bp):
ATAAATTGCAAGAAA
Found at i:45598 original size:31 final size:30
Alignment explanation
Indices: 45503--45627 Score: 101
Period size: 31 Copynumber: 4.1 Consensus size: 30
45493 TACATAAATT
*
45503 TAAATTGCAAGGAAAT-AAATTGCAAGAAAA
1 TAAATTGCAA-AAAATAAAATTGCAAGAAAA
* * * * * *
45533 TAAATTACATAAATTTAAATTGTATA-AATTA
1 TAAATTGCAAAAAATAAAATTGCA-AGAA-AA
45564 TAAATTGCAAAACAATAAAATTGCAAGAAAA
1 TAAATTGCAAAA-AATAAAATTGCAAGAAAA
* * *
45595 TAAATTGCATAAATTGAAAATTGCAATAAAA
1 TAAATTGCAAAAAAT-AAAATTGCAAGAAAA
45626 TA
1 TA
45628 CATTAACTAT
Statistics
Matches: 74, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
29 3 0.04
30 19 0.26
31 41 0.55
32 11 0.15
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.28
Consensus pattern (30 bp):
TAAATTGCAAAAAATAAAATTGCAAGAAAA
Found at i:46034 original size:25 final size:22
Alignment explanation
Indices: 45985--46038 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 22
45975 TTTCAACTCT
*
45985 CTTTTTCTTTTATTTTTTTGAA
1 CTTTTTCTTTTATTCTTTTGAA
46007 CTTTTTCTCTCTTAATTCTTTTGAA
1 CTTTTTCT-T-TT-ATTCTTTTGAA
46032 CTTTTTC
1 CTTTTTC
46039 ATATTCTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 8 0.29
23 1 0.04
24 2 0.07
25 17 0.61
ACGTcount: A:0.13, C:0.17, G:0.04, T:0.67
Consensus pattern (22 bp):
CTTTTTCTTTTATTCTTTTGAA
Found at i:46271 original size:3 final size:3
Alignment explanation
Indices: 46263--46312 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
46253 AAATAATTTA
* *
46263 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
46311 AA
1 AA
46313 ATTTTTTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:47127 original size:15 final size:15
Alignment explanation
Indices: 47093--47126 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
47083 AAATTTCAAT
*
47093 AAAATGTGATTTTTG
1 AAAATGTGATTTTAG
47108 AAAATGTGATTGTTAG
1 AAAATGTGATT-TTAG
47124 AAA
1 AAA
47127 TATGACTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (15 bp):
AAAATGTGATTTTAG
Found at i:50154 original size:3 final size:3
Alignment explanation
Indices: 50146--50183 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
50136 CAACAAATGA
50146 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50184 ACCCAGGCCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50444 original size:19 final size:20
Alignment explanation
Indices: 50420--50457 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50410 TTCACTTAAA
*
50420 AATTTTT-ATTTATTTTTTT
1 AATTTTTAATTGATTTTTTT
50439 AATTTTTAATTGATTTTTT
1 AATTTTTAATTGATTTTTT
50458 AAAAAGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
AATTTTTAATTGATTTTTTT
Found at i:50975 original size:2 final size:2
Alignment explanation
Indices: 50968--51000 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50958 CTATATTAAT
50968 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51001 TTGTATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52232 original size:7 final size:7
Alignment explanation
Indices: 52215--52257 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
52205 TCCACCTATT
52215 TTATA-A
1 TTATATA
52221 TTATATA
1 TTATATA
52228 TTATATA
1 TTATATA
*
52235 TTA-ATT
1 TTATATA
*
52241 TTATATT
1 TTATATA
52248 TTATATA
1 TTATATA
52255 TTA
1 TTA
52258 GGTAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 10 0.30
7 23 0.70
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (7 bp):
TTATATA
Found at i:52245 original size:18 final size:18
Alignment explanation
Indices: 52218--52253 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52208 ACCTATTTTA
52218 TAATTATATATTATATAT
1 TAATTATATATTATATAT
* *
52236 TAATTTTATATTTTATAT
1 TAATTATATATTATATAT
52254 ATTAGGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATTATATATTATATAT
Found at i:52385 original size:15 final size:15
Alignment explanation
Indices: 52348--52398 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
52338 AAAAAAAATG
* *
52348 TTAAATTACTAAACA
1 TTAAATTTCTAAAAA
52363 TTAAATTTCTAAAAA
1 TTAAATTTCTAAAAA
* *
52378 TTATATTT-AAAAAA
1 TTAAATTTCTAAAAA
*
52392 ATAAATT
1 TTAAATT
52399 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TTAAATTTCTAAAAA
Found at i:53110 original size:28 final size:28
Alignment explanation
Indices: 53079--53133 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
53069 TTAAATAATA
* *
53079 TATTTATA-TATATATATTATATTATATT
1 TATTTATATTATAAAT-TTATATCATATT
53107 TATTTATATTATAAATTTATATCATAT
1 TATTTATATTATAAATTTATATCATAT
53134 GAAAATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTTATATTATAAATTTATATCATATT
Found at i:53116 original size:10 final size:11
Alignment explanation
Indices: 53077--53116 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
53067 ACTTAAATAA
53077 TATATTTATAT
1 TATATTTATAT
53088 ATATATATTATAT
1 -TATAT-TTATAT
53101 TATATTTAT-T
1 TATATTTATAT
53111 TATATT
1 TATATT
53117 ATAAATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 7 0.26
11 4 0.15
12 10 0.37
13 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTTATAT
Found at i:55095 original size:2 final size:2
Alignment explanation
Indices: 55085--55116 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
55075 GAAAAAACCA
55085 AC AC A- AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
55117 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:64190 original size:50 final size:50
Alignment explanation
Indices: 64113--64271 Score: 264
Period size: 50 Copynumber: 3.2 Consensus size: 50
64103 AGTTGTTGTC
* * *
64113 ATTGTTGACTATCCTTCACCAAACTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
*
64163 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
* *
64213 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
64263 ATTGTTGAC
1 ATTGTTGAC
64272 TCTAAGTATA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 102 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
Found at i:68740 original size:50 final size:50
Alignment explanation
Indices: 68671--68829 Score: 264
Period size: 50 Copynumber: 3.2 Consensus size: 50
68661 ACTTGTTGCC
* * *
68671 ATTGTTGACTATCCTTCACCAAACTTTGACAATAGAGGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
*
68721 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
* *
68771 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
68821 ATTGTTGAC
1 ATTGTTGAC
68830 TCTAAGTATA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 102 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAGGGAGGTGGCCATA
Found at i:71518 original size:145 final size:145
Alignment explanation
Indices: 71207--71502 Score: 334
Period size: 144 Copynumber: 2.0 Consensus size: 145
71197 TAAAAATGTG
* ** ** * * *
71207 AAAAATTGTATTTTAGACCTTATAGGTTTTAACCAACCTAAGAACACTC-CTAAATGAGTTTGAA
1 AAAAATTGTATTTTAAACCCCATAGGTTTCGACCAACTTAAGAACGC-CATTAAATGAGTTTGAA
* * * *
71271 AAATTAGGAAATATTATGAAAAAATCACTATAAATGCTGCAATAAATCAAAATAGCCCTTAAATA
65 AAATTAGGAAATATTAGGAAAAAATCACTATAAATGCTGCAATAAATCAAAACAACCCCTAAATA
* *
71336 GCTTAAAAATTAAAGG
130 GCCTAAAAATTAAAGA
71352 AAAAATTGTATTTTAAACCCCATAGGTTTCGACCAACTTAAGAACGCCATTAAATGAGTTTGAAA
1 AAAAATTGTATTTTAAACCCCATAGGTTTCGACCAACTTAAGAACGCCATTAAATGAGTTTG-AA
* * * * *
71417 AAATT-GGAAA-ATTAGGAAACAATCTCTATAAGTGCTATC-ATGAA-CTAAAACAACCCCTAAA
65 AAATTAGGAAATATTAGGAAAAAATCACTATAAATGCT-GCAATAAATC-AAAACAACCCCTAAA
71478 T-GACCTAAAAATTAAAGA
128 TAG-CCTAAAAATTAAAGA
71496 AAAAATT
1 AAAAATT
71503 TACATTTTGA
Statistics
Matches: 127, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
143 2 0.02
144 60 0.47
145 58 0.46
146 7 0.06
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (145 bp):
AAAAATTGTATTTTAAACCCCATAGGTTTCGACCAACTTAAGAACGCCATTAAATGAGTTTGAAA
AATTAGGAAATATTAGGAAAAAATCACTATAAATGCTGCAATAAATCAAAACAACCCCTAAATAG
CCTAAAAATTAAAGA
Found at i:72250 original size:15 final size:15
Alignment explanation
Indices: 72230--72433 Score: 83
Period size: 15 Copynumber: 13.6 Consensus size: 15
72220 AGTTTTAAGG
72230 AAATAAATTGCAAGA
1 AAATAAATTGCAAGA
*
72245 AAATAAATT--ACGTA
1 AAATAAATTGCAAG-A
* **
72259 AATTTAAATAACAA-A
1 AA-ATAAATTGCAAGA
72274 AAATTAAATTGCATA-A
1 AAA-TAAATTGCA-AGA
72290 ATTAA-AAATT--AAGA
1 A--AATAAATTGCAAGA
*
72304 AAATAAATTTCATA-A
1 AAATAAATTGCA-AGA
**
72319 ATTTAAATTGCAA-A
1 AAATAAATTGCAAGA
*
72333 AGAATAAATTGC-ATA
1 A-AATAAATTGCAAGA
*
72348 AATTAAAATTTTG-AAGA
1 AAAT-AAA--TTGCAAGA
72365 AAATAAATTGCAAGA
1 AAATAAATTGCAAGA
*
72380 AAATAAATTACAA-A
1 AAATAAATTGCAAGA
*
72394 AAATAAATTGC-ATA
1 AAATAAATTGCAAGA
* *
72408 AATTAAACATTGTAAGA
1 AAAT-AA-ATTGCAAGA
72425 AAATAAATT
1 AAATAAATT
72434 AACTACACAA
Statistics
Matches: 144, Mismatches: 21, Indels: 48
0.68 0.10 0.23
Matches are distributed among these distances:
12 2 0.01
13 9 0.06
14 30 0.21
15 69 0.48
16 18 0.12
17 14 0.10
18 2 0.01
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAAATTGCAAGA
Found at i:72294 original size:29 final size:28
Alignment explanation
Indices: 72233--72414 Score: 159
Period size: 30 Copynumber: 6.1 Consensus size: 28
72223 TTTAAGGAAA
* * *
72233 TAAATTGCAAGAAAATAAATTACGTAAATT
1 TAAATTACAA-AAAATAAATTGCATAAA-T
*
72263 TAAATAACAAAAAATTAAATTGCATAAAT
1 TAAATTACAAAAAA-TAAATTGCATAAAT
* *
72292 TAAAAATTA-AGAAAATAAATTTCATAAATT
1 T--AAATTACAAAAAATAAATTGCATAAA-T
*
72322 TAAATTGCAAAAGAATAAATTGCATAAAT
1 TAAATTACAAAA-AATAAATTGCATAAAT
** * *
72351 TAAAATTTTGAAGAAAATAAATTGCAAGAAAA
1 T-AAA-TTACAA-AAAATAAATTGC-ATAAAT
72383 TAAATTACAAAAAATAAATTGCATAAAT
1 TAAATTACAAAAAATAAATTGCATAAAT
72411 TAAA
1 TAAA
72415 CATTGTAAGA
Statistics
Matches: 124, Mismatches: 18, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
28 13 0.10
29 35 0.28
30 47 0.38
31 22 0.18
32 7 0.06
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (28 bp):
TAAATTACAAAAAATAAATTGCATAAAT
Found at i:72304 original size:59 final size:58
Alignment explanation
Indices: 72241--72434 Score: 239
Period size: 59 Copynumber: 3.2 Consensus size: 58
72231 AATAAATTGC
* *
72241 AAGAAAATAAATTACGTAAATTTAAATAACAAAAAATTAAATTGCATAAATTAAAAATT
