Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 323 of 345
Found at i:108664807 original size:177 final size:177
Alignment explanation
Indices: 108664520--108665117 Score: 752
Period size: 177 Copynumber: 3.4 Consensus size: 177
108664510 AACTTACTCT
* * * * * * *
108664520 ACTGCAACTTCAGGGAGATATGGTTGATGACTAAAATCTGCTCCATAGCCGATACATAGAAATAA
1 ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAA
** * * ** * * * *
108664585 GA-TCTGTTATTTTTTATTTGCTCCATAGCCGATACGTGAAGATAAGATTTGTAATTTTCAGTCT
66 GACTC-GCCATTTCTGACCTGCCCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCT
*
108664649 GCTTCCTGCAACTCCAAGAAGATAAGACTTGCATATTGAGCCTGCTCC
130 GCTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCC
* * **
108664697 ACTGTAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGTTGATAA
1 ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAA
* *
108664762 GACTCGCCATTT-TCGACCTGCCCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTTT
66 GACTCGCCATTTCT-GACCTGCCCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCT
* * * * * * * *
108664826 ACTTTCTACAACTTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTC
130 GCTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTC-C
* * * *
108664875 -TTGCCACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGTTCCATAGCCGATACATGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAA
* * *
108664939 GACTCGCCATTTCTGATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTG
66 GACTCGCCATTTCTGACCTGCCCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTG
*
108665004 CTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCT
131 CTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCC
* * * *
108665051 ACTACAACTTCAGAGAAATAAGCCTGGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAA
1 ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAA
108665116 GA
66 GA
108665118 TCTGTAATTT
Statistics
Matches: 355, Mismatches: 61, Indels: 10
0.83 0.14 0.02
Matches are distributed among these distances:
176 1 0.00
177 350 0.99
178 4 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (177 bp):
ACTGCAACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAA
GACTCGCCATTTCTGACCTGCCCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTG
CTTCCTGCAACTTCAAGAAGATAAGACTTGCATATTGAGCCTGCTCC
Found at i:108665188 original size:44 final size:45
Alignment explanation
Indices: 108665008--108665204 Score: 121
Period size: 44 Copynumber: 4.5 Consensus size: 45
108664998 AGTCTGCTTC
*
108665008 CTGCAACTTCAAGAAGATAAGACT-TGCATATTGAGCCTGCTCTA
1 CTGCAACTTCAAGAAGATAAGACTGTGCATATTGAGCCTGCTCCA
* * * **
108665052 CTACAACTTCAGAGAA-ATAAGCCTGGTGGC-TA--AAATCTGCTCCA
1 CTGCAACTTCA-AGAAGATAAGACT-GT-GCATATTGAGCCTGCTCCA
* * * * * * *
108665096 -TAGCCGA-TACATAG-AGATAAGATCTGT-AATTTTCAGTCTGCTTC-
1 CT-G-CAACTTCA-AGAAGATAAGA-CTGTGCATATTGAGCCTGCTCCA
108665140 CTGCAACTTCAAGAAGATAAGACT-TGCATATTGAGCCTGCTCCA
1 CTGCAACTTCAAGAAGATAAGACTGTGCATATTGAGCCTGCTCCA
108665184 CTGCAACTTCAA-AGAGATAAG
1 CTGCAACTTCAAGA-AGATAAG
108665205 GCTGATGGCT
Statistics
Matches: 113, Mismatches: 23, Indels: 34
0.66 0.14 0.20
Matches are distributed among these distances:
42 1 0.01
43 22 0.19
44 68 0.60
45 17 0.15
46 3 0.03
47 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.26
Consensus pattern (45 bp):
CTGCAACTTCAAGAAGATAAGACTGTGCATATTGAGCCTGCTCCA
Found at i:108665269 original size:132 final size:132
Alignment explanation
Indices: 108664954--108665249 Score: 520
Period size: 132 Copynumber: 2.2 Consensus size: 132
108664944 GCCATTTCTG
108664954 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
* * *
108665019 AGAAGATAAGACTTGCATATTGAGCCTGCTCTACTACAACTTCAGAGAAATAAGCCTGGTGGCTA
66 AGAAGATAAGACTTGCATATTGAGCCTGCTCCACTACAACTTCAAAGAAATAAGCCTGATGGCTA
108665084 AA
131 AA
108665086 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
* * *
108665151 AGAAGATAAGACTTGCATATTGAGCCTGCTCCACTGCAACTTCAAAGAGATAAGGCTGATGGCTA
66 AGAAGATAAGACTTGCATATTGAGCCTGCTCCACTACAACTTCAAAGAAATAAGCCTGATGGCTA
108665216 AA
131 AA
* *
108665218 ATTTGCTCCATAGCCGATACATGGAGATAAGA
1 ATCTGCTCCATAGCCGATACATAGAGATAAGA
108665250 CTCGCCATTT
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 156 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (132 bp):
ATCTGCTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCA
AGAAGATAAGACTTGCATATTGAGCCTGCTCCACTACAACTTCAAAGAAATAAGCCTGATGGCTA
AA
Found at i:108668541 original size:16 final size:15
Alignment explanation
Indices: 108668505--108668565 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 15
108668495 AAAATAGGAA
108668505 ATTTT-ATTTTAAGTTT
1 ATTTTAATTTT-A-TTT
108668521 ATTTTAATTTTATTT
1 ATTTTAATTTTATTT
108668536 ATTTTTAATTATTA-TT
1 A-TTTTAATT-TTATTT
108668552 ATTTTAGATTTTAT
1 ATTTTA-ATTTTAT
108668566 ATTAATTTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
15 12 0.30
16 20 0.50
17 8 0.20
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
ATTTTAATTTTATTT
Found at i:108678222 original size:11 final size:11
Alignment explanation
Indices: 108678206--108678231 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
108678196 AACACCCCAT
108678206 AAAAAAAAGAA
1 AAAAAAAAGAA
108678217 AAAAAAAAGAA
1 AAAAAAAAGAA
108678228 AAAA
1 AAAA
108678232 TAATACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:108678870 original size:16 final size:15
Alignment explanation
Indices: 108678845--108678892 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
108678835 CTATTTTAAG
108678845 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
108678860 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
108678877 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
108678892 T
1 T
108678893 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:108688568 original size:154 final size:154
Alignment explanation
Indices: 108688288--108688593 Score: 495
Period size: 154 Copynumber: 2.0 Consensus size: 154
108688278 AAAATGTTAA
* * *
108688288 AATACGATCCCCTTAAAAATGCGTAAACAACTCGAGTTGGATTTTAAGATTCACTTGTTCCAAAG
1 AATACGATCCCCTTAAAAATGCGTAAACAACTCGAGTCGGATTTCAAGATTCACTCGTTCCAAAG
* * *
108688353 GAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAAGCCTTCAAAAACTGAGATCGCC
66 AAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAAGCCTCCAAAAACTGAGATCACC
*
108688418 TTAAGATTTCCAAAATATGCAATG
131 TCAAGATTTCCAAAATATGCAATG
* * *
108688442 AATACGATCCCCTTAAAAATGTGTGAACAACTTGAGTCGGATTTCAAGATTCACTCGTTCCAAAG
1 AATACGATCCCCTTAAAAATGCGTAAACAACTCGAGTCGGATTTCAAGATTCACTCGTTCCAAAG
* * *
108688507 AAATAAAATACCACATCCATCTCGTTAGGACACGATATTTTAAGCCTCCAAAAACTGAGATCATC
66 AAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAAGCCTCCAAAAACTGAGATCACC
108688572 TCAAGATTTCCAAAATATGCAA
131 TCAAGATTTCCAAAATATGCAA
108688594 CAAAATTTAA
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
154 139 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (154 bp):
AATACGATCCCCTTAAAAATGCGTAAACAACTCGAGTCGGATTTCAAGATTCACTCGTTCCAAAG
AAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAAGCCTCCAAAAACTGAGATCACC
TCAAGATTTCCAAAATATGCAATG
Found at i:108693458 original size:61 final size:59
Alignment explanation
Indices: 108693291--108693460 Score: 190
Period size: 61 Copynumber: 2.9 Consensus size: 59
108693281 TTTTTATAAT
* * *
108693291 ATTATATATTATGATTTTTATT-AATTCATAATTTAATAATAA--TATTAAGAATGTTATTAA
1 ATTAT-TATTATTATTTTTATTAAATT-AT-ATTTAATAATAATTTATTAA-AATATGATTAA
* *
108693351 ATTA-TA-TATTA-TTTTATTAAATTATATTTAATAATACTTATGTTAAAATATGATTAA
1 ATTATTATTATTATTTTTATTAAATTATATTTAATAATAATT-TATTAAAATATGATTAA
108693408 ATTATTTATTATTATTTTTATTAAATTATATTTAATAATAATTTTATTAAAAT
1 ATTA-TTATTATTATTTTTATTAAATTATATTTAATAATAA-TTTATTAAAAT
108693461 TTAAAAATAA
Statistics
Matches: 94, Mismatches: 7, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
55 11 0.12
56 9 0.10
57 21 0.22
58 7 0.07
59 2 0.02
60 9 0.10
61 33 0.35
62 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (59 bp):
ATTATTATTATTATTTTTATTAAATTATATTTAATAATAATTTATTAAAATATGATTAA
Found at i:108693688 original size:16 final size:16
Alignment explanation
Indices: 108693617--108693688 Score: 101
Period size: 16 Copynumber: 4.6 Consensus size: 16
108693607 ACAACTGAAT
*
108693617 TATT-CATTACAGGTC
1 TATTCCATTACAGCTC
*
108693632 TATTCTATTACAGCTC
1 TATTCCATTACAGCTC
*
108693648 TATTCCATTACAACTC
1 TATTCCATTACAGCTC
*
108693664 TATTACATTACAGCTC
1 TATTCCATTACAGCTC
108693680 TATTCCATT
1 TATTCCATT
108693689 CCTCCCAACC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 4 0.08
16 45 0.92
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:108702700 original size:27 final size:27
Alignment explanation
Indices: 108702662--108702730 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
108702652 TCAGAACCAC
108702662 TAGCCCAATAACCCAATAGCCTACCCT
1 TAGCCCAATAACCCAATAGCCTACCCT
108702689 TAGCCCAATAACCCAATAGCCTACCCT
1 TAGCCCAATAACCCAATAGCCTACCCT
*
108702716 CAGCCCAA-AACCCAA
1 TAGCCCAATAACCCAA
108702731 AACAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 7 0.17
27 34 0.83
ACGTcount: A:0.36, C:0.42, G:0.07, T:0.14
Consensus pattern (27 bp):
TAGCCCAATAACCCAATAGCCTACCCT
Found at i:108703883 original size:3 final size:3
Alignment explanation
Indices: 108703877--108703908 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
108703867 TTGTTTATTC
108703877 TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T
108703909 TGTTTATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:108704186 original size:26 final size:23
Alignment explanation
Indices: 108704157--108704233 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
108704147 TTGCTAATAA
*
108704157 TTTATATAGATACATATCCTTTTTAT
1 TTTATA-AG-TACATAT-ATTTTTAT
108704183 TTTATAAGTACATATATTTTTA-
1 TTTATAAGTACATATATTTTTAT
* * *
108704205 TATGTACGTACATATATTTTT-T
1 TTTATAAGTACATATATTTTTAT
108704227 TTGTATA
1 TT-TATA
108704234 TCTTATTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 19 0.44
23 9 0.21
24 7 0.16
25 2 0.05
26 6 0.14
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTATAAGTACATATATTTTTAT
Found at i:108704194 original size:24 final size:25
Alignment explanation
Indices: 108704157--108704205 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
108704147 TTGCTAATAA
*
108704157 TTTATATAGATACATATCCTTTTTAT
1 TTTATATAGATACATAT-ATTTTTAT
108704183 TTTATA-AG-TACATATATTTTTAT
1 TTTATATAGATACATATATTTTTAT
108704206 ATGTACGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 7 0.32
25 2 0.09
26 6 0.27
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTATATAGATACATATATTTTTAT
Found at i:108704464 original size:18 final size:18
Alignment explanation
Indices: 108704441--108704475 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
108704431 TATACACCCA
*
108704441 TATATATGTACATATTTT
1 TATATATATACATATTTT
108704459 TATATATATACATATTT
1 TATATATATACATATTT
108704476 ATCGTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (18 bp):
TATATATATACATATTTT
Found at i:108716768 original size:46 final size:44
Alignment explanation
Indices: 108716701--108717203 Score: 210
Period size: 46 Copynumber: 11.6 Consensus size: 44
108716691 ATAATACAGG
*
108716701 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA--TCAGA
* *
108716747 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-A-CAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATCAG--A
* * * * * *
108716791 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATCAGA
* * * * *
