Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 79 of 311
Found at i:24701175 original size:27 final size:27
Alignment explanation
Indices: 24701145--24701322 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
24701135 ATATTGAGCC
* *
24701145 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
24701172 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
24701199 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*** ** *
24701227 CGCACACTTAGTGCCGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
24701254 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
24701281 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
24701308 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24701323 GTACAATTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
26 2 0.02
27 93 0.79
28 22 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:24701257 original size:55 final size:54
Alignment explanation
Indices: 24701145--24701322 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
24701135 ATATTGAGCC
* * *
24701145 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
24701199 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
24701254 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
24701308 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24701323 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:24703542 original size:33 final size:33
Alignment explanation
Indices: 24703517--24703609 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
24703507 ACTTCTCTTG
* *
24703517 GCCTGTATCTATCTCAGTACTCCACTCCTCCCA
1 GCCTGTATCTACCGCAGTACTCCACTCCTCCCA
24703550 GCCTGTATCTACCGCAGTACTCCACTCCTCCC-
1 GCCTGTATCTACCGCAGTACTCCACTCCTCCCA
* * **
24703582 GACTCGTATCCACTACAGTACTCCACTC
1 GCCT-GTATCTACCGCAGTACTCCACTC
24703610 ATCCTGGCTC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 3 0.06
33 50 0.94
ACGTcount: A:0.19, C:0.43, G:0.11, T:0.27
Consensus pattern (33 bp):
GCCTGTATCTACCGCAGTACTCCACTCCTCCCA
Found at i:24706139 original size:40 final size:40
Alignment explanation
Indices: 24706017--24706144 Score: 136
Period size: 40 Copynumber: 3.2 Consensus size: 40
24706007 TATTCGGATG
*
24706017 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAG-CT
* * *
24706057 A-ATTCCGAGCTAAGCCCCGAAGGCATTTGTGCGAGTTA-CT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCT
* * *
24706097 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAGTAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCT
*
24706137 ATATCCGG
1 ATAACCGG
24706145 TTAAATTCCG
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
39 3 0.04
40 67 0.93
41 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCT
Found at i:24712844 original size:80 final size:80
Alignment explanation
Indices: 24712740--24712893 Score: 290
Period size: 80 Copynumber: 1.9 Consensus size: 80
24712730 CTTTTTTTAC
*
24712740 GTTGATTTTTACGAAGAATTTGCTTGAGTAAATCGAAACAGATGCTAAAGACCTTCTTGTCCCGA
1 GTTGATTTTTACGAAGAATTTGCTTGAGTAAATCGAAACAAATGCTAAAGACCTTCTTGTCCCGA
24712805 AGTAATAAATTTTGT
66 AGTAATAAATTTTGT
*
24712820 GTTGATTTTTATGAAGAATTTGCTTGAGTAAATCGAAACAAATGCTAAAGACCTTCTTGTCCCGA
1 GTTGATTTTTACGAAGAATTTGCTTGAGTAAATCGAAACAAATGCTAAAGACCTTCTTGTCCCGA
24712885 AGTAATAAA
66 AGTAATAAA
24712894 ATGCCACATC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (80 bp):
GTTGATTTTTACGAAGAATTTGCTTGAGTAAATCGAAACAAATGCTAAAGACCTTCTTGTCCCGA
AGTAATAAATTTTGT
Found at i:24713321 original size:15 final size:15
Alignment explanation
Indices: 24713297--24713330 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
24713287 GACTAATATG
*
24713297 AAAATAATAATAATA
1 AAAATAATAAAAATA
*
24713312 AAAATGATAAAAATA
1 AAAATAATAAAAATA
24713327 AAAA
1 AAAA
24713331 AAATCCAAAT
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:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAATAATAAAAATA
Found at i:24713326 original size:18 final size:18
Alignment explanation
Indices: 24713300--24713334 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24713290 TAATATGAAA
* *
24713300 ATAATAATAATAAAAATG
1 ATAAAAATAAAAAAAATG
24713318 ATAAAAATAAAAAAAAT
1 ATAAAAATAAAAAAAAT
24713335 CCAAATCTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAAAATAAAAAAAATG
Found at i:24713486 original size:21 final size:20
Alignment explanation
Indices: 24713462--24713515 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
24713452 AGAAAATCGA
24713462 ATATAAAAATAAAATAAGAAT-
1 ATATAAAAATAAAAT-A-AATG
*
24713483 ATATATAAA-AAAATAAATG
1 ATATAAAAATAAAATAAATG
24713502 ATATAAAAAATAAA
1 ATAT-AAAAATAAA
24713516 TAACAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 3 0.11
19 5 0.18
20 9 0.32
21 11 0.39
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (20 bp):
ATATAAAAATAAAATAAATG
Found at i:24713511 original size:16 final size:17
Alignment explanation
Indices: 24713485--24713516 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24713475 ATAAGAATAT
24713485 ATATAAAAAAATAAATG
1 ATATAAAAAAATAAATG
24713502 ATAT-AAAAAATAAAT
1 ATATAAAAAAATAAAT
24713517 AACAAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
ATATAAAAAAATAAATG
Found at i:24713787 original size:28 final size:30
Alignment explanation
Indices: 24713748--24713811 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
24713738 AAATATGTAT
24713748 ATAATAAAATAACATAATATA-AATA-AAAA
1 ATAA-AAAATAACATAATATAGAATAGAAAA
** *
24713777 ATAAAAAATAATTTAATATAGAATAGTAAA
1 ATAAAAAATAACATAATATAGAATAGAAAA
24713807 ATAAA
1 ATAAA
24713812 TAAAAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 14 0.47
29 8 0.27
30 8 0.27
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (30 bp):
ATAAAAAATAACATAATATAGAATAGAAAA
Found at i:24715579 original size:93 final size:93
Alignment explanation
Indices: 24715466--24715637 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
24715456 CGCCCATAAG
* *
24715466 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24715531 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
24715559 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
24715624 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
24715638 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:24715634 original size:46 final size:46
Alignment explanation
Indices: 24715459--24715634 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
24715449 TGTAACCCGC
* * *
24715459 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
24715505 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
24715555 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
24715598 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
24715635 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:24718203 original size:51 final size:51
Alignment explanation
Indices: 24718148--24718266 Score: 229
Period size: 51 Copynumber: 2.3 Consensus size: 51
24718138 TTGATCCGAC
24718148 CTACTGCAACTTTAGAGGTATAGGACTTGTAACTTGTAGCTTTGATCTGCT
1 CTACTGCAACTTTAGAGGTATAGGACTTGTAACTTGTAGCTTTGATCTGCT
*
24718199 CTACTGCAACTTTAGAGGTATATGACTTGTAACTTGTAGCTTTGATCTGCT
1 CTACTGCAACTTTAGAGGTATAGGACTTGTAACTTGTAGCTTTGATCTGCT
24718250 CTACTGCAACTTTAGAG
1 CTACTGCAACTTTAGAG
24718267 AGATAAGATC
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (51 bp):
CTACTGCAACTTTAGAGGTATAGGACTTGTAACTTGTAGCTTTGATCTGCT
Found at i:24718595 original size:88 final size:88
Alignment explanation
Indices: 24718520--24719162 Score: 809
Period size: 88 Copynumber: 7.4 Consensus size: 88
24718510 CTTCGGTTTG
* * * ** * *
24718520 CTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAATCTGCTCCAATGCCATTTCAGGGAG
1 CTCCACTGGAACTTTAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAG
24718585 AAGAGATTTGTAGCTTTGATCTA
66 AAGAGATTTGTAGCTTTGATCTA
* * * * *
24718608 CTCCGCTGGAA-TTTCAATGAGATAAAAATTATGGCTTCAAGCCGCTCCAATGCCATTTTAGGGA
1 CTCCACTGGAACTTT-AAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGA
*
24718672 GAAGAGATTTGTAGCTTTTATCTA
65 GAAGAGATTTGTAGCTTTGATCTA
* *
24718696 CTCCACTGGAA-TTTCAAGGAGATAAGAATTGTGGCTTCGAGCCGCTCTAATGCCATTTCAGGGA
1 CTCCACTGGAACTTT-AAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGA
* *
24718760 GAAGAGATTTGTAGCTTCGGTCTA
65 GAAGAGATTTGTAGCTTTGATCTA
* * * *
24718784 CTCCGCTGGAACTTTAAAGAGATAAGAATTATAG-TTCGAA-CCGCTCCAATGCCATTTCAGGGA
1 CTCCACTGGAACTTTAAGGAGATAAGAATTGTGGCTTC-AAGCCGCTCCAATGCCATTTCAGGGA
* *
24718847 GAAGAGATTTTTAGTTTTGATCTA
65 GAAGAGATTTGTAGCTTTGATCTA
* * * * * *
24718871 CTCCGCTGAAACTTCATA-GAGATAAGAATTGTGGCTTCGAGTCGCTCCAATGCCATTTCAGGAA
1 CTCCACTGGAACTTTA-AGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGA
*
24718935 GAAGAGATTTGTAGCTTTAATCTA
65 GAAGAGATTTGTAGCTTTGATCTA
* *
24718959 CTCCACTGGAACTTCAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGTCATTTCAGGGAG
1 CTCCACTGGAACTTTAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAG
*
24719024 AAGAGATTTGTAGCTTCGATCTA
66 AAGAGATTTGTAGCTTTGATCTA
** * * *
24719047 CTCCGTTGGAACTTTAAGGAGATAAGAATTATGGCTTCAAGCCGCTCCAATGTCATTTTAGGGAG
1 CTCCACTGGAACTTTAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAG
* *
24719112 AAGAAATCTGTAGC--T--TCTA
66 AAGAGATTTGTAGCTTTGATCTA
* *
24719131 CTCCGCTGGAACTTGAAGGAGATAAGAATTGT
1 CTCCACTGGAACTTTAAGGAGATAAGAATTGT
24719163 TGATTTCAAC
Statistics
Matches: 486, Mismatches: 62, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
84 33 0.07
87 78 0.16
88 372 0.77
89 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.30
Consensus pattern (88 bp):
CTCCACTGGAACTTTAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGCCATTTCAGGGAG
AAGAGATTTGTAGCTTTGATCTA
Found at i:24718596 original size:44 final size:45
Alignment explanation
Indices: 24718335--24719128 Score: 291
Period size: 44 Copynumber: 18.1 Consensus size: 45
24718325 GATTCGCTAT
* * * * *
24718335 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA-AGACTT-TAA
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
* * * *
24718378 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATA-AGGTTAATGT--
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATT--TGTAG
* * * * * *
24718422 CTT-AAGTCTGCTCCATTGCAACTTCAAGGAGATA-AAACTTGTAA
1 CTTCAA-TCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
* * * * * * * *
24718466 TTTCAACCTGCCCCACTGCAACTTCAGGGAAAT-GAGGTTTGTGG
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
** * * * *
24718510 CTTCGGTTTGCTCCACTGCAACTTT-AGGGAGATA-AGACTTGTAT
1 CTTCAATCTGCTCCAATGCAA-TTTCAGGGAGATAGAGATTTGTAG
*
24718554 CTTCAATCTGCTCCAATGCCATTTCAGGGAGA-AGAGATTTGTAG
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
** * ** * ** * *
24718598 CTTTGATCTACTCCGCTGGAATTTCAATGAGATAAAAATTATG--G
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATT-TGTAG
* * * *
24718642 CTTCAAGCCGCTCCAATGCCATTTTAGGGAGA-AGAGATTTGTAG
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
** * * * * * *
24718686 CTTTTATCTACTCCACTGGAATTTCAAGGAGATA-AGAATTGTGG
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
* * * * *
24718730 CTTCGAGCCGCTCTAATGCCATTTCAGGGAGA-AGAGATTTGTAG
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
** * ** * ** * *
24718774 CTTCGGTCTACTCCGCTGGAACTTT-AAAGAGATA-AGAATTATAG
1 CTTCAATCTGCTCCAATGCAA-TTTCAGGGAGATAGAGATTTGTAG
* * *
24718818 -TTCGAA-CCGCTCCAATGCCATTTCAGGGAGA-AGAGATTTTTAG
1 CTTC-AATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
* ** * ** * * ** * *