1 AAGAAAATAAATTACGTAAATTTAAATTACAAAAAA-TAAATTGCATAAATTAAAATTT
* * *
72300 AAGAAAATAAATTTCATAAATTTAAATTGCAAAAGAATAAATTGCATAAATTAAAATTTT
1 AAGAAAATAAATTACGTAAATTTAAATTACAAAA-AATAAATTGCATAAATTAAAA-TTT
* *
72360 GAAGAAAATAAATTGCAAG-AAA-ATAAATTACAAAAAATAAATTGCATAAATTAAACATTGT
1 -AAGAAAATAAATT--ACGTAAATTTAAATTACAAAAAATAAATTGCATAAATTAAA-ATT-T
72421 AAGAAAATAAATTA
1 AAGAAAATAAATTA
72435 ACTACACAAC
Statistics
Matches: 118, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
58 1 0.01
59 49 0.42
60 39 0.33
61 26 0.22
62 3 0.03
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.28
Consensus pattern (58 bp):
AAGAAAATAAATTACGTAAATTTAAATTACAAAAAATAAATTGCATAAATTAAAATTT
Found at i:80363 original size:26 final size:27
Alignment explanation
Indices: 80320--80389 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
80310 AGCCACCAAA
*
80320 TTTGACAAACAAAAAAAG-AACCACCATT
1 TTTGACAAAC--ACAAAGTAACCACCATT
*
80348 TTTGACAAATACAAAGTAACCACCATT
1 TTTGACAAACACAAAGTAACCACCATT
*
80375 TTTTACAAACACAAA
1 TTTGACAAACACAAA
80390 TGGTGGCTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 5 0.14
27 23 0.62
28 9 0.24
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.23
Consensus pattern (27 bp):
TTTGACAAACACAAAGTAACCACCATT
Found at i:84912 original size:27 final size:27
Alignment explanation
Indices: 84861--84932 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
84851 AGCCACCAAA
*
84861 TTTGACAAACAAAAAAGGAACCACCATT
1 TTTGACAAAC-ACAAAGGAACCACCATT
* *
84889 TTTGACAAATACAAAGTAACCACCATT
1 TTTGACAAACACAAAGGAACCACCATT
84916 TTTGACAAACACAAAGG
1 TTTGACAAACACAAAGG
84933 GTGGCTTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 30 0.77
28 9 0.23
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (27 bp):
TTTGACAAACACAAAGGAACCACCATT
Found at i:92279 original size:20 final size:18
Alignment explanation
Indices: 92236--92280 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
92226 ATTTAATTCA
92236 ATTTAAAATAATATTTTT
1 ATTTAAAATAATATTTTT
*
92254 AATTAAAATAATATATTTTT
1 ATTTAAAAT-A-ATATTTTT
92274 ATTTAAA
1 ATTTAAA
92281 TTTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 8 0.35
19 1 0.04
20 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATTTAAAATAATATTTTT
Found at i:92281 original size:19 final size:18
Alignment explanation
Indices: 92235--92281 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
92225 TATTTAATTC
92235 AATTTAAAATAATATTTTT
1 AATTT-AAATAATATTTTT
*
92254 AATTAAAATAATATATTTT
1 AATTTAAATAATAT-TTTT
*
92273 TATTTAAAT
1 AATTTAAAT
92282 TTAATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTAAATAATATTTTT
Found at i:92328 original size:19 final size:21
Alignment explanation
Indices: 92277--92329 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
92267 TATTTTTATT
92277 TAAA-TTTAATTATAAAATATA
1 TAAATTTTAA-TATAAAATATA
*
92298 TAAATATTAATATAAAA-ATA
1 TAAATTTTAATATAAAATATA
*
92318 -AATTTTTAATAT
1 TAAATTTTAATAT
92330 TTTTAAGTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 10 0.36
20 3 0.11
21 11 0.39
22 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTTAATATAAAATATA
Found at i:94379 original size:5 final size:5
Alignment explanation
Indices: 94363--94397 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
94353 GGAATTGAAA
94363 TTTTC ATTTTC TTTTC TTTT- TTTTC TTTTC TTTTC
1 TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
94398 CACATGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:94388 original size:14 final size:14
Alignment explanation
Indices: 94369--94396 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
94359 GAAATTTTCA
94369 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
94383 TTTTCTTTTCTTTT
1 TTTTCTTTTCTTTT
94397 CCACATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTCTTTTCTTTT
Found at i:94926 original size:11 final size:11
Alignment explanation
Indices: 94909--94939 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
94899 ATTTTCAATC
94909 AAAATAAAAAT
1 AAAATAAAAAT
*
94920 TAAATAAAAAT
1 AAAATAAAAAT
94931 AAAATAAAA
1 AAAATAAAA
94940 GTTGTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:96927 original size:154 final size:154
Alignment explanation
Indices: 96586--96945 Score: 347
Period size: 154 Copynumber: 2.3 Consensus size: 154
96576 CATCAAGTCT
* * *
96586 TTAAGGTTTACCG-GGATACTTTTATGTCAAAAGTATATCTTAGAGGCATTTTAGTAACTTTACC
1 TTAAGG-TTA-CGAGGATACTTTTATGTCGAAAGTATACCTTAGAGGCATTTTAGTAACTTTACA
**
96650 TTGAGCCAAGTCTTTTAAGATCATCAAGATACTTTCATGTCAAAGGTTTGCTTAAGGGATAGGTT
64 TTGAGCCAAGTCTTTTAAGATCATCAAGATACTTTCATGTCAAAGGCGTGCTTAAGGGATAGGTT
* *
96715 CGTTGTTTCATATAATATTGAGTCCA
129 CATCGTTTCATATAATATTGAGTCCA
* * * * * * *
96741 TTAGGGTTACTAGGATACTTTCATCTTG-AAGTATACCTTA-AGGGTATTTTAGTAATTTTACAT
1 TTAAGGTTACGAGGATACTTTTATGTCGAAAGTATACCTTAGA-GGCATTTTAGTAACTTTACAT
* * * ** * *
96804 TAGAGTCGAGT-TCTTTAGGATCATCAAGATACTTTTTTGTCAAATGCGTGCTTTAGGGATAGGT
65 T-GAGCCAAGTCT-TTTAAGATCATCAAGATACTTTCATGTCAAAGGCGTGCTTAAGGGATAGGT
