Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 117 of 322
Found at i:38106116 original size:23 final size:25
Alignment explanation
Indices: 38106075--38106128 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 25
38106065 TACTTTCTTT
38106075 TATATGAAACATCAATTGGTACTA-A
1 TATATGAAACATCAATTGGTA-TATA
*
38106100 TATATGAAA-ATC-TTTGGTATATA
1 TATATGAAACATCAATTGGTATATA
38106123 TATATG
1 TATATG
38106129 TGAGGATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 13 0.48
24 3 0.11
25 9 0.33
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (25 bp):
TATATGAAACATCAATTGGTATATA
Found at i:38109296 original size:47 final size:47
Alignment explanation
Indices: 38109232--38109342 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
38109222 GACATTGAGT
* *
38109232 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
38109279 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
38109326 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
38109343 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:38113254 original size:51 final size:51
Alignment explanation
Indices: 38113194--38113296 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
38113184 TGATAGATTG
38113194 TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTTT
1 TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTTT
38113245 TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTTT
1 TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTTT
38113296 T
1 T
38113297 AAGTGATATG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.04, G:0.14, T:0.53
Consensus pattern (51 bp):
TTTTAGATTATCTTAAGCATTTAAGTGATATGTAAATTTATTATGGTTTTT
Found at i:38113298 original size:30 final size:30
Alignment explanation
Indices: 38113264--38113325 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
38113254 ATCTTAAGCA
38113264 TTTAAGTGATATGTAAATTTATTATGGTTT
1 TTTAAGTGATATGTAAATTTATTATGGTTT
38113294 TTTAAGTGATATGTAAATTTATTATGGTTT
1 TTTAAGTGATATGTAAATTTATTATGGTTT
38113324 TT
1 TT
38113326 ACTGAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (30 bp):
TTTAAGTGATATGTAAATTTATTATGGTTT
Found at i:38115018 original size:47 final size:47
Alignment explanation
Indices: 38114952--38115120 Score: 211
Period size: 47 Copynumber: 3.6 Consensus size: 47
38114942 GATGCGAACG
38114952 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
* * * * * *
38114999 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCAAATG--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-C-TAGGCA
38115045 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
* *
38115092 TCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
38115121 ACTTATGGAT
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
45 3 0.03
46 34 0.34
47 61 0.60
48 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.31
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTATCTAGGCA
Found at i:38115066 original size:46 final size:46
Alignment explanation
Indices: 38114916--38115174 Score: 238
Period size: 46 Copynumber: 5.6 Consensus size: 46
38114906 NNNNNNNNNN
* *
38114916 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCG
* * * ** *
38114962 TTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-CTAGGCATCCGAGCTCG
1 TTGAGTTGAGTCCGAGTTCACT--TATGGATGC-AAACGTCCGAGCTCG
* *
38115009 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCG
* * * ** *
38115055 TTGAGTTGAGTCCGAGTTC-GTGAGATGTAT-CTAGGCATCCGAGCTCG
1 TTGAGTTGAGTCCGAGTTCACT--TATGGATGC-AAACGTCCGAGCTCG
* ** *
38115102 TTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACCCCCGAGCTCA
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCG
* *
38115148 TTGAGTTGAGCCCGAGTTCGCTTATGG
1 TTGAGTTGAGTCCGAGTTCACTTATGG
38115175 GCAGGTTACA
Statistics
Matches: 167, Mismatches: 36, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
45 2 0.01
46 94 0.56
47 69 0.41
48 2 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAGCTCG
Found at i:38115074 original size:93 final size:93
Alignment explanation
Indices: 38114916--38115167 Score: 432
Period size: 93 Copynumber: 2.7 Consensus size: 93
38114906 NNNNNNNNNN
*
38114916 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
38114981 GTGAGATGTATCTAGGCATCCGAGCTCG
66 GTGAGATGTATCTAGGCATCCGAGCTCG
*
38115009 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
38115074 GTGAGATGTATCTAGGCATCCGAGCTCG
66 GTGAGATGTATCTAGGCATCCGAGCTCG
* ** * * *
38115102 TTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACCCCCGAGCTCATTGAGTTGAGCCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
38115167 G
66 G
38115168 CTTATGGGCA
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 150 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGTTGAGTCCGAGTTC
GTGAGATGTATCTAGGCATCCGAGCTCG
Found at i:38116571 original size:13 final size:14
Alignment explanation
Indices: 38116536--38116570 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
38116526 CCCACGATCT
38116536 TTTTTTTTGTTTTA
1 TTTTTTTTGTTTTA
38116550 TTTTTTTTGTTTTA
1 TTTTTTTTGTTTTA
38116564 TTTTTTT
1 TTTTTTT
38116571 GGCTGCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.06, C:0.00, G:0.06, T:0.89