24718861 TTTTGATCTACTCCGCTGAAACTTCATAGAGATA-AGAATTGTGG
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
* * *
24718905 CTTCGAGTC-GCTCCAATGCCATTTCAGGAAGA-AGAGATTTGTAG
1 CTTC-AATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
* * * * * * * *
24718949 CTTTAATCTACTCCACTGGAACTTCAAGGAGATA-AGAATTGTGG
1 CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
* *
24718993 CTTCAAGCCGCTCCAATGTC-ATTTCAGGGAGA-AGAGATTTGTAG
1 CTTCAATCTGCTCCAATG-CAATTTCAGGGAGATAGAGATTTGTAG
* * ** * * * * *
24719037 CTTCGATCTACTCCGTTGGAACTTT-AAGGAGATA-AGAATTATGG
1 CTTCAATCTGCTCCAATGCAA-TTTCAGGGAGATAGAGATTTGTAG
* * * * *
24719081 CTTCAAGCCGCTCCAATGTC-ATTTTAGGGAGA-AGAAATCTGTAG
1 CTTCAATCTGCTCCAATG-CAATTTCAGGGAGATAGAGATTTGTAG
24719125 CTTC
1 CTTC
24719129 TACTCCGCTG
Statistics
Matches: 525, Mismatches: 188, Indels: 75
0.67 0.24 0.10
Matches are distributed among these distances:
42 9 0.02
43 81 0.15
44 409 0.78
45 23 0.04
46 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (45 bp):
CTTCAATCTGCTCCAATGCAATTTCAGGGAGATAGAGATTTGTAG
Found at i:24718632 original size:176 final size:175
Alignment explanation
Indices: 24718441--24719180 Score: 789
Period size: 176 Copynumber: 4.2 Consensus size: 175
24718431 GCTCCATTGC
* * * * * *
24718441 AACTTCAAGGAGATAA-AACTTGTAATTTCAACCTGCCCCACTGCAACTTCAGGGA-AATGAGGT
1 AACTTCAAGGAGATAAGAA-TTGTGACTTCAACC-GCTCCAATGCAATTTCAGGGAGAA-GAGAT
* * * * * * ** * *
24718504 TTGTGGCTTCGGTTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAATCTGCTCCA
63 TTGTAGCTTCGATCTACTCCACTGCAACTTTAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCA
*
24718569 ATGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGG
128 ATGCCATTTCAGGGAGAAGAGATTTGTAGCTTTAATCTACTCCGCTGG
* * * * * * *
24718617 AATTTCAATGAGATAAAAATTATGGCTTCAAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATTT
1 AACTTCAAGGAGATAAGAATTGTGACTTCAA-CCGCTCCAATGCAATTTCAGGGAGAAGAGATTT
** * * *
24718682 GTAGCTTTTATCTACTCCACTGGAA-TTTCAAGGAGATAAGAATTGTGGCTTCGAGCCGCTCTAA
65 GTAGCTTCGATCTACTCCACTGCAACTTT-AAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAA
***
24718746 TGCCATTTCAGGGAGAAGAGATTTGTAGCTTCGGTCTACTCCGCTGG
129 TGCCATTTCAGGGAGAAGAGATTTGTAGCTTTAATCTACTCCGCTGG
* * * * *
24718793 AACTTTAAAGAGATAAGAATTAT-AGTTCGAACCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
1 AACTTCAAGGAGATAAGAATTGTGACTTC-AACCGCTCCAATGCAATTTCAGGGAGAAGAGATTT
* * * * * * * *
24718857 TTAGTTTTGATCTACTCCGCTGAAACTTCATA-GAGATAAGAATTGTGGCTTCGAGTCGCTCCAA
65 GTAGCTTCGATCTACTCCACTGCAACTTTA-AGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAA
* *
24718921 TGCCATTTCAGGAAGAAGAGATTTGTAGCTTTAATCTACTCCACTGG
129 TGCCATTTCAGGGAGAAGAGATTTGTAGCTTTAATCTACTCCGCTGG
*
24718968 AACTTCAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGTC-ATTTCAGGGAGAAGAGATT
1 AACTTCAAGGAGATAAGAATTGTGACTTCAA-CCGCTCCAATG-CAATTTCAGGGAGAAGAGATT
** * *
24719032 TGTAGCTTCGATCTACTCCGTTGGAACTTTAAGGAGATAAGAATTATGGCTTCAAGCCGCTCCAA
64 TGTAGCTTCGATCTACTCCACTGCAACTTTAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAA
* * * *
24719097 TGTCATTTTAGGGAGAAGAAATCTGTAGC--T--TCTACTCCGCTGG
129 TGCCATTTCAGGGAGAAGAGATTTGTAGCTTTAATCTACTCCGCTGG
* *
24719140 AACTTGAAGGAGATAAGAATTGTTGATTTCAACCTGCTCCA
1 AACTTCAAGGAGATAAGAATTG-TGACTTCAACC-GCTCCA
24719181 CTACTGCTTA
Statistics
Matches: 479, Mismatches: 72, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
172 35 0.07
173 13 0.03
174 1 0.00
175 154 0.32
176 269 0.56
177 7 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (175 bp):
AACTTCAAGGAGATAAGAATTGTGACTTCAACCGCTCCAATGCAATTTCAGGGAGAAGAGATTTG
TAGCTTCGATCTACTCCACTGCAACTTTAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATG
CCATTTCAGGGAGAAGAGATTTGTAGCTTTAATCTACTCCGCTGG
Found at i:24718875 original size:263 final size:263
Alignment explanation
Indices: 24718488--24719127 Score: 899
Period size: 263 Copynumber: 2.4 Consensus size: 263
24718478 CCACTGCAAC
* * * * * * * * *
24718488 TTCAGGGA-AATGAGGTTTGTGGCTTCGGTTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGT
1 TTCAGGGAGAA-GAGATTTGTAGCTTCGGTCTACTCCGCTGGAACTTTAAGGAGATAAGAATTAT
* * * *
24718552 ATCTTCAATCTGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGG
65 A-GTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGA
* * *
24718617 AATTTCA-ATGAGATAAAAATTATGGCTTCAAGCCGCTCCAATGCCATTTTAGGGAGAAGAGATT
129 AACTTCATA-GAGATAAAAATTATGGCTTCAAGCCGCTCCAATGCCATTTCAGGAAGAAGAGATT
* * * *
24718681 TGTAGCTTTTATCTACTCCACTGGAATTTCAAGGAGATAAGAATTGTGGCTTCGAGCCGCTCTAA
193 TGTAGCTTTAATCTACTCCACTGGAACTTCAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAA
24718746 TGCCAT
258 TGCCAT
*
24718752 TTCAGGGAGAAGAGATTTGTAGCTTCGGTCTACTCCGCTGGAACTTTAAAGAGATAAGAATTATA
1 TTCAGGGAGAAGAGATTTGTAGCTTCGGTCTACTCCGCTGGAACTTTAAGGAGATAAGAATTATA
* *
24718817 GTTCGAA-CCGCTCCAATGCCATTTCAGGGAGAAGAGATTTTTAGTTTTGATCTACTCCGCTGAA
66 GTTC-AAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAA
* * * *
24718881 ACTTCATAGAGATAAGAATTGTGGCTTCGAGTCGCTCCAATGCCATTTCAGGAAGAAGAGATTTG
130 ACTTCATAGAGATAAAAATTATGGCTTCAAGCCGCTCCAATGCCATTTCAGGAAGAAGAGATTTG
24718946 TAGCTTTAATCTACTCCACTGGAACTTCAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATG
195 TAGCTTTAATCTACTCCACTGGAACTTCAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATG
*
24719011 TCAT
260 CCAT
* * *
24719015 TTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGTTGGAACTTTAAGGAGATAAGAATTATG
1 TTCAGGGAGAAGAGATTTGTAGCTTCGGTCTACTCCGCTGGAACTTTAAGGAGATAAGAATTATA
* * * *
24719080 GCTTCAAGCCGCTCCAATGTCATTTTAGGGAGAAGAAATCTGTAGCTT
66 G-TTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTT
24719128 CTACTCCGCT
Statistics
Matches: 334, Mismatches: 37, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
263 240 0.72
264 92 0.28
265 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (263 bp):
TTCAGGGAGAAGAGATTTGTAGCTTCGGTCTACTCCGCTGGAACTTTAAGGAGATAAGAATTATA
GTTCAAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTGTAGCTTTGATCTACTCCGCTGAAA
CTTCATAGAGATAAAAATTATGGCTTCAAGCCGCTCCAATGCCATTTCAGGAAGAAGAGATTTGT
AGCTTTAATCTACTCCACTGGAACTTCAAGGAGATAAGAATTGTGGCTTCAAGCCGCTCCAATGC
CAT
Found at i:24719269 original size:86 final size:85
Alignment explanation
Indices: 24719176--24719686 Score: 322
Period size: 86 Copynumber: 6.0 Consensus size: 85
24719166 TTTCAACCTG
*
24719176 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAAGGAGACA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
24719241 AGATTCGCCGTCTTCGATCTA
66 AGA-TCGCCGTCTTCGATCTA
* * * * ** * ** *
24719262 CTCCACTACTGCTTAGGAAGACAAGAT-CTACAATCTTCAGCCTACTCCACTATTGCTTAGGGAG
1 CTCCACTACTGCTTAGGGAGATAGGATGGT---GGCTTAAATCTACTCCACTACTGCTTAGGGAG
* * ** * ** * *
24719326 ATAGGAT-GGTGGCTTAAATTTT
63 ACAAGATCGCCGTCTTCGATCTA
* * ** * ** * *
24719348 CTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTGAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAGGA-T-GGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGA
* ** *
24719413 CAAGATCTACAATCTTC-AGCCTA
64 CAAGATC-GCCGTCTTCGA-TCTA
* * *
24719436 CTCCACTA-TCGCTTAGGGATATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTTAGGGAGAC
1 CTCCACTACT-GCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGAC
* * *
24719500 AAGATTTGTCGCCTTCGATC-A
65 AAGA-TCGCCGTCTTCGATCTA
* * ** * *
24719521 GCTCCACTACTGCTTAGGGAGATA--A-GATCG-TTCGATCTACTCCACTACTACTTAGGGAGAT
1 -CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGAC
* ** *
24719582 AAGATCTACAATCTTC-AGCCTA
65 AAGATC-GCCGTCTTCGA-TCTA
* * * * * *
24719604 CTCCACTACTGCTTAAGGAGATAGGATAGTGGTTTAAATCTGCTCCACTACTGCTTAGAGAGAGA
1 CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
*
24719669 AGATTTGCCGTCTTCGAT
66 AGA-TCGCCGTCTTCGAT
24719687 ATGTTCCACT
Statistics
Matches: 314, Mismatches: 88, Indels: 46
0.70 0.20 0.10
Matches are distributed among these distances:
81 2 0.01
82 56 0.18
83 4 0.01
84 2 0.01
85 4 0.01
86 181 0.58
87 10 0.03
88 54 0.17
89 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (85 bp):
CTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTTAGGGAGACA
AGATCGCCGTCTTCGATCTA
Found at i:24719274 original size:44 final size:43
Alignment explanation
Indices: 24719176--24719753 Score: 270
Period size: 44 Copynumber: 13.5 Consensus size: 43
24719166 TTTCAACCTG
* * ** * **
24719176 CTCCACTACTGCTTAGGGAGATAGGAT-GGTGGCTTAAATCTA
1 CTCCACTACTGCTTAGGGAGACAAGATCGCCGTCTTCGATCTA
*
24719218 CTCCACTACTGCTTAAGGAGACAAGATTCGCCGTCTTCGATCTA
1 CTCCACTACTGCTTAGGGAGACAAGA-TCGCCGTCTTCGATCTA
* * ** *
24719262 CTCCACTACTGCTTAGGAAGACAAGATCTACAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAGACAAGATC-GCCGTCTTCGA-TCTA
* * * ** * ** * *
24719306 CTCCACTATTGCTTAGGGAGATAGGAT-GGTGGCTTAAATTTT
1 CTCCACTACTGCTTAGGGAGACAAGATCGCCGTCTTCGATCTA
*
24719348 CTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGACAAGA-TCGCCGTCTTCGATCTA
* * ** *
24719392 CTCCACTACTGCTGAGGGAGACAAGATCTACAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAGACAAGATC-GCCGTCTTCGA-TCTA
* * * ** * ** *
24719436 CTCCACTA-TCGCTTAGGGATATAGGAT-GGTGGCTTAAATCTG
1 CTCCACTACT-GCTTAGGGAGACAAGATCGCCGTCTTCGATCTA
* * * *
24719478 CTCCACTACTGGTTAGGGAGACAAGATTTGTCGCCTTCGATC-A
1 CTCCACTACTGCTTAGGGAGACAAGA-TCGCCGTCTTCGATCTA
*
24719521 GCTCCACTACTGCTTAGGGAGATAAGAT---CG--TTCGATCTA
1 -CTCCACTACTGCTTAGGGAGACAAGATCGCCGTCTTCGATCTA
* * * ** *
24719560 CTCCACTACTACTTAGGGAGATAAGATCTACAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAGACAAGATC-GCCGTCTTCGA-TCTA
* * * * ** ** *
24719604 CTCCACTACTGCTTAAGGAGATAGGATAGTGGT-TTAAATCTG
1 CTCCACTACTGCTTAGGGAGACAAGATCGCCGTCTTCGATCTA
* * * * *
24719646 CTCCACTACTGCTTAGAGAGAGAAGATTTGCCGTCTTCGATATG
1 CTCCACTACTGCTTAGGGAGACAAGA-TCGCCGTCTTCGATCTA
* * * * * * ** *
24719690 TTCCACTGCT-CTTAGAGAGATAATATCTACAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAGACAAGATC-GCCGTCTTCGA-TCTA
24719733 CTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGA
24719754 TAGGATGGTG
Statistics
Matches: 401, Mismatches: 106, Indels: 56
0.71 0.19 0.10
Matches are distributed among these distances:
38 33 0.08
39 1 0.00
40 2 0.00
42 103 0.26
43 49 0.12
44 213 0.53
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (43 bp):
CTCCACTACTGCTTAGGGAGACAAGATCGCCGTCTTCGATCTA
Found at i:24719336 original size:130 final size:130
Alignment explanation
Indices: 24719167--24719549 Score: 597
Period size: 130 Copynumber: 2.9 Consensus size: 130
24719157 AATTGTTGAT
* * *
24719167 TTCAACCTGCTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTT
1 TTCAGCCTACTCCACTATTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTT
* *
24719232 AAGGAGACAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGAAGACAAGATCTACAATC
66 AGGGAGACAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATC
* *
24719297 TTCAGCCTACTCCACTATTGCTTAGGGAGATAGGATGGTGGCTTAAATTTTCTCCACTACTGCTT
1 TTCAGCCTACTCCACTATTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTT
* *
24719362 AGGGAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTGAGGGAGACAAGATCTACAATC
66 AGGGAGACAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATC
* * * *
24719427 TTCAGCCTACTCCACTATCGCTTAGGGATATAGGATGGTGGCTTAAATCTGCTCCACTACTGGTT
1 TTCAGCCTACTCCACTATTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTT
* * * *
24719492 AGGGAGACAAGATTTGTCGCCTTCGATC-AGCTCCACTACTGCTTAGGGAGATAAGATC
66 AGGGAGACAAGATTCGCCGTCTTCGATCTA-CTCCACTACTGCTTAGGGAGACAAGATC
24719550 GTTCGATCTA
