Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 13 of 320
Found at i:3619021 original size:13 final size:13
Alignment explanation
Indices: 3619003--3619028 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3618993 TTGAGAAAAT
3619003 AGAAAAAAAAGAA
1 AGAAAAAAAAGAA
3619016 AGAAAAAAAAGAA
1 AGAAAAAAAAGAA
3619029 CGGCAACAAA
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:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAGAA
Found at i:3628398 original size:21 final size:23
Alignment explanation
Indices: 3628362--3628404 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
3628352 TTAACATAAT
3628362 TATTTTTAATGTATTATTATTAC
1 TATTTTTAATGTATTATTATTAC
3628385 TATTTTT-A-GTATTATTATTA
1 TATTTTTAATGTATTATTATTA
3628405 TATGTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (23 bp):
TATTTTTAATGTATTATTATTAC
Found at i:3628722 original size:15 final size:15
Alignment explanation
Indices: 3628702--3628735 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3628692 ATACTTTTAC
3628702 TATTATTGTTATTAA
1 TATTATTGTTATTAA
* *
3628717 TATTATTTTTATTAT
1 TATTATTGTTATTAA
3628732 TATT
1 TATT
3628736 TTTTGTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTATTGTTATTAA
Found at i:3628799 original size:12 final size:12
Alignment explanation
Indices: 3628760--3628813 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
3628750 AATATTCATG
3628760 CTATCATTATTA
1 CTATCATTATTA
*
3628772 -TATTATT-TT-
1 CTATCATTATTA
*
3628781 -TACCATTATTA
1 CTATCATTATTA
*
3628792 GTATCATTATTA
1 CTATCATTATTA
3628804 CTATCATTAT
1 CTATCATTAT
3628814 CATTATTAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 5 0.15
10 4 0.12
11 6 0.18
12 19 0.56
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.54
Consensus pattern (12 bp):
CTATCATTATTA
Found at i:3630242 original size:21 final size:21
Alignment explanation
Indices: 3630216--3630268 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
3630206 TGCAGGGGTC
* *
3630216 ACACGCTCGTGTGGAC-AGGGG
1 ACACGCCCGTGT-GACTAAGGG
3630237 ACACGCCCGTGTGACTAAGGG
1 ACACGCCCGTGTGACTAAGGG
3630258 ACACGCCCGTG
1 ACACGCCCGTG
3630269 CTATAGGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.21, C:0.30, G:0.36, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGACTAAGGG
Found at i:3632197 original size:31 final size:31
Alignment explanation
Indices: 3632159--3632217 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
3632149 AAGTAGCCGA
3632159 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
*
3632190 TGATCAGGTAGTCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
3632218 TACTTGCCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:3632288 original size:50 final size:50
Alignment explanation
Indices: 3632197--3632473 Score: 430
Period size: 50 Copynumber: 5.5 Consensus size: 50
3632187 CATTGATCAG
* * * * *
3632197 GTAGTCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
3632248 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
3632298 GTAGCCGAAGCTATCACTTATCACTTTCACTTT-TCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCA-TTTGTCCTTGATCAGATAAGT
*
3632348 GTAACCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
3632398 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
3632448 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
3632474 GTTGCCATGG
Statistics
Matches: 209, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
49 3 0.01
50 182 0.87
51 24 0.11
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:3635430 original size:25 final size:25
Alignment explanation
Indices: 3635400--3635469 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
3635390 AAGCGACAAA
*
3635400 CGGTAAGCTCATCCGAGCTGAATAT
1 CGGTAAGCTCATACGAGCTGAATAT
3635425 CGGTAAGCTCATACGAGCTGAATAT
1 CGGTAAGCTCATACGAGCTGAATAT
* *
3635450 CGATAAGCTCATATGAGCTG
1 CGGTAAGCTCATACGAGCTG
3635470 TGGTGGGTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGCTGAATAT
Found at i:3638035 original size:42 final size:42
Alignment explanation
Indices: 3637978--3638059 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
3637968 ACACATAGCT
**
3637978 TGGCACACAACCGTGT-AGGGCAACTCAGAGAGTTACACAGCC
1 TGGCACACAACCGTGTGA-CCCAACTCAGAGAGTTACACAGCC
* * *
3638020 TGGCACACGAGCGTGTGACCCTACTCAGAGAGTTACACAG
1 TGGCACACAACCGTGTGACCCAACTCAGAGAGTTACACAG
3638060 GTGAGGGTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.16
Consensus pattern (42 bp):
TGGCACACAACCGTGTGACCCAACTCAGAGAGTTACACAGCC
Found at i:3640088 original size:16 final size:16
Alignment explanation
Indices: 3640050--3640088 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3640040 TAACTTATCC
*
3640050 AAATATAATATTATTT
1 AAATATAATATTATTG
**
3640066 ACTTATAATATTATTG
1 AAATATAATATTATTG
3640082 AAATATA
1 AAATATA
3640089 TTATCATTTT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (16 bp):
AAATATAATATTATTG
Found at i:3643842 original size:21 final size:21
Alignment explanation
Indices: 3643816--3644086 Score: 142
Period size: 21 Copynumber: 13.0 Consensus size: 21
3643806 TGTTCGCTCC
3643816 CTCCACCTCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCAAT
* **
3643837 CTCCACCACCACCAGTTCGCT
1 CTCCACCTCCACCAGTTCAAT
3643858 CCCCTCCACCTCCACCAGTTCAAT
1 ---CTCCACCTCCACCAGTTCAAT
* * **
3643882 CACCACCACCACCAGTTCGCT
1 CTCCACCTCCACCAGTTCAAT
* * * *
3643903 CCCCTCCACCACCCG-TCTACA-
1 CTCCACCTCCACCAGTTC-A-AT
3643924 CTCCACCTCCACCAGTTC--T
1 CTCCACCTCCACCAGTTCAAT
*
3643943 CTCC-CCTCCACCACCCGTCTC-CT
1 CTCCACCTCCACCA---GT-TCAAT
*
3643966 TTCCACCTCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCAAT
*
3643987 CTCCACCACCACCAGTTC--T
1 CTCCACCTCCACCAGTTCAAT
*
3644006 CTCC-CCTCCACCACCGTCTC-CT
1 CTCCACCTCCACCA--GT-TCAAT
3644028 -TCCACCT-CACCAGTTCAA-
1 CTCCACCTCCACCAGTTCAAT
* * *
3644046 -T-CACCACCACCCG-TCTATT
1 CTCCACCTCCACCAGTTC-AAT
*
3644065 CTCCACATCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCAAT
3644086 C
1 C
3644087 ACAACCACCA
Statistics
Matches: 192, Mismatches: 32, Indels: 52
0.70 0.12 0.19
Matches are distributed among these distances:
17 6 0.03
18 26 0.14
19 11 0.06
20 7 0.04
21 101 0.53
22 10 0.05
23 4 0.02
24 27 0.14
ACGTcount: A:0.20, C:0.53, G:0.06, T:0.22
Consensus pattern (21 bp):
CTCCACCTCCACCAGTTCAAT
Found at i:3643875 original size:45 final size:45
Alignment explanation
Indices: 3643795--3643954 Score: 206
Period size: 45 Copynumber: 3.6 Consensus size: 45
3643785 CTACTCACCA
* *
3643795 CCACCACAACCTGTTCGCT-CCCTCCACCTCCACCAGTTCAATCT
1 CCACCACCACCAGTTCGCTCCCCTCCACCTCCACCAGTTCAATCT
*
3643839 CCACCACCACCAGTTCGCTCCCCTCCACCTCCACCAGTTCAATCA
1 CCACCACCACCAGTTCGCTCCCCTCCACCTCCACCAGTTCAATCT
*
3643884 CCACCACCACCAGTTCGCTCCCCTCCA---CCACCCG-TCTACA-CT
1 CCACCACCACCAGTTCGCTCCCCTCCACCTCCACCAGTTC-A-ATCT
* *
3643926 CCACCTCCACCAGTTCTCTCCCCTCCACC
1 CCACCACCACCAGTTCGCTCCCCTCCACC
3643955 ACCCGTCTCC
Statistics
Matches: 104, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
41 2 0.02
42 33 0.32
43 1 0.01
44 17 0.16
45 51 0.49
ACGTcount: A:0.19, C:0.55, G:0.06, T:0.19
Consensus pattern (45 bp):
CCACCACCACCAGTTCGCTCCCCTCCACCTCCACCAGTTCAATCT
Found at i:3643954 original size:63 final size:63
Alignment explanation
Indices: 3643861--3644053 Score: 191
Period size: 63 Copynumber: 3.1 Consensus size: 63
3643851 GTTCGCTCCC
** * * * *
3643861 CTCCACCTCCACCAGTTCAATCACCACCACCACCAGT-TCGCTCCCCTCCACCACCCG-TCTACA
1 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCAGTCTC-CTCCCCACCACCACCAGTTC-A-A
3643924 -
63 T
* ** *
3643924 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTTCCACCTCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCAGTCTCCTCCCCACCACCACCAGTTCAAT
* * *
3643987 CTCCACCACCACCAGTTCTCTCCCCTCCACCACC-GTCTCCT-TCCACC-TCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCAGTCTCCTCCCCACCACCACCAGTTCAAT
*
3644047 CACCACC
1 CTCCACC
3644054 ACCCGTCTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
60 18 0.16
61 6 0.05
62 8 0.07
63 78 0.68
64 4 0.04
ACGTcount: A:0.19, C:0.54, G:0.05, T:0.21
Consensus pattern (63 bp):
CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCAGTCTCCTCCCCACCACCACCAGTTCAAT
Found at i:3643971 original size:42 final size:42
Alignment explanation
Indices: 3643837--3643983 Score: 163
Period size: 42 Copynumber: 3.4 Consensus size: 42
3643827 CCAGTTCAAT
* *
3643837 CTCCACCACCACCAGTTCGCTCCCCTCCACCTCCACCAGT-T-CAA
1 CTCCACCTCCACCAGTTCGCTCCCCTCCA---CCACCCGTCTAC-A
* *
3643881 TCACCACCACCACCAGTTCGCTCCCCTCCACCACCCGTCTACA
1 -CTCCACCTCCACCAGTTCGCTCCCCTCCACCACCCGTCTACA
* * *
3643924 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCCGTCTCCT
1 CTCCACCTCCACCAGTTCGCTCCCCTCCACCACCCGTCTACA
*
3643966 TTCCACCTCCACCAGTTC
1 CTCCACCTCCACCAGTTC
3643984 AATCTCCACC
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
42 61 0.66
43 2 0.02
44 1 0.01
45 28 0.30
ACGTcount: A:0.18, C:0.56, G:0.06, T:0.20
Consensus pattern (42 bp):
CTCCACCTCCACCAGTTCGCTCCCCTCCACCACCCGTCTACA
Found at i:3644056 original size:39 final size:41
Alignment explanation
Indices: 3644013--3644098 Score: 108
Period size: 39 Copynumber: 2.2 Consensus size: 41
3644003 TCTCTCCCCT
* * *
3644013 CCACCACCGTCTCCT-TCCACCT-CACCAGTTCAATCACCA
1 CCACCACCGTCTACTCTCCACATCCACCAGTTCAATCACAA
*
3644052 CCA-C-CCGTCTATTCTCCACATCCACCAGTTCAATCACAA
1 CCACCACCGTCTACTCTCCACATCCACCAGTTCAATCACAA
3644091 CCACCACC
1 CCACCACC
3644099 AACTTCACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
37 7 0.18
38 7 0.18
39 22 0.56
40 1 0.03
41 2 0.05
ACGTcount: A:0.26, C:0.50, G:0.05, T:0.20
Consensus pattern (41 bp):
CCACCACCGTCTACTCTCCACATCCACCAGTTCAATCACAA
Found at i:3644056 original size:63 final size:63
Alignment explanation
Indices: 3643926--3644056 Score: 223
Period size: 63 Copynumber: 2.1 Consensus size: 63
3643916 CGTCTACACT
* *
3643926 CCACCTCCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTTCCACCTCCACCAGTTCAATCT
1 CCACCACCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTTCCACCTCCACCAGTTCAATCA
3643989 CCACCACCACCAGTTCTCTCCCCTCCACCA-CCGTCTCC-TTCCACCT-CACCAGTTCAATCA
1 CCACCACCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTTCCACCTCCACCAGTTCAATCA
3644049 CCACCACC
1 CCACCACC
3644057 CGTCTATTCT
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
60 21 0.32
61 8 0.12
62 8 0.12
63 29 0.44
ACGTcount: A:0.18, C:0.55, G:0.05, T:0.22
Consensus pattern (63 bp):
CCACCACCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTTCCACCTCCACCAGTTCAATCA
Found at i:3645397 original size:40 final size:40
Alignment explanation
Indices: 3645311--3645397 Score: 90
Period size: 40 Copynumber: 2.2 Consensus size: 40
3645301 TGAATTTTAA
* *
3645311 ATTTTTGTAATTTTTTTATATATTTTTTAAAATTTTATAAG
1 ATTTTT-TAATTTTTTTATATATATTTTAAAATTTTACAAG
* *
3645352 A-TTTTTAGATTTTTTTA-ATAATATTTTAGAA-TTTACAAT
1 ATTTTTTA-ATTTTTTTATAT-ATATTTTAAAATTTTACAAG
3645391 ATTTTTT
1 ATTTTTT
3645398 TTGTATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
39 11 0.28
40 27 0.69
41 1 0.03
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (40 bp):
ATTTTTTAATTTTTTTATATATATTTTAAAATTTTACAAG
Found at i:3645538 original size:15 final size:16
Alignment explanation
Indices: 3645492--3645538 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
3645482 TCTCCCTTTA
3645492 ATTTTTTTAGAA-TTT
1 ATTTTTTTAGAATTTT
*
3645507 ATCTTTTTTAAAATTTT
1 AT-TTTTTTAGAATTTT
3645524 ATTTTTTT-GAATTTT
1 ATTTTTTTAGAATTTT
3645539 TAATGTACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 8 0.29
16 15 0.54
17 5 0.18
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (16 bp):
ATTTTTTTAGAATTTT
Found at i:3659352 original size:37 final size:36
Alignment explanation
Indices: 3659268--3659359 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 36
3659258 ATATACGTAC
*
3659268 TTATACATACTTAAATATATTTTTCATATTTCATAA
1 TTATACATACTTAAATATATTTTGCATATTTCATAA
* * * *
3659304 TTCTTATATACTTACATATATTTATGCATATTTACATCA
1 TT-ATACATACTTAAATATATTT-TGCATATTT-CATAA
*
3659343 -TATACATACTTATATAT
1 TTATACATACTTAAATAT
3659360 TCTTTATATT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
36 2 0.04
37 30 0.67
38 9 0.20
39 4 0.09
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (36 bp):
TTATACATACTTAAATATATTTTGCATATTTCATAA
Found at i:3670190 original size:44 final size:45
Alignment explanation
Indices: 3670054--3670933 Score: 760
Period size: 44 Copynumber: 20.0 Consensus size: 45
3670044 ATAGGTCCTA
* * * *
3670054 TCTTCCTATATTGGTAG-GAAGTAGATCAAAGAT-GTAAATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
3670097 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATATTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
3670142 TCTTCATGTATTGG-CGTGAAGAAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3670186 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGATA-CAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
3670229 TCTTCCCATATTGGTGGCGAAGCAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * * * *
3670274 TCTTCATGTATTGG-CATGAAGAAGATCGAAGGTAGCAGGTCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3670318 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-CCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * ** *
3670361 TCTTCCCATATTGATGGCAAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
3670406 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
*
3670450 TCTTCCTATATTGGTAG-GAAGT-GATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
3670492 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
3670537 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3670581 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * **
3670624 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAACAGGTCCGG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3670668 TCTTCCTGTATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * * *
3670711 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * **
3670756 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAACAGGTCCGG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3670800 TCTTCCTGTATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
3670843 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
3670888 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
3670932 TC
1 TC
3670934 CCTGTATTTG
Statistics
Matches: 656, Mismatches: 160, Indels: 41
0.77 0.19 0.05
Matches are distributed among these distances:
42 23 0.04
43 147 0.22
44 362 0.55
45 124 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:3670286 original size:132 final size:132
Alignment explanation
Indices: 3670049--3670933 Score: 1007
Period size: 132 Copynumber: 6.7 Consensus size: 132
3670039 CGTAAATAGG
* * * *
3670049 TCCTATCTTCCTATATTGGTAGGAAGTAGATCAAAGATGTAAATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
3670114 CGAAGTAGATCGCAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
3670179 GA
131 GA
* *
3670181 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATACAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
3670246 CGAAGCAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGAAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
*
3670311 GG
131 GA
* *
3670313 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATCCAGATCTTGTCTTCCCATATTGATGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * * *
3670378 CAAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
3670443 GA
131 GA
3670445 TCCTATCTTCCTATATTGGTAGGAAGT-GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
3670509 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
3670574 GA
131 GA
* *** *
3670576 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCATGTATTGG-CG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* * * * ** * * ** *
3670640 TGAAGTAGATCGAAGGTAA-CAGGTCCGGTCTTCCTGTATTGGTAG-GAAGTGGATCGAAGAT-G
66 CGAAGTAGATCGCA-GAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGAAGATCGAAGGTAG
3670702 CAGA
129 CAGA
* * * * * * * * ***
3670706 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGG-
1 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGT
* * * * ** * * ** *
3670770 CGTGAAGTAGATCGAAGATAA-CAGGTCCGGTCTTCCTGTATTGGTAG-GAAGTGGATCGAAGAT
64 GGCGAAGTAGATCGCAGA-AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGAAGATCGAAGGT
3670833 -GCAGA
127 AGCAGA
* * * * * * * ***
3670838 TCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGG-
1 TCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGT
* * *
3670902 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTC
64 GGCGAAGTAGATCGCAGAAAGCAGATCTTGTC
3670934 CCTGTATTTG
Statistics
Matches: 692, Mismatches: 54, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
130 23 0.03
131 186 0.27
132 483 0.70
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGAAGATCGAAGGTAGCA
GA
Found at i:3670735 original size:219 final size:218
Alignment explanation
Indices: 3670380--3670847 Score: 774
Period size: 219 Copynumber: 2.1 Consensus size: 218
3670370 ATTGATGGCA
* * *
3670380 AAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGA
1 AAGTGGATCGAAG-ATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGA
*
3670445 TCCTATCTTCCTATATTGGTAGGAAGTGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
65 TCCGATCTTCCTATATTGGTAGGAAGTGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
* *
3670510 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAG
130 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAG
*
3670575 ATCCTATCTTCCTATATTGGTAGG
195 ATCCGATCTTCCTATATTGGTAGG
* * *
3670599 AAGTGGATCGAAGATGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAACAGGT
1 AAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGAT
* *
3670664 CCGGTCTTCCTGTATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
66 CCGATCTTCCTATATTGGTAGGAAGT-GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGC
*
3670729 GAAGTAGATCGCAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAG
130 GAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAG
* * *
3670794 GTCCGGTCTTCCTGTATTGGTAGG
195 ATCCGATCTTCCTATATTGGTAGG
3670818 AAGTGGATCGAAGATGCAGATCTTGTCTTC
1 AAGTGGATCGAAGATGCAGATCTTGTCTTC
3670848 CCATATTGGT
Statistics
Matches: 231, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
218 70 0.30
219 161 0.70
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (218 bp):
AAGTGGATCGAAGATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGAT
CCGATCTTCCTATATTGGTAGGAAGTGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCG
AAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGA
TCCGATCTTCCTATATTGGTAGG
Found at i:3672968 original size:38 final size:37
Alignment explanation
Indices: 3672884--3672975 Score: 91
Period size: 38 Copynumber: 2.5 Consensus size: 37
3672874 TATACGTACT
*
3672884 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
3672922 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
3672958 ATATACATACTTATATAT
1 -TATACATACTTAAATAT
3672976 TCTTTATATT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
36 4 0.09
37 19 0.42
38 22 0.49
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:3673017 original size:16 final size:16
Alignment explanation
Indices: 3672998--3673031 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3672988 TAAAAATGCT
*
3672998 TATTGTATATTTCACA
1 TATTGTATAATTCACA
*
3673014 TATTTTATAATTCACA
1 TATTGTATAATTCACA
3673030 TA
1 TA
3673032 CATATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (16 bp):
TATTGTATAATTCACA
Found at i:3679562 original size:22 final size:21
Alignment explanation
Indices: 3679534--3679587 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
3679524 GCACTAATGG
3679534 ACAGAGAGCA-GTAAGGTGCTA
1 ACAGAGAGCACG-AAGGTGCTA
*