Consensus pattern (14 bp):
TTTTTTTTGTTTTA
Found at i:38130678 original size:45 final size:45
Alignment explanation
Indices: 38130614--38130707 Score: 179
Period size: 45 Copynumber: 2.1 Consensus size: 45
38130604 AGCAACAGAG
38130614 AATGACAAAAGGACGTTGAGAAGGCTAGCCTATGATTATGTCTTA
1 AATGACAAAAGGACGTTGAGAAGGCTAGCCTATGATTATGTCTTA
*
38130659 AATGACAAAAGGACGTTGAGAAGGCTAGTCTATGATTATGTCTTA
1 AATGACAAAAGGACGTTGAGAAGGCTAGCCTATGATTATGTCTTA
38130704 AATG
1 AATG
38130708 GTGAGATCTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGACAAAAGGACGTTGAGAAGGCTAGCCTATGATTATGTCTTA
Found at i:38133257 original size:43 final size:45
Alignment explanation
Indices: 38133179--38133279 Score: 111
Period size: 43 Copynumber: 2.3 Consensus size: 45
38133169 TACTGCCAGC
* **
38133179 CTTATC-TCTCTGAGGTAGCAAGAGAGTAGGTTGAAGAATG-AG-T
1 CTTATCTTC-CTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGAT
*
38133222 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAGCAAGAG-AGCAGACTGAAGAATGAAGAT
*
38133267 CTTATCTCCCTGA
1 CTTATCTTCCTGA
38133280 AGTTGCACCG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 31 0.63
44 4 0.08
45 13 0.27
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTATCTTCCTGAGGTAGCAAGAGAGCAGACTGAAGAATGAAGAT
Found at i:38133415 original size:177 final size:175
Alignment explanation
Indices: 38133092--38133804 Score: 781
Period size: 176 Copynumber: 4.2 Consensus size: 175
38133082 AAGTCAAATT
* * *
38133092 TTATCTCCCTAAAGTTGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTCCATGTATCGGCAA
1 TTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAA
* * **
38133157 TGGAACAGATTTTA-CTGCCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGAATGAG
66 TGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAA-AATGAG
*
38133221 TCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATC
130 TCTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGAAG-TTGAAGATC
* * * * *
38133268 TTATCTCCCTGAAGTTGCACCGGAGCAGATCGAAGATGGAGAATCTTATCTCCATGTATCGGAAA
1 TTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAA
* *
38133333 TGGAGCAGATTTAAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTAAATAATGAG
66 TGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAA-AATGAG
* * *
38133398 TCTTATCTTCTTGAGGTAGTAAGGAAGCAGACTGAAGTTTGAAGGTC
130 TCTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGAAG-TTGAAGATC
** * * * * *
38133445 TTAT-TCCCCT-AAGCAGTAGTGGAACAGACCAAAGATGGTGAATCTTATCTTCATATATCGGCA
1 TTATCT-CCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCA
* * *
38133508 ATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT----AGA-A--A-GTTGAAGATGAG
65 ATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGAG
*
38133565 TCTTATCTTCCTAAGGTAGAAAGGAAGCAGAC------TGAAGATC
130 TCTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGAAGTTGAAGATC
* * * * * *
38133605 TTATTTCCCTGAAGTTGTAGCGCAGCGGATCAAAGATGGCGAATCTTATCACCATGTATAGGCAA
1 TTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAA
* *
38133670 TGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGATG--AA-GA--
66 TGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGAGT
* * * * * *
38133730 ATTATCTTCCTGAGGAAGCAAGGAAGCAAACTGAAAATTAAAGAT-
131 CTTATCTTCCTGAGGTAGAAAGGAAGCAGACTG-AAGTTGAAGATC
* **
38133775 TTCATCTCCCT-AAGTAGTAATGGAGCAGAT
1 TT-ATCTCCCTGAAGTTGTAGCGGAGCAGAT
38133805 TGAAAAAGAC
Statistics
Matches: 451, Mismatches: 66, Indels: 46
0.80 0.12 0.08
Matches are distributed among these distances:
160 15 0.03
161 80 0.18
164 26 0.06
165 3 0.01
166 3 0.01
167 35 0.08
168 6 0.01
169 4 0.01
170 16 0.04
171 14 0.03
172 3 0.01
176 150 0.33
177 96 0.21
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (175 bp):
TTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATGGTGAATCTTATCTCCATGTATCGGCAA
TGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAAATGAGT
CTTATCTTCCTGAGGTAGAAAGGAAGCAGACTGAAGTTGAAGATC
Found at i:38142389 original size:31 final size:33
Alignment explanation
Indices: 38142354--38142415 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
38142344 TATATAAAAA
*
38142354 ATAATGTATAA-TATAGATTTT-AAAACAATAT
1 ATAATGTATAAGTATAAATTTTGAAAACAATAT
38142385 ATAATGTATAATGTATAAATTTTGAAAACAA
1 ATAATGTATAA-GTATAAATTTTGAAAACAA
38142416 AAGTATAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 11 0.41
33 9 0.33
34 7 0.26
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (33 bp):
ATAATGTATAAGTATAAATTTTGAAAACAATAT
Found at i:38142446 original size:14 final size:16
Alignment explanation
Indices: 38142427--38142458 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
38142417 AGTATAAAGA
38142427 AAATTTTA-A-AATAG
1 AAATTTTACATAATAG
38142441 AAATTTTACATAATAG
1 AAATTTTACATAATAG
38142457 AA
1 AA
38142459 CAATTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATTTTACATAATAG
Found at i:38147740 original size:106 final size:106
Alignment explanation
Indices: 38147566--38147779 Score: 383
Period size: 106 Copynumber: 2.0 Consensus size: 106
38147556 GTTTTCCCTT
* *
38147566 TTGATTCGCAGCCTCCCTTTTAATCTTATTTTGTAGCTTATAGCACTCAGATTTAATGTGCCCTT