108716830 TCGTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--A-CATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGAATCAGA
*
108716871 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA--TCAGA
* * * ** * *
108716917 TCTTATTTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-GAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-AATCAGA
* * **
108716961 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGA-ATCAGA
* * * * *
108717004 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGAT-TAA-AATAAAGAA
1 TCTTATCTCCCTGAGA-TTACAGTGGAACAGATCAAAGAAT-CAG-A
* * * ** * *
108717048 TCTTATCTCTCTGA-AGTTACAATAGAGTAGATC---GCATCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAACAGATCAAAGAATCAGA
* * * * ** * *
108717089 TCTTATTTCCCTGAGGTTGCAGCGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAA-T-CAGA
* * **
108717135 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACAT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGA-ATCAGA
*
108717178 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
108717204 GCGGATTAAA
Statistics
Matches: 356, Mismatches: 67, Indels: 71
0.72 0.14 0.14
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.06
40 3 0.01
41 52 0.15
42 11 0.03
43 54 0.15
44 102 0.29
45 2 0.01
46 105 0.29
47 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGAATCAGA
Found at i:108716818 original size:44 final size:46
Alignment explanation
Indices: 108716704--108717031 Score: 182
Period size: 44 Copynumber: 7.5 Consensus size: 46
108716694 ATACAGGTCT
* * * *
108716704 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
*
108716750 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACA-GT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-ATGTCAGATCC
* * * * *
108716794 TATCTCCTTGAGATTACAATGGAGCGGAT--TA-AA-G---GATCG
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * * * *
108716833 TATCTCTCTGA-AGTTACAGTAGAGAAGATC--A-CA--TCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * *
108716874 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * ** * *
108716920 TATTTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G--AGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AATGTCAGATCC
* **
108716964 TATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA--T-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGA-ATGTCAGATCC
108717007 TATCTCCCTGA-AGTTACAGTGGAGC
1 TATCTCCCTGAGA-TTACAGTGGAGC
108717032 GGATTAAAAT
Statistics
Matches: 224, Mismatches: 41, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
38 1 0.00
39 26 0.12
40 2 0.01
41 27 0.12
42 3 0.01
43 26 0.12
44 68 0.30
45 1 0.00
46 68 0.30
47 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
Found at i:108717025 original size:87 final size:86
Alignment explanation
Indices: 108716871--108717210 Score: 267
Period size: 87 Copynumber: 3.9 Consensus size: 86
108716861 TCACATCAGG
* * * * * * *
108716871 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGATCTTATTTCCCTGAGGTT
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA--T-A-ATCCTATCTCCCTGAAGTT
*
108716935 ACAGTGGAGCAGATTGAAGCCAGAGA
62 ACAGTGGAGCAGATTGAAG-AAGAGA
*
108716961 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAG
* * *
108717026 TGGAGCGGATT-AAAATAAAGAA
66 TGGAGCAGATTGAAGA-AGAG-A
* *** * * * ** * * * *
108717048 TCTTATCTCTCTGA-AGTTACAATAGAGTAGATCGCA-TCA-GGTCTTATTTCCCTGAGGTTGCA
1 TCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACA
* * **
108717110 GCGGAGTAGACCGAAGAATTGCAGA
65 GTGGAGCAGATTGAAGAA--G-AGA
*
108717135 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAG
*
108717200 TGGAGCGGATT
66 TGGAGCAGATT
108717211 AAAATAAAGA
Statistics
Matches: 187, Mismatches: 52, Indels: 23
0.71 0.20 0.09
Matches are distributed among these distances:
85 25 0.13
86 11 0.06
87 86 0.46
88 6 0.03
89 25 0.13
90 33 0.18
91 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (86 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTACAG
TGGAGCAGATTGAAGAAGAGA
Found at i:108717102 original size:218 final size:214
Alignment explanation
Indices: 108716744--108717213 Score: 624
Period size: 218 Copynumber: 2.2 Consensus size: 214
108716734 AAAGAATTTC
* *
108716744 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGACAGTAATCCTATCTCCCTGAGATT
* *
108716809 ACAATGGAGCGGATTAAAGGATCGTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGAATCGTATCTCTCTGAAGTTACAATAGAGAAGATCACATCAGGTCT
* * * *
108716874 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATTTCCCTGAGGTTACAG
131 TATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGATTACAG
* *
108716939 TGGAGCAGATTGAAGCCAG
196 CGGAGCAGATTGAAGACAG
*
108716958 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACA-TAATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGACAGTAATCCTATCTCCCTGAGA-T
* * * *
108717021 TACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATC
65 TACAATGGAGCGGA-T----TAAAGAATCGTATCTCTCTGAAGTTACAATAGAGAAGATCACATC
* * * ** *
108717086 AGGTCTTATTTCCCTGAGGTTGCAGCGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGA
125 AGGTCTTATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGA
*
108717151 TTACAGCGGAGCAGATTGAAGACAT
190 TTACAGCGGAGCAGATTGAAGACAG
* * *
108717176 A-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA
1 AGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTAAA
108717214 ATAAAGAATC
Statistics
Matches: 223, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
212 1 0.00
213 30 0.13
214 42 0.19
216 1 0.00
217 31 0.14
218 118 0.53
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (214 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGACAGTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGAATCGTATCTCTCTGAAGTTACAATAGAGAAGATCACATCAGGTCT
TATCTCCCTGAGATTACAGCGGAACAGACCAAAGAATTGCAGATCTTATCTCCCTGAGATTACAG
CGGAGCAGATTGAAGACAG
Found at i:108717230 original size:44 final size:43
Alignment explanation
Indices: 108716746--108717236 Score: 231
Period size: 44 Copynumber: 11.4 Consensus size: 43
108716736 AGAATTTCAG
* ** *
108716746 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAGACAGTA
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAATACAG-A
* * * * *
108716790 ATCCTATCTCCTTG-AGATTACAATGGAGCGGATT--A-A-AGG
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAATACAGA
* * * * *
108716829 ATCGTATCTCTCTGAAGTTACAGTAGAGAAGA-TCACAT-CAG-
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA-ATACAGA
* * ** *
108716870 GTCTTATCTCCCTG-AGATTACAGTGGAACAGACCAAAGAATTTCAG-
1 ATCTTATCTCCCTGAAG-TTACAGTGGAGCAG---ATTGAA-TACAGA
* * **
108716916 ATCTTATTTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATACAGA
* * *
108716959 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACATA
1 -ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAATACAGA
* * * *
108717003 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAATACAGA
* * * * * *
108717047 ATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCAT-CAG-
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATACAGA
* * * * * * ** *
108717088 GTCTTATTTCCCTGAGGTTGCAGCGGAGTAGACCGAAGA-ATTGCA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATACA--G-A
* * *
108717133 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGACATA
1 -ATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAATACAGA
* * * *
108717177 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGA
1 ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-GAATACAGA
*
108717221 ATCTTATCTCTCTGAA
1 ATCTTATCTCCCTGAA
108717237 ATGGTAGTAG
Statistics
Matches: 338, Mismatches: 80, Indels: 58
0.71 0.17 0.12
Matches are distributed among these distances:
38 1 0.00
39 22 0.07
40 6 0.02
41 52 0.15
42 8 0.02
43 64 0.19
44 122 0.36
45 3 0.01
46 58 0.17
47 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATACAGA
Found at i:108717580 original size:27 final size:27
Alignment explanation
Indices: 108717542--108717606 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
108717532 AACCACTAGC
*
108717542 CCAATAACCCAATAGCCTACCCTTAGA
1 CCAATAACCCAATAGCCTACCCTCAGA
*
108717569 CCAATAACCCAATAGCCTACCCTCAGC
1 CCAATAACCCAATAGCCTACCCTCAGA
108717596 CCAA-AACCCAA
1 CCAATAACCCAA
108717607 AACAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 7 0.19
27 29 0.81
ACGTcount: A:0.38, C:0.42, G:0.06, T:0.14
Consensus pattern (27 bp):
CCAATAACCCAATAGCCTACCCTCAGA
Found at i:108718762 original size:3 final size:3
Alignment explanation
Indices: 108718756--108718787 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
108718746 TTGTTTATTC
108718756 TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT T
108718788 TGTTTATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:108719065 original size:26 final size:23
Alignment explanation
Indices: 108719036--108719112 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
108719026 TTGCTAATAA
*
108719036 TTTATATAGATACATATCCTTTTTAT
1 TTTATA-AG-TACATAT-ATTTTTAT
108719062 TTTATAAGTACATATATTTTTA-
1 TTTATAAGTACATATATTTTTAT
* * *
108719084 TATGTACGTACATATATTTTT-T
1 TTTATAAGTACATATATTTTTAT
108719106 TTGTATA
1 TT-TATA
108719113 TCTTATTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 19 0.44
23 9 0.21
24 7 0.16
25 2 0.05
26 6 0.14
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTATAAGTACATATATTTTTAT
Found at i:108719073 original size:24 final size:25
Alignment explanation
Indices: 108719036--108719084 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
108719026 TTGCTAATAA
*
108719036 TTTATATAGATACATATCCTTTTTAT
1 TTTATATAGATACATAT-ATTTTTAT
108719062 TTTATA-AG-TACATATATTTTTAT
1 TTTATATAGATACATATATTTTTAT
108719085 ATGTACGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 7 0.32
25 2 0.09
26 6 0.27
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (25 bp):
TTTATATAGATACATATATTTTTAT
Found at i:108719345 original size:20 final size:20
Alignment explanation
Indices: 108719320--108719357 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
108719310 TTATACACCC
*
108719320 ATATATATGTACATATTTTT
1 ATATATATATACATATTTTT
108719340 ATATATATATACATATTT
1 ATATATATATACATATTT
108719358 ATCGTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
ATATATATATACATATTTTT
Found at i:108723182 original size:14 final size:14
Alignment explanation
Indices: 108723165--108723199 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
108723155 CTCACATTTC
108723165 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
108723179 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
108723193 TATTTCT
1 T-TTTCT
108723200 GCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:108723183 original size:19 final size:18
Alignment explanation
Indices: 108723145--108723189 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
108723135 TACGGTACGC
108723145 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
108723162 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
108723181 TTCTTTTCT
1 TTCTTTTCT
108723190 CCATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:108723876 original size:41 final size:41
Alignment explanation
Indices: 108723831--108723923 Score: 177
Period size: 41 Copynumber: 2.2 Consensus size: 41
108723821 TACATTGTGA
108723831 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
1 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
108723872 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
1 ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
108723913 ATTTGTAGTAG
1 ATTTGT-GTAG
108723924 GTCGAAGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 47 0.92