Statistics
Matches: 232, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 232 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (130 bp):
TTCAGCCTACTCCACTATTGCTTAGGGAGATAGGATGGTGGCTTAAATCTACTCCACTACTGCTT
AGGGAGACAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGACAAGATCTACAATC
Found at i:24719564 original size:38 final size:38
Alignment explanation
Indices: 24719513--24719587 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
24719503 ATTTGTCGCC
*
24719513 TTCGATCAGCTCCACTACTGCTTAGGGAGATAAGATCG
1 TTCGATCAGCTCCACTACTACTTAGGGAGATAAGATCG
24719551 TTCGATCTA-CTCCACTACTACTTAGGGAGATAAGATC
1 TTCGATC-AGCTCCACTACTACTTAGGGAGATAAGATC
24719588 TACAATCTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 34 0.97
39 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (38 bp):
TTCGATCAGCTCCACTACTACTTAGGGAGATAAGATCG
Found at i:24719595 original size:168 final size:171
Alignment explanation
Indices: 24719348--24719712 Score: 490
Period size: 168 Copynumber: 2.1 Consensus size: 171
24719338 CTTAAATTTT
* * *
24719348 CTCCACTACTGCTTAGGGAGACAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTGAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATT--CCG-CTTCGATCTACTCCACTACTACTGAGGGAGA
* * *
24719413 CAAGATCTACAATCTTCAGCCTACTCCACTA-TCGCTTAGGGATATAGGATGGTGGCTTAAATCT
63 CAAGATCTACAATCTTCAGCCTACTCCACTACT-GCTTAAGGAGATAGGATAGTGGCTTAAATCT
* * *
24719477 GCTCCACTACTGGTTAGGGAGACAAGATTTGTCGCCTTCGATCA-G
127 GCTCCACTACTGCTTAGAGAGACAAGATTTGCCGCCTTCGAT-ATG
* *
24719522 CTCCACTACTGCTTAGGGAGATAAGA-T-CG-TTCGATCTACTCCACTACTACTTAGGGAGATAA
1 CTCCACTACTGCTTAGGGAGATAAGATTCCGCTTCGATCTACTCCACTACTACTGAGGGAGACAA
*
24719584 GATCTACAATCTTCAGCCTACTCCACTACTGCTTAAGGAGATAGGATAGTGGTTTAAATCTGCTC
66 GATCTACAATCTTCAGCCTACTCCACTACTGCTTAAGGAGATAGGATAGTGGCTTAAATCTGCTC
* *
24719649 CACTACTGCTTAGAGAGAGAAGATTTGCCGTCTTCGATATG
131 CACTACTGCTTAGAGAGACAAGATTTGCCGCCTTCGATATG
* * *
24719690 TTCCACTGCT-CTTAGAGAGATAA
1 CTCCACTACTGCTTAGGGAGATAA
24719713 TATCTACAAT
Statistics
Matches: 172, Mismatches: 17, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
167 13 0.08
168 130 0.76
169 1 0.01
170 2 0.01
173 1 0.01
174 25 0.15
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (171 bp):
CTCCACTACTGCTTAGGGAGATAAGATTCCGCTTCGATCTACTCCACTACTACTGAGGGAGACAA
GATCTACAATCTTCAGCCTACTCCACTACTGCTTAAGGAGATAGGATAGTGGCTTAAATCTGCTC
CACTACTGCTTAGAGAGACAAGATTTGCCGCCTTCGATATG
Found at i:24719801 original size:129 final size:130
Alignment explanation
Indices: 24719561--24719802 Score: 380
Period size: 129 Copynumber: 1.9 Consensus size: 130
24719551 TTCGATCTAC
*
24719561 TCCACTACTACTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAAGGAGAT
1 TCCACTACTACTTAGAGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAAGGAGAT
* * *
24719626 AGGATAGTGGTTTAAATCTGCTCCACTACTGCTTAGAGAGAGAAGATTTGCCGTCTTCGATATGT
66 AGGATAGTGGCTTAAATCTGCTCCACTAATGCTTAGAGAGACAAGATTTGCCGTCTTCGATATGT
* * *
24719691 TCCACTGCT-CTTAGAGAGATAATATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGAT
1 TCCACTACTACTTAGAGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAAGGAGAT
* *
24719755 AGGATGGTGGCTTAAATCTGCTCCACTAATGCTTCG-GAAGACAAGATT
66 AGGATAGTGGCTTAAATCTGCTCCACTAATGCTTAGAG-AGACAAGATT
24719803 CACTGTCTTC
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
128 1 0.01
129 93 0.91
130 8 0.08
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (130 bp):
TCCACTACTACTTAGAGAGATAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAAGGAGAT
AGGATAGTGGCTTAAATCTGCTCCACTAATGCTTAGAGAGACAAGATTTGCCGTCTTCGATATGT
Found at i:24726798 original size:13 final size:12
Alignment explanation
Indices: 24726780--24726861 Score: 55
Period size: 13 Copynumber: 6.8 Consensus size: 12
24726770 AAATATGTAT
24726780 ATAATAAAATAA
1 ATAATAAAATAA
24726792 CATAATATAAATAA
1 -ATAATA-AAATAA
*
24726806 AAAAT-AAA-AA
1 ATAATAAAATAA
*
24726816 ATAATTTAATATAGA
1 ATAA--TAAAATA-A
*
24726831 ATAGTAAAATAA
1 ATAATAAAATAA
*
24726843 ATAA-CAAATAA
1 ATAATAAAATAA
24726854 ATAA-AAAA
1 ATAATAAAA
24726862 GGTTAAAGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
10 5 0.09
11 16 0.29
12 5 0.09
13 18 0.33
14 7 0.13
15 4 0.07
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (12 bp):
ATAATAAAATAA
Found at i:24726819 original size:28 final size:30
Alignment explanation
Indices: 24726780--24726843 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 30
24726770 AAATATGTAT
24726780 ATAATAAAATAACATAATATA-AATA-AAAA
1 ATAA-AAAATAACATAATATAGAATAGAAAA
** *
24726809 ATAAAAAATAATTTAATATAGAATAGTAAA
1 ATAAAAAATAACATAATATAGAATAGAAAA
24726839 ATAAA
1 ATAAA
24726844 TAACAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 14 0.47
29 8 0.27
30 8 0.27
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (30 bp):
ATAAAAAATAACATAATATAGAATAGAAAA
Found at i:24727858 original size:22 final size:21
Alignment explanation
Indices: 24727833--24727880 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
24727823 GTTCAATCAT
*
24727833 TGTTTTGTATTGTTTCTGCCTC
1 TGTTTTGTATGGTTTC-GCCTC
* *
24727855 TGTTCTGTATGGTTTCGCTTC
1 TGTTTTGTATGGTTTCGCCTC
24727876 TGTTT
1 TGTTT
24727881 CGCCTCTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.04, C:0.17, G:0.21, T:0.58
Consensus pattern (21 bp):
TGTTTTGTATGGTTTCGCCTC
Found at i:24728774 original size:16 final size:17
Alignment explanation
Indices: 24728735--24728778 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
24728725 TTAAAATAAG
*
24728735 ATTTATTTTTTAATTTA
1 ATTTATTATTTAATTTA
*
24728752 ATGTATTATTT-ATTTA
1 ATTTATTATTTAATTTA
*
24728768 TTTTATTATTT
1 ATTTATTATTT
24728779 TTCAGATGTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
ATTTATTATTTAATTTA
Found at i:24730096 original size:41 final size:41
Alignment explanation
Indices: 24730051--24730135 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
24730041 TTATTAGCAA
24730051 TTAGAGGAATGTAAAATTGATCAATACTCTTAAAATTATTT
1 TTAGAGGAATGTAAAATTGATCAATACTCTTAAAATTATTT
24730092 TTAGAGGAATGTAAAATTGATCAATACTCTTAAAATTATTT
1 TTAGAGGAATGTAAAATTGATCAATACTCTTAAAATTATTT
24730133 TTA
1 TTA
24730136 CACCATGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (41 bp):
TTAGAGGAATGTAAAATTGATCAATACTCTTAAAATTATTT
Found at i:24736062 original size:49 final size:49
Alignment explanation
Indices: 24735998--24736185 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
24735988 TAGACAAGGC
* *
24735998 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
24736047 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACACGTGATCGAAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-T
* *
24736098 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
24736147 TATCCAGTACACGTAGTAGCCTGCACGTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
24736186 CGTGACCTCA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 74 0.62
50 6 0.05
51 40 0.33
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:24736178 original size:100 final size:100
Alignment explanation
Indices: 24735998--24736190 Score: 341
Period size: 100 Copynumber: 1.9 Consensus size: 100
24735988 TAGACAAGGC
* *
24735998 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACATAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACATAG
*
24736063 TAGCCTACACTTAGTACTACACACGTGATCGAAGT
66 TAGCCTACACGTAGTACTACACACGTGATCGAAGT
*
24736098 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACATAG
*
24736163 TAGCCTGCACGTAGTACTACACACGTGA
66 TAGCCTACACGTAGTACTACACACGTGA
24736191 CCTCACAATA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 88 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACATAG
TAGCCTACACGTAGTACTACACACGTGATCGAAGT
Found at i:24736469 original size:27 final size:27
Alignment explanation
Indices: 24736439--24736492 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24736429 TCATACAACC
* *
24736439 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
24736466 CATGTAACAATAATTTGTCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
24736493 TCACATGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:24742354 original size:14 final size:15
Alignment explanation
Indices: 24742318--24742354 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
24742308 TACAATCATT
*
24742318 TTATTATTATATTGA
1 TTATTATTTTATTGA
24742333 -TATTATTTTATT-A
1 TTATTATTTTATTGA
24742346 TTATTATTT
1 TTATTATTT
24742355 GGATATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TTATTATTTTATTGA
Found at i:24743445 original size:24 final size:25
Alignment explanation
Indices: 24743397--24743445 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24743387 TTTAATAGTG
* **
24743397 ATTTTTTAAATAATAACAATTATAT
1 ATTTTTAAAATAATAACAAAAATAT
24743422 ATTTTTAAAATAATAA-AAAAATAT
1 ATTTTTAAAATAATAACAAAAATAT
24743446 TAAAAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
ATTTTTAAAATAATAACAAAAATAT
Found at i:24745711 original size:17 final size:17
Alignment explanation
Indices: 24745689--24745726 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
24745679 ACCTTTTTTC
24745689 TTTACAACGAAAAGAAA
1 TTTACAACGAAAAGAAA
*
24745706 TTTACAATGAAAAGAAA
1 TTTACAACGAAAAGAAA
24745723 TTTA
1 TTTA
24745727 AGTTCCTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (17 bp):
TTTACAACGAAAAGAAA
Found at i:24748872 original size:96 final size:96
Alignment explanation
Indices: 24748702--24749022 Score: 340
Period size: 96 Copynumber: 3.3 Consensus size: 96
24748692 GATATGTGTC
* * * * *
24748702 CCAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCA-CGATATGAGAGCCAGTGTAAGACCATG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATTGATATGAGAGCTAGTGTAAGACCATG
* * * * ***
24748766 TTTGGAACATGGCATCAGG-GATATTGTGAAAG
65 TCTGGGACATGGCATC-GGCCACAACATGAAAG
* * *
24748798 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAATACCATGT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATGT
*
24748863 CTGGGACATGGCATCGGCCACAACATGAGAG
66 CTGGGACATGGCATCGGCCACAACATGAAAG
* * * * * * *
24748894 CCAATGTAAGACCATGTCTGGGATATGACATCGGTATTGAGACGAGAGCTAATGTAAGACCATGT
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATGT
* * * *
24748959 CTGGGATATGGCATCGGCCTCGACATGTAAG
66 CTGGGACATGGCATCGGCCACAACATGAAAG
* * *
24748990 CCAATGTAAGACCATGTTTGGAACATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
24749023 ACAATTCACT
Statistics
Matches: 188, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
95 5 0.03
96 183 0.97
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (96 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCCACAACATGAAAG
Found at i:24748951 original size:144 final size:143
Alignment explanation
Indices: 24748691--24749022 Score: 382
Period size: 144 Copynumber: 2.3 Consensus size: 143
24748681 GACATTTGGG
* * * * * *
24748691 TGATATGTGTC-CCAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCACGATATGAGAGCCAGT
1 TGATATGTG-CGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAAT
* * * *
24748755 GTAAGACCATGTTTGGAACATGGCATCAGGGATATTGTGAAAGCCAGTGTAAGACCATGTCTGGG
65 GTAAGACCATGTCTGGAACATGACATCA-GGATATTGAGAAAGCCAATGTAAGACCATGTCTGGG
24748820 ACATGGCATCGGCAT
129 ACATGGCATCGGCAT
* *
24748835 TGATATGTGCGCTAGTGTAATACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAATG
1 TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAATG
* * *
24748900 TAAGACCATGTCTGGGATATGACATC-GG-TATTGAGACGAGAGCTAATGTAAGACCATGTCTGG