1 TTGATTCGCAGCCTCCCTTTTAATATTATTCTGTAGCTTATAGCACTCAGATTTAATGTGCCCTT
38147631 TCTTCTTGCAGAAGTTACAAGTTTTACCTCTGTTTGAAGAC
66 TCTTCTTGCAGAAGTTACAAGTTTTACCTCTGTTTGAAGAC
* *
38147672 TTGATTCGCAGCCTCCCTTTTAATATTATTCTGTAGCTTGTAGCACTCATATTTAATGTGCCCTT
1 TTGATTCGCAGCCTCCCTTTTAATATTATTCTGTAGCTTATAGCACTCAGATTTAATGTGCCCTT
*
38147737 TCTTCTTGCAGAAGTTGCAAGTTTTACCTCTGTTTGAAGAC
66 TCTTCTTGCAGAAGTTACAAGTTTTACCTCTGTTTGAAGAC
38147778 TT
1 TT
38147780 TGATATACCC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 103 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (106 bp):
TTGATTCGCAGCCTCCCTTTTAATATTATTCTGTAGCTTATAGCACTCAGATTTAATGTGCCCTT
TCTTCTTGCAGAAGTTACAAGTTTTACCTCTGTTTGAAGAC
Found at i:38149052 original size:15 final size:16
Alignment explanation
Indices: 38149032--38149067 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
38149022 ACCTAATCAG
*
38149032 GAAAAATAAATAAAA-
1 GAAAAATAAAAAAAAT
38149047 GAAAAATAAAAAAAAT
1 GAAAAATAAAAAAAAT
38149063 GAAAA
1 GAAAA
38149068 TCCCCTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (16 bp):
GAAAAATAAAAAAAAT
Found at i:38150708 original size:20 final size:19
Alignment explanation
Indices: 38150683--38150722 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
38150673 TTTTCCTTGC
*
38150683 TATTTTTT-ACTTTTTTTGT
1 TATTTTTTCAC-TATTTTGT
38150702 TATTTTTTCACTATTTTGT
1 TATTTTTTCACTATTTTGT
38150721 TA
1 TA
38150723 CCATTTCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.15, C:0.07, G:0.05, T:0.72
Consensus pattern (19 bp):
TATTTTTTCACTATTTTGT
Found at i:38152637 original size:46 final size:48
Alignment explanation
Indices: 38152569--38152691 Score: 137
Period size: 48 Copynumber: 2.6 Consensus size: 48
38152559 TTTGTGTGCT
* *
38152569 AGTGTAAGACATGTTTGGGACATGCATCGG-C-CAAAATA-TGAGAGCC
1 AGTGTAAGACATGTATGAGACATGCATCGGCCTCAAAATATTGA-AGCC
* * * *
38152615 AGTGTAAGACATGTATGAGACATGCTTCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTATGAGACATGCATCGGCCTCAAAATATTGAAGCC
*
38152663 AGTGTAAGACATGTCT-AGGACATGCATCG
1 AGTGTAAGACATGTATGA-GACATGCATCG
38152692 ACATTGAGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 27 0.42
47 2 0.03
48 34 0.52
49 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACATGTATGAGACATGCATCGGCCTCAAAATATTGAAGCC
Found at i:38154990 original size:27 final size:27
Alignment explanation
Indices: 38154959--38155010 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
38154949 ATTGTTCTAG
**
38154959 GAAGAGTTTTGAAAGAAGTACATTAGT
1 GAAGAGTTTCAAAAGAAGTACATTAGT
38154986 GAAGAGTTTCAAAAGAAGTACATTA
1 GAAGAGTTTCAAAAGAAGTACATTA
38155011 ATTAGAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (27 bp):
GAAGAGTTTCAAAAGAAGTACATTAGT
Found at i:38160073 original size:46 final size:45
Alignment explanation
Indices: 38159983--38160102 Score: 125
Period size: 46 Copynumber: 2.6 Consensus size: 45
38159973 TTTGTGTGAT
* **
38159983 AGTGTAAGACATGTCT-AGGACATGCATCCGCCATAATATGAGAGCC
1 AGTGTAAGACATGTCTGA-GACATGCAT-CGCCATAAGACAAGAGCC
* * *
38160029 AGTGTAAGACATGTCTGAGACATGCATCGGCATTGAGACAAGAGCT
1 AGTGTAAGACATGTCTGAGACATGCATCGCCA-TAAGACAAGAGCC
* * *
38160075 AATGTAAGACACGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGAGACATGCATC
38160103 AACCTCGCGA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
45 4 0.06
46 58 0.92
47 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGAGACATGCATCGCCATAAGACAAGAGCC
Found at i:38160226 original size:49 final size:49
Alignment explanation
Indices: 38160167--38160290 Score: 151
Period size: 49 Copynumber: 2.5 Consensus size: 49
38160157 GTTGTGTGTT
*
38160167 AGTGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
38160216 AGTGTAAGACCTATCTTGGACATGGCATCGACCTCGCTATATGAAAGCC
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGCC
* **
38160265 AGTGTACGACCATGTCGGGGACATGG
1 AGTGTAAGACC-TGTCTAGGACATGG
38160291 TGTTGGCATC
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.02
49 52 0.81
50 11 0.17
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:38167347 original size:13 final size:13
Alignment explanation
Indices: 38167331--38167363 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
38167321 TGATGCATTC
38167331 TAGTCTTATTTCG
1 TAGTCTTATTTCG
38167344 TAGTCTTATTTCG
1 TAGTCTTATTTCG
38167357 TAGTCTT
1 TAGTCTT
38167364 TCAAATGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.55
Consensus pattern (13 bp):
TAGTCTTATTTCG
Found at i:38169038 original size:46 final size:45
Alignment explanation
Indices: 38168974--38169064 Score: 130
Period size: 46 Copynumber: 2.0 Consensus size: 45
38168964 TATCTATATA
* *
38168974 TCAGCTCGTAAGAGCTTACTGTTCTCAGCTCA-TATGAGCTTACTGT
1 TCAGCTCATAAGAGCTTACTGTT-TCAACTCAGTA-GAGCTTACTGT
*
38169020 TCAGCTCATCAGAGCTTACTGTTTCAACTCAGTAGAGCTTACTGT
1 TCAGCTCATAAGAGCTTACTGTTTCAACTCAGTAGAGCTTACTGT
38169065 CTATCAGCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
45 18 0.44
46 23 0.56
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (45 bp):
TCAGCTCATAAGAGCTTACTGTTTCAACTCAGTAGAGCTTACTGT
Found at i:38169050 original size:23 final size:22
Alignment explanation
Indices: 38168974--38169075 Score: 116
Period size: 23 Copynumber: 4.4 Consensus size: 22