42 4 0.08
ACGTcount: A:0.25, C:0.02, G:0.33, T:0.40
Consensus pattern (41 bp):
ATTTGTGTAGTTGAAATGCTAAGTTGTAGGAGGTGTTGAGT
Found at i:108723955 original size:19 final size:19
Alignment explanation
Indices: 108723931--108723977 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
108723921 TAGGTCGAAG
108723931 TTGTAATTAGCAGGTTACA
1 TTGTAATTAGCAGGTTACA
*
108723950 TTGTAATTAGTAGGTTACA
1 TTGTAATTAGCAGGTTACA
108723969 TTGTGAATT
1 TTGT-AATT
108723978 TGTGTAGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (19 bp):
TTGTAATTAGCAGGTTACA
Found at i:108725767 original size:16 final size:17
Alignment explanation
Indices: 108725748--108725779 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
108725738 TTATTAAATC
108725748 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
108725764 ATATATTTAATATTAA
1 ATATATTTAATATTAA
108725780 TTATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:108725843 original size:66 final size:63
Alignment explanation
Indices: 108725772--108725984 Score: 194
Period size: 61 Copynumber: 3.4 Consensus size: 63
108725762 AAATATATTT
108725772 AATATTAATTATTTAA-AATTTTATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTA-TTAAGAATTTTA--TTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
108725836 AG
62 AG
* * * * * * *
108725838 AATATTAATTATTAAGAATTTTATTAA--ATTATATATTTTAATTAT-ATTATATTTA-ATAAT
1 AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATT-TGAGTAAATTCATATAAG
* * * *
108725898 AATTATGTTATT-TT-A-TATTTTA--CAGTATCATATATTATGGTTTGAGTAAATTCATATAAG
1 AA-TAT-TAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
108725958 AATATTAATTATTAAGAATTTTATTAA
1 AATATTAATTATTAAGAATTTTATTAA
108725985 ATTATATATT
Statistics
Matches: 113, Mismatches: 21, Indels: 29
0.69 0.13 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.04
59 30 0.27
60 14 0.12
61 31 0.27
62 5 0.04
63 2 0.02
64 3 0.03
65 4 0.04
66 18 0.16
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (63 bp):
AATATTAATTATTAAGAATTTTATTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:108725858 original size:120 final size:120
Alignment explanation
Indices: 108725734--108726026 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
108725724 AATTATTTTA
* * *
108725734 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAAATTT-TATT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTATATT
*
108725797 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
108725854 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
108725919 ACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
108725974 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
108726027 TAAATATGAT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 4 0.02
120 155 0.96
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:108725886 original size:18 final size:17
Alignment explanation
Indices: 108725855--108725889 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108725845 ATTATTAAGA
108725855 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
108725872 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
108725890 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:108726003 original size:18 final size:17
Alignment explanation
Indices: 108725975--108726009 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108725965 ATTATTAAGA
*
108725975 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
108725992 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
108726010 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:108726123 original size:147 final size:149
Alignment explanation
Indices: 108725963--108726237 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
108725953 ATAAGAATAT
*
108725963 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
108726028 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
108726091 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
108726110 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
108726175 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
108726238 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:108726150 original size:18 final size:17
Alignment explanation
Indices: 108726122--108726156 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108726112 ATTATTAAGA
*
108726122 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
108726139 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
108726157 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:108726414 original size:16 final size:16
Alignment explanation
Indices: 108726393--108726428 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
108726383 GATTTGCTAT
108726393 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
108726409 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
108726425 TACA
1 TACA
108726429 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:108726874 original size:18 final size:18
Alignment explanation
Indices: 108726839--108726874 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108726829 TATGTAATGT
* *
108726839 TATAATTATTTTTTAAAA
1 TATAATTATATTTAAAAA
108726857 TATAATTATATTTAAAAA
1 TATAATTATATTTAAAAA
108726875 GAAATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TATAATTATATTTAAAAA
Found at i:108730017 original size:31 final size:31
Alignment explanation
Indices: 108729982--108730042 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
108729972 GCTTAGTAAC
* *
108729982 TTAAATAAAAACTTTTGAATAA-TTCAATGAT
1 TTAAATAAAAACATTCGAATAACTT-AATGAT
*
108730013 TTAAATGAAAACATTCGAATAACTTAATGA
1 TTAAATAAAAACATTCGAATAACTTAATGA
108730043 CCAAATTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.34
Consensus pattern (31 bp):
TTAAATAAAAACATTCGAATAACTTAATGAT
Found at i:108730698 original size:60 final size:60
Alignment explanation
Indices: 108730547--108730677 Score: 149
Period size: 60 Copynumber: 2.2 Consensus size: 60
108730537 CTAATGGTGG
** * *
108730547 CCAAAAAAG-ACAAAATTGAATAGTTTG-GTGACCATTTTGTAACTTTCCATAGTTGAGTGA
1 CCAAAAAAGAAC-AAATCAAATAG-TTGAGTGACCATATTGTAACTTTCCATAGTTAAGTGA
* * **
108730607 CCAAAAAAGAACAAATCAAATAATTAAGTGACCATATTGTAACTTTTGATAGTTAAGTGA
1 CCAAAAAAGAACAAATCAAATAGTTGAGTGACCATATTGTAACTTTCCATAGTTAAGTGA
*
108730667 TCAAAAAAGAA
1 CCAAAAAAGAA
108730678 ATTTACTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
59 2 0.03
60 56 0.93
61 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.28
Consensus pattern (60 bp):
CCAAAAAAGAACAAATCAAATAGTTGAGTGACCATATTGTAACTTTCCATAGTTAAGTGA
Found at i:108731953 original size:15 final size:15
Alignment explanation
Indices: 108731902--108731954 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
108731892 TAAAATATAT
108731902 ATTTATATTATTTTTA
1 ATTTATA-TATTTTTA
*
108731918 ATTTA-ATATTTAATA
1 ATTTATATATTT-TTA
*
108731933 ATTTTATATATTTTTT
1 A-TTTATATATTTTTA
108731949 ATTTAT
1 ATTTAT
108731955 TAAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 5 0.16
15 9 0.29
16 11 0.35
17 6 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTATATATTTTTA
Found at i:108741276 original size:43 final size:43
Alignment explanation
Indices: 108741228--108741312 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
108741218 ATATATTTTA
*
108741228 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
1 TTTTATCTTGTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
* *
108741271 TTTTATGTTGTAGTAGTTTATTAGAATAAGGGAACTATTTTC
1 TTTTATCTTGTAGTAGTTTACTAGAATAAGGGAACTATTTTC
108741313 CCAATTAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.48
Consensus pattern (43 bp):
TTTTATCTTGTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
Found at i:108745688 original size:21 final size:21
Alignment explanation
Indices: 108745655--108745694 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
108745645 CAATTGAGTT
108745655 TTTCTATTATTTCAATATGTG
1 TTTCTATTATTTCAATATGTG
* *
108745676 TTTCTTTTTTTTCAATATG
1 TTTCTATTATTTCAATATG
108745695 ATCAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTCTATTATTTCAATATGTG
Found at i:108745754 original size:2 final size:2
Alignment explanation
Indices: 108745747--108745771 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
108745737 TAATTTAGTT
108745747 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
108745772 TATTGCGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108752254 original size:13 final size:13
Alignment explanation
Indices: 108752236--108752267 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
108752226 TTTCCAGCAA
108752236 TTATGAATTTATT
1 TTATGAATTTATT
108752249 TTATGAATTTATT
1 TTATGAATTTATT
*
108752262 TGATGA
1 TTATGA
108752268 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:108752475 original size:50 final size:50
Alignment explanation
Indices: 108752362--108752603 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
108752352 ATTTGGGTAA
* * *
108752362 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
108752418 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
108752468 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
108752518 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
108752568 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
108752604 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:108752551 original size:100 final size:103
Alignment explanation
Indices: 108752362--108752611 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
108752352 ATTTGGGTAA
108752362 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
108752427 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
108752468 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
108752530 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
108752568 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
108752612 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:108772910 original size:6 final size:6
Alignment explanation
Indices: 108772901--108772930 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
108772891 GAGATGATGA
108772901 GATTGG GATTGG GATTGG GATTGG GATTGG
1 GATTGG GATTGG GATTGG GATTGG GATTGG
108772931 AGGGTTGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
GATTGG
Found at i:108773172 original size:15 final size:17
Alignment explanation
Indices: 108773142--108773173 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
108773132 TCAAAATAAA
108773142 CAAAAACCATAAACAAC
1 CAAAAACCATAAACAAC
108773159 CAAAAA-CA-AAACAAC
1 CAAAAACCATAAACAAC
108773174 AAATCAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.69, C:0.28, G:0.00, T:0.03
Consensus pattern (17 bp):
CAAAAACCATAAACAAC
Found at i:108775464 original size:20 final size:20
Alignment explanation
Indices: 108775439--108775484 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
108775429 ACTTCATCAT
* * *
108775439 TATTCTTCTCTTTTTTCTAA
1 TATTCTTCACTTCTTACTAA
108775459 TATTCTTCACTTCTTACTAA
1 TATTCTTCACTTCTTACTAA
108775479 T-TTCTT
1 TATTCTT
108775485 GTTTCTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTCTTCACTTCTTACTAA
Found at i:108777479 original size:12 final size:12
Alignment explanation
Indices: 108777462--108777486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108777452 TACCCAATGA
108777462 GAAAACCGGCAC
1 GAAAACCGGCAC
108777474 GAAAACCGGCAC
1 GAAAACCGGCAC
108777486 G
1 G
108777487 TTTTACATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.32, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAAACCGGCAC
Found at i:108783626 original size:24 final size:24