* ***
96868 TCATCGTTTCATATCATATCAT-A-TTTT
128 TCATCGTTTCATATAATAT--TGAGTCCA
* * *
96895 TTAAGGTTACGATG-TACTTTTATGTCGAAAGTATACTTTAGAAGACATTTT
1 TTAAGGTTACGAGGATACTTTTATGTCGAAAGTATACCTTAG-AGGCATTTT
96946 GATAATTTTG
Statistics
Matches: 162, Mismatches: 34, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
152 1 0.01
153 42 0.26
154 105 0.65
155 12 0.07
156 2 0.01
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.40
Consensus pattern (154 bp):
TTAAGGTTACGAGGATACTTTTATGTCGAAAGTATACCTTAGAGGCATTTTAGTAACTTTACATT
GAGCCAAGTCTTTTAAGATCATCAAGATACTTTCATGTCAAAGGCGTGCTTAAGGGATAGGTTCA
TCGTTTCATATAATATTGAGTCCA
Found at i:100173 original size:28 final size:28
Alignment explanation
Indices: 100133--100187 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
100123 CAAATGCCAC
*
100133 CCTTTGTATTTGTTAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
100161 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
100188 ATTTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.18, C:0.09, G:0.22, T:0.51
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:100194 original size:28 final size:28
Alignment explanation
Indices: 100133--100211 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
100123 CAAATGCCAC
*
100133 CCTTTGTATTTGTTAAATATGGTGGTTT
1 CCTTTGTATTTGTAAAATATGGTGGTTT
*
100161 CCTTTGTATTTGTCAAATATGGTGGTTAT
1 CCTTTGTATTTGTAAAATATGGTGGTT-T
* *
100190 --TTT-TGTTTGTAAAAAATGGTGG
1 CCTTTGTATTTGTAAAATATGGTGG
100212 CTTGTTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
26 16 0.35
27 3 0.07
28 26 0.57
29 1 0.02
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTAAAATATGGTGGTTT
Found at i:100228 original size:24 final size:24
Alignment explanation
Indices: 100169--100237 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
100159 TTCCTTTGTA
* * *
100169 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
*
100195 TTTGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
100219 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
100238 AATTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 22 0.59
26 15 0.41
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:104761 original size:28 final size:28
Alignment explanation
Indices: 104699--104753 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
104689 CAAATGCCAC
104699 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
104727 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
104754 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:104794 original size:24 final size:24
Alignment explanation
Indices: 104758--104803 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
104748 GTGGTTATTT
104758 TTGTTTGTAAAAAATGGTGGCTTG
1 TTGTTTGTAAAAAATGGTGGCTTG
* *
104782 TTGTTTGTTAAAATTGGTGGCT
1 TTGTTTGTAAAAAATGGTGGCT
104804 AATTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (24 bp):
TTGTTTGTAAAAAATGGTGGCTTG
Found at i:108213 original size:11 final size:11
Alignment explanation
Indices: 108197--108222 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
108187 AGAAAAGTTT
108197 GAAATTTAAAA
1 GAAATTTAAAA
108208 GAAATTTAAAA
1 GAAATTTAAAA
108219 GAAA
1 GAAA
108223 CAGGGTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (11 bp):
GAAATTTAAAA
Found at i:108389 original size:81 final size:80
Alignment explanation
Indices: 108225--108758 Score: 508
Period size: 81 Copynumber: 6.7 Consensus size: 80
108215 AAAAGAAACA
* * * *
108225 GGGTTGGAGTGTCCCCTCAG-AAT-ACGGGGTTGGAGTACCCCCGATGGTGAAAATTTTGATATT
1 GGGTTGGAGTATTCCCTCAGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTTGATATT
108288 TTAGAAGTAAAAATG
66 TTAGAAGTAAAAATG
* ** * * * * *
108303 AGGTTGGAGTATTCCCTCAGAAATGATAAGGTTGGAGTTTCCCCAATGGTAAAAAATTTAATATT
1 GGGTTGGAGTATTCCCTCAGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTTGATA-T
*
108368 TTTGGAAGTAAAAATG
65 TTTAGAAGTAAAAATG
* * * * *
108384 GGGTTGGAGTATCCCCTCGGAAATGATGAGGTTGGAGTATCCCCAATAGTGAAAATTTTGATATT
1 GGGTTGGAGTATTCCCTCAGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTTGATA-T
* *
108449 TTTGGAAGTAAAAATT
65 TTTAGAAGTAAAAATG
* * * * *
108465 GGGTTAGAGTATTCACTTAGAAATAATGGGGTTGGAGTATCCCCGATAGTGAAAATTTTGATATT
1 GGGTTGGAGTATTCCCTCAGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTTGATATT
* **
108530 TAAGAAGTAAAACCG
66 TTAGAAGTAAAAATG
* * * *
108545 GGGTTGGAG-ATTCCCTAAAAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAA-ATTAATATT
1 GGGTTGGAGTATTCCCTCAGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTTGATATT
* * *
108608 TTAGAAATATAAACG
66 TTAGAAGTAAAAATG
* * * * * * ** * *
108623 GAGTTGGAGTATCCCCTCGGAAATGATAGGGTTGGAGTATCTCTGACAGTGAAAA-ATTGTTATT
1 GGGTTGGAGTATTCCCTCAGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTTGATATT
** * *
108687 TCGGAAATAAAAACG
66 TTAGAAGTAAAAATG
* *
108702 GGGTTGGAGTA-TCTCTTC-GAAAATGATGGGGTTGGAGTATCTCCGATGGAT-AAAATT
1 GGGTTGGAGTATTC-CCTCAG-AAATGATGGGGTTGGAGTATCCCCGATGG-TGAAAATT
108759 CAATAAATTT
Statistics