66 TAAGACCATGTCTGGAACATGACATCAGGATATTGAGA--A-AGCCAATGTAAGACCATGTCTGG
* *
24748963 GATATGGCATCGGCCT
128 GACATGGCATCGGCAT
* * ** * * *
24748979 CGACATGTAAGCCAATGTAAGACCATGTTTGGAACATGGCATCG
1 TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
24749023 ACAATTCACT
Statistics
Matches: 158, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
141 7 0.04
142 2 0.01
143 2 0.01
144 147 0.93
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (143 bp):
TGATATGTGCGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAATG
TAAGACCATGTCTGGAACATGACATCAGGATATTGAGAAAGCCAATGTAAGACCATGTCTGGGAC
ATGGCATCGGCAT
Found at i:24749022 original size:48 final size:48
Alignment explanation
Indices: 24748706--24749022 Score: 280
Period size: 48 Copynumber: 6.6 Consensus size: 48
24748696 TGTGTCCCAG
* * * * *
24748706 TGTAAGACCATGTCTAGGACATGGCGTCAGCCACGATATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAA
* * ** * * *
24748754 TGTAAGACCATGTTTGGAACATGGCATCAGGGAT--ATTGTGAAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATC-GGCCTCGA-TATGAGAGCCAA
* * * * * *
24748802 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGCGCTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAA
* * * *
24748850 TGTAATACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAA
* * ** * * * *
24748898 TGTAAGACCATGTCTGGGATATGACATCGGTATTGAGACGAGAGCTAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAA
* *
24748946 TGTAAGACCATGTCTGGGATATGGCATCGGCCTCGACATGTA-AGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATG-AGAGCCAA
* *
24748994 TGTAAGACCATGTTTGGAACATGGCATCG
1 TGTAAGACCATGTCTGGGACATGGCATCG
24749023 ACAATTCACT
Statistics
Matches: 215, Mismatches: 49, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
47 5 0.02
48 207 0.96
49 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCCAA
Found at i:24758395 original size:12 final size:12
Alignment explanation
Indices: 24758378--24758407 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
24758368 TAGAGATCTA
24758378 AGGTTTACTTCG
1 AGGTTTACTTCG
24758390 AGGTTTACTTCG
1 AGGTTTACTTCG
24758402 AGGTTT
1 AGGTTT
24758408 TGGAAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.17, C:0.13, G:0.27, T:0.43
Consensus pattern (12 bp):
AGGTTTACTTCG
Found at i:24760541 original size:48 final size:48
Alignment explanation
Indices: 24760482--24760800 Score: 288
Period size: 48 Copynumber: 6.6 Consensus size: 48
24760472 TATGTGTGCT
* *
24760482 AGTGTAAGACCATGTCTGGGACATGGCGTCGACCACGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * * *
24760530 AGTGTAAGACCATGTTTGGAACATGGCATCGGCGA-TATTGTGAAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCC
* * * * *
24760578 AATGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* *
24760626 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
* * * * * * **
24760674 AATGTAAGACCATGTCTGGGACATGACATCGG-TATTGAGATAAGAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCC
* * * * *
24760722 AATGTAAGACCCTGTCTGGGACATGGCATCAGCCTCGACATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATG-AGAGCC
* *
24760770 AATGTAAGACCATGAT-TGGAACATGGCATCG
1 AGTGTAAGACCATG-TCTGGGACATGGCATCG
24760801 AAAATTCACC
Statistics
Matches: 216, Mismatches: 47, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
47 3 0.01
48 208 0.96
49 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCC
Found at i:24760650 original size:96 final size:95
Alignment explanation
Indices: 24760484--24760800 Score: 345
Period size: 96 Copynumber: 3.3 Consensus size: 95
24760474 TGTGTGCTAG
* * * * *
24760484 TGTAAGACCATGTCTGGGACATGGCGTCGACCA-CGATATGAGAGCCAGTGTAAGACCATGTTTG
1 TGTAAGACCATGTCTGGGACATGGCATCG-GCATTGATATGAGAGCTAGTGTAAGACCATGTCTG
* *
24760548 GAACATGGCATCGGCGATATTGTGAAAGCCAA
65 GGACATGGCATCGGCGACA-TGTGAAAGCCAA
* *
24760580 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATGTCTGG
* ** *
24760645 GACATGGCATCGGCCACAACATGAGAGCCAA
66 GACATGGCATCGGCGAC-ATGTGAAAGCCAA
* * * * * * *
24760676 TGTAAGACCATGTCTGGGACATGACATCGGTATTGAGATAAGAGATAATGTAAGACCCTGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATGTCTGG
*
24760741 GACATGGCATCAGCCTCGACATGT--AAGCCAA
66 GACATGGCATC-G--GCGACATGTGAAAGCCAA
*
24760772 TGTAAGACCATGAT-TGGAACATGGCATCG
1 TGTAAGACCATG-TCTGGGACATGGCATCG
24760801 AAAATTCACC
Statistics
Matches: 186, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
95 2 0.01
96 176 0.95
97 3 0.02
98 2 0.01
99 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (95 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGGCGACATGTGAAAGCCAA
Found at i:24760729 original size:144 final size:144
Alignment explanation
Indices: 24760469--24760801 Score: 404
Period size: 144 Copynumber: 2.3 Consensus size: 144
24760459 GACATTTCGG
* * * * *
24760469 TGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGACCACGATATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAACATGAGAGCCAATG
* * * *
24760534 TAAGACCATGTTTGGAACATGGCATCGGCGATATTGTGAAAGCCAATGTAAGACCATGTCTGGGA
66 TAAGACCATGTCTGGAACATGACATCGGCGATATTGAGAAAGACAATGTAAGACCATGTCTGGGA
*
24760599 CATGGCATCGGCAT
131 CATGGCATCAGCAT
* *
24760613 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAATG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAACATGAGAGCCAATG
* * *
24760678 TAAGACCATGTCTGGGACATGACATC-G-G-TATTGAGATAAGAGATAATGTAAGACCCTGTCTG
66 TAAGACCATGTCTGGAACATGACATCGGCGATATTGAG--AA-AGACAATGTAAGACCATGTCTG
*
24760740 GGACATGGCATCAGCCT
128 GGACATGGCATCAGCAT
* * * * * *
24760757 CGACATGTAAGCCAATGTAAGACCATGAT-TGGAACATGGCATCGA
1 TGATATGTGAGCTAGTGTAAGACCATG-TCTGGGACATGGCATCGA
24760802 AAATTCACCC
Statistics
Matches: 162, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
141 6 0.04
142 1 0.01
143 3 0.02
144 151 0.93
145 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (144 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAACATGAGAGCCAATG
TAAGACCATGTCTGGAACATGACATCGGCGATATTGAGAAAGACAATGTAAGACCATGTCTGGGA
CATGGCATCAGCAT
Found at i:24760846 original size:10 final size:10
Alignment explanation
Indices: 24760831--24760856 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
24760821 AAGTTTGTCA
24760831 GATATAGAAT
1 GATATAGAAT
24760841 GATATAGAAT
1 GATATAGAAT
24760851 GATATA
1 GATATA
24760857 ATCATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (10 bp):
GATATAGAAT
Found at i:24776504 original size:48 final size:48
Alignment explanation
Indices: 24776434--24776529 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
24776424 TTACTTGTTC
24776434 GTTACATATTATTCACGCAGTTATTCTCATAATTTCCATTGCATTTTT
1 GTTACATATTATTCACGCAGTTATTCTCATAATTTCCATTGCATTTTT
* * *
24776482 GTTATATATTATTCACGTAGTTATTCTTATAATTTCCATTGCATTTTT
1 GTTACATATTATTCACGCAGTTATTCTCATAATTTCCATTGCATTTTT
24776530 ACTCTTGCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (48 bp):
GTTACATATTATTCACGCAGTTATTCTCATAATTTCCATTGCATTTTT
Found at i:24781973 original size:10 final size:11
Alignment explanation
Indices: 24781945--24781977 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
24781935 AGGATCTATT
24781945 TGTAAAAAGT-
1 TGTAAAAAGTG
24781955 TGTAAAAAGTG
1 TGTAAAAAGTG
24781966 TGT-AAAAGTG
1 TGTAAAAAGTG
24781976 TG
1 TG
24781978 ATCAAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 19 0.86
11 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.30
Consensus pattern (11 bp):
TGTAAAAAGTG
Found at i:24782519 original size:42 final size:42
Alignment explanation
Indices: 24782472--24782627 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 42
24782462 ACTGAGATTA
* *
24782472 CATGTAAGACCATATCTGAGATATGGCAAT-GATATGAGGCTT
1 CATGTAAGACCATACCTGGGATATGGC-ATCGATATGAGGCTT
*
24782514 CATGTAAGACCATACCTGGGATATGGCATCGATATGAGACTT
1 CATGTAAGACCATACCTGGGATATGGCATCGATATGAGGCTT
* * * * *
24782556 CGTGCAAGACCATACCTGGGTTATTGGCATCGATACGA-GATT
1 CATGTAAGACCATACCTGGGATA-TGGCATCGATATGAGGCTT
** *
24782598 ACATGTAAGACCATATTTGGGTTATGGCAT
1 -CATGTAAGACCATACCTGGGATATGGCAT
24782628 TGGTACGGTA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.02
42 64 0.65
43 32 0.33
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
CATGTAAGACCATACCTGGGATATGGCATCGATATGAGGCTT
Found at i:24793371 original size:28 final size:28
Alignment explanation
Indices: 24793331--24793483 Score: 272
Period size: 28 Copynumber: 5.5 Consensus size: 28
24793321 CATGAGATTG
24793331 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24793359 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24793387 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
24793415 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
24793443 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
24793470 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
24793484 GACTTAATAT
Statistics
Matches: 120, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 23 0.19
28 97 0.81
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:24800100 original size:62 final size:63
Alignment explanation
Indices: 24799995--24800136 Score: 157
Period size: 62 Copynumber: 2.3 Consensus size: 63
24799985 GCACACGGGA
* * * * *
24799995 GTGTGCCCAGGCCGTGTAACTCACTGTTTTGGGTATCAAACCACACGGCCAGGGACACA-AGG-
1 GTGTGCCCAGGCCGTGTAACTCACTGTTGTGGCTATAAAACCACACAGCCA-AGACACATAGGC
* * *
24800057 GTGTGCCCAGGCAGTGTAACTTACTGATTGT-GCT-TAAAGACCACACAGCCAAGACACATGGGC
1 GTGTGCCCAGGCCGTGTAACTCACTG-TTGTGGCTATAAA-ACCACACAGCCAAGACACATAGGC
24800120 GTGTGCCCAGGCCGTGT
1 GTGTGCCCAGGCCGTGT
24800137 GGTAGGATGT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
61 9 0.13
62 39 0.58
63 19 0.28
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (63 bp):
GTGTGCCCAGGCCGTGTAACTCACTGTTGTGGCTATAAAACCACACAGCCAAGACACATAGGC
Found at i:24802253 original size:6 final size:6
Alignment explanation
Indices: 24802238--24802271 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
24802228 TAATAATATT
*
24802238 GAAAAA -AAAAA GAAAAA GAAAAA GAGAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
24802272 GAGAGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:24805163 original size:16 final size:17
Alignment explanation
Indices: 24805117--24805169 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
24805107 TCCTTCTCTA
* *
24805117 TTTCATTTTCAATTCTG
1 TTTCTTTTTCTATTCTG
24805134 TTTCTTTTTCTATTCT-
1 TTTCTTTTTCTATTCTG
24805150 TTTCTTTATT-TATT-TG
1 TTTCTTT-TTCTATTCTG
24805166 TTTC
1 TTTC
24805170 ATTTACTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 1 0.03
16 15 0.47
17 16 0.50
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTCTTTTTCTATTCTG
Found at i:24809775 original size:41 final size:41
Alignment explanation
Indices: 24809726--24809858 Score: 162
Period size: 41 Copynumber: 3.3 Consensus size: 41
24809716 AAGCGCAAAA
* * *
24809726 ACATAGCCGAAGCTATTTTAATCTCGCACACTAAGGGCCTT
1 ACATAGCCGAAGCTATTTCAATCTCGCACACTAAGTGCCAT
** *
24809767 ACATAGCCGAAGCTATTTCGGTCTCACACACTAAGTGCCAT
1 ACATAGCCGAAGCTATTTCAATCTCGCACACTAAGTGCCAT
* * *
24809808 ATATAGCCGAAGCTATTCTGAA--TCGCACACAAAGTGCCAT
1 ACATAGCCGAAGCTATT-TCAATCTCGCACACTAAGTGCCAT
24809848 ACATAGCCGAA
1 ACATAGCCGAA
24809859 TCGTCATCAA
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
40 26 0.33
41 51 0.65
42 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (41 bp):
ACATAGCCGAAGCTATTTCAATCTCGCACACTAAGTGCCAT
Found at i:24827993 original size:33 final size:34
Alignment explanation
Indices: 24827951--24828019 Score: 122