Alignment explanation
Indices: 108783585--108783631 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
108783575 TGCATTTCTT
*
108783585 GGGTAAATTTGGAGAAATAAGAGA
1 GGGTAAATGTGGAGAAATAAGAGA
108783609 GGGTAAAATGTGGA-AAATAAGAG
1 GGGT-AAATGTGGAGAAATAAGAG
108783632 GTTAAGGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.34, T:0.19
Consensus pattern (24 bp):
GGGTAAATGTGGAGAAATAAGAGA
Found at i:108784024 original size:17 final size:16
Alignment explanation
Indices: 108783992--108784025 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
108783982 GATGCATTTG
108783992 AAATTTAAAATATATA
1 AAATTTAAAATATATA
*
108784008 AAATTTATAAATTTATA
1 AAATTTA-AAATATATA
108784025 A
1 A
108784026 TAAAAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTAAAATATATA
Found at i:108784073 original size:17 final size:17
Alignment explanation
Indices: 108784028--108784076 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
108784018 ATTTATAATA
*
108784028 AAAAAATCAAATTTTAT
1 AAAATATCAAATTTTAT
* *
108784045 --AATACCAGATTTTAT
1 AAAATATCAAATTTTAT
108784060 AAAATATCAAATTTTAT
1 AAAATATCAAATTTTAT
108784077 GTATTTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
15 12 0.48
17 13 0.52
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAATATCAAATTTTAT
Found at i:108784819 original size:16 final size:16
Alignment explanation
Indices: 108784797--108784837 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
108784787 AATTTTATAT
108784797 AATTTTAAATATTTTA
1 AATTTTAAATATTTTA
* *
108784813 TATTTTATATATTTTA
1 AATTTTAAATATTTTA
108784829 AATTTTAAA
1 AATTTTAAA
108784838 ATAATAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTAAATATTTTA
Found at i:108784820 original size:26 final size:26
Alignment explanation
Indices: 108784781--108784831 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
108784771 TTAATATTTT
108784781 TTTTATAATTTTATATAATTTTAAATA
1 TTTTATAATTTTATAT-ATTTTAAATA
108784808 TTTTAT-ATTTTATATATTTTAAAT
1 TTTTATAATTTTATATATTTTAAAT
108784832 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 9 0.38
26 9 0.38
27 6 0.25
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTATAATTTTATATATTTTAAATA
Found at i:108784828 original size:9 final size:9
Alignment explanation
Indices: 108784781--108784828 Score: 57
Period size: 8 Copynumber: 5.6 Consensus size: 9
108784771 TTAATATTTT
108784781 TTTTATA-A
1 TTTTATATA
108784789 TTTTATATAA
1 TTTTATAT-A
*
108784799 TTTTAAATA
1 TTTTATATA
108784808 -TTT-TATA
1 TTTTATATA
108784815 TTTTATATA
1 TTTTATATA
108784824 TTTTA
1 TTTTA
108784829 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
7 3 0.09
8 13 0.38
9 10 0.29
10 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTATATA
Found at i:108787351 original size:22 final size:22
Alignment explanation
Indices: 108787316--108787357 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
108787306 ATGATAACTA
*
108787316 ATATATTTAAAACTATTAATAC
1 ATATATATAAAACTATTAATAC
*
108787338 ATATATATATAACTATTAAT
1 ATATATATAAAACTATTAAT
108787358 TGGTCCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATATATAAAACTATTAATAC
Found at i:108787818 original size:19 final size:19
Alignment explanation
Indices: 108787796--108787837 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
108787786 TAATCATACA
108787796 AAAAAATATGAAATATAGT
1 AAAAAATATGAAATATAGT
** *
108787815 AAAACTTATGAAATGTAGT
1 AAAAAATATGAAATATAGT
108787834 AAAA
1 AAAA
108787838 CTACTTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (19 bp):
AAAAAATATGAAATATAGT
Found at i:108787838 original size:19 final size:19
Alignment explanation
Indices: 108787802--108787839 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
108787792 TACAAAAAAA
108787802 TATGAAATATAGTAAAACT
1 TATGAAATATAGTAAAACT
*
108787821 TATGAAATGTAGTAAAACT
1 TATGAAATATAGTAAAACT
108787840 ACTTTAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (19 bp):
TATGAAATATAGTAAAACT
Found at i:108787911 original size:12 final size:12
Alignment explanation
Indices: 108787894--108787948 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
108787884 CATAGTATAT
108787894 AACTATTACTAA
1 AACTATTACTAA
*
108787906 AACTATTGCT-A
1 AACTATTACTAA
* *
108787917 CA-TA-TA-TAT
1 AACTATTACTAA
108787926 AACTATTACTAA
1 AACTATTACTAA
108787938 AACTATTACTA
1 AACTATTACTA
108787949 CGTATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
8 1 0.03
9 2 0.06
10 4 0.12
11 4 0.12
12 22 0.67
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (12 bp):
AACTATTACTAA
Found at i:108787927 original size:32 final size:32
Alignment explanation
Indices: 108787884--108787964 Score: 135
Period size: 32 Copynumber: 2.5 Consensus size: 32
108787874 AATCCCTCCC
*
108787884 CATAGTATATAACTATTACTAAAACTATTGCTA
1 CATA-TATATAACTATTACTAAAACTATTACTA
108787917 CATATATATAACTATTACTAAAACTATTACTA
1 CATATATATAACTATTACTAAAACTATTACTA
*
108787949 CGTATATATAACTATT
1 CATATATATAACTATT
108787965 GTTATATTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 42 0.91
33 4 0.09
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (32 bp):
CATATATATAACTATTACTAAAACTATTACTA
Found at i:108788066 original size:5 final size:5
Alignment explanation
Indices: 108788058--108788086 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
108788048 AGTATATTAT
108788058 ATATG ATATG ATATG ATATG ATATG ATAT
1 ATATG ATATG ATATG ATATG ATATG ATAT
108788087 TGCATTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (5 bp):
ATATG
Found at i:108792208 original size:48 final size:48
Alignment explanation
Indices: 108791983--108792420 Score: 477
Period size: 48 Copynumber: 9.2 Consensus size: 48
108791973 GACCATGGCA
*
108791983 ATATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGAG
1 ATATGTGATATGTGA--TCCGTGTAAGACCATAGCTGGGCTATGGCATC---G
* * * * **
108792036 AGATGTGATTATGTGCTTCCGTATAAGACCATATCTGGAATATGGCATCG
1 ATATGTGA-TATGTG-ATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* * * * * *
108792086 --ATGTGATATATGCTACTGTATAAGACCATATCTGGGATATGGCATC-
1 ATATGTGATATGTGAT-CCGTGTAAGACCATAGCTGGGCTATGGCATCG
* * * *
108792132 A-GTGAGATATGTGATTCGTATAAGACCATAGCTGGGCTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* *
108792179 ATATGTGATACGTGATCCGTGTAAGACCATAGCTGGGTTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
*
108792227 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGTTATGGCATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* *
108792275 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGTGCTATGACATCG
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
* *
108792323 ATATGTGATATGTGATTACGTGTAAGACCATAGCT-GGCTATGGCATCA
1 ATATGTGATATGTGA-TCCGTGTAAGACCATAGCTGGGCTATGGCATCG
*
108792371 ATATGTGA-A--T-AT--GTGTAAGACCATAGCTGGGCTATGTCATC-
1 ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
108792412 ATTATGTGA
1 A-TATGTGA
108792421 AGATGTGTAA
Statistics
Matches: 344, Mismatches: 32, Indels: 29
0.85 0.08 0.07
Matches are distributed among these distances:
41 17 0.05
42 18 0.05
43 1 0.00
44 1 0.00
45 1 0.00
46 28 0.08
47 46 0.13
48 171 0.50
49 18 0.05
50 1 0.00
53 36 0.10
54 6 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATGTGATATGTGATCCGTGTAAGACCATAGCTGGGCTATGGCATCG
Found at i:108792418 original size:42 final size:41
Alignment explanation
Indices: 108792330--108792438 Score: 164
Period size: 42 Copynumber: 2.6 Consensus size: 41
108792320 TCGATATGTG
* *
108792330 ATATGTGATTACGTGTAAGACCATAGCTGGCTATGGCATCA
1 ATATGTGAATATGTGTAAGACCATAGCTGGCTATGGCATCA
*
108792371 ATATGTGAATATGTGTAAGACCATAGCTGGGCTATGTCATCA
1 ATATGTGAATATGTGTAAGACCATAGCT-GGCTATGGCATCA
* *
108792413 TTATGTGAAGATGTGTAAGACCATAG
1 ATATGTGAATATGTGTAAGACCATAG
108792439 TTTAACTATG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 26 0.42
42 36 0.58
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (41 bp):
ATATGTGAATATGTGTAAGACCATAGCTGGCTATGGCATCA
Found at i:108799412 original size:132 final size:129
Alignment explanation
Indices: 108799030--108799418 Score: 370
Period size: 132 Copynumber: 3.0 Consensus size: 129
108799020 GTTATAAATT
* * * * *
108799030 TAAAAACCCTTTAAAACGAAGGCGATGTTCGGTGTTTGGCAATTCTCGAAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGG-AATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGT
* * * * * *
108799095 GTTGGGTTGCAATTTCTCGTTTGCTTAAGATAATCGAATG-TCCCTTTAGAATTTCACTCGTGTT
64 GCTGGGTTGCAATTTCTCGTTTTC-CAAAATAATCGAA-GATTCCTTTAGAATTTCACTCATGTT
108799159 TCC
127 TCC
* * * * * * *
108799162 TAAAAACTCTTTGAAATGAAGGAAGTGTTCGATGTTTGGCGACTCGAGAATCATGCCCTATCATG
1 TAAAAACTCTTTAAAACGAAGGAA-TGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTG
* ** * * * ** *
108799227 CTAGGTTGCGCTTTTTCATTTGTTCAAAGCAATCGAAGATTCC-TTCGAAATTTCACTCATGTTT
65 CTGGGTTGCAATTTCTCGTTT-TCCAAAATAATCGAAGATTCCTTTAG-AATTTCACTCATGTTT
*
108799291 TC
128 CC
* * *
108799293 TAAAAACTCTTCAAAACGAGGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGT
1 TAAAAACTCTTTAAAACGAAGG-AATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGT
*
108799358 GCTGGGTTGCAATTTC-CTGTTTATCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCAT
64 GCTGGGTTGCAATTTCTC-GTTT-TCCAAAATAATCGAAGATTCCTTTAGAATTTCACTCAT
108799419 ACTCTCTAAA
Statistics
Matches: 200, Mismatches: 49, Indels: 16
0.75 0.18 0.06
Matches are distributed among these distances:
130 4 0.02
131 95 0.47
132 98 0.49
133 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (129 bp):
TAAAAACTCTTTAAAACGAAGGAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGC
TGGGTTGCAATTTCTCGTTTTCCAAAATAATCGAAGATTCCTTTAGAATTTCACTCATGTTTCC
Found at i:108801382 original size:46 final size:50
Alignment explanation
Indices: 108801259--108801383 Score: 150
Period size: 46 Copynumber: 2.5 Consensus size: 50
108801249 TATGCTTTCA
*
108801259 TATAAGACCATAGCCGGGGCTATGGCATCGGTACAATGTGATTATGTGATTCCG
1 TATAAGACCATAG-CAGGGCTATGGCATCGGT--AA-GTGATTATGTGATTCCG
* * *
108801313 TATAAGACCATATCTGGGATATGGCATCGGT-A-TGA-TATGTGA-TCCG
1 TATAAGACCATAGCAGGGCTATGGCATCGGTAAGTGATTATGTGATTCCG
108801359 TATAAGACCATAGCAGGGCTATGGC
1 TATAAGACCATAGCAGGGCTATGGC
108801384 TTCAGTGTGT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
46 26 0.40
47 7 0.11
48 3 0.05
50 1 0.02
53 16 0.25
54 12 0.18
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (50 bp):
TATAAGACCATAGCAGGGCTATGGCATCGGTAAGTGATTATGTGATTCCG
Found at i:108802157 original size:20 final size:20
Alignment explanation
Indices: 108802132--108802192 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
108802122 AGAATATGTC
108802132 CATGTTCCAGGCCACACGGG
1 CATGTTCCAGGCCACACGGG
*
108802152 CATGTTCCAGGCCACATGGG
1 CATGTTCCAGGCCACACGGG
*
108802172 CATGTCCCAGGCCACACGGG
1 CATGTTCCAGGCCACACGGG
108802192 C
1 C
108802193 GTATGCCCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.20, C:0.36, G:0.30, T:0.15
Consensus pattern (20 bp):
CATGTTCCAGGCCACACGGG
Found at i:108808684 original size:53 final size:52
Alignment explanation
Indices: 108808603--108808705 Score: 143
Period size: 53 Copynumber: 2.0 Consensus size: 52
108808593 GACAGAAAGG
* *
108808603 ATGTGATATATGCTTTCATATAAGACCATATCCGGGCTATGGCATCGGTACA
1 ATGTGATATATGATTTCATATAAGACCATATCCGGGATATGGCATCGGTACA
* * * *
108808655 ATGTGATTATGTGATTTCGTATAATACCATATCTGGGATATGGCATCGGTA
1 ATGTGA-TATATGATTTCATATAAGACCATATCCGGGATATGGCATCGGTA
108808706 TGATATGTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 6 0.14
53 38 0.86
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (52 bp):
ATGTGATATATGATTTCATATAAGACCATATCCGGGATATGGCATCGGTACA