38168964 TATCTATATA
*
38168974 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCAT-AGAGCTTACTGTT
38168997 CTCAGCTCATATGAGCTTACTG-T
1 -TCAGCTCATA-GAGCTTACTGTT
38169020 TCAGCTCATCAGAGCTTACTGTT
1 TCAGCTCAT-AGAGCTTACTGTT
*
38169043 TCAACTCAGTAGAGCTTACTGTCT
1 TCAGCTCA-TAGAGCTTACTGT-T
38169067 ATCAGCTCA
1 -TCAGCTCA
38169076 GGAGGAGTTT
Statistics
Matches: 69, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
22 19 0.28
23 23 0.33
24 20 0.29
25 7 0.10
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (22 bp):
TCAGCTCATAGAGCTTACTGTT
Found at i:38175818 original size:48 final size:48
Alignment explanation
Indices: 38175733--38175955 Score: 249
Period size: 47 Copynumber: 4.7 Consensus size: 48
38175723 GATAAGTTGT
** *
38175733 CGATGCCATGTCTTAGACATGGTCTTACACTGGCTATCATCATCAAGGC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGC
*
38175782 CGATGCCATGCCCCAGACATGTCTTACACTGGCTATCATCATCGAGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGC
* * * *
38175830 CGATG-CATGTCCCAGACATGTCTTACATTGGC-ACTCGTC-TCTACGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGCTA-TCATCATCGAGGC
* * * * * *
38175876 CGATGCCATGTCCTAGACATCGTCTTATACTGGCTCTCATAAT-GTGTC
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGGC
*
38175924 CGATG-CATGTCCCAGACATGTTTTACACTGGC
1 CGATGCCATGTCCCAGACATGTCTTACACTGGC
38175956 ACACAATCAC
Statistics
Matches: 147, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
46 22 0.15
47 55 0.37
48 52 0.35
49 18 0.12
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCATCGAGGC
Found at i:38179037 original size:19 final size:19
Alignment explanation
Indices: 38179005--38179046 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
38178995 TTTTAATATT
*
38179005 TATTTTTTTGTTAATTTAA
1 TATTTTTTTGTTAAGTTAA
38179024 TATTTATTTT-TTAAGTTAA
1 TATTT-TTTTGTTAAGTTAA
38179043 -ATTT
1 TATTT
38179047 GATTACCAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 13 0.62
20 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TATTTTTTTGTTAAGTTAA
Found at i:38179178 original size:16 final size:15
Alignment explanation
Indices: 38179153--38179187 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
38179143 GTACTTTATG
38179153 TTTT-TTTTTTGAAAT
1 TTTTATTTTTTG-AAT
38179168 TTTTATTTTTTGAAT
1 TTTTATTTTTTGAAT
38179183 TTTTA
1 TTTTA
38179188 AATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTATTTTTTGAAT
Found at i:38179193 original size:19 final size:20
Alignment explanation
Indices: 38179170--38179219 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
38179160 TTTGAAATTT
38179170 TTATTTTTTGAATTTTTAAA
1 TTATTTTTTGAATTTTTAAA
38179190 -TATTTTTAT-AATTTTTAAA
1 TTATTTTT-TGAATTTTTAAA
38179209 TTATTTTTTGA
1 TTATTTTTTGA
38179220 TATAATATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 18 0.67
20 9 0.33
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTATTTTTTGAATTTTTAAA
Found at i:38179419 original size:20 final size:20
Alignment explanation
Indices: 38179394--38179440 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
38179384 TAAAAAGTAG
38179394 AATAAATATAAA-ATTAACAA
1 AATAAATATAAATATTAA-AA
38179414 AATAAATATAAATATTAAAA
1 AATAAATATAAATATTAAAA
38179434 AATAAAT
1 AATAAAT
38179441 TTATCATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAATATAAATATTAAAA
Found at i:38184551 original size:204 final size:204
Alignment explanation
Indices: 38184201--38184611 Score: 822
Period size: 204 Copynumber: 2.0 Consensus size: 204
38184191 CAAGAATACC
38184201 TCAAGATCGATCTTGATGAATCTGAATTCCTAAAACAAAAAAGGAGTCCCCAAGATCTCTCATCT
1 TCAAGATCGATCTTGATGAATCTGAATTCCTAAAACAAAAAAGGAGTCCCCAAGATCTCTCATCT
38184266 CAAAATGCTTAGATAAAAACCTCTTGGTTTCGTACAATAAGCCTATATTATTAGTCAAGGAAAAT
66 CAAAATGCTTAGATAAAAACCTCTTGGTTTCGTACAATAAGCCTATATTATTAGTCAAGGAAAAT
38184331 GTCATCAACATATAGAACGTGAAATATGTACTTACTCCCATTGAATTTGTGATACACACAATCAT
131 GTCATCAACATATAGAACGTGAAATATGTACTTACTCCCATTGAATTTGTGATACACACAATCAT
38184396 CAACAATAT
196 CAACAATAT
38184405 TCAAGATCGATCTTGATGAATCTGAATTCCTAAAACAAAAAAGGAGTCCCCAAGATCTCTCATCT
1 TCAAGATCGATCTTGATGAATCTGAATTCCTAAAACAAAAAAGGAGTCCCCAAGATCTCTCATCT
38184470 CAAAATGCTTAGATAAAAACCTCTTGGTTTCGTACAATAAGCCTATATTATTAGTCAAGGAAAAT
66 CAAAATGCTTAGATAAAAACCTCTTGGTTTCGTACAATAAGCCTATATTATTAGTCAAGGAAAAT
38184535 GTCATCAACATATAGAACGTGAAATATGTACTTACTCCCATTGAATTTGTGATACACACAATCAT
131 GTCATCAACATATAGAACGTGAAATATGTACTTACTCCCATTGAATTTGTGATACACACAATCAT
38184600 CAACAATAT
196 CAACAATAT
38184609 TCA
1 TCA
38184612 TCTCAATACC
Statistics
Matches: 207, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
204 207 1.00
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.29
Consensus pattern (204 bp):
TCAAGATCGATCTTGATGAATCTGAATTCCTAAAACAAAAAAGGAGTCCCCAAGATCTCTCATCT
CAAAATGCTTAGATAAAAACCTCTTGGTTTCGTACAATAAGCCTATATTATTAGTCAAGGAAAAT
GTCATCAACATATAGAACGTGAAATATGTACTTACTCCCATTGAATTTGTGATACACACAATCAT
CAACAATAT
Found at i:38191539 original size:13 final size:13
Alignment explanation
Indices: 38191521--38191545 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38191511 TTATAGTGTT
38191521 ATTTAGTTAATTA
1 ATTTAGTTAATTA