Period size: 33 Copynumber: 2.0 Consensus size: 34
24827941 GAATGAAGTG
24827951 AGCCGACTTCGTCAGTC-TATCAATCACAACCCA
1 AGCCGACTTCGTCAGTCATATCAATCACAACCCA
24827984 AGCCGACTTCGTCAGTCTATATCAATCACAACCCA
1 AGCCGACTTCGTCAGTC-ATATCAATCACAACCCA
24828019 A
1 A
24828020 ACAACATCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 17 0.50
35 17 0.50
ACGTcount: A:0.32, C:0.35, G:0.12, T:0.22
Consensus pattern (34 bp):
AGCCGACTTCGTCAGTCATATCAATCACAACCCA
Found at i:24832083 original size:28 final size:29
Alignment explanation
Indices: 24832030--24832084 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
24832020 TATAGGGGTT
*
24832030 TCACACAGCCGAGCACACGCCCGTGTCCC
1 TCACACAGCCGAGCACACGCCAGTGTCCC
*
24832059 TCACACAGCCTAG-ACACGCCAGTGTC
1 TCACACAGCCGAGCACACGCCAGTGTC
24832085 ATAGCCCCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.50
29 12 0.50
ACGTcount: A:0.24, C:0.44, G:0.20, T:0.13
Consensus pattern (29 bp):
TCACACAGCCGAGCACACGCCAGTGTCCC
Found at i:24836623 original size:9 final size:9
Alignment explanation
Indices: 24836609--24836647 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
24836599 TTAATAAAAA
24836609 ATTAATTAT
1 ATTAATTAT
24836618 ATTAATTAT
1 ATTAATTAT
*
24836627 TTTAATTA-
1 ATTAATTAT
*
24836635 ATTAATAAT
1 ATTAATTAT
24836644 ATTA
1 ATTA
24836648 TAAAAATACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 6 0.23
9 20 0.77
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATTAATTAT
Found at i:24839799 original size:28 final size:28
Alignment explanation
Indices: 24839759--24839821 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
24839749 CCATCACATT
24839759 TAAGTGAAATAAGTCCATGGCAATGTAC
1 TAAGTGAAATAAGTCCATGGCAATGTAC
* *
24839787 TAAGTGAAATAAGTCCATGGCATTGTGC
1 TAAGTGAAATAAGTCCATGGCAATGTAC
24839815 TAAGTGA
1 TAAGTGA
24839822 GAAATTTCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.27
Consensus pattern (28 bp):
TAAGTGAAATAAGTCCATGGCAATGTAC
Found at i:24839900 original size:51 final size:51
Alignment explanation
Indices: 24839845--24839992 Score: 226
Period size: 51 Copynumber: 2.9 Consensus size: 51
24839835 TGAACCTTAG
*
24839845 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
24839896 GAATATAATAGCTTTGGACACAAGTGTGGTACTAGGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
24839947 GAATAAAATAGCTTTGG-CTACAAGGGTGGTGCTATGTGAAGACCAC
1 GAATAAAATAGCTTTGGAC-ACAAGTGTGGTACTATGTGAAGGCCAC
24839993 CGTGTATCCG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 1 0.01
51 87 0.99
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:24842570 original size:9 final size:9
Alignment explanation
Indices: 24842556--24842580 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24842546 GAAAAAGAAT
24842556 AGGAGAAAG
1 AGGAGAAAG
24842565 AGGAGAAAG
1 AGGAGAAAG
24842574 AGGAGAA
1 AGGAGAA
24842581 GAAGAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
AGGAGAAAG
Found at i:24843307 original size:11 final size:11
Alignment explanation
Indices: 24843259--24843308 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
24843249 AAAGAATATA
24843259 AAAAGAGAAAG
1 AAAAGAGAAAG
* *
24843270 GAAAG-GAACG
1 AAAAGAGAAAG
24843280 AAACAGAG-AAG
1 AAA-AGAGAAAG
24843291 AAAAAGAGAAAG
1 -AAAAGAGAAAG
24843303 AAAAGA
1 AAAAGA
24843309 AGGAGAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
10 6 0.19
11 18 0.58
12 7 0.23
ACGTcount: A:0.68, C:0.04, G:0.28, T:0.00
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:24845937 original size:39 final size:39
Alignment explanation
Indices: 24845880--24846039 Score: 257
Period size: 39 Copynumber: 4.1 Consensus size: 39
24845870 ATTCAAGACA
*
24845880 CTGGAGATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
**
24845919 CTGGAAATGTATTTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
24845958 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * * *
24845997 TTGGAAATGTATCCGGGATAAAGTCCCGCAGACTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
24846036 CTGG
1 CTGG
24846040 TAATATAATT
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:24856111 original size:12 final size:12
Alignment explanation
Indices: 24856092--24856130 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
24856082 TCAAGGTTTT
24856092 TAGACACGGGC-
1 TAGACACGGGCA
24856103 TAGGACACGGGCCA
1 TA-GACACGGG-CA
24856117 TAGACACGGGCA
1 TAGACACGGGCA
24856129 TA
1 TA
24856131 TGTCAGTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 12 0.48
13 9 0.36
14 2 0.08
ACGTcount: A:0.31, C:0.26, G:0.33, T:0.10
Consensus pattern (12 bp):
TAGACACGGGCA
Found at i:24862272 original size:16 final size:16
Alignment explanation
Indices: 24862251--24862283 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24862241 GTTAATAAGG
24862251 TTATAATAAATAAAAC
1 TTATAATAAATAAAAC
24862267 TTATAATAAATAAAAC
1 TTATAATAAATAAAAC
24862283 T
1 T
24862284 AAGTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
TTATAATAAATAAAAC
Found at i:24869141 original size:20 final size:21
Alignment explanation
Indices: 24869118--24869165 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
24869108 TATAATTATT
*
24869118 TAATTAATAAATATCT-TTTA
1 TAATTAATAAATATCTATTAA
24869138 TAATTAATAAATATCTATTAA
1 TAATTAATAAATATCTATTAA
24869159 TAATTAA
1 TAATTAA
24869166 ATACATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (21 bp):
TAATTAATAAATATCTATTAA
Found at i:24876338 original size:30 final size:29
Alignment explanation
Indices: 24876304--24876360 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
24876294 ATAGTATCTT
24876304 ATCTTGGATTTCTTTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
*
24876334 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
24876361 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.12, C:0.16, G:0.16, T:0.56
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:24879166 original size:46 final size:46
Alignment explanation
Indices: 24879094--24879222 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
24879084 TATTTGGGCT
* * *
24879094 TCCGAACCCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
**
24879140 TCCGAACTCGTTGAGTTGAGTCCGAGTTTGCTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
24879186 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24879223 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:24885773 original size:46 final size:47
Alignment explanation
Indices: 24885706--24885825 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 47
24885696 TATGTGTGCT
*
24885706 AGTGTAAGACATGTCTGGGACATGCATCAACCA-T-A-ACATGAGAGCC
1 AGTGTAAGACATGTATGGGACATGCATCAACCATTGAGACA--AGAGCC
* * * *
24885752 AGTGTAAGACATGTTTGGGACATTCAT-AAGCATTGAGACAAGAGCT
1 AGTGTAAGACATGTATGGGACATGCATCAACCATTGAGACAAGAGCC
24885798 AGTGTAAGACATGTATGGGACATGCATC
1 AGTGTAAGACATGTATGGGACATGCATC
24885826 GGTCTCGCGA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
45 4 0.06
46 56 0.88
47 1 0.02
48 3 0.05
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTATGGGACATGCATCAACCATTGAGACAAGAGCC
Found at i:24885865 original size:48 final size:47
Alignment explanation
Indices: 24885794--24885968 Score: 140
Period size: 49 Copynumber: 3.6 Consensus size: 47
24885784 TTGAGACAAG
* * * * * *
24885794 AGCTAGTGTAAGACATGTATGGGACATGCATCGGTCTCGCGATATAT-A
1 AGCTAGTGTAAGACCTGTCTGGGACATGAATC-GACAC-CGATAGATAA
*
24885842 AGCTAGTGTAAGACCTGTCTGGGACATGGAATCGACACTGATAGATGAA
1 AGCTAGTGTAAGACCTGTCTGGGACAT-GAATCGACACCGATAGAT-AA
* * *
24885891 AGCCAGTGTAAGACCTGTCTGGGACATGGAATC-A-ACCTCACTATATGAA
1 AGCTAGTGTAAGACCTGTCTGGGACAT-GAATCGACACC-GA-TAGAT-AA
* *
24885940 AGCCAGTGTAAGACCATGTTTGGGACATG
1 AGCTAGTGTAAGACC-TGTCTGGGACATG
24885969 GCGTTGGCAT
Statistics
Matches: 109, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
47 8 0.07
48 30 0.28
49 60 0.55
50 11 0.10
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (47 bp):
AGCTAGTGTAAGACCTGTCTGGGACATGAATCGACACCGATAGATAA
Found at i:24885903 original size:49 final size:49
Alignment explanation
Indices: 24885841--24885969 Score: 188
Period size: 49 Copynumber: 2.6 Consensus size: 49
24885831 CGCGATATAT
* * *
24885841 AAGCTAGTGTAAGACCTGTCTGGGACATGGAATCGACACTGA-TAGATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGAATCAAC-CTCACTAGATGA
*
24885890 AAGCCAGTGTAAGACCTGTCTGGGACATGGAATCAACCTCACTATATGA
1 AAGCCAGTGTAAGACCTGTCTGGGACATGGAATCAACCTCACTAGATGA
*
24885939 AAGCCAGTGTAAGACCATGTTTGGGACATGG
1 AAGCCAGTGTAAGACC-TGTCTGGGACATGG
24885970 CGTTGGCATC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
48 3 0.04
49 57 0.78
50 13 0.18
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTGTCTGGGACATGGAATCAACCTCACTAGATGA
Found at i:24895684 original size:8 final size:8
Alignment explanation
Indices: 24895671--24895695 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24895661 GTAAAGTGTC
24895671 AAAATGTG
1 AAAATGTG
24895679 AAAATGTG
1 AAAATGTG
24895687 AAAATGTG
1 AAAATGTG
24895695 A
1 A
24895696 GGGCTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:24896172 original size:42 final size:42
Alignment explanation
Indices: 24896114--24896232 Score: 152
Period size: 43 Copynumber: 2.8 Consensus size: 42
24896104 TATGATTTAT
*
24896114 GTGTAAG-CCCATGTCTGGGACATTGGCATCGTATTTGATTTC
1 GTGTAAGACCC-TGTCTGGGACATTGGCATCGTATTTGATTAC
*
24896156 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCCTGTCTGGGACATTGGCATCG-TATTTGATTAC
* * *
24896199 ATGTAAGACCAC-GTCTGGGACGTTGGCATTGTAT
1 GTGTAAGACC-CTGTCTGGGACATTGGCATCGTAT
24896233 GAGCTTTCTG
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
42 29 0.43
43 38 0.56
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATTAC
Found at i:24900838 original size:54 final size:55
Alignment explanation
Indices: 24900756--24900864 Score: 166
Period size: 54 Copynumber: 2.0 Consensus size: 55
24900746 CCTCGGGGTC
* *
24900756 TATATCAGTAAAAAAAATAAATTATTAATACCTTCCATTGGTCATTTTCAGCTTA
1 TATATCAATAAAAAAAATAAATTATTAATACCTCCCATTGGTCATTTTCAGCTTA
* * *
24900811 TATATCAAT-AAAAAATTAAATTATTAATACCTCCCATTGTTCATTTTCGGCTTA
1 TATATCAATAAAAAAAATAAATTATTAATACCTCCCATTGGTCATTTTCAGCTTA
24900865 AGACTTACCC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
54 41 0.84
55 8 0.16
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (55 bp):
TATATCAATAAAAAAAATAAATTATTAATACCTCCCATTGGTCATTTTCAGCTTA
Found at i:24925544 original size:40 final size:41
Alignment explanation
Indices: 24925479--24925556 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
24925469 GTAGGCGAAA
* **
24925479 TGCCGGTGAATGAGTTCAGACTTAAAGTCTAGCAGGCTTCG
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTCG
**
24925520 TGCCGGTG-ATGAATTCAGGTTTAAAACCTAGCAGGCT
1 TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCT
24925557 AAATGCCGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 24 0.75
41 8 0.25
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (41 bp):
TGCCGGTGAATGAATTCAGACTTAAAACCTAGCAGGCTTCG
Found at i:24925569 original size:40 final size:41
Alignment explanation
Indices: 24925378--24925568 Score: 172
Period size: 43 Copynumber: 4.6 Consensus size: 41
24925368 CAGTCTTGGG
* **
24925378 GCCTAGCAGGCTATAATGCCGGTGAGAT-AATATCGGGCTTCGA
1 GCCTAGCAGGCTA-AATGCCGGTGA-ATGAAT-TCAGGCTTAAA
* *
24925421 GCCTAGCAGGCTATAATGCCGGTGAAATG-ATATCGGGCTTGAA
1 GCCTAGCAGGCTA-AATGCCGGTG-AATGAAT-TCAGGCTTAAA
* * * *