3679555 TACAGAGAGCACGAATGTGCTA
1 -ACAGAGAGCACGAAGGTGCTA
*
3679577 ACGGAGAGCAC
1 ACAGAGAGCAC
3679588 TAACGTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
22 18 0.62
23 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.31, T:0.13
Consensus pattern (21 bp):
ACAGAGAGCACGAAGGTGCTA
Found at i:3697700 original size:19 final size:19
Alignment explanation
Indices: 3697663--3697700 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
3697653 GTAAAGTATT
*
3697663 TAATTTATAGCGTAAATAA
1 TAATTTATAGCATAAATAA
3697682 TAATTTA-AGCATAATATAA
1 TAATTTATAGCATAA-ATAA
3697701 GGAACAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (19 bp):
TAATTTATAGCATAAATAA
Found at i:3698756 original size:17 final size:18
Alignment explanation
Indices: 3698722--3698774 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
3698712 AATCATATCT
3698722 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
3698740 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
3698757 TCTAATATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
3698775 TGAAGATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.50
18 10 0.33
19 5 0.17
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:3699372 original size:45 final size:45
Alignment explanation
Indices: 3699317--3699513 Score: 252
Period size: 45 Copynumber: 4.4 Consensus size: 45
3699307 GGAAGGTGAT
* * *
3699317 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
3699362 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * *
3699407 ATCTGCT-TCTTCAATCTACTCACCGTCTAATACAGATATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
3699451 ATCTATTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
3699496 ATCTGTCATCTTGGATCT
1 ATCTGTTATCTTCGATCT
3699514 ACTTCGATGT
Statistics
Matches: 129, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
44 37 0.29
45 92 0.71
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:3699451 original size:89 final size:90
Alignment explanation
Indices: 3699317--3699500 Score: 262
Period size: 89 Copynumber: 2.1 Consensus size: 90
3699307 GGAAGGTGAT
** * * * *
3699317 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTACTCACCGTCTAATACAGAGACACCAAATCTATTATCTCCGATCTGC
3699382 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
* ** *
3699407 ATCTGCT-TCTTCAATCTACTCACCGTCTAATACAGATATGCCAAATCTATTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTACTCACCGTCTAATACAGAGACACCAAATCTATTATCTCCGATCTGC
*
3699471 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGACGCCAA
3699496 ATCTG
1 ATCTG
3699501 TCATCTTGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 76 0.92
90 7 0.08
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTACTCACCGTCTAATACAGAGACACCAAATCTATTATCTCCGATCTGC
TCCCCGTCTAATACAGAGACGCCAA
Found at i:3699659 original size:78 final size:78
Alignment explanation
Indices: 3699530--3699824 Score: 443
Period size: 78 Copynumber: 3.8 Consensus size: 78
3699520 ATGTAAACAC
* * * *
3699530 ATGAAGGTTAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATCT
3699595 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
3699608 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATC
3699672 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
3699686 ATGAAGGTCAGATCTACTGTGTCTTCGATCTG-TTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTT-CCCGTCTAATACAGAGATGCCAAATCATC
*
3699750 TTGGATCTGTTTCA
65 TTGGATCTGCTTCA
* **
3699764 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGC-TCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTC-CCGTCTAATACAGAGATGCCAAATC
3699825 TGTTTCTTCG
Statistics
Matches: 198, Mismatches: 14, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
77 5 0.03
78 192 0.97
79 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:3700547 original size:12 final size:12
Alignment explanation
Indices: 3700530--3700561 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
3700520 CACTTACGTG
3700530 AATTCTTCGAAC
1 AATTCTTCGAAC
3700542 AATTCTTCGAAC
1 AATTCTTCGAAC
3700554 AATTCTTC
1 AATTCTTC
3700562 TATTTTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.38
Consensus pattern (12 bp):
AATTCTTCGAAC
Found at i:3708927 original size:21 final size:20
Alignment explanation
Indices: 3708889--3708928 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
3708879 TTAGACTTCG
* *
3708889 TTTTTTTTTTTGGTTTATTA
1 TTTTTGTTTTTGGCTTATTA
3708909 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGG-CTTATT
3708929 TCTGGGCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.10, C:0.03, G:0.12, T:0.75
Consensus pattern (20 bp):
TTTTTGTTTTTGGCTTATTA
Found at i:3712573 original size:16 final size:16
Alignment explanation
Indices: 3712552--3712597 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
3712542 TATTATAGTG
*
3712552 AAATGAGTTCATGACT
1 AAATGAGTTCATAACT
*
3712568 AAATGAGTTTATAACT
1 AAATGAGTTCATAACT
*
3712584 AAATGAGTTTATAA
1 AAATGAGTTCATAA
3712598 TTAATATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (16 bp):
AAATGAGTTCATAACT
Found at i:3716261 original size:22 final size:22
Alignment explanation
Indices: 3716236--3716280 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
3716226 ATAGGAACAC
3716236 AGCTTTTTTTCATAGCCATGCA
1 AGCTTTTTTTCATAGCCATGCA
3716258 AGCTTTTTTTCATAGCCATGCA
1 AGCTTTTTTTCATAGCCATGCA
3716280 A
1 A
3716281 CACAAAGACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (22 bp):
AGCTTTTTTTCATAGCCATGCA
Found at i:3719597 original size:3 final size:3
Alignment explanation
Indices: 3719591--3719636 Score: 65
Period size: 3 Copynumber: 14.7 Consensus size: 3
3719581 ATTATTATTA
*
3719591 TTG TTG TTG CTG TTG TTG TTG TTTG TTG TTTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG -TTG TTG -TTG TTG TTG TTG TTG TT
3719637 AAAACTTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.00, C:0.02, G:0.30, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:3726752 original size:38 final size:38
Alignment explanation
Indices: 3726678--3726752 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
3726668 GATCTTCTGA
* * *
3726678 GCTTCTTGAACTTGTGAATATTTTGAATGGCGAGAAAG
1 GCTTCTTGAACTTGTGAATATATTGAATAGCAAGAAAG
*
3726716 GCTTCTTGAACTTGTGAATATATTGAATAGTAAGAAA
1 GCTTCTTGAACTTGTGAATATATTGAATAGCAAGAAA
3726753 AGATTGTATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (38 bp):
GCTTCTTGAACTTGTGAATATATTGAATAGCAAGAAAG
Found at i:3728203 original size:19 final size:19
Alignment explanation
Indices: 3728175--3728217 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
3728165 TTCAGTAGAT
*
3728175 TTATATATAGGTCAATATA
1 TTATAAATAGGTCAATATA
*
3728194 TTATAAATAGGTCAGTATA
1 TTATAAATAGGTCAATATA
3728213 TTATA
1 TTATA
3728218 TAAGCCAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (19 bp):
TTATAAATAGGTCAATATA
Found at i:3728219 original size:21 final size:20
Alignment explanation
Indices: 3728166--3728220 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
3728156 CAAATTAGAT
* *
3728166 TCAGTAGATTTATATATAGG
1 TCAGTATATTTATAAATAGG
*
3728186 TCAATATA-TTATAAATAGG
1 TCAGTATATTTATAAATAGG
3728205 TCAGTATATTATATAA
1 TCAGTATATT-TATAA
3728221 GCCAGTCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 17 0.59
20 7 0.24
21 5 0.17
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.40
Consensus pattern (20 bp):
TCAGTATATTTATAAATAGG
Found at i:3729985 original size:45 final size:45
Alignment explanation
Indices: 3729935--3730023 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
3729925 AACTCGTAAA
* *
3729935 AGAAAATTCATAGATGTAG-AGAATTCATACATGTGAATTCATAGT
1 AGAAAATTCATAGATATAGCAG-ACTCATACATGTGAATTCATAGT
* *
3729980 AGAAAATTCATAGATATGGCAGACTCATACATGTGGATTCATAG
1 AGAAAATTCATAGATATAGCAGACTCATACATGTGAATTCATAG
3730024 ATATAGTGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.29
Consensus pattern (45 bp):
AGAAAATTCATAGATATAGCAGACTCATACATGTGAATTCATAGT
Found at i:3730020 original size:31 final size:31
Alignment explanation
Indices: 3729984--3730138 Score: 168
Period size: 31 Copynumber: 5.0 Consensus size: 31
3729974 CATAGTAGAA
* *
3729984 AATTCATAGATATGGCAGACTCATACATGTG
1 AATTCATAGATATGGCAAACTCATACATGCG
* * ** * * *
3730015 GATTCATAGATATAGTGAACTTATACATACA
1 AATTCATAGATATGGCAAACTCATACATGCG
*
3730046 AATTCATAGATATGGCAAACTCATACAAGCG
1 AATTCATAGATATGGCAAACTCATACATGCG
* * * *
3730077 GATTCATAGATATAGTAAACTCATACATGCT
1 AATTCATAGATATGGCAAACTCATACATGCG
3730108 AATTCATAGATATGGCGAAA-TCATACATGCG
1 AATTCATAGATATGGC-AAACTCATACATGCG
3730139 GACTATGTCA
Statistics
Matches: 97, Mismatches: 26, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
31 94 0.97
32 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (31 bp):
AATTCATAGATATGGCAAACTCATACATGCG
Found at i:3730049 original size:62 final size:62
Alignment explanation
Indices: 3729983--3730140 Score: 228
Period size: 62 Copynumber: 2.5 Consensus size: 62
3729973 TCATAGTAGA
* * *
3729983 AAATTCATAGATATGGCAGACTCATACATGTGGATTCATAGATATAGTGAACTTATACATAC
1 AAATTCATAGATATGGCAGACTCATACATGCGGATTCATAGATATAGTAAACTCATACATAC
* * *
3730045 AAATTCATAGATATGGCAAACTCATACAAGCGGATTCATAGATATAGTAAACTCATACATGC
1 AAATTCATAGATATGGCAGACTCATACATGCGGATTCATAGATATAGTAAACTCATACATAC
* *
3730107 TAATTCATAGATATGGC-GAAATCATACATGCGGA
1 AAATTCATAGATATGGCAG-ACTCATACATGCGGA
3730141 CTATGTCACG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (62 bp):
AAATTCATAGATATGGCAGACTCATACATGCGGATTCATAGATATAGTAAACTCATACATAC
Found at i:3739802 original size:18 final size:18
Alignment explanation
Indices: 3739779--3739815 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3739769 TGGAGTTTGT
3739779 TTAAATCCTGAAGGTTGC
1 TTAAATCCTGAAGGTTGC
3739797 TTAAATCCTGAAGGTTGC
1 TTAAATCCTGAAGGTTGC
3739815 T
1 T
3739816 CCATATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (18 bp):
TTAAATCCTGAAGGTTGC
Found at i:3745885 original size:25 final size:25