Matches: 377, Mismatches: 71, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
78 45 0.12
79 140 0.37
80 50 0.13
81 142 0.38
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.30
Consensus pattern (80 bp):
GGGTTGGAGTATTCCCTCAGAAATGATGGGGTTGGAGTATCCCCGATGGTGAAAATTTTGATATT
TTAGAAGTAAAAATG
Found at i:111045 original size:31 final size:31
Alignment explanation
Indices: 111010--111087 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
111000 GATACATTGA
*
111010 AGAATGTATCGATACATTTGGGTTAAATCCC
1 AGAATGTATCGATACATTTGGGTTAAAACCC
111041 AGAATGTATCGATACATTTGGGTTAAAACCC
1 AGAATGTATCGATACATTTGGGTTAAAACCC
111072 AGAATGTATCGATACA
1 AGAATGTATCGATACA
111088 ATGAAAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.29
Consensus pattern (31 bp):
AGAATGTATCGATACATTTGGGTTAAAACCC
Found at i:111219 original size:21 final size:20
Alignment explanation
Indices: 111166--111220 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
111156 ACATTTTAGA
* *
111166 TATGTATCGAAACATTCACT
1 TATGTATAGATACATTCACT
*
111186 TATGTATAAATACATTCACT
1 TATGTATAGATACATTCACT
* *
111206 ATTTGTATTGATACA
1 -TATGTATAGATACA
111221 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (20 bp):
TATGTATAGATACATTCACT
Found at i:117611 original size:15 final size:15
Alignment explanation
Indices: 117591--117642 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
117581 AAGAAAAATA
* *
117591 AAAATAAAAACTAAT
1 AAAATAAAAAATAAG
117606 AAAATAAAAAATAAG
1 AAAATAAAAAATAAG
* *
117621 AAAAGAAAAGA-AAG
1 AAAATAAAAAATAAG
117635 AAAA-AAAA
1 AAAATAAAA
117643 GGAAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 4 0.12
14 7 0.21
15 22 0.67
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.10
Consensus pattern (15 bp):
AAAATAAAAAATAAG
Found at i:120425 original size:2 final size:2
Alignment explanation
Indices: 120418--120448 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
120408 TATGTATACA
*
120418 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
120449 CACACATCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:124290 original size:4 final size:4
Alignment explanation
Indices: 124276--124325 Score: 55
Period size: 4 Copynumber: 12.2 Consensus size: 4
124266 AATAATAAAA
* * * *
124276 TAAT ATAAT TAAT TAAT TAAA AAAT TAAT TAAT TAAA AAAT TAAT TAAT
1 TAAT -TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT TAAT
124325 T
1 T
124326 TTGCACATGC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (4 bp):
TAAT
Found at i:124303 original size:16 final size:16
Alignment explanation
Indices: 124282--124325 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
124272 AAAATAATAT
124282 AATTAATTAATTAAAA
1 AATTAATTAATTAAAA
124298 AATTAATTAATTAAAA
1 AATTAATTAATTAAAA
124314 AATTAATTAATT
1 AATTAATTAATT
124326 TTGCACATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATTAATTAATTAAAA
Found at i:129555 original size:6 final size:6
Alignment explanation
Indices: 129537--129571 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
129527 ATATCATTTC
129537 ATAAAA TATAAAA ATAAAA ATAAAA ATAAAA ATAA
1 ATAAAA -ATAAAA ATAAAA ATAAAA ATAAAA ATAA
129572 TAAAATAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:135314 original size:13 final size:13
Alignment explanation
Indices: 135292--135349 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
135282 AGCAGTAGCT
*
135292 TTGTAGCGATACA
1 TTGTATCGATACA
135305 TTGTATCGATACAATA
1 TTGTATCGATAC---A
135321 CTTATGTATCGATACA
1 --T-TGTATCGATACA
135337 TTGTATCGATACA
1 TTGTATCGATACA
135350 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
14 1 0.03
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:135330 original size:19 final size:19
Alignment explanation
Indices: 135306--135390 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
135296 AGCGATACAT
135306 TGTATCGATACAATACTTA
1 TGTATCGATACAATACTTA
135325 TGTATCGATAC---A--T-
1 TGTATCGATACAATACTTA
*
135338 TGTATCGATACAACACTTA
1 TGTATCGATACAATACTTA
*
135357 TGTATCGATACAATTACTGTT
1 TGTATCGATACAA-TACT-TA
135378 TGTATCGATACAA
1 TGTATCGATACAA
135391 ATTGTTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 24 0.43
20 3 0.05
21 14 0.25
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAATACTTA
Found at i:135339 original size:32 final size:32
Alignment explanation
Indices: 135293--135368 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
135283 GCAGTAGCTT
* *
135293 TGTAGCGATACATTGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
135325 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
135357 TGTATCGATACA
1 TGTATCGATACA
135369 ATTACTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:139866 original size:2 final size:2
Alignment explanation
Indices: 139861--139915 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
139851 AAAAAAACCA
139861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
139903 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
139916 AGAATTTGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:142108 original size:33 final size:33