24925464 GCCTAGTAGGCGAAATGCCGGTGAATGAGTTCAGACTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
* *** *
24925505 GTCTAGCAGGCTTCGTGCCGGTG-ATGAATTCAGGTTTAAA
1 GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
*
24925545 ACCTAGCAGGCTAAATGCCGGTGA
1 GCCTAGCAGGCTAAATGCCGGTGA
24925569 TTTGATAAAA
Statistics
Matches: 122, Mismatches: 22, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
40 32 0.26
41 29 0.24
42 11 0.09
43 49 0.40
44 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (41 bp):
GCCTAGCAGGCTAAATGCCGGTGAATGAATTCAGGCTTAAA
Found at i:24926604 original size:16 final size:16
Alignment explanation
Indices: 24926583--24926616 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
24926573 TATATGAGTC
24926583 TATTTTTAGGGAAAAT
1 TATTTTTAGGGAAAAT
24926599 TATTTTTAGGGAAAAT
1 TATTTTTAGGGAAAAT
24926615 TA
1 TA
24926617 ACAGGAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (16 bp):
TATTTTTAGGGAAAAT
Found at i:24932117 original size:27 final size:27
Alignment explanation
Indices: 24932083--24932228 Score: 197
Period size: 27 Copynumber: 5.4 Consensus size: 27
24932073 TTGATAAGTT
*
24932083 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCGAAATACCCTTGTAGG
24932110 GTAGAATTACCGAAATACTCC-TGTAGG
1 GTAGAATTACCGAAATAC-CCTTGTAGG
** *
24932137 GTAGAATTATTGAAATA-CCTCTATAGG
1 GTAGAATTACCGAAATACCCT-TGTAGG
24932164 GTAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
24932191 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
*
24932218 GTAAAATTACC
1 GTAGAATTACC
24932229 ATTTTGCCCC
Statistics
Matches: 105, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
25 2 0.02
27 98 0.93
28 5 0.05
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:24934888 original size:44 final size:44
Alignment explanation
Indices: 24934839--24934945 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 44
24934829 TTCGGGCCTC
* *
24934839 GGCCTAGCAAGCTT-TAA-GCTGGTGAACAATATTATCGGGCTTTG
1 GGCCTAGCAAGCTTATAATGCTGGT-AA-AATAATATCGAGCTTTG
* *
24934883 GGCCTAGC-AGGTTATAATGCTGGTAAGATAATATCGAGCTTTG
1 GGCCTAGCAAGCTTATAATGCTGGTAAAATAATATCGAGCTTTG
*
24934926 GGCCTAGCAGGC-TATAATGC
1 GGCCTAGCAAGCTTATAATGC
24934946 CGACGAAATG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
43 34 0.63
44 14 0.26
45 6 0.11
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (44 bp):
GGCCTAGCAAGCTTATAATGCTGGTAAAATAATATCGAGCTTTG
Found at i:24936823 original size:29 final size:29
Alignment explanation
Indices: 24936785--24936872 Score: 131
Period size: 29 Copynumber: 3.0 Consensus size: 29
24936775 GTGAAGGGTG
24936785 TTACATTCACACACTTAGTGCTCGATAATT
1 TTAC-TTCACACACTTAGTGCTCGATAATT
* *
24936815 TTACTTCACACACTTAGTGTTCAATAATT
1 TTACTTCACACACTTAGTGCTCGATAATT
**
24936844 TTACTTCGTACACTTAGTGCTCGATAATT
1 TTACTTCACACACTTAGTGCTCGATAATT
24936873 CACATATATA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 48 0.92
30 4 0.08
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (29 bp):
TTACTTCACACACTTAGTGCTCGATAATT
Found at i:24940072 original size:16 final size:17
Alignment explanation
Indices: 24940051--24940082 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24940041 TTTAATTTTA
24940051 TTCAATTATTT-AATTC
1 TTCAATTATTTGAATTC
24940067 TTCAATTATTTGAATT
1 TTCAATTATTTGAATT
24940083 ATTAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.56
Consensus pattern (17 bp):
TTCAATTATTTGAATTC
Found at i:24952135 original size:5 final size:5
Alignment explanation
Indices: 24952125--24952150 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
24952115 TGCTCGAATT
24952125 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
24952151 AGAGCATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:24954694 original size:43 final size:43
Alignment explanation
Indices: 24954646--24954802 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
24954636 AGCTTACACA
* *
24954646 ATGCCAACATCCCAAACTTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACATCCCAGACATGGTCTTACATGTAATCAAATATTG
* * *
24954689 ATGCC-ACTATCCCAGACAAGGTCTTACACGAAATCAAATA-TG
1 ATGCCAAC-ATCCCAGACATGGTCTTACATGTAATCAAATATTG
* * ** * *
24954731 ATGTCGATGTCCCAGACATGGTCTTACATGTAAATCATAA-GTCG
1 ATGCCAACATCCCAGACATGGTCTTACATGT-AATCA-AATATTG
* *
24954775 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAACATCCCAGACATGGTCTTACA
24954803 CGATATCACA
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.29
43 38 0.41
44 27 0.29
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACATCCCAGACATGGTCTTACATGTAATCAAATATTG
Found at i:24954799 original size:86 final size:85
Alignment explanation
Indices: 24954655--24954815 Score: 200
Period size: 86 Copynumber: 1.9 Consensus size: 85
24954645 AATGCCAACA
* *
24954655 TCCCAAACTTGGTCTTACATGTAATCAAATATTGATGCCACTATCCCAGACAAGGTCTTACACGA
1 TCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAAGGTCTTACACGA
24954720 AATCAAATATGATGTCGATG
66 AATCAAATATGATGTCGATG
* * * **
24954740 TCCCAGACATGGTCTTACATGTAAATCATAA-GTCGATGCCAAC-GTCCCAGACGTGGTCTTACA
1 TCCCAAACATGGTCTTACATGT-AATCA-AATATCGATGCC-ACTATCCCAGACAAGGTCTTACA
* *
24954803 CGATATCACATAT
63 CGAAATCAAATAT
24954816 CGGATCCTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
85 20 0.31
86 40 0.62
87 4 0.06
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (85 bp):
TCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAAGGTCTTACACGA
AATCAAATATGATGTCGATG
Found at i:24957868 original size:48 final size:48
Alignment explanation
Indices: 24957812--24957988 Score: 205
Period size: 48 Copynumber: 3.7 Consensus size: 48
24957802 TATGTGTGCT
* *
24957812 AGTGTAAGACCGTGTCTGGGACATGGCATCGGCCACAACATGAGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACAACATGAGAGCC
** * * *
24957860 AGTGTAAGACCATGTCTTGG-ACATGGCATCGG-CATTGAGATGAGAACT
1 AGTGTAAGACCATGTC-TGGAACATGGCATCGGCCA-CAACATGAGAGCC
* * * *
24957908 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACAACATGAGAGCC
* *
24957956 AGTATAAGACCATGTTTGGAACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGC
24957989 ATGTTTGGAA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
47 5 0.05
48 99 0.92
49 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACAACATGAGAGCC
Found at i:24957913 original size:96 final size:96
Alignment explanation
Indices: 24957810--24957990 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 96
24957800 GATATGTGTG
* * * *
24957810 CTAGTGTAAGACCGTGTCTGGGACATGGCATCGGCCACAACATGAGAGCCAGTGTAAGACCATGT
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCAGCCACAACATGAGAGCCAGTATAAGACCATGT
24957875 CTTGG-ACATGGCATCGGCATTGAGATGAGAA
66 -TTGGAACATGGCATCGGCATTGAGATGAGAA
* * *
24957906 CTAGTGTAAGACCATGTTTGGAACATGGCATCAGCCTCAACATGTGAGCCAGTATAAGACCATGT
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCAGCCACAACATGAGAGCCAGTATAAGACCATGT
24957971 TTGGAACATGGCATCGGCAT
66 TTGGAACATGGCATCGGCAT
24957991 GTTTGGAACA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 4 0.05
96 73 0.95
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (96 bp):
CTAGTGTAAGACCATGTCTGGAACATGGCATCAGCCACAACATGAGAGCCAGTATAAGACCATGT
TTGGAACATGGCATCGGCATTGAGATGAGAA
Found at i:24957994 original size:22 final size:22
Alignment explanation
Indices: 24957966--24958033 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
24957956 AGTATAAGAC
24957966 CATGTTTGGAACATGGCATCGG
1 CATGTTTGGAACATGGCATCGG
24957988 CATGTTTGGAACATGGCATCGG
1 CATGTTTGGAACATGGCATCGG
24958010 CATGTTTGGAACATGGCATCGG
1 CATGTTTGGAACATGGCATCGG
24958032 CA
1 CA
24958034 ATTCACCCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (22 bp):
CATGTTTGGAACATGGCATCGG
Found at i:24960356 original size:28 final size:28
Alignment explanation
Indices: 24960324--24960393 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
24960314 AATGAGATTG
24960324 GCACTAAGTGTGCGAGTTT-AAT-TGTATA
1 GCACTAAGTGTGCGAGTTTGAATAT-TA-A
*
24960352 GCACTAAGTGTGCGAGTTTGACTATTAA
1 GCACTAAGTGTGCGAGTTTGAATATTAA
24960380 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
24960394 GACTTACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGAATATTAA
Found at i:24982803 original size:43 final size:45
Alignment explanation
Indices: 24982746--24982873 Score: 143
Period size: 51 Copynumber: 2.8 Consensus size: 45
24982736 TGTATCATTT
*
24982746 GAGCTCGTTGAGTGGTTCGAGTTCATTATGGATGC-GAG-CATCC
1 GAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCAGAGACATCC
* *
24982789 GAGCTCGTTGAGTGGTCCGAGTTCATAATGTATGTGATACATGTGACATCC
1 GAGCTCGTTGAGTGGTCCGAGTTC---AT-TATG-GATGCA-GAGACATCC
* *
24982840 GAGCTCGTTGAGAGGTCCAAGTTCATTATGGATG
1 GAGCTCGTTGAGTGGTCCGAGTTCATTATGGATG
24982874 TGTTATATCT
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
43 23 0.32
46 5 0.07
47 8 0.11
48 6 0.08
50 2 0.03
51 27 0.38
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (45 bp):
GAGCTCGTTGAGTGGTCCGAGTTCATTATGGATGCAGAGACATCC
Found at i:24994603 original size:35 final size:34
Alignment explanation
Indices: 24994544--24994670 Score: 128
Period size: 35 Copynumber: 3.6 Consensus size: 34
24994534 TACTCTCTGT
* * *
24994544 TTGGTGTGTTTCGGTTGGACTAGCTCTTGTGAGCA
1 TTGGTGTGTTT-GGATGGATTAGCTCTTATGAGCA
*
24994579 TTGGTGTGTTTAGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTT-GGATGGATTAGCTCTTATGAGCA
* * * *
24994614 TTGGTGTATTTCGATTGGATTGGCTCTTATGAGAA
1 TTGGTGTGTTTGGA-TGGATTAGCTCTTATGAGCA
*
24994649 TTTGGTGTGTTTTGGTTGGATT
1 -TTGGTGTG-TTTGGATGGATT
24994671 GACGATGCAC
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
34 2 0.03
35 57 0.75
36 13 0.17
37 4 0.05
ACGTcount: A:0.15, C:0.09, G:0.33, T:0.43
Consensus pattern (34 bp):
TTGGTGTGTTTGGATGGATTAGCTCTTATGAGCA
Found at i:24998285 original size:16 final size:17
Alignment explanation
Indices: 24998264--24998296 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
24998254 CTAAAATAGT
24998264 AACAAAATTA-ACAATA
1 AACAAAATTATACAATA
*
24998280 AACAAAGTTATACAATA
1 AACAAAATTATACAATA
24998297 TCCAAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.12, G:0.03, T:0.21
Consensus pattern (17 bp):
AACAAAATTATACAATA
Found at i:24999433 original size:14 final size:14
Alignment explanation
Indices: 24999414--24999444 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24999404 ATCCAAACAA
24999414 TAACAACAAAATAG
1 TAACAACAAAATAG
*
24999428 TAACAACATAATAG
1 TAACAACAAAATAG
24999442 TAA
1 TAA
24999445 AATAGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:25000097 original size:30 final size:29
Alignment explanation
Indices: 25000063--25000121 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
25000053 ATAATTTGTG
* *
25000063 AAAATTGAATCAAATTAAAATTTCATATAT
1 AAAATTGAA-CAAACTAAAAGTTCATATAT
* *
25000093 AAAATTGTACAAACTCAAAGTTCATATAT
1 AAAATTGAACAAACTAAAAGTTCATATAT
25000122 GACATTGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATTGAACAAACTAAAAGTTCATATAT
Found at i:25004261 original size:28 final size:28
Alignment explanation
Indices: 25004228--25004289 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
25004218 ACCTCGCATG
* * *
25004228 CTAAGTGCTATCCTGGAT-GTTTCGCACA
1 CTAAGTGCCATCCTCGATACTTT-GCACA
25004256 CTAAGTGCCATCCTCGATACTTTGCACA
1 CTAAGTGCCATCCTCGATACTTTGCACA
25004284 CTAAGT
1 CTAAGT
25004290 TAGCCGAAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 27 0.90
29 3 0.10
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (28 bp):
CTAAGTGCCATCCTCGATACTTTGCACA
Found at i:25004348 original size:40 final size:39