Alignment explanation
Indices: 3745857--3745911 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
3745847 TCTAAAAAAT
3745857 TTAAAGAAATATATAA-AAATTAATA
1 TTAAAGAAATATA-AATAAATTAATA
*
3745882 TTAAAGAAATATAAATATATTAATA
1 TTAAAGAAATATAAATAAATTAATA
3745907 TTAAA
1 TTAAA
3745912 TAAAAATCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
TTAAAGAAATATAAATAAATTAATA
Found at i:3750328 original size:19 final size:19
Alignment explanation
Indices: 3750293--3750334 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
3750283 AAAATACAGT
*
3750293 AAAATAATAAAATAAAATA
1 AAAATAATAAAATAAAACA
3750312 AAAATAATAAACA-AAAACA
1 AAAATAATAAA-ATAAAACA
3750331 AAAA
1 AAAA
3750335 ATAGAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.81, C:0.05, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAATAATAAAATAAAACA
Found at i:3750963 original size:18 final size:19
Alignment explanation
Indices: 3750942--3750988 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
3750932 ATTAGTTTTA
3750942 TTTAAC-ATTAATATTATG
1 TTTAACTATTAATATTATG
* *
3750960 TTT-ACTATTATTATTATT
1 TTTAACTATTAATATTATG
*
3750978 TTTAAATATTA
1 TTTAACTATTA
3750989 GTGTACTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.08
18 16 0.67
19 6 0.25
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTAACTATTAATATTATG
Found at i:3751021 original size:17 final size:16
Alignment explanation
Indices: 3750999--3751046 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
3750989 GTGTACTTTG
*
3750999 TATGTATATATTATTAT
1 TATGTATATATT-TTAA
3751016 TATGTATAT-TTTTAA
1 TATGTATATATTTTAA
*
3751031 TACGTATATATATTTA
1 TATGTATATAT-TTTA
3751047 TGAGGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 11 0.41
16 3 0.11
17 13 0.48
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.56
Consensus pattern (16 bp):
TATGTATATATTTTAA
Found at i:3767561 original size:19 final size:18
Alignment explanation
Indices: 3767528--3767563 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
3767518 TAAAAAAATA
*
3767528 TAATTTTTTATTATTTTC
1 TAATTTTTTAATATTTTC
3767546 TAATTTTTTACATATTTT
1 TAATTTTTTA-ATATTTT
3767564 TATTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (18 bp):
TAATTTTTTAATATTTTC
Found at i:3769856 original size:4 final size:4
Alignment explanation
Indices: 3769847--3769891 Score: 56
Period size: 4 Copynumber: 10.8 Consensus size: 4
3769837 ACACTTCTCG
3769847 AAAT AAAT AAAT AAAT AAA- ACAAT CGAAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT A-AAT --AAAT AAAT AAAT AAAT AAA
3769892 ACAAAGTGAG
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 1 0.03
4 32 0.86
6 3 0.08
7 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:3769875 original size:26 final size:26
Alignment explanation
Indices: 3769844--3769895 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
3769834 AAGACACTTC
3769844 TCGAAATAAATAAATAAATAAAACAA
1 TCGAAATAAATAAATAAATAAAACAA
3769870 TCGAAATAAATAAATAAATAAAACAA
1 TCGAAATAAATAAATAAATAAAACAA
3769896 AGTGAGTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.69, C:0.08, G:0.04, T:0.19
Consensus pattern (26 bp):
TCGAAATAAATAAATAAATAAAACAA
Found at i:3770519 original size:11 final size:11
Alignment explanation
Indices: 3770505--3770545 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
3770495 TGTTTTCTCC
3770505 CTATTTTGCTA
1 CTATTTTGCTA
*
3770516 CTATTTTACTA
1 CTATTTTGCTA
* *
3770527 TTATGTTGCTA
1 CTATTTTGCTA
3770538 CTATTTTG
1 CTATTTTG
3770546 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:3770591 original size:12 final size:11
Alignment explanation
Indices: 3770574--3770604 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
3770564 TGTATAAAAC
3770574 TTATTTTATTA
1 TTATTTTATTA
3770585 TTTATTTTATTA
1 -TTATTTTATTA
3770597 TTATTTTA
1 TTATTTTA
3770605 AAGACATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:3772031 original size:23 final size:23
Alignment explanation
Indices: 3771994--3772085 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
3771984 GCCTGGGTGG
*
3771994 AATTTTGATTGGCCTTTGTGGCA
1 AATTTTGATTAGCCTTTGTGGCA
* *
3772017 AATTTTGGTTAGCCTTTGTGGCG
1 AATTTTGATTAGCCTTTGTGGCA
* * *
3772040 CATTTTG-TTTGACATTTGTGGCA
1 AATTTTGATTAG-CCTTTGTGGCA
*
3772063 AATTCTGATTAGCCTTTGTGGCA
1 AATTTTGATTAGCCTTTGTGGCA
3772086 TATTCTTTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 3 0.05
23 50 0.89
24 3 0.05
ACGTcount: A:0.17, C:0.14, G:0.25, T:0.43
Consensus pattern (23 bp):
AATTTTGATTAGCCTTTGTGGCA
Found at i:3772090 original size:23 final size:23
Alignment explanation
Indices: 3771999--3772142 Score: 87
Period size: 23 Copynumber: 6.1 Consensus size: 23
3771989 GGTGGAATTT
* * *
3771999 TGATTGGCCTTTGTGGCAAATTT
1 TGATTAGCCTTTGTGGCATATTC
* ** *
3772022 TGGTTAGCCTTTGTGGCGCATTT
1 TGATTAGCCTTTGTGGCATATTC
* * *
3772045 TG-TTTGACATTTGTGGCAAATTC
1 TGATTAG-CCTTTGTGGCATATTC
3772068 TGATTAGCCTTTGTGGCATATTC
1 TGATTAGCCTTTGTGGCATATTC
*
3772091 TTTATGCTA-CCTTTGTGGCATATTC
1 -TGAT--TAGCCTTTGTGGCATATTC
* *
3772116 TATATGTTA-CCTTTGTGGTATATTC
1 T-GA--TTAGCCTTTGTGGCATATTC
3772141 TG
1 TG
3772143 TTTGGCCCTT
Statistics
Matches: 98, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
22 3 0.03
23 49 0.50
24 7 0.07
25 36 0.37
26 2 0.02
27 1 0.01
ACGTcount: A:0.17, C:0.15, G:0.22, T:0.46
Consensus pattern (23 bp):
TGATTAGCCTTTGTGGCATATTC
Found at i:3772108 original size:25 final size:25
Alignment explanation
Indices: 3772075--3772141 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
3772065 TTCTGATTAG
*
3772075 CCTTTGTGGCATATTCTTTATGCTA
1 CCTTTGTGGCATATTCTATATGCTA
*
3772100 CCTTTGTGGCATATTCTATATGTTA
1 CCTTTGTGGCATATTCTATATGCTA
*
3772125 CCTTTGTGGTATATTCT
1 CCTTTGTGGCATATTCT
3772142 GTTTGGCCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.49
Consensus pattern (25 bp):
CCTTTGTGGCATATTCTATATGCTA
Found at i:3772208 original size:23 final size:23
Alignment explanation
Indices: 3772175--3772231 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
3772165 GCTAAGTCTA
* *
3772175 TGTGGTAAATTATGTATCGCAAT
1 TGTGGTGAATTATGTATCACAAT
*
3772198 TGTGGTGAATTATGTATCATAAT
1 TGTGGTGAATTATGTATCACAAT
*
3772221 TGGGGTGAATT
1 TGTGGTGAATT
3772232 CTGGGTACAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.40
Consensus pattern (23 bp):
TGTGGTGAATTATGTATCACAAT
Found at i:3777773 original size:23 final size:23
Alignment explanation
Indices: 3777739--3777849 Score: 100
Period size: 23 Copynumber: 4.7 Consensus size: 23
3777729 TGTGGCATTT
*
3777739 TGATTGGCCTTTGTGGCGAATTC
1 TGATTAGCCTTTGTGGCGAATTC
* * *
3777762 TGGTTAGCCTTTGTTGCGCATTC
1 TGATTAGCCTTTGTGGCGAATTC
* * *
3777785 T-ATTTGACATTTGTGACGAATTC
1 TGATTAG-CCTTTGTGGCGAATTC
*
3777808 TGATTAGCCTTTGTGGCGTATTC
1 TGATTAGCCTTTGTGGCGAATTC
3777831 TGTATGCTA-CCTTTGTGGC
1 TG-AT--TAGCCTTTGTGGC
3777850 ATATTCTATA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
22 3 0.04
23 48 0.70
24 6 0.09
25 10 0.14
26 2 0.03
ACGTcount: A:0.14, C:0.18, G:0.25, T:0.42
Consensus pattern (23 bp):
TGATTAGCCTTTGTGGCGAATTC
Found at i:3777845 original size:25 final size:25
Alignment explanation
Indices: 3777815--3777879 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
3777805 TTCTGATTAG
* *
3777815 CCTTTGTGGCGTATTCTGTATGCTA
1 CCTTTGTGGCATATTCTATATGCTA
*
3777840 CCTTTGTGGCATATTCTATATGTTA
1 CCTTTGTGGCATATTCTATATGCTA
3777865 CCTTTGTGGCATATT
1 CCTTTGTGGCATATT
3777880 TTGTTTGGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.46
Consensus pattern (25 bp):
CCTTTGTGGCATATTCTATATGCTA
Found at i:3782678 original size:37 final size:38
Alignment explanation
Indices: 3782624--3782698 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 38
3782614 CTGCATCAGG
* *
3782624 AGAAAATTGAGGAAAATTATACAAT-GAAGCACAAAAT
1 AGAAAATAGAGGAAAATTAGACAATGGAAGCACAAAAT
3782661 AGAAAATAGAAGG-AAATTAGACAATGGAAGCACAAAAT
1 AGAAAATAG-AGGAAAATTAGACAATGGAAGCACAAAAT
3782699 CAAGCAGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 19 0.56
38 15 0.44
ACGTcount: A:0.57, C:0.08, G:0.19, T:0.16
Consensus pattern (38 bp):
AGAAAATAGAGGAAAATTAGACAATGGAAGCACAAAAT
Found at i:3785838 original size:17 final size:15
Alignment explanation
Indices: 3785800--3785846 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
3785790 AAAAGTACAT
*
3785800 TAAAAATTCAAAAAA
1 TAAAAATTCTAAAAA
*
3785815 TAAAAATTTTAAAAA
1 TAAAAATTCTAAAAA
3785830 TAGATAAATTCTAAAAA
1 TA-A-AAATTCTAAAAA
3785847 AAATTAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (15 bp):
TAAAAATTCTAAAAA
Found at i:3786011 original size:41 final size:40
Alignment explanation
Indices: 3785954--3786050 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 40
3785944 AAAATACAAA
* * *
3785954 AAAAATATTGTAAAATTCTAAAATATTATTTAAAAAAATCT
1 AAAAATATTATAAAATTCTAAAA-AATATATAAAAAAATCT
* *
3785995 AAAAATCTTATAAAATTTTAAAAAATATATAAAAAAAT-T
1 AAAAATATTATAAAATTCTAAAAAATATATAAAAAAATCT
3786034 ACAAAA-ATT-TAAAATTC
1 A-AAAATATTATAAAATTC
3786051 AACTATCCAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
38 7 0.15
39 4 0.08
40 17 0.35
41 20 0.42
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.34
Consensus pattern (40 bp):
AAAAATATTATAAAATTCTAAAAAATATATAAAAAAATCT
Found at i:3786019 original size:30 final size:30
Alignment explanation
Indices: 3785981--3786047 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
3785971 CTAAAATATT
* ** *
3785981 ATTT-AAAAAAATCTAAAAATCTTATAAAA
1 ATTTAAAAAAAATATAAAAAAATTACAAAA
* *
3786010 TTTTAAAAAATATATAAAAAAATTACAAAA
1 ATTTAAAAAAAATATAAAAAAATTACAAAA
3786040 ATTTAAAA
1 ATTTAAAA
3786048 TTCAACTATC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
29 3 0.10
30 27 0.90
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (30 bp):
ATTTAAAAAAAATATAAAAAAATTACAAAA
Found at i:3787303 original size:39 final size:39
Alignment explanation