Found at i:108808730 original size:46 final size:50
Alignment explanation
Indices: 108808621--108808730 Score: 129
Period size: 53 Copynumber: 2.2 Consensus size: 50
108808611 TATGCTTTCA
* *
108808621 TATAAGACCATATCCGGGCTATGGCATCGGTACAATGTGATTATGTGATTTCG
1 TATAAGACCATATCCGGGATATGGCATCGGT--AA-GTGATTATGTGATTCCG
* *
108808674 TATAATACCATATCTGGGATATGGCATCGGT-A-TGA-TATGTGA-TCCG
1 TATAAGACCATATCCGGGATATGGCATCGGTAAGTGATTATGTGATTCCG
108808720 TATAAGACCAT
1 TATAAGACCAT
108808731 GGTAGGGCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
46 13 0.25
47 7 0.13
48 3 0.06
50 1 0.02
53 28 0.54
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (50 bp):
TATAAGACCATATCCGGGATATGGCATCGGTAAGTGATTATGTGATTCCG
Found at i:108809516 original size:20 final size:20
Alignment explanation
Indices: 108809491--108809551 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
108809481 AGAATACGTC
108809491 CATGTTCCAGGCCACACGGG
1 CATGTTCCAGGCCACACGGG
*
108809511 CATGTTCCAAGCCACACGGG
1 CATGTTCCAGGCCACACGGG
*
108809531 CATGTCCCAGGCCACACGGG
1 CATGTTCCAGGCCACACGGG
108809551 C
1 C
108809552 GTGTGCCCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.21, C:0.38, G:0.28, T:0.13
Consensus pattern (20 bp):
CATGTTCCAGGCCACACGGG
Found at i:108819084 original size:44 final size:44
Alignment explanation
Indices: 108819033--108819122 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
108819023 AAGAAAATTA
108819033 AAATAATTTAATCCCGATAATTTTAAATGTAAGTAAATAAAGAC
1 AAATAATTTAATCCCGATAATTTTAAATGTAAGTAAATAAAGAC
108819077 AAATAATTTAATCCCGATAATTTTAAATGTAAGTAAATAAAGAC
1 AAATAATTTAATCCCGATAATTTTAAATGTAAGTAAATAAAGAC
108819121 AA
1 AA
108819123 TAAATAATGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (44 bp):
AAATAATTTAATCCCGATAATTTTAAATGTAAGTAAATAAAGAC
Found at i:108819144 original size:44 final size:44
Alignment explanation
Indices: 108819033--108819135 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 44
108819023 AAGAAAATTA
* * *
108819033 AAATAATTTAATCCCGATAATTTTAAATGTAAGTAAATAAAGAC
1 AAATAATATAATACAGATAATTTTAAATGTAAGTAAATAAAGAC
* * *
108819077 AAATAATTTAATCCCGATAATTTTAAATGTAAGTAAATAAAGAC
1 AAATAATATAATACAGATAATTTTAAATGTAAGTAAATAAAGAC
108819121 -AATAA-ATAATGACAG
1 AAATAATATAAT-ACAG
108819136 TGACATTTTC
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
42 4 0.07
43 7 0.13
44 44 0.80
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (44 bp):
AAATAATATAATACAGATAATTTTAAATGTAAGTAAATAAAGAC
Found at i:108822308 original size:131 final size:132
Alignment explanation
Indices: 108822148--108822590 Score: 474
Period size: 131 Copynumber: 3.4 Consensus size: 132
108822138 CCTAGCACAT
* * * * * * *
108822148 TAGGGCACGATTTCTCGAATTTCTAAACATCGAGCATTGCCTT-ATTTT-TAGAATTTTTAAGAA
1 TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTTAAGAA
* ** * **
108822211 ACATGAGTGAAATTCTAAAGGGAATATTTGATTATTTAAAACCAACAGGAAATCACAACCCAGCA
66 ACATGAGTGAAATTCTAAAGGGAATATTCGATTATTTTGAACAAAC-GGAAATTGCAACCCAGCA
108822276 CGA
130 CGA
*
108822279 TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATCTTTAATG-
1 TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTTAA-GA
* * ** *
108822343 -ACATGGGTGAAATT-TCAAA-GGAATATTCGATTGTTTTGAATGAACGGGAAATTGCAACCCAA
65 AACATGAGTGAAATTCT-AAAGGGAATATTCGATTATTTTGAACAAAC-GGAAATTGCAACCCAG
108822405 CACGA
128 CACGA
**
108822410 TAGGGCACGATT-CCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTATAGAATTTTT-AGAA
1 TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTTAAG-A
* * * * *
108822473 AACATGAATGAAATTCCAAAGGG-ACATTCGATTATTTTGAGCAAACGAGAAATTGCGACCCAGC
65 AACATGAGTGAAATTCTAAAGGGAATATTCGATTATTTTGAACAAACG-GAAATTGCAACCCAGC
108822537 AC-A
129 ACGA
* * * **
108822540 TTAGGGTACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTA
1 -TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTA
108822591 AAGGGTTTTT
Statistics
Matches: 261, Mismatches: 39, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
128 1 0.00
129 1 0.00
130 46 0.18
131 148 0.57
132 53 0.20
133 11 0.04
134 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (132 bp):
TAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTATAGAATTTTTAAGAA
ACATGAGTGAAATTCTAAAGGGAATATTCGATTATTTTGAACAAACGGAAATTGCAACCCAGCAC
GA
Found at i:108827531 original size:20 final size:21
Alignment explanation
Indices: 108827506--108827550 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
108827496 TGAGTTTGGG
*
108827506 TTTGAAATTG-GGATATGTAA
1 TTTGAAATTGTGGACATGTAA
* *
108827526 TTTGAACTTGTGGACATTTAA
1 TTTGAAATTGTGGACATGTAA
108827547 TTTG
1 TTTG
108827551 GTTTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (21 bp):
TTTGAAATTGTGGACATGTAA
Found at i:108830334 original size:14 final size:14
Alignment explanation
Indices: 108830315--108830343 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
108830305 TTAACTTCAT
108830315 TATTATTATTATTA
1 TATTATTATTATTA
108830329 TATTATTATTATTA
1 TATTATTATTATTA
108830343 T
1 T
108830344 TATCATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATTATTA
Found at i:108830377 original size:3 final size:3
Alignment explanation
Indices: 108830313--108830368 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
108830303 TGTTAACTTC
* *
108830313 ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATC ATCT -TT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
*
108830357 ATT ATT AGT ATT
1 ATT ATT ATT ATT
108830369 GGTATTATTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 3 0.07
3 41 0.93
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:108830449 original size:22 final size:23
Alignment explanation
Indices: 108830402--108830450 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
108830392 ATCTCTATTC
*
108830402 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
108830426 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
108830448 ATA
1 ATA
108830451 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:108841823 original size:1 final size:1
Alignment explanation
Indices: 108841817--108841843 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
108841807 TTTGCTTCCT
108841817 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
108841844 CTTTGGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:108843161 original size:44 final size:44
Alignment explanation
Indices: 108843044--108843839 Score: 338
Period size: 44 Copynumber: 18.6 Consensus size: 44
108843034 ATAATACAGG
* * *
108843044 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-GT-A-A
*
108843090 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * * *
108843134 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG---G--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * *
108843173 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAG--A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGTAA
*
108843214 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * * *
108843258 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG---G--A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * * *
108843297 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGTAA
* * * * * *
108843338 TCTTATCTCCCTGGGATTACAGTGGAACAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-ATAGTA-A
* * * *
108843384 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * *
108843427 TCCTATCTCCCTGA-AGTTACAATGGAGCGGATTAAAG---G--A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGATAGTAA
* * * * *
108843466 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC--ACATCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT-AGTAA
* * * * *
108843507 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAATGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATA-GTA-A
* * * *
108843553 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
* * * *
108843596 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAA-ATAAAG-GA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAT--AGTAA
* * * *
108843640 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC---GCATCAG--G
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAG-AT-AGTAA
* * * * * * *
108843681 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-ATAGTA-A
** **
108843727 TCTTATC-CCCTGA-AGTTACAGTGGAGCAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGATAGTA-A
* * * * *
108843770 TCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACT-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
*
108843813 TCCTATCTCCCTGA-AGTTACAGTGGAG
1 TCTTATCTCCCTGAGA-TTACAGTGGAG
108843840 TGGGTTAAAA
Statistics
Matches: 569, Mismatches: 127, Indels: 111
0.71 0.16 0.14
Matches are distributed among these distances:
37 3 0.01
38 2 0.00
39 75 0.13
41 113 0.20
42 11 0.02
43 102 0.18
44 127 0.22
45 27 0.05
46 108 0.19
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGATAGTAA
Found at i:108843305 original size:124 final size:124
Alignment explanation
Indices: 108843085--108843368 Score: 532
Period size: 124 Copynumber: 2.3 Consensus size: 124
108843075 CCAAAGAATT
108843085 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
108843150 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
66 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
108843209 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
108843274 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
66 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
* * * *
108843333 TCAGGTCTTATCTCCCTGGGATTACAGTGGAACAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA
108843369 CCGAAGAATT
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
124 156 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (124 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGA
TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACA
Found at i:108843464 original size:169 final size:169
Alignment explanation
Indices: 108843210--108843762 Score: 869
Period size: 169 Copynumber: 3.2 Consensus size: 169
108843200 AAGATCACAT
* * *
108843210 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGA
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGAAG-
108843274 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGT
64 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGT
108843339 CTTATCTCCCTGGGATTACAGTGGAACAGACCGAAGAATTG
129 CTTATCTCCCTGGGATTACAGTGGAACAGACCGAAGAATTG
*
108843380 CAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTT
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTT
108843445 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
* *
108843510 TATCTCCCTGAGATTACAGTGGAACAGACCGAAGAAATG
131 TATCTCCCTGGGATTACAGTGGAACAGACCGAAGAATTG
*
108843549 CAGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTT
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTT
* * *
108843614 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCA
* **
108843679 GGTCTTATCTCTCTGAGG-TTACAGTGGAGTAGACCGAAGAATTG
126 GGTCTTATCTCCCTG-GGATTACAGTGGAACAGACCGAAGAATTG
* * *
108843723 CAGATCTTATC-CCCTGAAGTTACAGTGGAGCAGATTGAAG
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG
108843763 CCAGAGATCT
Statistics
Matches: 358, Mismatches: 18, Indels: 11
0.93 0.05 0.03
Matches are distributed among these distances:
169 196 0.55
170 44 0.12
173 26 0.07
174 91 0.25
175 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (169 bp):
CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCT
TATCTCCCTGGGATTACAGTGGAACAGACCGAAGAATTG
Found at i:108843729 original size:87 final size:87
Alignment explanation