Alignment explanation
Indices: 142063--142130 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
142053 ATATATATAT
* **
142063 ATATTTATACAAACACATGCAAGAAACAAAAAG
1 ATATATATACAAACACAAACAAGAAACAAAAAG
*
142096 ATATATATACAAACACAAACAAGAAACAAATAG
1 ATATATATACAAACACAAACAAGAAACAAAAAG
142129 AT
1 AT
142131 TAAAATGAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.60, C:0.15, G:0.07, T:0.18
Consensus pattern (33 bp):
ATATATATACAAACACAAACAAGAAACAAAAAG
Found at i:152407 original size:20 final size:21
Alignment explanation
Indices: 152384--152423 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
152374 TTTATTATAT
*
152384 AAATAATT-TTTAAATTTAAA
1 AAATAATTATTAAAATTTAAA
*
152404 AAATTATTATTAAAATTTAA
1 AAATAATTATTAAAATTTAA
152424 TATGAACCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATAATTATTAAAATTTAAA
Found at i:154410 original size:18 final size:18
Alignment explanation
Indices: 154383--154418 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
154373 ATCTATTTTA
154383 TAATTATATAGTATATAT
1 TAATTATATAGTATATAT
* *
154401 TAATTTTATATTATATAT
1 TAATTATATAGTATATAT
154419 ATATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TAATTATATAGTATATAT
Found at i:154423 original size:26 final size:26
Alignment explanation
Indices: 154377--154426 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
154367 CAACCCATCT
*
154377 ATTTTATAATTATATAGTATATATTA
1 ATTTTATAATTATATAATATATATTA
154403 ATTTTAT-ATTATATATATATATAT
1 ATTTTATAATTATATA-ATATATAT
154427 ATTAAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
ATTTTATAATTATATAATATATATTA
Found at i:154459 original size:32 final size:32
Alignment explanation
Indices: 154401--154468 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
154391 TAGTATATAT
* * *
154401 TAATTTTATATTATATATATATATATAT-TAAA
1 TAATTTTATATTATAAAAATACATATATGT-AA
154433 TAATTTTATCA-TATAAAAATACATATATGTAA
1 TAATTTTAT-ATTATAAAAATACATATATGTAA
154465 TAAT
1 TAAT
154469 GTAGTGTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
32 29 0.94
33 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (32 bp):
TAATTTTATATTATAAAAATACATATATGTAA
Found at i:156878 original size:22 final size:23
Alignment explanation
Indices: 156844--156887 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
156834 AAAAATGATA
156844 TAAAAGTACAAAACATA-TAAAT
1 TAAAAGTACAAAACATAGTAAAT
*
156866 TAAAAG-ACAAAAAGATAGTAAA
1 TAAAAGTAC-AAAACATAGTAAA
156888 AATATTAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.66, C:0.07, G:0.09, T:0.18
Consensus pattern (23 bp):
TAAAAGTACAAAACATAGTAAAT
Found at i:157179 original size:2 final size:2
Alignment explanation
Indices: 157174--157213 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
157164 CAACACATGC
157174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
157214 GTGTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:157218 original size:2 final size:2
Alignment explanation
Indices: 157213--157246 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
157203 TATATATATA
157213 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
157247 AAATGAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:162094 original size:15 final size:15
Alignment explanation
Indices: 162076--162108 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
162066 TTTTATTTCA
162076 AAATTT-ATAGAATGT
1 AAATTTCATA-AATGT
162091 AAATTTCATAAATGT
1 AAATTTCATAAATGT
162106 AAA
1 AAA
162109 GTTTTTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 14 0.82
16 3 0.18
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (15 bp):
AAATTTCATAAATGT
Found at i:163062 original size:26 final size:24
Alignment explanation
Indices: 163033--163114 Score: 62
Period size: 26 Copynumber: 3.3 Consensus size: 24
163023 TTTGTTGTTA
163033 TTTATGTTGGAAGTTTTGGTCGACTT
1 TTTATGTTGGAAGTTTT-GTCG-CTT
* * *
163059 TTTATG-T-GATGTCATTGTTG-TT
1 TTTATGTTGGAAGT-TTTGTCGCTT
163081 ATTTATGTTGGAAGTTTTAGTCGGCTT
1 -TTTATGTTGGAAGTTTT-GTC-GCTT
163108 TTTATGT
1 TTTATGT
163115 GATGTCATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
22 2 0.05
23 6 0.14
24 10 0.23
25 9 0.21
26 14 0.33
27 2 0.05
ACGTcount: A:0.16, C:0.06, G:0.24, T:0.54
Consensus pattern (24 bp):
TTTATGTTGGAAGTTTTGTCGCTT
Found at i:163077 original size:49 final size:49
Alignment explanation
Indices: 163024--163123 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
163014 GCATTTCTAT
*
163024 TTGTTGTTATTTATGTTGGAAGTTTTGGTCGACTTTTTATGTGATGTCA
1 TTGTTGTTATTTATGTTGGAAGTTTTAGTCGACTTTTTATGTGATGTCA
*
163073 TTGTTGTTATTTATGTTGGAAGTTTTAGTCGGCTTTTTATGTGATGTCA
1 TTGTTGTTATTTATGTTGGAAGTTTTAGTCGACTTTTTATGTGATGTCA
163122 TT
1 TT
163124 TTCAAATTAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.16, C:0.06, G:0.24, T:0.54
Consensus pattern (49 bp):
TTGTTGTTATTTATGTTGGAAGTTTTAGTCGACTTTTTATGTGATGTCA
Found at i:164339 original size:27 final size:26
Alignment explanation