Indices: 3787260--3787345 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
3787250 TGAAGTTGGT
* * *
3787260 GGTGGTTGTGATTGAACTGGTGGATGTGGAGAA-TAGACG
1 GGTGGTGGTGATTGAACTGGTGGAGGTGG-GAAGGAGACG
3787299 GGTGGTGGTGATTGAACTGGTGGAGGTGGGAAGGAGACG
1 GGTGGTGGTGATTGAACTGGTGGAGGTGGGAAGGAGACG
3787338 GGTGGTGG
1 GGTGGTGG
3787346 AGGGGAGAGA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 3 0.07
39 40 0.93
ACGTcount: A:0.20, C:0.05, G:0.51, T:0.24
Consensus pattern (39 bp):
GGTGGTGGTGATTGAACTGGTGGAGGTGGGAAGGAGACG
Found at i:3787341 original size:21 final size:20
Alignment explanation
Indices: 3787314--3787432 Score: 78
Period size: 21 Copynumber: 5.7 Consensus size: 20
3787304 TGGTGATTGA
3787314 ACTGGTGGAGGTGGGAAGGAG
1 ACTGGTGGAGGTGGGAA-GAG
* * * *
3787335 ACGGGTGGTGGAGGGGAGAG
1 ACTGGTGGAGGTGGGAAGAG
* *
3787355 AACTGGTGGTGGTGGAGATTGA-
1 -ACTGGTGGAGGTGG-GA-AGAG
*
3787377 ACTGGTGGAGGTGGAAAGGAG
1 ACTGGTGGAGGTGGGAA-GAG
* * * *
3787398 ACGGGTGGTGGAGGGGAGAG
1 ACTGGTGGAGGTGGGAAGAG
3787418 AACTGGTGGAGGTGG
1 -ACTGGTGGAGGTGG
3787433 AGTGTAGACG
Statistics
Matches: 73, Mismatches: 19, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
20 9 0.12
21 61 0.84
22 1 0.01
23 2 0.03
ACGTcount: A:0.23, C:0.05, G:0.56, T:0.16
Consensus pattern (20 bp):
ACTGGTGGAGGTGGGAAGAG
Found at i:3787375 original size:63 final size:63
Alignment explanation
Indices: 3787299--3787434 Score: 245
Period size: 63 Copynumber: 2.2 Consensus size: 63
3787289 AGAATAGACG
* *
3787299 GGTGGTGGTGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGT
1 GGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGT
3787362 GGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGT
1 GGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGT
*
3787425 GGAGGTGGAG
1 GGTGGTGGAG
3787435 TGTAGACGGG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 70 1.00
ACGTcount: A:0.22, C:0.04, G:0.56, T:0.18
Consensus pattern (63 bp):
GGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGT
Found at i:3787447 original size:63 final size:63
Alignment explanation
Indices: 3787302--3787497 Score: 227
Period size: 63 Copynumber: 3.1 Consensus size: 63
3787292 ATAGACGGGT
* * *
3787302 GGTGGTGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGTGGT
1 GGTGGAGATTGAACGGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGTGGA
* *
3787365 GGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGTGGA
1 GGTGGAGATTGAACGGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGTGGA
* * * * * * **
3787428 GGTGGAG--TGTAGACGGGTGGTGGAGGGGAGCGA-ACTGGTGGTGGTGGTGATTGAACTGGTGG
1 GGTGGAGATTG-A-ACGGGTGGAGGTGGGAAG-GAGACGGGTGGTGGAGGGGAGAGAACTGGTGG
3787490 A
63 A
3787491 GGTGGAG
1 GGTGGAG
3787498 GGGAGCGAAC
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
61 2 0.02
62 1 0.01
63 112 0.96
64 2 0.02
ACGTcount: A:0.21, C:0.05, G:0.55, T:0.19
Consensus pattern (63 bp):
GGTGGAGATTGAACGGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGAGAGAACTGGTGGA
Found at i:3787489 original size:42 final size:42
Alignment explanation
Indices: 3787299--3787618 Score: 218
Period size: 42 Copynumber: 7.4 Consensus size: 42
3787289 AGAATAGACG
* * * * *
3787299 GGTGGTGGTGATTGAACTGGTGGAGGTGGGAAG-GAGACGGGT
1 GGTGGTGGTGAGTGAACTGGTGGTGGAGGGGAGCGA-ACTGGT
* * * * * **
3787341 GGTGGAGGGGAGAGAACTGGTGGTGGTGGAGATTGAACTGGT
1 GGTGGTGGTGAGTGAACTGGTGGTGGAGGGGAGCGAACTGGT
* ** * *
3787383 GGAGGTGGAAAG-GAGACGGGTGGTGGAGGGGAGAGAACTGGT
1 GGTGGTGGTGAGTGA-ACTGGTGGTGGAGGGGAGCGAACTGGT
* *
3787425 GGAGGT-G-GAGTGTAGACGGGTGGTGGAGGGGAGCGAACTGGT
1 GGTGGTGGTGAGTG-A-ACTGGTGGTGGAGGGGAGCGAACTGGT
*
3787467 GGTGGTGGTGATTGAACTGGTGGAGGTGGAGGGGAGCGAACTGGT
1 GGTGGTGGTGAGTGAACTGGT---GGTGGAGGGGAGCGAACTGGT
* * *
3787512 GGTGGTGGAGATTGAACTGGTGGAGGTGGAGGGGAGCGAACAGGTTGT
1 GGTGGTGGTGAGTGAACTGGT---GGTGGAGGGGAGCGAAC---TGGT
* * * *
3787560 GGTGGTGGTGAGT-AGACGGGTGGTGGAGTGGAGAGAACTTGT
1 GGTGGTGGTGAGTGA-ACTGGTGGTGGAGGGGAGCGAACTGGT
* *
3787602 TGTGGTGGTGTGTGAAC
1 GGTGGTGGTGAGTGAAC
3787619 GGGAGGTTTT
Statistics
Matches: 232, Mismatches: 32, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.01
41 4 0.02
42 121 0.52
43 5 0.02
44 4 0.02
45 76 0.33
47 1 0.00
48 19 0.08
ACGTcount: A:0.20, C:0.06, G:0.54, T:0.21
Consensus pattern (42 bp):
GGTGGTGGTGAGTGAACTGGTGGTGGAGGGGAGCGAACTGGT
Found at i:3787496 original size:45 final size:45
Alignment explanation
Indices: 3787446--3787566 Score: 215
Period size: 45 Copynumber: 2.7 Consensus size: 45
3787436 GTAGACGGGT
3787446 GGTGGAGGGGAGCGAACTGGTGGTGGTGGTGATTGAACTGGTGGA
1 GGTGGAGGGGAGCGAACTGGTGGTGGTGGTGATTGAACTGGTGGA
*
3787491 GGTGGAGGGGAGCGAACTGGTGGTGGTGGAGATTGAACTGGTGGA
1 GGTGGAGGGGAGCGAACTGGTGGTGGTGGTGATTGAACTGGTGGA
* *
3787536 GGTGGAGGGGAGCGAACAGGTTGTGGTGGTG
1 GGTGGAGGGGAGCGAACTGGTGGTGGTGGTG
3787567 GTGAGTAGAC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.18, C:0.07, G:0.55, T:0.21
Consensus pattern (45 bp):
GGTGGAGGGGAGCGAACTGGTGGTGGTGGTGATTGAACTGGTGGA
Found at i:3787585 original size:45 final size:41
Alignment explanation
Indices: 3787396--3787611 Score: 191
Period size: 45 Copynumber: 5.0 Consensus size: 41
3787386 GGTGGAAAGG
* *
3787396 AGACGGGTGGTGGAGGGGAGAGAACTGGTGGAGGTGGAGTG-T
1 AGACGGGTGGTGGAGGGGAGCGAACTGGTGGTGGT-G-GTGAT
3787438 AGACGGGTGGTGGAGGGGAGCGAACTGGTGGTGGTGGTGAT
1 AGACGGGTGGTGGAGGGGAGCGAACTGGTGGTGGTGGTGAT
* * *
3787479 TGAACTGGTGGAGGTGGAGGGGAGCGAACTGGTGGTGGTGGAGAT
1 AG-AC--G-GGTGGTGGAGGGGAGCGAACTGGTGGTGGTGGTGAT
* * *
3787524 TGAACTGGTGGAGGTGGAGGGGAGCGAACAGGTTGTGGTGGTGGTGAGT
1 AG-AC--G-GGTGGTGGAGGGGAGCGAAC---TGGTGGTGGTGGTGA-T
* * * *
3787573 AGACGGGTGGTGGAGTGGAGAGAACTTGTTGTGGTGGTG
1 AGACGGGTGGTGGAGGGGAGCGAACTGGTGGTGGTGGTG
3787612 TGTGAACGGG
Statistics
Matches: 153, Mismatches: 12, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
40 3 0.02
41 3 0.02
42 48 0.31
44 1 0.01
45 80 0.52
46 1 0.01
48 15 0.10
49 2 0.01
ACGTcount: A:0.19, C:0.06, G:0.54, T:0.21
Consensus pattern (41 bp):
AGACGGGTGGTGGAGGGGAGCGAACTGGTGGTGGTGGTGAT
Found at i:3793390 original size:42 final size:42
Alignment explanation
Indices: 3793320--3793401 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
3793310 GTACCCTCAC
**
3793320 CTGTGTAACTCTCTGAGTAGGGTCACACGCTCGTGTGCCAGG
1 CTGTGTAACTCTCTGAGTAGCCTCACACGCTCGTGTGCCAGG
* * *
3793362 CTGTGTAACTCTCTGAGTTGCC-CTACACGGTTGTGTGCCA
1 CTGTGTAACTCTCTGAGTAGCCTC-ACACGCTCGTGTGCCA
3793402 AGCTATGTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.16, C:0.27, G:0.28, T:0.29
Consensus pattern (42 bp):
CTGTGTAACTCTCTGAGTAGCCTCACACGCTCGTGTGCCAGG
Found at i:3795936 original size:25 final size:25
Alignment explanation
Indices: 3795908--3795977 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
3795898 AGACCCACCA
* *
3795908 CAGCTCATATGAGCTTATCGATATT
1 CAGCTCGTATGAGCTTACCGATATT
3795933 CAGCTCGTATGAGCTTACCGATATT
1 CAGCTCGTATGAGCTTACCGATATT
*
3795958 CAGCTCGGATGAGCTTACCG
1 CAGCTCGTATGAGCTTACCG
3795978 TTTGTCGCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATATT
Found at i:3798958 original size:50 final size:50
Alignment explanation
Indices: 3798883--3799159 Score: 430
Period size: 50 Copynumber: 5.5 Consensus size: 50
3798873 CCATGGCAAC
* *
3798883 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
3798933 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
3798983 AAGTGATAAGTGATAGCTTCGGTTACACTTATTTGATCAAGGA-AAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TGA
*
3799033 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
3799083 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * * *
3799134 AAGTAAAAAGTGGTAGCTTCGACTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
3799160 CTGATCAATG
Statistics
Matches: 209, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
49 3 0.01
50 181 0.87
51 25 0.12
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:3799177 original size:31 final size:31
Alignment explanation
Indices: 3799139--3799197 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
3799129 ATGGCAAGTA
3799139 AAAAGTGGTAGCTTCGACTACCTGATCAATG
1 AAAAGTGGTAGCTTCGACTACCTGATCAATG
*
3799170 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGACTACCTGATCA
3799198 TCGGCTACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGACTACCTGATCAATG
Found at i:3801111 original size:21 final size:20
Alignment explanation
Indices: 3801067--3801118 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
3801057 AGGCCTATAG
*
3801067 CACGGGCGTGTCCTTAGTCA
1 CACGGGCGTGTCCCTAGTCA
3801087 CACGGGCGTGTCCCCT-GTCCA
1 CACGGGCGTGT-CCCTAGT-CA
*
3801108 CACGAGCGTGT
1 CACGGGCGTGT
3801119 GACCCTGCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.13, C:0.35, G:0.31, T:0.21
Consensus pattern (20 bp):
CACGGGCGTGTCCCTAGTCA
Found at i:3802504 original size:12 final size:12
Alignment explanation
Indices: 3802487--3802540 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
3802477 GCTAATAATG
3802487 ATAATGATAGTA
1 ATAATGATAGTA
*
3802499 ATAATGATACTA
1 ATAATGATAGTA
3802511 ATAATG---GTA
1 ATAATGATAGTA
* *
3802520 AAAATAATA-TA
1 ATAATGATAGTA
3802531 ATAATGATAG
1 ATAATGATAG
3802541 CATGAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 6 0.19
11 9 0.28
12 17 0.53
ACGTcount: A:0.54, C:0.02, G:0.13, T:0.31
Consensus pattern (12 bp):
ATAATGATAGTA
Found at i:3802919 original size:21 final size:22
Alignment explanation
Indices: 3802893--3802935 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
3802883 ATATTACATA
3802893 TAATAATAATAC-TAAAAATAG
1 TAATAATAATACATAAAAATAG
3802914 TAATAATAATACATTAAAAATA
1 TAATAATAATACA-TAAAAATA
3802936 ATTATGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (22 bp):
TAATAATAATACATAAAAATAG
Found at i:3812244 original size:16 final size:13
Alignment explanation
Indices: 3812212--3812237 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3812202 TTTGTTGCCG