Indices: 108843295--108843835 Score: 389
Period size: 87 Copynumber: 6.3 Consensus size: 87
108843285 CGGATTAAAG
* * *
108843295 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTG-GGATTACA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGG-TTACA
*
108843359 GTGGAACAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
108843382 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** *
108843446 CAATGGAGC-G---GATTAA-AG--
63 CAGTGGAGCAGACCGAAGAATTGCA
* * * *
108843464 GATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAG
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
* *
108843529 TGGAACAGACCGAAGAAATGCA
66 TGGAGCAGACCGAAGAATTGCA
* * ** * ** * *
108843551 GATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCTGAAGTTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGAGGTTA
* ** **
108843615 CAGTGGAGCGGA-TTAA-AA-TAAA
63 CAGTGGAGCAGACCGAAGAATTGCA
* * *
108843637 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
1 -GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACA
*
108843702 GTGGAGTAGACCGAAGAATTGCA
65 GTGGAGCAGACCGAAGAATTGCA
* * * * * *
108843725 GATCTTATC-CCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGAGGTTA
* *
108843789 CAGCGGAGCAGATCGAAG-A---CA
63 CAGTGGAGCAGACCGAAGAATTGCA
* *
108843810 CTATCCTATCTCCCTGAAGTTACAGT
1 -GATCTTATCTCCCTGAAGTTACAGT
108843836 GGAGTGGGTT
Statistics
Matches: 343, Mismatches: 86, Indels: 50
0.72 0.18 0.10
Matches are distributed among these distances:
80 25 0.07
81 2 0.01
82 29 0.08
84 5 0.01
85 35 0.10
86 35 0.10
87 119 0.35
88 9 0.03
89 83 0.24
90 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGAGGTTACAG
TGGAGCAGACCGAAGAATTGCA
Found at i:108843733 original size:46 final size:44
Alignment explanation
Indices: 108843044--108843839 Score: 310
Period size: 41 Copynumber: 18.6 Consensus size: 44
108843034 ATAATACAGG
* *
108843044 TCTTATCTCCCTG-AGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAA--TCAGA
* * *
108843090 TCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAG-AT-AGTAA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATCAG--A
* * * **
108843134 TCCTATCTCCTTG-AGATTACAATGGAGC-G---GATTAA--AGGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATCA-GA
* * * * *
108843173 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CATCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCAGA
* * *
108843214 TCTTATCTCCCTG-AGATTACAGCGGAGCAGATCAAAG-AT-AGTAA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATCAG--A
* * * **
108843258 TCCTATCTCCTTG-AGATTACAATGGAGC-G---GATTAA--AGGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATCA-GA
* * * * * *
108843297 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CATCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCAGA
* *
108843338 TCTTATCTCCCTG-GGATTACAGTGGAACAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAA-T-CAGA
* * * *
108843384 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT-A-A
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGA-ATCAGA
* * **
108843427 TCCTATCTCCCTGAAGTTACAATGGAGC-G---GATTAA--AGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCA-GA
* * * * * *
108843466 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATC--A-CATCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCAGA
*
108843507 TCTTATCTCCCTG-AGATTACAGTGGAACAGACCGAAGAAATGCAGA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAG-AAT-CAGA
* * * *
108843553 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAT-A-A
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGA-ATCAGA
* * ** *
108843596 TCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AATAAAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAAT-CA-GA
* * * * * *
108843640 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCATCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCAGA
* * *
108843681 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAA-T-CAGA
** * *
108843727 TCTTATC-CCCTGAAGTTACAGTGGAGCAGATTGAAGCCA-GAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAG-AATCAGA
* * * *
108843770 TCTTATCTCCCCG-AGATTACAGCGGAGCAGATCGAAG-A-CACTA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATCA-GA
*
108843813 TCCTATCTCCCTGAAGTTACAGTGGAG
1 TCTTATCTCCCTGAAGTTACAGTGGAG
108843840 TGGGTTAAAA
Statistics
Matches: 571, Mismatches: 113, Indels: 135
0.70 0.14 0.16
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 67 0.12
40 21 0.04
41 116 0.20
42 14 0.02
43 95 0.17
44 107 0.19
45 30 0.05
46 115 0.20
47 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATCAGA
Found at i:108843802 original size:130 final size:128
Alignment explanation
Indices: 108843553--108843803 Score: 276
Period size: 130 Copynumber: 1.9 Consensus size: 128
108843543 GAAATGCAGA
* *
108843553 TCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCTCCCTGAAGTTACAG
* * * * * *
108843618 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGCAGAGCAGATCGCATCAGG
* * * *
108843681 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATC-CCCTGAAGTT
1 TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATA-T--A-ATCCTATCTCCCTGAAGTT
* * * *
108843744 ACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCG
62 ACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCCGAAG-TTACAGCAGAGCAGATCG
108843804 AAGACACTAT
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
127 1 0.01
128 34 0.34
129 4 0.04
130 55 0.54
131 7 0.07
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (128 bp):
TCTTATCTCCCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCTCCCTGAAGTTACAG
TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGCAGAGCAGATCGCATCAGG
Found at i:108843956 original size:217 final size:217
Alignment explanation
Indices: 108843550--108843960 Score: 556
Period size: 217 Copynumber: 1.9 Consensus size: 217
108843540 GAAGAAATGC
* * * *
108843550 AGATCTTGTCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTA
* * *
108843615 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAA
* * * * *** * * *
108843680 GTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCTGAAGTTA
131 GTCTTATCTCCCTGAAGATACAGTGGAATAGACCGAAGAACCACAAACCTCATCCCCTGAAGTTA
108843745 CAGTGGAGCAGATTGAAGCCAG
196 CAGTGGAGCAGATTGAAGCCAG
108843767 AGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAGTT
1 AGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACA-TAATCCTATCTCCCTGAAGTT
* * * *
108843831 ACAGTGGAGTGGGTTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGCCGCATCA
65 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCA
* * ** *
108843896 AGTCTTATTTCCCTGAAGATGCAGTGGAATAGATTGAA-AACCACAAACCTCGTCCCCCTGAAGT
130 AGTCTTATCTCCCTGAAGATACAGTGGAATAGACCGAAGAACCACAAACCTCAT-CCCCTGAAGT
108843960 T
194 T
108843961 GCTACGAAGA
Statistics
Matches: 166, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
216 8 0.05
217 157 0.95
218 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (217 bp):
AGATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGACATAATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGACCGCATCAA
GTCTTATCTCCCTGAAGATACAGTGGAATAGACCGAAGAACCACAAACCTCATCCCCTGAAGTTA
CAGTGGAGCAGATTGAAGCCAG
Found at i:108845198 original size:3 final size:3
Alignment explanation
Indices: 108845136--108845189 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
108845126 TGTTAACTTC
* *
108845136 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATCT -TT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
*
108845181 ATT AGT ATT
1 ATT ATT ATT
108845190 GGTATTATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.98
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:108845270 original size:22 final size:23
Alignment explanation
Indices: 108845223--108845271 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
108845213 ATCTCTATTC
*
108845223 ATATATACTTATGTATTTTCAAAT
1 ATATATACTTATGTATTATC-AAT
108845247 ATATATATCTTAT-TATTATC-AT
1 ATATATA-CTTATGTATTATCAAT
108845269 ATA
1 ATA
108845272 AGTGCTTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 5 0.22
24 13 0.57
25 5 0.22
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATATACTTATGTATTATCAAT
Found at i:108849303 original size:22 final size:22
Alignment explanation
Indices: 108849277--108849321 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
108849267 TTTTAATAAA
108849277 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
108849299 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
108849321 A
1 A
108849322 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:108852541 original size:22 final size:22
Alignment explanation
Indices: 108852515--108852559 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
108852505 TTTTAATAAA
108852515 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
108852537 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
108852559 A
1 A
108852560 CAATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:108871195 original size:24 final size:24
Alignment explanation
Indices: 108871168--108871220 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
108871158 GATTAGATTG
* * *
108871168 ATATGAATTTTAATTATAAAATTA
1 ATATAAATATTAATTACAAAATTA
108871192 ATATAAATATTAATTACAAAA-T-
1 ATATAAATATTAATTACAAAATTA
108871214 ATATAAA
1 ATATAAA
108871221 AAAAATACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 7 0.27
23 1 0.04
24 18 0.69
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
ATATAAATATTAATTACAAAATTA
Found at i:108872214 original size:127 final size:125
Alignment explanation
Indices: 108871942--108872505 Score: 630
Period size: 127 Copynumber: 4.5 Consensus size: 125
108871932 AACGGTAAAC
* ** ** * * * * * * *
108871942 TGAAACCCAGCACGATTGGGCACAATTTATCGAATTTCCAAATACGAAACATTGCCACATTTTAA
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
* * * * * ***
108872007 ATTGAGAAAACATGGATGGAATTTCAAAAGGATATTTTGTATTTTAGTCGAATGAAAAAT
66 TTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
* *
108872067 TGAAACTCAGCACGATTGGGCACGACCTCCCAAACTTCCAAGA-ACGAAATATTACCTCGTTTTA
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAA-ACACGAAATATTGCCTCGTTTTA
*
108872131 TTTTAAGAAAGCGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTAGTCGAGTGAAAAAT
65 TTTTAAGAAAGCGTGGATGAAATTTC--AAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
* *
108872194 TGAAGCCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
* * * * *
108872259 TTTAAGAAAACGCGGATGAATTTTAAAAAAAGGATATTCCATA-TTTAGTCGAATGAACAAAA
66 TTTAAGAAAGCGTGGATGAAATTT--CAAAAGGATATTCCATATTTTAGTCGAATGAA-AAAT
* * * * * *
108872321 CGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCCAAATACGAAATATTGCCTCCTTTTA
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACT-TCCAAACACGAAATATTGCCTCGTTTT-
* * * * *
108872386 ATTTTTTAA-AAAGCATGGACGAAATTTCCAAAGGATATTCCGTATTTTAGCCGAATGAAAAAT
64 A--TTTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
* *
108872449 TGAAACTCAGCACGATTGGGCACGACCTCCCAAACTTCCCAACACGAAATATTGCCT
1 TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCT
108872506 TATGCTGAGA
Statistics
Matches: 370, Mismatches: 57, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
125 70 0.19
126 15 0.04
127 179 0.48
128 73 0.20
129 14 0.04
130 13 0.04
131 6 0.02
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (125 bp):
TGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTAT
TTTAAGAAAGCGTGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAAAAT
Found at i:108874604 original size:45 final size:44