Indices: 164309--164364 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
164299 TCTATGTGAT
164309 ATAAAATATATAATATATAAATAAAAA
1 ATAAAATATATAATATAT-AATAAAAA
* *
164336 AT--AATATATATTATATAATTAAAA
1 ATAAAATATATAATATATAATAAAAA
164360 ATAAA
1 ATAAA
164365 TTGACTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 9 0.36
25 13 0.52
26 1 0.04
27 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (26 bp):
ATAAAATATATAATATATAATAAAAA
Found at i:164343 original size:25 final size:25
Alignment explanation
Indices: 164313--164360 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
164303 TGTGATATAA
164313 AATATATAATATATAAATAAAAAAT
1 AATATATAATATATAAATAAAAAAT
* *
164338 AATATATATTATATAATTAAAAA
1 AATATATAATATATAAATAAAAA
164361 TAAATTGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATATATAATATATAAATAAAAAAT
Found at i:164515 original size:90 final size:90
Alignment explanation
Indices: 164380--164559 Score: 342
Period size: 90 Copynumber: 2.0 Consensus size: 90
164370 TTGATTTTGA
*
164380 TTATTAGAGTAAAGGTCTGACCTTTAGTTTATTTTTTATCCAAACTTATTTTTAAACCAAATATT
1 TTATTAGAGTAAAGGTCTGACCTTTAGTTTATTTTTTATCCAAACTTATTTTTAAACCAAATACT
164445 TTTATTGAAATTTATAAAAATATCG
66 TTTATTGAAATTTATAAAAATATCG
*
164470 TTATTAGAGTAAAGGTCTGACCTTTAGTTTATTTTTTATCTAAACTTATTTTTAAACCAAATACT
1 TTATTAGAGTAAAGGTCTGACCTTTAGTTTATTTTTTATCCAAACTTATTTTTAAACCAAATACT
164535 TTTATTGAAATTTATAAAAATATCG
66 TTTATTGAAATTTATAAAAATATCG
164560 GATAAATATT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 88 1.00
ACGTcount: A:0.36, C:0.10, G:0.09, T:0.46
Consensus pattern (90 bp):
TTATTAGAGTAAAGGTCTGACCTTTAGTTTATTTTTTATCCAAACTTATTTTTAAACCAAATACT
TTTATTGAAATTTATAAAAATATCG
Found at i:166449 original size:2 final size:2
Alignment explanation
Indices: 166444--166484 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
166434 GTATAATAAG
166444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
166485 AACTACACTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:167016 original size:13 final size:14
Alignment explanation
Indices: 166990--167025 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
166980 ATCACAACGA
*
166990 CACAGTTCTGTATT
1 CACAGTTTTGTATT
167004 CAC-GTTTTGTATT
1 CACAGTTTTGTATT
167017 CACAGTTTT
1 CACAGTTTT
167026 CATGAACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (14 bp):
CACAGTTTTGTATT
Found at i:167320 original size:3 final size:3
Alignment explanation
Indices: 167312--167376 Score: 94
Period size: 3 Copynumber: 21.7 Consensus size: 3
167302 TGCAATAAAG
* * *
167312 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT AAC ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
167360 GAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
167377 AAAATAGATA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:171794 original size:31 final size:31
Alignment explanation
Indices: 171751--171818 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
171741 CAGAACACGT
* *
171751 AACTAACGGTCTTTGAGACTCGACGAATGTC
1 AACTAACAGTCTTTGAGACTCGACAAATGTC
* *
171782 AACTAACAGTCTTTGAGACTTGACAAATTTC
1 AACTAACAGTCTTTGAGACTCGACAAATGTC
171813 AACTAA
1 AACTAA
171819 TGGTTAGGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (31 bp):
AACTAACAGTCTTTGAGACTCGACAAATGTC
Found at i:172879 original size:20 final size:19
Alignment explanation
Indices: 172860--172896 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
172850 ATCGTTATTA
172860 AATATATTTATTAAAAATT
1 AATATATTTATTAAAAATT
* *
172879 ACTATATTTATTCAAAAT
1 AATATATTTATTAAAAAT
172897 CTTTATTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATATTTATTAAAAATT
Found at i:175974 original size:21 final size:21
Alignment explanation
Indices: 175948--175996 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
175938 AACACAATTA
* * *
175948 GTATCGATACAGTTAGTGAAT
1 GTATCGATACAATCAGTAAAT
175969 GTATCGATACAATCAGTAAAT
1 GTATCGATACAATCAGTAAAT
175990 GTATCGA
1 GTATCGA
175997 AGCATTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
GTATCGATACAATCAGTAAAT
Found at i:178564 original size:12 final size:12
Alignment explanation
Indices: 178547--178572 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
178537 ATTTGTGAAC
178547 GAAATGGGAATG
1 GAAATGGGAATG
178559 GAAATGGGAATG
1 GAAATGGGAATG
178571 GA
1 GA
178573 GATTGGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.42, T:0.15
Consensus pattern (12 bp):
GAAATGGGAATG
Found at i:194996 original size:16 final size:16
Alignment explanation
Indices: 194952--194997 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
194942 ACATTTTCGG
*
194952 GTTCAGGTCATTTCAA
1 GTTCAGATCATTTCAA
** *
194968 GTTTGGATTATTTCAA
1 GTTCAGATCATTTCAA
194984 GTTCAGATCATTTC
1 GTTCAGATCATTTC
194998 GAATTCAGGT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.43
Consensus pattern (16 bp):
GTTCAGATCATTTCAA
Found at i:197727 original size:19 final size:19
Alignment explanation
Indices: 197703--197770 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
197693 AATTCAACGA