38191534 ATTTAGTTAATT
1 ATTTAGTTAATT
38191546 TTAGTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:38192800 original size:90 final size:90
Alignment explanation
Indices: 38192647--38192828 Score: 339
Period size: 90 Copynumber: 2.0 Consensus size: 90
38192637 CCGTGTGCCA
38192647 TGCCCGTGTGAAGGTGCCTAGGCCGTGTACAATACTGAGTTGGTTCTTAGTCGACATGGACATGA
1 TGCCCGTGTGAAGGTGCCTAGGCCGTGTACAATACTGAGTTGGTTCTTAGTCGACATGGACATGA
38192712 CACACGGGCGTGTAG-TCTACCCGTG
66 CACACGGGCGTGTAGAT-TACCCGTG
38192737 TGCCCGTGTGAAGGTGCCTAGGCCGTGTACAATACTGAGTTGGTTCTTAGTCGACATGGACATGA
1 TGCCCGTGTGAAGGTGCCTAGGCCGTGTACAATACTGAGTTGGTTCTTAGTCGACATGGACATGA
*
38192802 CACACGGGCGTGTGGATTACCCGTG
66 CACACGGGCGTGTAGATTACCCGTG
38192827 TG
1 TG
38192829 GAAGTGCCTA
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
90 89 0.99
91 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.26
Consensus pattern (90 bp):
TGCCCGTGTGAAGGTGCCTAGGCCGTGTACAATACTGAGTTGGTTCTTAGTCGACATGGACATGA
CACACGGGCGTGTAGATTACCCGTG
Found at i:38193370 original size:117 final size:117
Alignment explanation
Indices: 38193220--38193453 Score: 468
Period size: 117 Copynumber: 2.0 Consensus size: 117
38193210 GCATTTCAAT
38193220 GATAAGATTATAGGTATCCCCCTTTATCTAAGTATTCACCTTTAATTCCAAATAGATAAGGTTAA
1 GATAAGATTATAGGTATCCCCCTTTATCTAAGTATTCACCTTTAATTCCAAATAGATAAGGTTAA
38193285 CATCCTCACTATTGATTCACTCAAATCACTCAAAGTGTTTAGGGTTTAATAA
66 CATCCTCACTATTGATTCACTCAAATCACTCAAAGTGTTTAGGGTTTAATAA
38193337 GATAAGATTATAGGTATCCCCCTTTATCTAAGTATTCACCTTTAATTCCAAATAGATAAGGTTAA
1 GATAAGATTATAGGTATCCCCCTTTATCTAAGTATTCACCTTTAATTCCAAATAGATAAGGTTAA
38193402 CATCCTCACTATTGATTCACTCAAATCACTCAAAGTGTTTAGGGTTTAATAA
66 CATCCTCACTATTGATTCACTCAAATCACTCAAAGTGTTTAGGGTTTAATAA
38193454 TTAAGCACTC
Statistics
Matches: 117, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 117 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (117 bp):
GATAAGATTATAGGTATCCCCCTTTATCTAAGTATTCACCTTTAATTCCAAATAGATAAGGTTAA
CATCCTCACTATTGATTCACTCAAATCACTCAAAGTGTTTAGGGTTTAATAA
Found at i:38200679 original size:40 final size:39
Alignment explanation
Indices: 38200581--38200843 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
38200571 TCCTCGTTCA
* * * *
38200581 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
38200620 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
38200659 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
38200699 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
38200739 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
38200779 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
38200820 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38200844 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:38200803 original size:120 final size:119
Alignment explanation
Indices: 38200581--38200843 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
38200571 TCCTCGTTCA
* * *
38200581 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
38200646 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
38200699 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
38200764 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
38200820 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38200844 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:38200852 original size:41 final size:41
Alignment explanation
Indices: 38200775--38200852 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38200765 TTTGTATCTC
* * *
38200775 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38200816 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38200853 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38208625 original size:40 final size:39
Alignment explanation
Indices: 38208527--38208789 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
38208517 TCCTCGTTCA
* * * *
38208527 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
38208566 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
38208605 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
38208645 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
38208685 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
38208725 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
38208766 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38208790 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:38208749 original size:120 final size:119
Alignment explanation
Indices: 38208527--38208789 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
38208517 TCCTCGTTCA
* * *
38208527 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
38208592 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
38208645 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
38208710 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
38208766 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38208790 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:38208798 original size:41 final size:41
Alignment explanation
Indices: 38208721--38208798 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38208711 TTTGTATCTC
* * *