Alignment explanation
Indices: 108874508--108875099 Score: 376
Period size: 45 Copynumber: 13.3 Consensus size: 44
108874498 GTCGATATAT
* *
108874508 GGAGATAAGA-TCTGTAATTTTCAGTCTGCTTC-CTGCAACTTCA
1 GGAGATAAGACT-TGTCATTTTCAGTCTGCTCCACTGCAACTTCA
* * *
108874551 GGAAGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCA
1 GG-AGATAAGACTTGTCATTTTCAGTCTGCTCCACTGCAACTTCA
* * *
108874596 GAGAGATAAGACTTGTTATTTTC-GATCTGCTCCA-TAGTCGA-TACA
1 G-GAGATAAGACTTGTCATTTTCAG-TCTGCTCCACT-G-CAACTTCA
* * *
108874641 TGGAGATAAGA-TCTGTAATTTTCAGTCTACTTC-CTGCAACTTCA
1 -GGAGATAAGACT-TGTCATTTTCAGTCTGCTCCACTGCAACTTCA
* * * *
108874685 GGAAGATAAGACTTGCCGTCTTCAGTCTGCTTCACTGCAACTTCA
1 GG-AGATAAGACTTGTCATTTTCAGTCTGCTCCACTGCAACTTCA
* *
108874730 GGGAGATAAGACTTGTCATTTTC-GATCTGCTCCA-TAGCCGA-TACA
1 -GGAGATAAGACTTGTCATTTTCAG-TCTGCTCCACT-G-CAACTTCA
* * *
108874775 TGGAGATAAGA-TCTGTAACTTTT-AGTCTGCTTC-CTGCATCTTCA
1 -GGAGATAAGACT-TGTCA-TTTTCAGTCTGCTCCACTGCAACTTCA
108874819 GGAAGATAAGACTTG-C-TGTCTTCAGTCTGCTCCACTGCAACTTCA
1 GG-AGATAAGACTTGTCAT-T-TTCAGTCTGCTCCACTGCAACTTCA
* *
108874864 GGAAGATAAGACTTGTCATTTTC-GATCTGCTCCA-TAGCCGA-TACA
1 GG-AGATAAGACTTGTCATTTTCAG-TCTGCTCCACT-G-CAACTTCA
* *
108874909 TGGAGATAAGA-TCTGTAACTTTT-AGTCTGCTTC-CTGCAACTTCA
1 -GGAGATAAGACT-TGTCA-TTTTCAGTCTGCTCCACTGCAACTTCA
* * *
108874953 GGAAGATAAGACTTG-CTATCTACAGTCTGCTCCACTGCAACTTTA
1 GG-AGATAAGACTTGTC-ATTTTCAGTCTGCTCCACTGCAACTTCA
* *
108874998 GAGAGATAAGACTTGTCATTTTC-GATCTGCTCCA-TAGCCGA-TACA
1 G-GAGATAAGACTTGTCATTTTCAG-TCTGCTCCACT-G-CAACTTCA
* * *
108875043 TGGAGATAAGA-TCTGTAACTTTT-AGTTTGCTTC-CTGCAACTTCA
1 -GGAGATAAGACT-TGTCA-TTTTCAGTCTGCTCCACTGCAACTTCA
108875087 GGAAGATAAGACT
1 GG-AGATAAGACT
108875100 AGTGGCTAAA
Statistics
Matches: 433, Mismatches: 57, Indels: 116
0.71 0.09 0.19
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 21 0.05
44 121 0.28
45 253 0.58
46 35 0.08
47 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
GGAGATAAGACTTGTCATTTTCAGTCTGCTCCACTGCAACTTCA
Found at i:108874652 original size:134 final size:133
Alignment explanation
Indices: 108874486--108875219 Score: 1074
Period size: 134 Copynumber: 5.5 Consensus size: 133
108874476 GATGGCTAAA
* *
108874486 ATCTGCTCCATAGTCGATATATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTC
*
108874550 AGGAAGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTTAT
65 AGGAAGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGTCAT
108874615 TTTCG
129 TTTCG
* *
108874620 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAA-TTTTCAGTCTACTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTC
* *
108874684 AGGAAGATAAGACTTGCCGTCTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCAT
65 AGGAAGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGTCAT
108874749 TTTCG
129 TTTCG
*
108874754 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCATCTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
* *
108874819 GGAAGATAAGACTTGCTGTCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTCATT
66 GGAAGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAGG-AGATAAGACTTGTCATT
108874884 TTCG
130 TTCG
108874888 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
*
108874953 GGAAGATAAGACTTG-C-TATCTACAGTCTGCTCCACTGCAACTTTAGAGAGATAAGACTTGTCA
66 GGAAGATAAGACTTGCCGTAT-T-CAGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGTCA
108875016 TTTTCG
128 TTTTCG
*
108875022 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTTTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
* * * *** * * *
108875087 GGAAGATAAGACTAGTGGC-TA--AAATCTGCTCCA-TAGCCGGTACATGGAGATAAGACTCGCC
66 GGAAGATAAGACT--TGCCGTATTCAGTCTGCTCCACT-GCAACTTCA-GGAGATAAGACTTGTC
108875148 A-TTTCTG
127 ATTTTC-G
*
108875155 ATCTGCTCCATAGCCGATATATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTC
108875219 A
65 A
108875220 AGACAATAAG
Statistics
Matches: 561, Mismatches: 26, Indels: 27
0.91 0.04 0.04
Matches are distributed among these distances:
132 11 0.02
133 90 0.16
134 449 0.80
135 6 0.01
136 2 0.00
137 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (133 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
GGAAGATAAGACTTGCCGTATTCAGTCTGCTCCACTGCAACTTCAGGAGATAAGACTTGTCATTT
TCG
Found at i:108875027 original size:89 final size:87
Alignment explanation
Indices: 108874510--108875028 Score: 317
Period size: 89 Copynumber: 5.8 Consensus size: 87
108874500 CGATATATGG
* * * * *
108874510 AGATAAGA-TCTGTAATTTTCAGTCTGCTTC-CTGCAACTTCAGGAAGATAAGACTTGCCGTATT
1 AGATAAGACT-TGT-ATCTTCAGTCTGCTCCACTGCAACTTCAGG-AGATAAGACTTGTCATTTT
*
108874573 C-AGTCTGCTCCACTGCAACTTCA-GA
63 CGA-TCTGCTTC-CTGCAACTTCAGGA
* * * *
108874598 GAGATAAGACTTGTTATTTTC-GATCTGCTCCA-TAGTCGA-TACATGGAGATAAGA-TCTGTAA
1 -AGATAAGACTTG-TATCTTCAG-TCTGCTCCACT-G-CAACTTCA-GGAGATAAGACT-TGTCA
*
108874659 TTTTC-AGTCTACTTCCTGCAACTTCAGGA
59 TTTTCGA-TCTGCTTCCTGCAACTTCAGGA
** *
108874688 AGATAAGACTTGCCGTCTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCATTTTC
1 AGATAAGACTTG-TATCTTCAGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGTCATTTTC
* *
108874753 GATCTGC-TCCATAGCCGA-TACATGG-
64 GATCTGCTTCC-T-G-CAACTTCA-GGA
* * * *
108874778 AGATAAGA-TCTGTAACTTTTAGTCTGCTTC-CTGCATCTTCAGGAAGATAAGACTTG-C-TGTC
1 AGATAAGACT-TGTATC-TTCAGTCTGCTCCACTGCAACTTCAGG-AGATAAGACTTGTCAT-T-
*
108874839 TTC-AGTCTGCTCCACTGCAACTTCAGGA
61 TTCGA-TCTGCTTC-CTGCAACTTCAGGA
* * * *
108874867 AGATAAGACTTGTCATTTTC-GATCTGCTCCA-TAGCCGA-TACATGGAGATAAGA-TCTGTAAC
1 AGATAAGACTTGT-ATCTTCAG-TCTGCTCCACT-G-CAACTTCA-GGAGATAAGACT-TGTCA-
*
108874928 TTTTAG-TCTGCTTCCTGCAACTTCAGGA
59 TTTTCGATCTGCTTCCTGCAACTTCAGGA
* *
108874956 AGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTTAGAGAGATAAGACTTGTCATTTTC
1 AGATAAGACTTG-TATCTTCAGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGTCATTTTC
108875021 GATCTGCT
64 GATCTGCT
108875029 CCATAGCCGA
Statistics
Matches: 337, Mismatches: 46, Indels: 94
0.71 0.10 0.20
Matches are distributed among these distances:
87 1 0.00
88 24 0.07
89 207 0.61
90 89 0.26
91 14 0.04
92 1 0.00
93 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (87 bp):
AGATAAGACTTGTATCTTCAGTCTGCTCCACTGCAACTTCAGGAGATAAGACTTGTCATTTTCGA
TCTGCTTCCTGCAACTTCAGGA
Found at i:108875080 original size:89 final size:88
Alignment explanation
Indices: 108874486--108875143 Score: 290
Period size: 89 Copynumber: 7.4 Consensus size: 88
108874476 GATGGCTAAA
* *
108874486 ATCTGCTCCATAGTCGATATATGGAGATAAGA-TCTGTAA-TTTTCAGTCTGCTTCCTGCAACTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACT-TGTAACTTTT-AGTCTGCTTCCTGCAACTT
* * *
108874549 CAGGAAGATAAGACTTGCCGTATTC-
64 CAGG-AGATAAGACTTGTCATTTTCG
* * * *
108874574 AGTCTGCTCCACT-G-CAACTTCA-GAGAGATAAGACTTGTTA-TTTTCGATCTGC-TCCATAGT
1 A-TCTGCTCCA-TAGCCGA-TACATG-GAGATAAGACTTGTAACTTTTAG-TCTGCTTCC-T-G-
* * *
108874634 CGA-TACATGGAGATAAGA-TCTGTAATTTTC-
58 CAACTTCA-GGAGATAAGACT-TGTCATTTTCG
* * * * *
108874664 AGTCTACTTCC-T-G-CAACTTCA-GGAAGATAAGACTTG--CCGTCTTCAGTCTGCTTCACTGC
1 A-TCTGC-TCCATAGCCGA-TACATGG-AGATAAGACTTGTAAC-T-TTTAGTCTGCTTC-CTGC
108874723 AACTTCAGGGAGATAAGACTTGTCATTTTCG
59 AACTTCA-GGAGATAAGACTTGTCATTTTCG
*
108874754 ATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAACTTTTAGTCTGCTTCCTGCATCTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACT-TGTAACTTTTAGTCTGCTTCCTGCAACTTC
108874818 AGGAAGATAAGACTTG-C-TGTCTTC-
65 AGG-AGATAAGACTTGTCAT-T-TTCG
* * * *
108874842 AGTCTGCTCCACT-G-CAACTTCA-GGAAGATAAGACTTGTCA-TTTTCGATCTGC-TCCATAGC
1 A-TCTGCTCCA-TAGCCGA-TACATGG-AGATAAGACTTGTAACTTTTAG-TCTGCTTCC-T-G-
* * * *
108874902 CGA-TACATGGAGATAAGA-TCTGTAACTTTTAG
58 CAACTTCA-GGAGATAAGACT-TGTCA-TTTTCG
* * * ** *
108874934 -TCTGCTTCC-T-G-CAACTTCA-GGAAGATAAGACTTGCTATC-TACAGTCTGCTCCACTGCAA
1 ATCTGC-TCCATAGCCGA-TACATGG-AGATAAGACTTG-TAACTTTTAGTCTGCTTC-CTGCAA
*
108874993 CTTTAGAGAGATAAGACTTGTCATTTTCG
61 CTTCAG-GAGATAAGACTTGTCATTTTCG
*
108875022 ATCTGCTCCATAGCCGATACATGGAGATAAGA-TCTGTAACTTTTAGTTTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACT-TGTAACTTTTAGTCTGCTTCCTGCAACTTC
* *** ***
108875086 AGGAAGATAAGACTAGT-GGCTAAA
65 AGG-AGATAAGACTTGTCATTTTCG
*
108875110 ATCTGCTCCATAGCCGGTACATGGAGATAAGACT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACT
108875144 CGCCATTTCT
Statistics
Matches: 446, Mismatches: 61, Indels: 125
0.71 0.10 0.20
Matches are distributed among these distances:
87 1 0.00
88 75 0.17
89 231 0.52
90 110 0.25
91 26 0.06
92 2 0.00
93 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (88 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
GGAGATAAGACTTGTCATTTTCG
Found at i:108875408 original size:64 final size:64
Alignment explanation
Indices: 108875298--108875421 Score: 180
Period size: 64 Copynumber: 1.9 Consensus size: 64
108875288 TCATGTATCT
*
108875298 ATGCTTATGCCAAATAACTAGGATGCTATGATCAAAATAATCCAAGTGCTCCTAGCTAGACGTG
1 ATGCTTATACCAAATAACTAGGATGCTATGATCAAAATAATCCAAGTGCTCCTAGCTAGACGTG
* * *
108875362 ATGCTTATATCAAATAATTAGGATGCTATGA-CTAGAATGAAT-CAAGTGCTCCTAGCTAGA
1 ATGCTTATACCAAATAACTAGGATGCTATGATC-AAAAT-AATCCAAGTGCTCCTAGCTAGA
108875422 TGTATTATGA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
63 1 0.02
64 50 0.93
65 3 0.06
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (64 bp):
ATGCTTATACCAAATAACTAGGATGCTATGATCAAAATAATCCAAGTGCTCCTAGCTAGACGTG
Found at i:108879350 original size:16 final size:16
Alignment explanation
Indices: 108879331--108879362 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
108879321 AGGCATGTCT
*
108879331 TAATATGACCACGCGA
1 TAATACGACCACGCGA
108879347 TAATACGACCACGCGA
1 TAATACGACCACGCGA
108879363 AGACATCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (16 bp):
TAATACGACCACGCGA
Found at i:108886684 original size:125 final size:125
Alignment explanation
Indices: 108886612--108887111 Score: 502
Period size: 127 Copynumber: 4.0 Consensus size: 125
108886602 AACATTGCCA
* * **
108886612 CATTTTAAATTGAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAAA
1 CATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAA
* * *
108886677 AATCGAAACCCAGCACAATTGGGCATGACCTCCCAAACTTCCAAGCACGAAATATTACCT
66 AATCGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTACCT
* * * * *
108886737 CATTTTATTTTAAGAAAGCGTGGATGAAATTTCAAAAAAGGATATTCCATATTTTACTCGAATGG
1 CATTTTAATTTAAGAAAACATGGATGAAATTTC--AAAAGGATATTCCATATTTTAGTCGAATGA
* * * *
108886802 AAAATTGAAGCCCAACACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTACCT
64 AAAATCGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTACCT
* * *** * *
108886864 CGTTTTATTTTAAGAAAATGCGGATG-AATTTAAAAAAAAGATATTCCATA-TTTAGTCGAATGA
1 CATTTTAATTTAAGAAAACATGGATGAAATTT--CAAAAGGATATTCCATATTTTAGTCGAATGA
* * * * * * * * *
108886927 ACAAAACGAAACCTAACACGATTGGGCACGATCTCTCAAACTCCCCAAATAGGAAATATTGCCT
64 A-AAATCGAAACCCAGCACGATTGGGCACGACCTCCCAAACT-TCCAAACACGAAATATTACCT
* * * * ** *
108886991 CCTTTTAATTTTTTAA-AAAGCATGGACGAAATTTCTAAAGGATATTCTGTATTTTAGCCGAATG
1 CATTTTAA---TTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATG
* * * * *
108887055 AAAAATTGAAGCCCAGCACGAGTGGGCACGGCCTCCCAAACTTCCCAACACGAAATA
63 AAAAATCGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATA
108887112 CTGCATTATG
Statistics
Matches: 303, Mismatches: 61, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
125 40 0.13
126 53 0.17
127 137 0.45
128 43 0.14
129 20 0.07
130 10 0.03
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (125 bp):
CATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCCATATTTTAGTCGAATGAAA
AATCGAAACCCAGCACGATTGGGCACGACCTCCCAAACTTCCAAACACGAAATATTACCT