197703 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
197722 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
197737 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
197754 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
197771 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:197741 original size:32 final size:32
Alignment explanation
Indices: 197705--197767 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
197695 TTCAACGATT
*
197705 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
197737 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
197768 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:197742 original size:13 final size:13
Alignment explanation
Indices: 197724--197748 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
197714 ACATAAGTTT
197724 TGTATCGATACAA
1 TGTATCGATACAA
197737 TGTATCGATACA
1 TGTATCGATACA
197749 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:197828 original size:13 final size:13
Alignment explanation
Indices: 197810--197835 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
197800 CATTTTTCTG
197810 TGTATCGATACAT
1 TGTATCGATACAT
197823 TGTATCGATACAT
1 TGTATCGATACAT
197836 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:197832 original size:33 final size:33
Alignment explanation
Indices: 197790--197856 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
197780 GCCAAGGAAA
***
197790 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
197823 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
197856 T
1 T
197857 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:200268 original size:51 final size:53
Alignment explanation
Indices: 200199--200540 Score: 187
Period size: 52 Copynumber: 6.5 Consensus size: 53
200189 AGTTTATCAA
* * * * *
200199 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
200250 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
200304 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* ** * *
200362 TAT-TTC-CGA--GGGGATACTCCAACTCCGGCTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
200411 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* * *
200464 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAA
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
200516 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
200541 CTCGTTATTT
Statistics
Matches: 223, Mismatches: 39, Indels: 57
0.70 0.12 0.18
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 35 0.16
52 77 0.35
53 33 0.15
54 33 0.15
55 22 0.10
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:200383 original size:28 final size:27
Alignment explanation
Indices: 200316--200384 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
200306 CTTCACAATC
**
200316 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
200343 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
200371 GGGGATACTCCAAC
1 GGGGATACTCCAAC
200385 TCCGGCTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:200425 original size:107 final size:105
Alignment explanation
Indices: 200262--200654 Score: 323
Period size: 107 Copynumber: 3.7 Consensus size: 105
200252 TTCTATAATC
* **
200262 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGGCTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCC
200327 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGA
63 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* *
200371 GGGGATACTCCAACTCCGGCTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCA
1 GGGGATACTCCAACTCCGGCTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCA
** * ** * * * ** * *
200435 ATCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C--
64 A-CCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCGA
** * * *
200475 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAATTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGGCTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* *
200540 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCGA
* * * *** * * *
200583 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGGCTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
200648 CCCGTTA
66 CCCGTTA
200655 TTTTCGAAAG
Statistics
Matches: 219, Mismatches: 49, Indels: 34
0.73 0.16 0.11
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 46 0.21
105 14 0.06
106 20 0.09
107 73 0.33
108 30 0.14
109 27 0.12
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (105 bp):
GGGGATACTCCAACTCCGGCTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTCCGA
Found at i:200560 original size:28 final size:28
Alignment explanation
Indices: 200524--200600 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
200514 AATTTTCACA
* * *
200524 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
200552 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
200580 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
200601 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Done.