38208721 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38208762 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38208799 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38218218 original size:140 final size:140
Alignment explanation
Indices: 38217966--38218246 Score: 562
Period size: 140 Copynumber: 2.0 Consensus size: 140
38217956 TAATCTATTC
38217966 ATTTAACAAAATACATATCAATACCTCACTTGCATATTTTCATTCAAACATTACCTTACCAAAAC
1 ATTTAACAAAATACATATCAATACCTCACTTGCATATTTTCATTCAAACATTACCTTACCAAAAC
38218031 ATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTATACACAA
66 ATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTATACACAA
38218096 AACATAAGGA
131 AACATAAGGA
38218106 ATTTAACAAAATACATATCAATACCTCACTTGCATATTTTCATTCAAACATTACCTTACCAAAAC
1 ATTTAACAAAATACATATCAATACCTCACTTGCATATTTTCATTCAAACATTACCTTACCAAAAC
38218171 ATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTATACACAA
66 ATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTATACACAA
38218236 AACATAAGGA
131 AACATAAGGA
38218246 A
1 A
38218247 GCCATGATAT
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
140 141 1.00
ACGTcount: A:0.46, C:0.23, G:0.05, T:0.26
Consensus pattern (140 bp):
ATTTAACAAAATACATATCAATACCTCACTTGCATATTTTCATTCAAACATTACCTTACCAAAAC
ATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTATACACAA
AACATAAGGA
Found at i:38218241 original size:68 final size:68
Alignment explanation
Indices: 38218025--38218241 Score: 180
Period size: 68 Copynumber: 3.1 Consensus size: 68
38218015 ATTACCTTAC
38218025 CAAAACATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTAT
1 CAAAACATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTAT
38218090 ACA
66 ACA
* * * * * ** * **
38218093 CAAAACATA--AGGAATTTAACA-A-AATACATATCAATAC---CTCACTTGCATATTTTCATTC
1 CAAAACATACCA-TAATTGAACACATAATTCA-ACCAAAACAAGC-CAAAT-CACA-TGGC-TT-
38218151 AAACATTACCTTAC-
59 -AAC-TTA---TACA
38218165 CAAAACATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTAT
1 CAAAACATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTAT
38218230 ACA
66 ACA
38218233 CAAAACATA
1 CAAAACATA
38218242 AGGAAGCCAT
Statistics
Matches: 109, Mismatches: 20, Indels: 40
0.64 0.12 0.24
Matches are distributed among these distances:
63 1 0.01
64 3 0.03
65 8 0.07
66 10 0.09
67 13 0.12
68 18 0.17
69 3 0.03
70 6 0.06
71 3 0.03
72 9 0.08
73 13 0.12
74 10 0.09
75 8 0.07
76 3 0.03
77 1 0.01
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (68 bp):
CAAAACATACCATAATTGAACACATAATTCAACCAAAACAAGCCAAATCACATGGCTTAACTTAT
ACA
Found at i:38218817 original size:23 final size:23
Alignment explanation
Indices: 38218786--38218910 Score: 112
Period size: 23 Copynumber: 5.4 Consensus size: 23
38218776 GCTGATGAAT
38218786 AGTAAGCTCTATTGAGTTGAAAC
1 AGTAAGCTCTATTGAGTTGAAAC
* * *
38218809 GGTAAGCTCTATTGAGCTGATAC
1 AGTAAGCTCTATTGAGTTGAAAC
* * *
38218832 AGCAAGCTCT-TTCAAGCTG-AAC
1 AGTAAGCTCTATT-GAGTTGAAAC
*
38218854 AGTAAGCTC-ATACGAGTTGAAAC
1 AGTAAGCTCTAT-TGAGTTGAAAC
* * *
38218877 GGTAAGCTCCAATGAGTTGAAAAC
1 AGTAAGCTCTATTGAGTTG-AAAC
38218901 AGTAAGCTCT
1 AGTAAGCTCT
38218911 TACGAGTTGA
Statistics
Matches: 80, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
22 17 0.21
23 50 0.62
24 13 0.16
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGTTGAAAC
Found at i:38218905 original size:24 final size:24
Alignment explanation
Indices: 38218851--38218942 Score: 84
Period size: 24 Copynumber: 3.8 Consensus size: 24
38218841 TTTCAAGCTG
38218851 AACAGTAAGCT-CATACGAGTTGA
1 AACAGTAAGCTCCATACGAGTTGA
* *
38218874 AACGGTAAGCTCCA-ATGAGTTGAA
1 AACAGTAAGCTCCATACGAGTTG-A
*
38218898 AACAGTAAGCT-CTTACGAGTTGA
1 AACAGTAAGCTCCATACGAGTTGA
*
38218921 TATATCGGTAAGCT-CATACGAG
1 -A-A-CAGTAAGCTCCATACGAG
38218943 CTGGTGAGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
23 19 0.34
24 21 0.38
25 1 0.02
26 15 0.27
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (24 bp):
AACAGTAAGCTCCATACGAGTTGA
Found at i:38221927 original size:15 final size:15
Alignment explanation
Indices: 38221907--38221936 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
38221897 GATTCTCAAG
38221907 CCGGCTTGTCAAAAC
1 CCGGCTTGTCAAAAC
38221922 CCGGCTTGTCAAAAC
1 CCGGCTTGTCAAAAC
38221937 TACAATGAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (15 bp):
CCGGCTTGTCAAAAC
Found at i:38222442 original size:47 final size:47
Alignment explanation
Indices: 38222374--38222494 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
38222364 ATCCATAAGT
* *
38222374 GAACTCGGACTCAACTCAACGAGTTCGGATGGCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* *
38222421 GAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
*
38222468 GAACTCGGACTCAACTCAGCGAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
38222495 AAACTCAACC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38228089 original size:47 final size:47
Alignment explanation
Indices: 38228026--38228137 Score: 152
Period size: 47 Copynumber: 2.4 Consensus size: 47
38228016 ATCCATAAGT
* * ** *
38228026 GAACTTGGACTCAACTCAATGATTTCGAATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCAC
* *
38228073 GAACTCGGGCTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCAC
*
38228120 GAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCA
38228138 GAGAGTTCGA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCAC
Found at i:38236710 original size:19 final size:19
Alignment explanation
Indices: 38236686--38236722 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38236676 GATATTGATA
38236686 TATCTCACATAAATTTCTT
1 TATCTCACATAAATTTCTT
*
38236705 TATCTCATATAAATTTCT
1 TATCTCACATAAATTTCT
38236723 CTTACCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (19 bp):
TATCTCACATAAATTTCTT
Found at i:38243244 original size:21 final size:21
Alignment explanation
Indices: 38243218--38243259 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
38243208 TCAAGAAAAA
38243218 CATCTCGATGTCGCAACACAG
1 CATCTCGATGTCGCAACACAG
*
38243239 CATCTCTATGTCGCAACACAG
1 CATCTCGATGTCGCAACACAG
38243260 AAAATAGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (21 bp):
CATCTCGATGTCGCAACACAG
Found at i:38252505 original size:55 final size:53
Alignment explanation
Indices: 38252419--38252649 Score: 242
Period size: 55 Copynumber: 4.4 Consensus size: 53
38252409 AGGGTTTAAA
*
38252419 GATACCATGTAAGACCAT-TCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAG
1 GATACCATGTAAGACCATGT-CAAGACATGGC-ATTGGTAA-GTTTCTAAGGCAAG
* * *
38252474 GATACCATGTAAGACCATGTCAAGACGTGGCATTGATAAGTTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--TCTAAGGC-AAG
* * * *
38252530 G-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAG-TTCGTAAGGCAAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTC-TAAGGCAAG
* * *
38252582 GATACCATGTAAGGCCATGTCGAGACATGGCAATGGTAAGTTTC-AA---AAG
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGCAAG
*
38252631 GATACCACGTAAGACCATG
1 GATACCATGTAAGACCATG
38252650 AAAAGTCATG
Statistics
Matches: 149, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
49 20 0.13
52 7 0.05
53 40 0.27
54 11 0.07
55 66 0.44
56 5 0.03
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTTCTAAGGCAAG
Found at i:38252622 original size:108 final size:110
Alignment explanation
Indices: 38252423--38252623 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
38252413 TTTAAAGATA
*
38252423 CCATGTAAGACCATTCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
* *
38252488 CCATGTCAAGACGTGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
38252533 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCGTAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* * *
38252595 GCCATGTCGAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
38252624 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:38255367 original size:22 final size:22
Alignment explanation
Indices: 38255323--38255369 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
38255313 AACGGGATAA
*
38255323 CACAGAGCCGTAAACAGGACAG
1 CACAGAGCCGTAAACACGACAG
*
38255345 CACATAGCCGTAAACATCG-CAG
1 CACAGAGCCGTAAACA-CGACAG
38255367 CAC
1 CAC
38255370 CGCTGCCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.38, C:0.32, G:0.21, T:0.09
Consensus pattern (22 bp):
CACAGAGCCGTAAACACGACAG
Found at i:38255600 original size:22 final size:23
Alignment explanation
Indices: 38255567--38255625 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
38255557 ATACGTTTGT
38255567 GCACACAA-CCATAAT-TAGGTTG
1 GCACA-AAGCCATAATGTAGGTTG
*
38255589 GCACAGAGCCAT-ATGTAGGTTG
1 GCACAAAGCCATAATGTAGGTTG
*
38255611 GCGCAAAGCCATAAT
1 GCACAAAGCCATAAT
38255626 CAGAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 26 0.84
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (23 bp):
GCACAAAGCCATAATGTAGGTTG
Found at i:38255972 original size:41 final size:41
Alignment explanation
Indices: 38255771--38255970 Score: 292
Period size: 41 Copynumber: 4.9 Consensus size: 41
38255761 AAAAGTCACT
* * * *
38255771 GGTGGATCCACAGTCGTCAAGCAACCACGTGATCCTTAGTC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATC
* *
38255812 GGTGGATCCACGATCATCAAGCAACCATGCGATCCTTAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATC
* * *
38255853 AGTGGATCCATGATCGTCAAGCAACCATGCGATCCTTAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATC
* *
38255894 GATGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATC
*
38255935 GGTGGATCCACGGTCGTCAAGCAACCATGTGATCCT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCT
38255971 CATTTTCTTC
Statistics
Matches: 143, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 143 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (41 bp):
GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTTAATC
Found at i:38256263 original size:27 final size:27
Alignment explanation
Indices: 38256211--38256634 Score: 327
Period size: 27 Copynumber: 15.7 Consensus size: 27
38256201 TTTCACCATA
* * * *
38256211 CAAGGCTATTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
38256238 CAAGGGTATTTTGGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
38256265 CAATGATATTTCT-GTAATTTCTGA-AAGT
1 CAAGGGTATTT-TGGTAATTT-T-ACAAAT
* * **
38256293 CAATGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
38256320 -GGGGGTATTTCT-GTAATTTTCCAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