Found at i:108897266 original size:81 final size:81
Alignment explanation
Indices: 108897131--108897296 Score: 296
Period size: 81 Copynumber: 2.0 Consensus size: 81
108897121 TTTTATTTAA
*
108897131 TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTGGCATTTAAAACTCATTTGGACGG
1 TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTAGCATTTAAAACTCATTTGGACGG
* *
108897196 CCACGTAGGGCCGCTG
66 CCACGTAGGACCGATG
*
108897212 TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTAGCATTTAAAACTCATTTGGACTG
1 TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTAGCATTTAAAACTCATTTGGACGG
108897277 CCACGTAGGACCGATG
66 CCACGTAGGACCGATG
108897293 TTAA
1 TTAA
108897297 GGAGATAACG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (81 bp):
TTAAAAACCTATTTTCATCCCAGCATCTGGATATCCAAGTTAGCATTTAAAACTCATTTGGACGG
CCACGTAGGACCGATG
Found at i:108900613 original size:41 final size:40
Alignment explanation
Indices: 108900568--108900658 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 40
108900558 TATTGGCACA
* *
108900568 AAGCCTTCTAGGTATC-CAGCTCGATAAAATACACCCACACG
1 AAGCCTGCTAGGT-TCTAAGCTCGAT-AAATACACCCACACG
* *
108900609 AAGCCTGCTAGGTTCTAAGCTCGATAAATACACCGACACT
1 AAGCCTGCTAGGTTCTAAGCTCGATAAATACACCCACACG
*
108900649 AAGCTTGCTA
1 AAGCCTGCTA
108900659 AACACTAAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
40 24 0.55
41 20 0.45
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (40 bp):
AAGCCTGCTAGGTTCTAAGCTCGATAAATACACCCACACG
Found at i:108900667 original size:40 final size:40
Alignment explanation
Indices: 108900585--108900680 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
108900575 CTAGGTATCC
****
108900585 AGCTCGATAAAATACACCCACACGAAGCCTGCTAGGTTCTA
1 AGCTCGAT-AAATACACCCACACGAAGCCTGCTAAACACTA
* * *
108900626 AGCTCGATAAATACACCGACACTAAGCTTGCTAAACACTA
1 AGCTCGATAAATACACCCACACGAAGCCTGCTAAACACTA
*
108900666 AGCCCGATAAATACA
1 AGCTCGATAAATACA
108900681 TTGCACAACC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 39 0.83
41 8 0.17
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.19
Consensus pattern (40 bp):
AGCTCGATAAATACACCCACACGAAGCCTGCTAAACACTA
Found at i:108902383 original size:17 final size:17
Alignment explanation
Indices: 108902361--108902399 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
108902351 ATTCACAATC
*
108902361 AATTTT-CATTTTATATA
1 AATTTTGCAATTTAT-TA
108902378 AATTTTGCAATTTATTA
1 AATTTTGCAATTTATTA
108902395 AATTT
1 AATTT
108902400 AGTCCCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (17 bp):
AATTTTGCAATTTATTA
Found at i:108903622 original size:12 final size:13
Alignment explanation
Indices: 108903595--108903623 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
108903585 ATCAAGTCTA
108903595 GTATTGATCGATC
1 GTATTGATCGATC
108903608 GTATTGATC-ATC
1 GTATTGATCGATC
108903620 GTAT
1 GTAT
108903624 CGTTGCTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.14, G:0.21, T:0.41
Consensus pattern (13 bp):
GTATTGATCGATC
Found at i:108904287 original size:17 final size:18
Alignment explanation
Indices: 108904267--108904300 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
108904257 AAGTGAATTG
108904267 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
108904284 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
108904301 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:108905037 original size:10 final size:10
Alignment explanation
Indices: 108905018--108905067 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
108905008 TAAAATTCTA
108905018 AAAGATAAAT
1 AAAGATAAAT
108905028 ACAA-ATAAAT
1 A-AAGATAAAT
*
108905038 AAAGATAATT
1 AAAGATAAAT
108905048 AAAGATAAAT
1 AAAGATAAAT
108905058 GAAA-ATAAAT
1 -AAAGATAAAT
108905068 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:108907175 original size:31 final size:31
Alignment explanation
Indices: 108907107--108907165 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
108907097 ATTATCACTC
* * *
108907107 AACTATTTAAAAGTTTTCATTTAACTCATTG
1 AACTATTCAAAAGTTTTCATTTAAATCATAG
*
108907138 AACTATTCAAAAGTTTTTATTTAAATCA
1 AACTATTCAAAAGTTTTCATTTAAATCA
108907166 CTAGGCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTCATTTAAATCATAG
Found at i:108908893 original size:21 final size:21
Alignment explanation
Indices: 108908856--108908896 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
108908846 CTGAAAAATA
108908856 AAAAATAAAATTAAGAATTTGG
1 AAAAATAAAA-TAAGAATTTGG
108908878 AAAAATAAAA-ACAGAATTT
1 AAAAATAAAATA-AGAATTT
108908897 AAAGTGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.63, C:0.02, G:0.10, T:0.24
Consensus pattern (21 bp):
AAAAATAAAATAAGAATTTGG
Found at i:108909689 original size:10 final size:10
Alignment explanation
Indices: 108909658--108909716 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
108909648 TAAAATTCTA
108909658 AAAGATAAAT
1 AAAGATAAAT
108909668 ACAA-AT-AAT
1 A-AAGATAAAT
*
108909677 AAAGATAATT
1 AAAGATAAAT
108909687 AAAGATAAAT
1 AAAGATAAAT
108909697 AAAGATAAAT
1 AAAGATAAAT
108909707 GAAA-ATAAAT
1 -AAAGATAAAT
108909717 CCTAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
8 2 0.05
9 6 0.14
10 30 0.70
11 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:108910561 original size:96 final size:97
Alignment explanation
Indices: 108910386--108910568 Score: 305
Period size: 96 Copynumber: 1.9 Consensus size: 97
108910376 TATTTATTTA
* *
108910386 TTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
1 TTTTTACTTAAGAATATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
*
108910451 GGTTACTCAGCCCAACATATTCCTAATTTTTG
66 GGTTACTCAGCCCAACACATTCCTAATTTTTG
* **
108910483 TTTTT-CTTAAGAATATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGCACTTCACCCC
1 TTTTTACTTAAGAATATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
108910547 GGTTACTCAGCCCAACACATTC
66 GGTTACTCAGCCCAACACATTC
108910569 TTAAAAATTA
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
96 75 0.94
97 5 0.06
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (97 bp):
TTTTTACTTAAGAATATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCACCCC
GGTTACTCAGCCCAACACATTCCTAATTTTTG
Found at i:108911351 original size:20 final size:18
Alignment explanation
Indices: 108911297--108911354 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
108911287 AATAATAAAT
108911297 AATAAAATAATAAG-AAAA
1 AATAAAATAA-AAGAAAAA
*
108911315 AAT-AAATAAAAATAAAACA
1 AATAAAAT-AAAAGAAAA-A
108911334 AACTAAAATAAAAGAAAAA
1 AA-TAAAATAAAAGAAAAA
108911353 AA
1 AA
108911355 ATTTGTGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 6 0.18
18 8 0.24
19 6 0.18
20 9 0.27
21 4 0.12
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.14
Consensus pattern (18 bp):
AATAAAATAAAAGAAAAA
Found at i:108918350 original size:10 final size:10
Alignment explanation
Indices: 108918331--108918390 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
108918321 TAAAATTCTA
108918331 AAAGATAAAT
1 AAAGATAAAT
108918341 ACAA-ATAAAT
1 A-AAGATAAAT
*
108918351 AAAGATAATT
1 AAAGATAAAT
108918361 AAAGATAAAT
1 AAAGATAAAT
108918371 AAAGATAAAT
1 AAAGATAAAT
108918381 GAAA-ATAAAT
1 -AAAGATAAAT
108918391 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:108918958 original size:21 final size:20
Alignment explanation
Indices: 108918934--108918973 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
108918924 TTAATTATTC
108918934 TTTTAAAATTTTAAAAAAATA
1 TTTTAAAA-TTTAAAAAAATA
**
108918955 TTTTTTAATTTAAAAAAAT
1 TTTTAAAATTTAAAAAAAT
108918974 TAATTGTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTTAAAATTTAAAAAAATA
Found at i:108933932 original size:3 final size:3
Alignment explanation
Indices: 108933924--108933952 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
108933914 ATACCTTTAA
108933924 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
108933953 AAACTTACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:108940610 original size:31 final size:32
Alignment explanation
Indices: 108940575--108940637 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
108940565 GAACCAAAAT
*
108940575 TTCAAAAAATAAAAAAATTAAAATTGA-CCAA
1 TTCAAAAAATAAAAAAACTAAAATTGATCCAA
* *
108940606 TTCAAAAAATATAAGAACTAAAATTGATCCAA
1 TTCAAAAAATAAAAAAACTAAAATTGATCCAA
108940638 ATAAAATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 24 0.86
32 4 0.14
ACGTcount: A:0.60, C:0.11, G:0.05, T:0.24
Consensus pattern (32 bp):
TTCAAAAAATAAAAAAACTAAAATTGATCCAA
Found at i:108951163 original size:21 final size:22
Alignment explanation
Indices: 108951128--108951168 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
108951118 GTGTATTTTG
108951128 ATGCTTGATGATAGA-AAATGT
1 ATGCTTGATGATAGATAAATGT
* *
108951149 ATGCTTGTTGTTAGATAAAT
1 ATGCTTGATGATAGATAAAT
108951169 AATATTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (22 bp):
ATGCTTGATGATAGATAAATGT
Found at i:108952548 original size:46 final size:46
Alignment explanation
Indices: 108952283--108952556 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
108952273 TTATCTTCGA
* * * * * *
108952283 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
** * *
108952329 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
108952375 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
108952421 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
108952467 CATGTTGCCATGGTATTTTTCAACAATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
108952513 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
108952557 TTCAGAAAGC
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 3 0.01
46 203 0.99
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:108954681 original size:3 final size:3
Alignment explanation
Indices: 108954667--108954703 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
108954657 ATACTAAATA
108954667 AAT AAT AA- AAT AAT AAT AA- AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
108954704 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.19
3 25 0.81
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:108954681 original size:11 final size:11
Alignment explanation
Indices: 108954662--108954703 Score: 75
Period size: 11 Copynumber: 3.7 Consensus size: 11
108954652 CTTTTATACT
108954662 AAATAAATAATA
1 AAAT-AATAATA
108954674 AAATAATAATA
1 AAATAATAATA
108954685 AAATAATAATA
1 AAATAATAATA
108954696 AAATAATA
1 AAATAATA
108954704 TTTATCTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 26 0.87
12 4 0.13
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATAATAATA
Found at i:108954998 original size:30 final size:31
Alignment explanation
Indices: 108954930--108954988 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
108954920 CACCCTTAAA
** *
108954930 ATATTTACACTATTAGTCCTTTAAATTTTTC
1 ATATTTACACTATTAACCCCTTAAATTTTTC
108954961 ATATTTACACT-TTAACCCCTTAAATTTT
1 ATATTTACACTATTAACCCCTTAAATTTT
108954989 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTTAAATTTTTC
Found at i:108968228 original size:41 final size:41
Alignment explanation
Indices: 108968182--108968262 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
108968172 AGATACCACA
*
108968182 AAGTAATTAGATGAAAGTGTAATTATTAGTATAGAAATTAC
1 AAGTAATTAGATGAAAGTGTAAATATTAGTATAGAAATTAC
108968223 AAGTAATTAGATGAAAGTGTAAATATTAGTATAGAAATTA
1 AAGTAATTAGATGAAAGTGTAAATATTAGTATAGAAATTA
108968263 TACCTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.48, C:0.01, G:0.17, T:0.33
Consensus pattern (41 bp):
AAGTAATTAGATGAAAGTGTAAATATTAGTATAGAAATTAC
Done.