Alignment explanation
Indices: 25004289--25004373 Score: 116
Period size: 40 Copynumber: 2.2 Consensus size: 39
25004279 GCACACTAAG
* **
25004289 TTAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTT
1 TTAGCCAAAGCTATCTCAAACCGCACACCAAGTGCCA-TT
* *
25004329 TTAGCCAAAGCTATTTCAAACCGCACACTAAGTGCCATT
1 TTAGCCAAAGCTATCTCAAACCGCACACCAAGTGCCATT
25004368 TTAGCC
1 TTAGCC
25004374 GATAAGTCGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 8 0.20
40 32 0.80
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (39 bp):
TTAGCCAAAGCTATCTCAAACCGCACACCAAGTGCCATT
Found at i:25007281 original size:49 final size:47
Alignment explanation
Indices: 25007197--25007701 Score: 803
Period size: 47 Copynumber: 10.6 Consensus size: 47
25007187 TATTTGAATA
* *
25007197 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25007244 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25007293 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25007340 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
25007389 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25007438 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25007485 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
25007534 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
25007581 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
25007628 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25007675 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
25007702 TCCCGAAGGG
Statistics
Matches: 430, Mismatches: 22, Indels: 12
0.93 0.05 0.03
Matches are distributed among these distances:
47 246 0.57
49 184 0.43
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:25007305 original size:96 final size:94
Alignment explanation
Indices: 25007197--25007701 Score: 803
Period size: 96 Copynumber: 5.3 Consensus size: 94
25007187 TATTTGAATA
* *
25007197 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
25007262 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
25007293 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
25007358 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
25007389 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
25007454 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
25007485 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
25007550 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
25007581 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
25007646 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
25007675 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
25007702 TCCCGAAGGG
Statistics
Matches: 391, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
94 100 0.26
96 246 0.63
98 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:25021610 original size:13 final size:13
Alignment explanation
Indices: 25021592--25021617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25021582 ATATTTAAAA
25021592 TTTATTTTATGTG
1 TTTATTTTATGTG
25021605 TTTATTTTATGTG
1 TTTATTTTATGTG
25021618 AATTTATATC
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:0.15, C:0.00, G:0.15, T:0.69
Consensus pattern (13 bp):
TTTATTTTATGTG
Found at i:25026237 original size:39 final size:40
Alignment explanation
Indices: 25026034--25026257 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
25026024 ACTACTTGCT
* *
25026034 CAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
25026074 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
25026114 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
25026154 CAAATGCCTTCGGGACTTAGCCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * **
25026194 CAGATGCCTTCGGGACTTAGCCCGGA-TTAGTCACTAGTG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
25026233 CAGATGCCTTCGAGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
25026258 TTTTCATCCA
Statistics
Matches: 167, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
39 33 0.20
40 132 0.79
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:25033749 original size:35 final size:37
Alignment explanation
Indices: 25033703--25033779 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
25033693 CTTATACGAA
* * *
25033703 GTCTTACCCGGAC-TAATCTCCACACGAAGTTATC-G
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
25033738 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25033775 GTCTT
1 GTCTT
25033780 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
35 13 0.36
36 17 0.47
37 6 0.17
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25033985 original size:47 final size:47
Alignment explanation
Indices: 25033898--25034399 Score: 807
Period size: 47 Copynumber: 10.7 Consensus size: 47
25033888 CCCTTCGGGA
* * * * * * *
25033898 CTTATCACATTTATACACTTTCACATCCATGACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
25033945 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25033992 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25034039 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25034086 CTTATAACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25034133 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25034180 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
25034227 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25034274 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
25034321 CTTATCACATAGTGT--A--TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
25034365 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
25034400 AGAATCCTAA
Statistics
Matches: 429, Mismatches: 21, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
43 2 0.00
44 37 0.09
45 1 0.00
46 1 0.00
47 386 0.90
48 2 0.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:25034139 original size:22 final size:22
Alignment explanation
Indices: 25034114--25034189 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
25034104 TTTCACATTC
25034114 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* ** *** *
25034136 ATCACATATGTACACTTTCACATT
1 ATCACAT-CGGCCA-TTAGGCCTT
25034160 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
25034183 ATCACAT
1 ATCACAT
25034190 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:25034330 original size:22 final size:22
Alignment explanation
Indices: 25034302--25034370 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
25034292 TTTCACATTC
25034302 ATCACATCGGCTATTAGGCCTT
1 ATCACATCGGCTATTAGGCCTT
* *
25034324 ATCACATAGTG-TATTCA--CATT
1 ATCACATCG-GCTATT-AGGCCTT
*
25034345 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCTATTAGGCCTT
25034368 ATC
1 ATC
25034371 TCATATATGC
Statistics
Matches: 36, Mismatches: 5, Indels: 12
0.68 0.09 0.23
Matches are distributed among these distances:
21 5 0.14
22 26 0.72
23 5 0.14
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (22 bp):
ATCACATCGGCTATTAGGCCTT
Found at i:25038603 original size:39 final size:40
Alignment explanation
Indices: 25038382--25038612 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
25038372 GGATATAACT
* * * *
25038382 ACTCGCTCAAATGCCTTTGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
25038422 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
25038462 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
25038502 ATTCGCACAAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
25038542 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGA-TTAG-A
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
25038580 CACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 -ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
25038613 TTTTCATCCA
Statistics
Matches: 175, Mismatches: 14, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 139 0.79
41 2 0.01
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:25051739 original size:50 final size:50
Alignment explanation
Indices: 25051611--25051900 Score: 287
Period size: 50 Copynumber: 5.8 Consensus size: 50
25051601 AACCAAAGTT
* * *
25051611 ATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACC-AACAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC-C
* * ** *
25051661 TTC-AGTACATGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * * * **
25051710 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * * * * *
25051761 GTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
25051811 ATCTGGTACACATAGTAACCTACACTTAGTACTACACACATGACCTAAAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACC
*** *
25051863 ATCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
25051901 TGTGTTCTCA
Statistics
Matches: 191, Mismatches: 44, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
49 37 0.19
50 80 0.42
51 39 0.20
52 35 0.18
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:25051798 original size:101 final size:101
Alignment explanation
Indices: 25051672--25051853 Score: 301
Period size: 101 Copynumber: 1.8 Consensus size: 101
25051662 TCAGTACATG
* * * *
25051672 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAACCTACACTT
25051737 AGTACTACACACATGATCGAAGTTGTCAGGTACGCA
66 AGTACTACACACATGATCGAAGTTGTCAGGTACGCA
* * *
25051773 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACATAGTAACCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAACCTACACTT
25051838 AGTACTACACACATGA
66 AGTACTACACACATGA
25051854 CCTAAAACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 74 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAACCTACACTT
AGTACTACACACATGATCGAAGTTGTCAGGTACGCA
Found at i:25051897 original size:153 final size:150
Alignment explanation
Indices: 25051606--25051900 Score: 412
Period size: 150 Copynumber: 1.9 Consensus size: 150
25051596 CTTGTAACCA
* * *
25051606 AAGTTATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGTGACCAACACTTCAGTACAT
1 AAGTTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACACTTCAGTACAC
* * * * * * *
25051671 GTAGTAGCCTGCACTTAGTATTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACT
66 ATAGTAACCTACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACA
25051736 TAGTACTACACACATGATCG
131 TAGTACTACACACATGATCG
* * * *
25051756 AAGTTGTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTA-ACTATCTGGTAC
1 AAGTTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACACT-TC-AGTAC
*
25051820 ACATAGTAACCTACACTTAGTACTACACACATGACCTAAAACCATCTTAAACACATAGTAGCCTG
64 ACATAGTAACCTACACTTAGTACTACACACATGACCT--AACCATCTGAAACACATAGTAGCCTG
25051885 CACATAGTACTACACA
127 CACATAGTACTACACA
25051901 TGTGTTCTCA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
149 3 0.02
150 49 0.39
151 35 0.28
153 39 0.31
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (150 bp):
AAGTTATCAGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCAACACTTCAGTACAC
ATAGTAACCTACACTTAGTACTACACACATGACCTAACCATCTGAAACACATAGTAGCCTGCACA
TAGTACTACACACATGATCG
Found at i:25052533 original size:30 final size:30
Alignment explanation
Indices: 25052492--25052548 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
25052482 AAAATCATAT
***
25052492 TTTGGCAAAATTATGTTTTTGCCCCTAAAC
1 TTTGGCAAAATTACACTTTTGCCCCTAAAC
*
25052522 TTTGTCAAAATTACACTTTTGCCCCTA
1 TTTGGCAAAATTACACTTTTGCCCCTA
25052549 GGCTCGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (30 bp):
TTTGGCAAAATTACACTTTTGCCCCTAAAC
Found at i:25059204 original size:145 final size:145
Alignment explanation
Indices: 25058941--25059230 Score: 526