3812212 TTCTTTTTTTTCT
1 TTCTTTTTTTTCT
3812225 TTCTTTTTTTTCT
1 TTCTTTTTTTTCT
3812238 ATTTTCTCAA
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTCTTTTTTTTCT
Found at i:3821391 original size:10 final size:10
Alignment explanation
Indices: 3821342--3821408 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
3821332 ACATTTTACT
3821342 TTATATATTA
1 TTATATATTA
*
3821352 TT-TATTTTA
1 TTATATATTA
*
3821361 CTATAT-TTA
1 TTATATATTA
* * *
3821370 ATGTAAATTA
1 TTATATATTA
3821380 TTATATATTA
1 TTATATATTA
3821390 TTATATTATT-
1 TTATA-TATTA
3821400 TTAT-TATTA
1 TTATATATTA
3821409 ACTATTTATT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
8 4 0.09
9 13 0.29
10 24 0.53
11 4 0.09
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (10 bp):
TTATATATTA
Found at i:3830866 original size:46 final size:46
Alignment explanation
Indices: 3830803--3830986 Score: 314
Period size: 46 Copynumber: 4.0 Consensus size: 46
3830793 TTTCTGCCAT
* * *
3830803 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
3830849 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
**
3830895 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
*
3830941 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
3830987 AGAGCACACT
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 130 1.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAG
Found at i:3833165 original size:16 final size:18
Alignment explanation
Indices: 3833136--3833176 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
3833126 TCATCCTTTC
3833136 TTTCTTTTTCTATT-CTT
1 TTTCTTTTTCTATTCCTT
3833153 TTTCTTTTT-TATTCCTT
1 TTTCTTTTTCTATTCCTT
*
3833170 TTACTTT
1 TTTCTTT
3833177 ATATATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTTCTATTCCTT
Found at i:3836711 original size:25 final size:25
Alignment explanation
Indices: 3836677--3836725 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
3836667 AACACATGTT
3836677 AAACTCAAAATAGTCTTTATGGAAA
1 AAACTCAAAATAGTCTTTATGGAAA
3836702 AAACTCAAAATAGTCTTTATGGAA
1 AAACTCAAAATAGTCTTTATGGAA
3836726 TTTGTGTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (25 bp):
AAACTCAAAATAGTCTTTATGGAAA
Found at i:3837441 original size:44 final size:44
Alignment explanation
Indices: 3837386--3838223 Score: 918
Period size: 44 Copynumber: 19.2 Consensus size: 44
3837376 GTAGATCACC
* * * * * *
3837386 GATAGCTGATTTGGCATCTCTTTATTGTCAGAGAGCAAATTGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
3837430 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
3837474 GAT-GACAGATTTGGCATCTCTGTATTGTCAGAAAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * * *
3837518 GATAACAGATTTGACATCTCTGTGTTGACAGAGTGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
3837562 GAT-GACAGATTTGGCGTCCCTGTATTGTCAGAGAGCAGATCAAA
1 GATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * *
3837606 GAT-GACAGATTTGGCGTCCCTGTATTGTCAGAGAGCAGATCAAA
1 GATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
3837650 GAT-GACAGATTTGGCGTCCCTGTATTGTCAGAGAGCAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
3837694 TAT-GACAGATTTGGCGTCTCTGTATTGTCAGAGAGCATATCTAA
1 GATAG-CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
** *
3837738 GATAATAGATTTGGCGTCTCTGTGTTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
3837782 GAT-GACAGATTTGGCGTCTCTGTATTGTCA-ACGAACAGATCGAA
1 GATAG-CAGATTTGGCGTCTCTGTATTGACAGA-GAGCAGATCGAA
* * * *
3837826 GATAACAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
3837870 GATAGCAGATTTGGCGTCTCTGTATTGAC-GAAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAG-AGAGCAGATCGAA
* **
3837914 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCATATTAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * * *
3837958 TATAACAGATTTTGCATCTCTGTATTGACAGAGAGCAGATCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* **
3838002 GATAGCAGA--T----T-TCTATATTGATGGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
3838039 AATAGCAGATTTGGCATTTCTGTATTGACGGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
3838083 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
* *
3838127 GATAGCAGATTTGGCGTCT-TAGTATTGACAAAGAGCAGATTGAA
1 GATAGCAGATTTGGCGTCTCT-GTATTGACAGAGAGCAGATCGAA
* * * * * *
3838171 AATAACAGATTTTGCGTCTCTGTGTTAGA-TGTGGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATT-GACAG-AGAGCAGATCGAA
3838216 GATAGCAG
1 GATAGCAG
3838224 CTCTGACATT
Statistics
Matches: 687, Mismatches: 86, Indels: 41
0.84 0.11 0.05
Matches are distributed among these distances:
37 30 0.04
38 1 0.00
39 1 0.00
42 1 0.00
43 5 0.01
44 627 0.91
45 22 0.03
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (44 bp):
GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAA
Found at i:3840011 original size:21 final size:21
Alignment explanation
Indices: 3839987--3840041 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
3839977 CTTATAAATT
3839987 TTTATTATATATACATTTTAC
1 TTTATTATATATACATTTTAC
**
3840008 TTTA-TATATTATTTATTTTAC
1 TTTATTATA-TATACATTTTAC
*
3840029 TATATTTATATAT
1 TTTA-TTATATAT
3840042 GTTCCTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 17 0.61
22 3 0.11
23 4 0.14
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTATATATACATTTTAC
Found at i:3841733 original size:14 final size:14
Alignment explanation
Indices: 3841714--3841743 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3841704 TTATATCGAG
3841714 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
3841728 ACCAATCCAATTCA
1 ACCAATCCAAATCA
3841742 AC
1 AC
3841744 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:3846320 original size:49 final size:52
Alignment explanation
Indices: 3846243--3846341 Score: 134
Period size: 49 Copynumber: 2.0 Consensus size: 52
3846233 AAAACATTTG
*
3846243 AAAATAGATAATATATGTAAAATAGTTT-AAAATGAAATA-TATATATAAATC
1 AAAATAGATAATATATGTAAAATAGTTTAAAAAT-AAATAGTAAATATAAATC
* *
3846294 AAAATAGAT-A-ATATGTATAATGGTTTAAAAATAAATAGTAAATATAAA
1 AAAATAGATAATATATGTAAAATAGTTTAAAAATAAATAGTAAATATAAA
3846342 AAACTTAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 19 0.44
50 15 0.35
51 9 0.21
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (52 bp):
AAAATAGATAATATATGTAAAATAGTTTAAAAATAAATAGTAAATATAAATC
Found at i:3847510 original size:29 final size:29
Alignment explanation
Indices: 3847452--3847510 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
3847442 TAAAATGGAC
* * *
3847452 TCAAAATAGAAAAAAATAAAAACAGGAAA
1 TCAAAAAAGAAAAAAAGAAAAACAGAAAA
*
3847481 TCAAAAAAGAAAAAAACGAGAAA-AGAAAA
1 TCAAAAAAGAAAAAAA-GAAAAACAGAAAA
3847510 T
1 T
3847511 TACAATAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.73, C:0.07, G:0.12, T:0.08
Consensus pattern (29 bp):
TCAAAAAAGAAAAAAAGAAAAACAGAAAA
Found at i:3852208 original size:27 final size:27
Alignment explanation
Indices: 3852167--3852248 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
3852157 TGTCAAGAAG
*
3852167 ATCAGTTTCAAGTTTCTGTGTGCAGTT
1 ATCAGTTTCAGGTTTCTGTGTGCAGTT
3852194 ATCAGTTTCAGGTTTCTGTGTGCAGTT
1 ATCAGTTTCAGGTTTCTGTGTGCAGTT
*
3852221 ATCATTTTCAGGTTTCTGTGTGCAGTT
1 ATCAGTTTCAGGTTTCTGTGTGCAGTT
3852248 A
1 A
3852249 GGAGACTCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.17, C:0.15, G:0.23, T:0.45
Consensus pattern (27 bp):
ATCAGTTTCAGGTTTCTGTGTGCAGTT
Found at i:3857398 original size:36 final size:36
Alignment explanation
Indices: 3857346--3857434 Score: 160
Period size: 36 Copynumber: 2.5 Consensus size: 36
3857336 CCCAACTACT
*
3857346 GTATACGTGAACAGTACTGTATACATGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACATGAATAGTGCC
*
3857382 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACATGAATAGTGCC
3857418 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
3857435 CGTAAACGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACATGAATAGTGCC
Found at i:3857437 original size:18 final size:18
Alignment explanation
Indices: 3857346--3857438 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
3857336 CCCAACTACT
* *
3857346 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
* *
3857364 GTATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
*
3857382 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
3857400 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
3857418 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
3857436 GTA
1 GTA
3857439 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3860969 original size:23 final size:24
Alignment explanation
Indices: 3860923--3860974 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
3860913 TAAAAATTAA
*
3860923 ATTAAATTTTTATATTTTTATATT
1 ATTAAAATTTTATATTTTTATATT
*
3860947 TTTAAAATTTTA-A-TTTTATTATT
1 ATTAAAATTTTATATTTTTA-TATT
3860970 ATTAA
1 ATTAA
3860975 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAAATTTTATATTTTTATATT
Found at i:3864376 original size:29 final size:30
Alignment explanation
Indices: 3864343--3864399 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
3864333 AACCAAAAAT
*
3864343 AAAATATTTA-CAACAATGACCT-AAATTCA
1 AAAATAATTATCAA-AATGACCTGAAATTCA
*
3864372 AAAATAATTATTAAAATGACCTGAAATT
1 AAAATAATTATCAAAATGACCTGAAATT
3864400 AATAATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (30 bp):
AAAATAATTATCAAAATGACCTGAAATTCA
Found at i:3867325 original size:20 final size:20
Alignment explanation
Indices: 3867300--3867338 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3867290 CTATTGTCGA
*
3867300 AACTTTTTTTTTTGAAAATC
1 AACTTTTTATTTTGAAAATC
3867320 AACTTTTTATTTTGAAAAT
1 AACTTTTTATTTTGAAAAT
3867339 GAAAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (20 bp):
AACTTTTTATTTTGAAAATC
Found at i:3870961 original size:24 final size:25
Alignment explanation
Indices: 3870934--3870991 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
3870924 TACATTGATG
*
3870934 ATTTTAAATTG-TTTCATACTATTT