Period size: 145 Copynumber: 2.0 Consensus size: 145
25058931 AAGCCATTTC
*
25058941 CTAGCTTCATTTCTCACCCAAATTTACCAAAAAACATGTACATAAAACACTCAACCAATTCCAGC
1 CTAGCTTCATTTCTCACCCAAATTTACCAAAAAACATATACATAAAACACTCAACCAATTCCAGC
25059006 CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
66 CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
25059071 ATTACAAATTTACCT
131 ATTACAAATTTACCT
* * *
25059086 CTAGCTTTATTTCTCACCCAAATTTACCGAAAAACCTATACATAAAACACTCAACCAATTCCAGC
1 CTAGCTTCATTTCTCACCCAAATTTACCAAAAAACATATACATAAAACACTCAACCAATTCCAGC
*
25059151 CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGTATAAATG
66 CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
*
25059216 ATTATAAATTTACCT
131 ATTACAAATTTACCT
25059231 TAGATTAACT
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
145 139 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (145 bp):
CTAGCTTCATTTCTCACCCAAATTTACCAAAAAACATATACATAAAACACTCAACCAATTCCAGC
CATTTCAAGTATTTAAAGTAGGCAAATTCATCATTTAACAAGGCATACCACTACATGCATAAATG
ATTACAAATTTACCT
Found at i:25060861 original size:28 final size:28
Alignment explanation
Indices: 25060798--25060920 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
25060788 ATATTAAGTC
*
25060798 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
25060825 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
25060853 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
25060881 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
25060910 CGCACACTTAG
1 CGCACACTTAG
25060921 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:25064048 original size:20 final size:20
Alignment explanation
Indices: 25064005--25064051 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
25063995 CCAGCACATG
* *
25064005 TTTTCATAAAATTTCAGAAT
1 TTTTCATAAAATTTCACAAC
* *
25064025 TTTTCATCAAATTTTACAAC
1 TTTTCATAAAATTTCACAAC
25064045 TTTTCAT
1 TTTTCAT
25064052 TTTAGTCCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.02, T:0.49
Consensus pattern (20 bp):
TTTTCATAAAATTTCACAAC
Found at i:25066627 original size:15 final size:16
Alignment explanation
Indices: 25066598--25066627 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25066588 CAAACATGTT
25066598 TTAACACATTATCAAA
1 TTAACACATTATCAAA
25066614 TTAACACA-TATCAA
1 TTAACACATTATCAA
25066628 CTAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:25070797 original size:40 final size:40
Alignment explanation
Indices: 25070753--25070901 Score: 246
Period size: 40 Copynumber: 3.7 Consensus size: 40
25070743 GCTACTTGCT
25070753 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
25070793 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
25070833 CAAATGCCTTCGAGACTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
25070873 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
25070902 CATCCGAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 2 0.02
40 98 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:25078832 original size:40 final size:40
Alignment explanation
Indices: 25078788--25078936 Score: 237
Period size: 40 Copynumber: 3.7 Consensus size: 40
25078778 GCTACTTGCT
* *
25078788 CAAATGCCTTTGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
25078828 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
25078868 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTTACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
25078908 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
25078937 CATCCGAATA
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
39 2 0.02
40 98 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:25078887 original size:80 final size:80
Alignment explanation
Indices: 25078755--25078932 Score: 245
Period size: 80 Copynumber: 2.2 Consensus size: 80
25078745 AAACCAAGTA
* * * * *
25078755 CCTTCGGAATTTAG-CCGGATATAGCTACTTGCTCAAATGCCTTTGGGACTTAGCCCAG-TTATA
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCAGATT-TA
*
25078818 GTAACTCGCACAAATG
65 GTAACTAGCACAAATG
*
25078834 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCAGATTTA
*
25078898 GTTACTAGCACAAATG
65 GTAACTAGCACAAATG
25078914 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
25078933 TTATCATCCG
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 13 0.15
80 73 0.83
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCAGATTTAG
TAACTAGCACAAATG
Found at i:25086753 original size:436 final size:436
Alignment explanation
Indices: 25085941--25086811 Score: 1618
Period size: 436 Copynumber: 2.0 Consensus size: 436
25085931 ACGACAAAGG
*
25085941 CAAGCGCACCTTATCGAATAGTAGTATGACTTATGGCAAGACCGGGATGTCGAACCCAAAGGAAC
1 CAAGCGCACCTTATCGAACAGTAGTATGACTTATGGCAAGACCGGGATGTCGAACCCAAAGGAAC
25086006 TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGGTTTACTTTATAT
66 TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGGTTTACTTTATAT
*
25086071 AAAACTAATTACTAAACTAAGAATGCACAAAAAGTGAATTGGGGAAATAACTTTGGGAAAACTGA
131 AAAACTAATTACTAAACTAAGAATGCACAAAAAGTAAATTGGGGAAATAACTTTGGGAAAACTGA
25086136 ATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATCA
196 ATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATCA
25086201 GACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGAC
261 GACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGAC
* *
25086266 TAACAACATCTAACCCTAGGTTGATTAATTAAAATCTCTTTCTAATTAAAACCCTTAGTGTTGCA
326 TAACAACATCTAACCCTAAGTTGATTAATTAAAATCTCTTTCTAATTAAAACCCCTAGTGTTGCA
25086331 TTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCGA
391 TTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCGA
* *
25086377 CAAGCGCACCTTATTGAACAGTAGTATGACTTATGGCAAGACCGGGATGTCGAACCTAAAGGAAC
1 CAAGCGCACCTTATCGAACAGTAGTATGACTTATGGCAAGACCGGGATGTCGAACCCAAAGGAAC
* *
25086442 TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGTTTTTCTTTATAT
66 TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGGTTTACTTTATAT
* *
25086507 -AAACTAATTACTAAACTAAGAATGCACAGAAAGTAAATTGGGGAAATAACTTTTGGGAAAATTG
131 AAAACTAATTACTAAACTAAGAATGCACAAAAAGTAAATTGGGGAAATAAC-TTTGGGAAAACTG
25086571 AATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATC
195 AATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATC
25086636 AGACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGA
260 AGACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGA
*
25086701 CTAACAACATCTAACCCTAAGTTGATTAATTGAAATCTCTTTCTAATTAAAACCCCTAGTGTTGC
325 CTAACAACATCTAACCCTAAGTTGATTAATTAAAATCTCTTTCTAATTAAAACCCCTAGTGTTGC
*
25086766 ATTAACTCGATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCG
390 ATTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCG
25086812 GAAAAATTAT
Statistics
Matches: 422, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
435 48 0.11
436 374 0.89
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (436 bp):
CAAGCGCACCTTATCGAACAGTAGTATGACTTATGGCAAGACCGGGATGTCGAACCCAAAGGAAC
TAAAAGTACTACTATTAACTTTCTTTTTATTATCTAGCCTAAAAATAAAGGGGTTTACTTTATAT
AAAACTAATTACTAAACTAAGAATGCACAAAAAGTAAATTGGGGAAATAACTTTGGGAAAACTGA
ATGATTTGGACAATACCTAAGGGAAAAATCCACCTAGACTTCACTTGTTATTTGACTCTGAATCA
GACGATTTATTCACTTGACTTGATCCGTAGAAATCCCTAAGTTATATTATTATCTCTCTCGAGAC
TAACAACATCTAACCCTAAGTTGATTAATTAAAATCTCTTTCTAATTAAAACCCCTAGTGTTGCA
TTAACTCAATCTATGGATTCCCTTATTAGGTTTCACCCTAATCCGA
Found at i:25088059 original size:12 final size:12
Alignment explanation
Indices: 25088042--25088075 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
25088032 AGTGCAGGTC
25088042 TTGGGTGAAATT
1 TTGGGTGAAATT
25088054 TTGGGTGAAATT
1 TTGGGTGAAATT
25088066 TTGGGTGAAA
1 TTGGGTGAAA
25088076 AATGAAGCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (12 bp):
TTGGGTGAAATT
Found at i:25089388 original size:13 final size:15
Alignment explanation
Indices: 25089370--25089402 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
25089360 GATTAAAAGC
25089370 TAATTA-GTTTTA-T
1 TAATTAGGTTTTAGT
25089383 TAATTAGGTTTTAGT
1 TAATTAGGTTTTAGT
25089398 TAATT
1 TAATT
25089403 TAAACCTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (15 bp):
TAATTAGGTTTTAGT
Found at i:25092649 original size:31 final size:31
Alignment explanation
Indices: 25092614--25092672 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
25092604 GTTCAAACTC
* *
25092614 TAATATGAAAATAATTACCTAATTTAAACCT
1 TAATATAAAAATAATTACCAAATTTAAACCT
25092645 TAATATAAAAATAATTACCAAATTTAAA
1 TAATATAAAAATAATTACCAAATTTAAA
25092673 GTATAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (31 bp):
TAATATAAAAATAATTACCAAATTTAAACCT
Found at i:25093483 original size:15 final size:16
Alignment explanation
Indices: 25093439--25093485 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
25093429 ATTAATATTC
25093439 TAATAATAAATATTAAT
1 TAATAATAAATA-TAAT
*
25093456 TACAATTATAAATAT-AT
1 T--AATAATAAATATAAT
25093473 TAATAATAAATAT
1 TAATAATAAATAT
25093486 TTTGTAGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 11 0.42
17 4 0.15
18 1 0.04
19 10 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATAATAAATATAAT
Found at i:25094344 original size:14 final size:14
Alignment explanation
Indices: 25094325--25094356 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
25094315 AAGTAATCAC
25094325 TTTTTAAAAATTAT
1 TTTTTAAAAATTAT
*
25094339 TTTTTAAAATTTAT
1 TTTTTAAAAATTAT
25094353 TTTT
1 TTTT
25094357 AGTAAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTTAAAAATTAT
Found at i:25094347 original size:13 final size:14
Alignment explanation
Indices: 25094325--25094357 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
25094315 AAGTAATCAC
25094325 TTTTTAAAAA-TTA
1 TTTTTAAAAATTTA
*
25094338 TTTTTTAAAATTTA
1 TTTTTAAAAATTTA
25094352 TTTTTA
1 TTTTTA
25094358 GTAAACAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTTAAAAATTTA
Found at i:25096603 original size:23 final size:23
Alignment explanation
Indices: 25096562--25096605 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25096552 AAGTCACATT
*
25096562 AAAACATTATATATATTTTTAAA
1 AAAACATTAGATATATTTTTAAA
* *
25096585 AAAACATTAGATTTTTTTTTA
1 AAAACATTAGATATATTTTTA
25096606 CATTTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (23 bp):
AAAACATTAGATATATTTTTAAA
Found at i:25100580 original size:40 final size:41
Alignment explanation
Indices: 25100531--25100651 Score: 165
Period size: 40 Copynumber: 3.0 Consensus size: 41
25100521 AAATGTGTTC
* * * *
25100531 AGGGCTACCGAAGTAAAAACAGGGGCACATAAGTGCAATCA
1 AGGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
* *
25100572 AGGG-TACCGAAGTACGAACAGGGGCACGTATGTACAATC-
1 AGGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
*
25100611 AGGGATATCGAAGTACAAACAGGGGCACGTATGTGCAATCA
1 AGGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
25100652 TTCAATAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.06
40 62 0.89
41 4 0.06
ACGTcount: A:0.37, C:0.19, G:0.29, T:0.15
Consensus pattern (41 bp):
AGGGATACCGAAGTACAAACAGGGGCACGTATGTGCAATCA
Found at i:25100613 original size:20 final size:20
Alignment explanation
Indices: 25100590--25100651 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
25100580 GAAGTACGAA
25100590 CAGGGGCACGTATGTACAAT
1 CAGGGGCACGTATGTACAAT
** * *
25100610 CAGGGATATCG-AAGTACAAA
1 CAGGGGCA-CGTATGTACAAT
*
25100630 CAGGGGCACGTATGTGCAAT
1 CAGGGGCACGTATGTACAAT
25100650 CA
1 CA
25100652 TTCAATAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTACAAT
Done.