1 ATTTTAAATTGCTTTCATAATATTT
**
3870958 ATTTTAAATTGCTTTTTGTAATATTT
1 ATTTTAAATTGC-TTTCATAATATTT
3870984 ATTTTAAA
1 ATTTTAAA
3870992 CGTGTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.38
26 18 0.62
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (25 bp):
ATTTTAAATTGCTTTCATAATATTT
Found at i:3871008 original size:27 final size:27
Alignment explanation
Indices: 3870948--3871009 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
3870938 TAAATTGTTT
* *
3870948 CATACTATTTATTTTAAATTGCTTTTTG
1 CATA-TATTTATTTTAAAGTGCTTTTTA
*
3870976 TA-ATATTTATTTTAAACGTG-TTTTTA
1 CATATATTTATTTTAAA-GTGCTTTTTA
3871002 CATATATT
1 CATATATT
3871010 ACTCATCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 19 0.68
27 8 0.29
28 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.56
Consensus pattern (27 bp):
CATATATTTATTTTAAAGTGCTTTTTA
Found at i:3873418 original size:8 final size:7
Alignment explanation
Indices: 3873361--3873420 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
3873351 TAACAAGGAC
3873361 AATAATA
1 AATAATA
3873368 AATAATA
1 AATAATA
*
3873375 ATTAAT-
1 AATAATA
*
3873381 AATACTA
1 AATAATA
* *
3873388 AATTAGTT
1 AA-TAATA
3873396 AATAATAA
1 AATAAT-A
3873404 AATAATA
1 AATAATA
3873411 AATAAATA
1 AAT-AATA
3873419 AA
1 AA
3873421 CACAAAAAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
6 4 0.10
7 21 0.50
8 17 0.40
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (7 bp):
AATAATA
Found at i:3873545 original size:3 final size:3
Alignment explanation
Indices: 3873525--3873847 Score: 59
Period size: 3 Copynumber: 105.7 Consensus size: 3
3873515 AAACATACAC
* * * * * *
3873525 TAA TAT TAA TAA TGA TAA TAA TAC TAA CAA TAG TAA TGA -AA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * *
3873570 AAA AAA GTAA -ATA TAA T-A TAA TAA TAA TAT TAA -AA TAA -AG TAA
1 TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
3873613 TTAA AAA TAA TAC T-A TATA TAA -ATA TATA TACA TATA TAA TAA -AA
1 -TAA TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A TA-A TAA TAA TAA
* * * * *
3873658 CATA TAC TAA TAT TAA TAA TAA TAA TAA TAC TAGA -AA TAA TAA TGA
1 TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * *
3873704 -AA TACA AAA AAA TAA AAA TAA -ACA TAA T-A TAA TAA TAA TAT TAA
1 TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * * * *
3873748 -AT TAA -AG TAA TTAA AAA TAA CAC T-A TATA TAAA TATA TATA TACC
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TA-A T-AA TA-A TA-A TA-A
* *
3873793 TATA TAA TAA -AA -ACA TACA CTAA TAA TAA TAA TAA TAA TAA CAA TAG
1 TA-A TAA TAA TAA TA-A TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA
3873840 TAA TAA TA
1 TAA TAA TA
3873848 TTGAAATACA
Statistics
Matches: 231, Mismatches: 57, Indels: 64
0.66 0.16 0.18
Matches are distributed among these distances:
2 22 0.10
3 157 0.68
4 49 0.21
5 3 0.01
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:3873571 original size:145 final size:141
Alignment explanation
Indices: 3873439--3873926 Score: 657
Period size: 145 Copynumber: 3.4 Consensus size: 141
3873429 GGAAGGCATG
3873439 TAATATAATAATAATATTAAAATAAAGTAATTAAAAA-AATACTATATATAAATATATGTATATA
1 TAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATA--TATATA
* *
3873503 CACATATAATAAAAACATACACTAATATTAATAATGATAATAATACTAACAATAGTAATGAAATA
64 CACATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAA-AATAATAATGAAATA
3873568 CAAAAAAAGTAAATA
128 CAAAAAAAG-AAATA
3873583 TAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT-AA-ATATATATACA
1 TAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACA
* *
3873646 TATATAAT-AAAACATATACTAATATTAATAATAATAATAATACTAGAAATAATAATGAAATACA
66 CATATAATAAAAACATACACTAATATTAATAATAATAATAATACTA-AAATAATAATGAAATAC-
*
3873710 AAAAAATAAAAATAAACA
129 AAAAAA-AGAAAT----A
* *
3873728 TAATATAATAATAATATTAAATTAAAGTAATTAAAAATAACACTATATATAAATATATATATAC-
1 TAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACA
* * * * *
3873792 CTATATAATAAAAACATACACTAATAATAATAATAATAATAACAATAGTAATAATATTGAAATAC
66 C-ATATAATAAAAACATACACTAATATTAATAATAATAATAATACTA-AAATAATAATGAAATAC
*
3873857 --AAAAAGCAAATG
129 AAAAAAAG-AAATA
* *
3873869 TAATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATGTATAAATATA
1 TAATATAATAATAATATTAAAATAAAGTAATT-AAAAATAATACTATATATAAATATA
3873927 AATACATATA
Statistics
Matches: 310, Mismatches: 20, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
140 50 0.16
141 56 0.18
142 24 0.08
143 3 0.01
144 40 0.13
145 69 0.22
146 2 0.01
147 17 0.05
148 49 0.16
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (141 bp):
TAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACA
CATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAAAATAATAATGAAATACAA
AAAAAGAAATA
Found at i:3873670 original size:20 final size:21
Alignment explanation
Indices: 3873622--3873676 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
3873612 ATTAAAAATA
*
3873622 ATACT-ATAT-ATAAATATAT
1 ATACTAATATAATAAATACAT
3873641 ATAC-ATATATAATAAA-ACAT
1 ATACTA-ATATAATAAATACAT
3873661 ATACTAATATTAATAA
1 ATACTAATA-TAATAA
3873677 TAATAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
19 4 0.13
20 14 0.47
21 12 0.40
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
ATACTAATATAATAAATACAT
Found at i:3873954 original size:25 final size:25
Alignment explanation
Indices: 3873896--3873973 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
3873886 TAAAATAAAG
* *
3873896 TAATTAAAAAATA-ATACT-ATGTA
1 TAATAAAAAAATACATACTCATATA
* * *
3873919 TAA-ATATAAATACATA-TACGTATA
1 TAATAAAAAAATACATACT-CATATA
*
3873943 TAATAAAAAAATATATACTCATATA
1 TAATAAAAAAATACATACTCATATA
3873968 TAATAA
1 TAATAA
3873974 TAATAGTAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
22 7 0.17
23 6 0.15
24 6 0.15
25 21 0.51
26 1 0.02
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (25 bp):
TAATAAAAAAATACATACTCATATA
Found at i:3873958 original size:23 final size:23
Alignment explanation
Indices: 3873896--3873960 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
3873886 TAAAATAAAG
* *
3873896 TAATTAAAAAATAATACTATGTATA
1 TAATAAAAAAAT-ATA-TACGTATA
* * *
3873921 -AATATAAATACATATACGTATA
1 TAATAAAAAAATATATACGTATA
3873943 TAATAAAAAAATATATAC
1 TAATAAAAAAATATATAC
3873961 TCATATATAA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
22 7 0.23
23 17 0.55
24 7 0.23
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (23 bp):
TAATAAAAAAATATATACGTATA
Found at i:3873973 original size:288 final size:282
Alignment explanation
Indices: 3873439--3874008 Score: 767
Period size: 288 Copynumber: 2.0 Consensus size: 282
3873429 GGAAGGCATG
*
3873439 TAATATAATAATAATATTAAAATAAAGTAATTAAAAAAATACTATATATAAATATATGTATATAC
1 TAATATAATAATAATATTAAAATAAAGTAATTAAAAAAACACTATATATAAATATA-GTATATAC
* * * * *
3873504 ACATATAATAAAAACATACACTAATATTAATAATGATAATAATACTAACAATAGTAATGAAATAC
65 ACATATAATAAAAACATACACTAATAATAATAATAATAATAACAATAACAATAATAATGAAATAC
* *
3873569 AAAAAAAGTAAATATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATA
130 -AAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAAATAATACTATATATA
* *
3873634 AATATATATACATATATAATAAAACATATACTAATATTAATAATAATAATAATACTAGAAATAAT
194 AATATAAATACATATATAATAAAACATATAC-AATATTAATAATAATAATAATAATAGAAATAAT
3873699 AATGAAATACAAAAAAATAAAAATAAACA
258 AAT--AAT--AAAAAAATAAAAATAAACA
*
3873728 TAATATAATAATAATATTAAATTAAAGTAATTAAAAATAACACTATATATAAATATA-TATATAC
1 TAATATAATAATAATATTAAAATAAAGTAATTAAAAA-AACACTATATATAAATATAGTATATAC
** *
3873792 -CTATATAATAAAAACATACACTAATAATAATAATAATAATAACAATAGTAATAATATTGAAATA
65 AC-ATATAATAAAAACATACACTAATAATAATAATAATAATAACAATAACAATAATAATGAAATA
* *
3873856 C-AAAAAGCAAATGTAATATAATAAAAATATTAAAATAAAGTAATTAAAAAATAATACTATGTAT
129 CAAAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATT-AAAAATAATACTATATAT
* * *
3873920 AAATATAAATACATATACGTATATAATAA-A-A-A-AATATATACTCATATATAATAATAATAGT
193 AAATATAAATACATATA--TA-ATAA-AACATATACAATAT-TAATAATA-ATAATAATAATAGA
*
3873981 AATAATAATAATATAAAAATAAAAATAA
252 AATAATAATAATAAAAAAATAAAAATAA
3874009 TAGTGTTAGA
Statistics
Matches: 252, Mismatches: 20, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
284 15 0.06
286 49 0.19
287 40 0.16
288 84 0.33
289 39 0.15
290 23 0.09
291 2 0.01
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (282 bp):
TAATATAATAATAATATTAAAATAAAGTAATTAAAAAAACACTATATATAAATATAGTATATACA
CATATAATAAAAACATACACTAATAATAATAATAATAATAACAATAACAATAATAATGAAATACA
AAAAAGCAAATATAATATAATAAAAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAA
TATAAATACATATATAATAAAACATATACAATATTAATAATAATAATAATAATAGAAATAATAAT
AATAAAAAAATAAAAATAAACA
Found at i:3873975 original size:3 final size:3
Alignment explanation
Indices: 3873967--3874010 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
3873957 ATACTCATAT
* * *
3873967 ATA ATA ATA ATA GTA ATA ATA ATA AT- ATA AAA ATA AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3874011 GTGTTAGACA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:3875617 original size:30 final size:30
Alignment explanation
Indices: 3875574--3875632 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
3875564 CTTAACAAAC
3875574 AAATGCCTCTAAAATAATAACAAAATTAAT
1 AAATGCCTCTAAAATAATAACAAAATTAAT
* * *
3875604 AAATGTCTTTAAAATAATAACCAAATTAA
1 AAATGCCTCTAAAATAATAACAAAATTAA
3875633 CAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAT
Found at i:3877190 original size:21 final size:21
Alignment explanation
Indices: 3877143--3877190 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
3877133 AAGAATTCGC
* *
3877143 AATTTTTTAGTTTTGTTTTAG
1 AATTTTTTAGTTTTGTTATAA
*
3877164 ATTTTTTTAGTTGTT-TTATAA
1 AATTTTTTAGTT-TTGTTATAA
3877185 AATTTT
1 AATTTT
3877191 AGAATTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
AATTTTTTAGTTTTGTTATAA
Found at i:3877435 original size:20 final size:20
Alignment explanation
Indices: 3877410--3877459 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3877400 TGGCTTAAAA
3877410 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3877430 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3877447 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3877460 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3882074 original size:20 final size:20
Alignment explanation
Indices: 3882049--3882098 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
3882039 TGGCTTAAAA
3882049 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
3882069 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
3882086 GTGGTAGTGGATT
1 TTGGTAGTGGATT
3882099 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:3885623 original size:22 final size:24
Alignment explanation
Indices: 3885572--3885624 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
3885562 TTTTTATGAC
3885572 TAAATTATTGTTATTAAATATGCTT
1 TAAATTATTGTTATTAAATAT-CTT
* *
3885597 GAAATTATTG-TATTATATAT-TT
1 TAAATTATTGTTATTAAATATCTT
3885619 TAAATT
1 TAAATT
3885625 GAATTTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 7 0.28
24 9 0.36
25 9 0.36
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.53
Consensus pattern (24 bp):
TAAATTATTGTTATTAAATATCTT
Found at i:3890837 original size:11 final size:11
Alignment explanation
Indices: 3890803--3890843 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
3890793 TATTTCAAGT
*
3890803 ATAAATATATA
1 ATAAATATTTA
*
3890814 TTAAA-ATTT-
1 ATAAATATTTA
3890823 ATAAATATTTA
1 ATAAATATTTA
3890834 ATAAATATTT
1 ATAAATATTT
3890844 TATAGTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 4 0.16
10 7 0.28
11 14 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATAAATATTTA
Found at i:3890838 original size:20 final size:21
Alignment explanation
Indices: 3890802--3890843 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
3890792 ATATTTCAAG
*
3890802 TATAAATATATATTAAA-ATT
1 TATAAATATATAATAAATATT
*
3890822 TATAAATATTTAATAAATATT
1 TATAAATATATAATAAATATT
3890843 T
1 T
3890844 TATAGTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAAATATATAATAAATATT
Found at i:3892788 original size:24 final size:24
Alignment explanation
Indices: 3892759--3892804 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
3892749 CAATTAAACA
3892759 AACTAGTTAAATTCTATTAAAAGG
1 AACTAGTTAAATTCTATTAAAAGG
3892783 AACTAGTTAAATTCTATTAAAA
1 AACTAGTTAAATTCTATTAAAA
3892805 CTCTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (24 bp):
AACTAGTTAAATTCTATTAAAAGG
Found at i:3894798 original size:24 final size:25
Alignment explanation
Indices: 3894770--3894826 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
3894760 TACTACTAAT
3894770 TTGATA-AATTATT-TAATATCATAA
1 TTGATATAATTATTGTAATA-CATAA
*
3894794 TTGATATAATTTTTGTAATACAT-A
1 TTGATATAATTATTGTAATACATAA
*
3894818 TTTATATAA
1 TTGATATAA
3894827 ATAATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 15 0.52
25 9 0.31
26 5 0.17
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (25 bp):
TTGATATAATTATTGTAATACATAA
Found at i:3913701 original size:15 final size:16
Alignment explanation
Indices: 3913666--3913695 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3913656 CTAGTTATAA
3913666 AATAAATTTTATTTTT
1 AATAAATTTTATTTTT
3913682 AATAAATTTT-TTTT
1 AATAAATTTTATTTT
3913696 ACATAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATAAATTTTATTTTT
Found at i:3923033 original size:61 final size:61
Alignment explanation
Indices: 3922906--3923033 Score: 154
Period size: 61 Copynumber: 2.1 Consensus size: 61
3922896 TGGGAAATCG
* * *
3922906 ACACGGCCTGGACTTCCTTACATGGGTAGACCACACAGCTATGTAGTTTTAGCAGACTCTA
1 ACACGGCCTGGACTTCCTTACATGGGTAGACCACACAGCTACGTAGTTTTAACAGACTCAA
* * *
3922967 GCACGGCCTGGACTTCCTTACATTGGTAGACCACAC-GC-CCGT-GTCTATTCAACAGACTCAA
1 ACACGGCCTGGACTTCCTTACATGGGTAGACCACACAGCTACGTAGT-T-TT-AACAGACTCAA
3923028 ACACGG
1 ACACGG
3923034 TTTGAAGCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
58 2 0.04
59 3 0.05
60 4 0.07
61 48 0.84
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (61 bp):
ACACGGCCTGGACTTCCTTACATGGGTAGACCACACAGCTACGTAGTTTTAACAGACTCAA
Found at i:3927009 original size:15 final size:16
Alignment explanation
Indices: 3926972--3927011 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
3926962 GAAAAGGTTA
3926972 AAAAGGATATCAAATG
1 AAAAGGATATCAAATG
*
3926988 AAAAGGATATCAATTG
1 AAAAGGATATCAAATG
3927004 -AAAGGATA
1 AAAAGGATA
3927012 GCATTGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.55, C:0.05, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAAGGATATCAAATG
Found at i:3929740 original size:42 final size:41
Alignment explanation
Indices: 3929693--3929815 Score: 129
Period size: 43 Copynumber: 2.9 Consensus size: 41
3929683 TACAATACTA
*
3929693 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATGTCG
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCTCATATCG
* * * * **
3929735 ATGCCAATAACCTAGCTGTGGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACAGTAA-TCTCATATCG
* *
3929778 ATGTCATATCCCAGATATGGTCTTACACGTAGTCTCAT
1 ATGCCATATCCCAGATATGGTCTTACA-GTAATCTCAT
3929816 TAACCCTAAT
Statistics
Matches: 63, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAGTAATCTCATATCG
Found at i:3929772 original size:43 final size:42
Alignment explanation
Indices: 3929693--3929815 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
3929683 TACAATACTA
* ** *
3929693 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCATGTCG
1 ATGCCATAACCCAGATATGGTCTTACA-CAAAGTCTCATATCG
* * *
3929735 ATGCCAATAACCTAGCTGTGGTCTTACACAAAGTCTCATATCG
1 ATGCC-ATAACCCAGATATGGTCTTACACAAAGTCTCATATCG
* * **
3929778 ATGTCATATCCCAGATATGGTCTTACACGTAGTCTCAT
1 ATGCCATAACCCAGATATGGTCTTACACAAAGTCTCAT
3929816 TAACCCTAAT
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 34 0.52
43 31 0.48
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATAACCCAGATATGGTCTTACACAAAGTCTCATATCG
Found at i:3930915 original size:10 final size:10
Alignment explanation
Indices: 3930902--3931056 Score: 75
Period size: 10 Copynumber: 15.2 Consensus size: 10
3930892 AAAAATCAAT
3930902 AAAATTTATA
1 AAAATTTATA
*
3930912 AAAAATTATA
1 AAAATTTATA
*
3930922 AAATTTTAATA
1 AAAATTT-ATA
3930933 AATAATATT-T-
1 AA-AAT-TTATA
* *
3930943 AGAAGTTATTA
1 AAAATTTA-TA
* *
3930954 AAAATTAGAAA
1 AAAATT-TATA
*
3930965 AAAAATTATA
1 AAAATTTATA
* *
3930975 AAAATATGTA
1 AAAATTTATA
*
3930985 AAATTTTATA
1 AAAATTTATA
*
3930995 AAAA-TCATAA
1 AAAATTTAT-A
3931005 AAAATTTATA
1 AAAATTTATA
*
3931015 AAAATATATA
1 AAAATTTATA
* *
3931025 GAAATATATAA
1 AAAATTTAT-A
*
3931036 AAAAATTAT-
1 AAAATTTATA
*
3931045 AAATTTTATA
1 AAAATTTATA
3931055 AA
1 AA
3931057 GTCGTAAGAA
Statistics
Matches: 105, Mismatches: 29, Indels: 22
0.67 0.19 0.14
Matches are distributed among these distances:
8 2 0.02
9 12 0.11
10 60 0.57
11 26 0.25
12 3 0.03
13 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (10 bp):
AAAATTTATA
Found at i:3930917 original size:20 final size:18
Alignment explanation
Indices: 3930892--3930939 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
3930882 ATTAAAAAAT
3930892 AAAAATCAATAAAATTTATA
1 AAAAAT-AATAAAATTT-TA
*
3930912 AAAAATTATAAAATTTTA
1 AAAAATAATAAAATTTTA
*
3930930 ATAAATAATA
1 AAAAATAATA
3930940 TTTAGAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 9 0.36
20 6 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAAATAATAAAATTTTA
Found at i:3930987 original size:20 final size:19
Alignment explanation
Indices: 3930964--3931115 Score: 80
Period size: 20 Copynumber: 7.7 Consensus size: 19
3930954 AAAATTAGAA
3930964 AAAAAATTATAAAAATATGT
1 AAAAAATTATAAAAATAT-T
**
3930984 AAAATTTTATAAAAATCA-T
1 AAAAAATTATAAAAAT-ATT
3931003 AAAAAATTTATAAAAATA-T
1 AAAAAA-TTATAAAAATATT
* *
3931022 ATAGAAATATATAAAAAAATT
1 A-AAAAAT-TATAAAAATATT
* * * **
3931043 -ATAAATTTTATAAAGTCGT
1 AAAAAATTATA-AAAATATT
3931062 AAGAAAATTATAAAAA-ATGT
1 AA-AAAATTATAAAAATAT-T
* *
3931082 AAAGAAA-TATAAAATTCATA
1 AAA-AAATTATAAAAAT-ATT
3931102 AAAAAATTATAAAA
1 AAAAAATTATAAAA
3931116 TTTATTGTAT
Statistics
Matches: 100, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
18 3 0.03
19 29 0.29
20 57 0.57
21 11 0.11
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAAAATTATAAAAATATT
Found at i:3931039 original size:41 final size:39
Alignment explanation
Indices: 3930890--3931047 Score: 131
Period size: 41 Copynumber: 3.8 Consensus size: 39
3930880 TGATTAAAAA
*
3930890 ATAAAAATCA-ATAAAATTTATAAAAAATTAT-AAAATTTT
1 ATAAAAAT-ATATAAAA-TTATAAAAAATTATAAAAAATTT
* * * * *
3930929 AATAAATAATATTTAGAAGTTATTAAAAATTAGAAAAAAAATT
1 -ATAAA-AATATATA-AAATTATAAAAAATTA-TAAAAAATTT
* * *
3930972 ATAAAAATATGTAAAATTTTATAAAAATCATAAAAAATTT
1 ATAAAAATATATAAAATTATA-AAAAATTATAAAAAATTT
3931012 ATAAAAATATATAGAAATATATAAAAAAATTATAAA
1 ATAAAAATATATA-AAAT-TAT-AAAAAATTATAAA
3931048 TTTTATAAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
40 31 0.33
41 35 0.38
42 20 0.22
43 7 0.08
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (39 bp):
ATAAAAATATATAAAATTATAAAAAATTATAAAAAATTT
Found at i:3931049 original size:60 final size:60
Alignment explanation
Indices: 3930967--3931092 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
3930957 ATTAGAAAAA
* *
3930967 AAAT-TATAAAAATATGTAAAATTTTATAAAAATCATAA-AAAATT-TATAAAAATATATAG
1 AAATATATAAAAAAATGTAAAATTTTAT-AAAATCATAAGAAAATTATA-AAAAATATAAAG
* * *
3931026 AAATATATAAAAAAAT-TATAAATTTTATAAAGTCGTAAGAAAATTATAAAAAATGTAAAG
1 AAATATATAAAAAAATGTA-AAATTTTATAAAATCATAAGAAAATTATAAAAAATATAAAG
3931086 AAATATA
1 AAATATA
3931093 AAATTCATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
59 14 0.24
60 42 0.72
61 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (60 bp):
AAATATATAAAAAAATGTAAAATTTTATAAAATCATAAGAAAATTATAAAAAATATAAAG
Done.