* * *
38256346 CAAGAGTATTTCGGTAATTTTCCAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * *
38256373 CAGGGGTATTCTGATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * * **
38256400 TAAAGGTATTTCGGTAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** **
38256427 CAAGGGTATTTCAGTAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
38256454 CAAGGGTATTTTGTTAATTTCATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
38256481 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
38256508 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
38256535 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
38256561 CTAGGGGTATTTTGGTAATTTTGCTAAT
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* ** *
38256589 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
38256616 CAAGAGTATTTTAGTAATT
1 CAAGGGTATTTTGGTAATT
38256635 CCACCCTATA
Statistics
Matches: 327, Mismatches: 60, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
26 20 0.06
27 285 0.87
28 22 0.07
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:38256653 original size:27 final size:27
Alignment explanation
Indices: 38256623--38256680 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
38256613 AACCAAGAGT
*
38256623 ATTTTAGTAATTCCACCCTATAGGGGC
1 ATTTTAGTAATTCCACCCTACAGGGGC
* *
38256650 ATTTTAGTAATTCTACCCTACAGGGGT
1 ATTTTAGTAATTCCACCCTACAGGGGC
38256677 ATTT
1 ATTT
38256681 CGGTAATACT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTAGTAATTCCACCCTACAGGGGC
Found at i:38256660 original size:81 final size:81
Alignment explanation
Indices: 38256511--38256661 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
38256501 TACAAACCAG
* * * ** * *
38256511 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAGTAATTCCACAAACTAGGGGCATTTTAG
38256576 TAATTTTGCTAATCGA
66 TAATTTTGCTAATCGA
** **
38256592 GGGTATTTTGGTAATTTTGTAAACCAAGAGTATTTTAGTAATTCCACCCTA-TAGGGGCATTTTA
1 GGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAGTAATTCCA-CAAACTAGGGGCATTTTA
38256656 GTAATT
65 GTAATT
38256662 CTACCCTACA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 56 0.97
82 2 0.03
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAGTAATTCCACAAACTAGGGGCATTTTAG
TAATTTTGCTAATCGA
Found at i:38256686 original size:27 final size:27
Alignment explanation
Indices: 38256623--38256696 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
38256613 AACCAAGAGT
* * *
38256623 ATTTTAGTAATTCCACCCTATAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
38256650 ATTTTAGTAATTCTACCCTACAGGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * *
38256677 ATTTCGGTAATACTAGCCTA
1 ATTTCAGTAATTCTACCCTA
38256697 TAGATATGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:38258184 original size:17 final size:17
Alignment explanation
Indices: 38258146--38258192 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
38258136 CGTTGGTTTA
* *
38258146 TTAAAA-GTCATTATCT
1 TTAAAACGTTATTACCT
38258162 TGTAAAACGTTATTACCT
1 T-TAAAACGTTATTACCT
*
38258180 TTAAAACTTTATT
1 TTAAAACGTTATT
38258193 TGCTGCGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 16 0.62
18 9 0.35
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (17 bp):
TTAAAACGTTATTACCT
Found at i:38258595 original size:28 final size:28
Alignment explanation
Indices: 38258555--38258620 Score: 132
Period size: 28 Copynumber: 2.4 Consensus size: 28
38258545 AGACAGAATT
38258555 CAGAATCAGTCTGGGCCGAAGCCCATTA
1 CAGAATCAGTCTGGGCCGAAGCCCATTA
38258583 CAGAATCAGTCTGGGCCGAAGCCCATTA
1 CAGAATCAGTCTGGGCCGAAGCCCATTA
38258611 CAGAATCAGT
1 CAGAATCAGT
38258621 ATCATATGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.18
Consensus pattern (28 bp):
CAGAATCAGTCTGGGCCGAAGCCCATTA
Found at i:38259266 original size:41 final size:41
Alignment explanation
Indices: 38259207--38259329 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
38259197 TAAAATCCAC
*
38259207 CGGTGGATCCACGATCGTCAAGCAACCATGCGATTCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATTCTCAAT
* * * * *
38259248 TGGTGGATCCATGGTCGTCAAGCAACCATGCAACTCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATTCTCAAT
* *
38259289 CGGTGGATCCACAATCGTCAAGCAACCATGCGATCCTCAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATTCTCAAT
38259330 TTCTTTCTCC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGATCGTCAAGCAACCATGCGATTCTCAAT
Found at i:38259620 original size:27 final size:27
Alignment explanation
Indices: 38259590--38259882 Score: 113
Period size: 27 Copynumber: 10.9 Consensus size: 27
38259580 GTAAATCTAA
38259590 AAACTAAGGGTATTTTGGTAATTTTGC
1 AAACTAAGGGTATTTTGGTAATTTTGC
* * *
38259617 AAACCAATGGTATTTCT-ATAATTTTTG-
1 AAACTAAGGGTATTT-TGGTAA-TTTTGC
* * * *
38259644 AAAGTCAAGGATATTTCT-ATAATTTTGT
1 AAACT-AAGGGTATTT-TGGTAATTTTGC
* * * *
38259672 AAATTAGGGGTAATTCT-GTAATTTTCC
1 AAACTAAGGGT-ATTTTGGTAATTTTGC
* *
38259699 AAA-TCAAGGGTATTTCGATAATTTT-C
1 AAACT-AAGGGTATTTTGGTAATTTTGC
* * *
38259725 AAAATTAAGGGTATTCTGGTAATTTTAC
1 -AAACTAAGGGTATTTTGGTAATTTTGC
** * ** *
38259753 AAACCCAGGG-ACTCCGGTAATTTT-A
1 AAACTAAGGGTATTTTGGTAATTTTGC
* ** * *
38259778 AAAGTCGTGGGTATTTCGGTAATTTTAC
1 AAACT-AAGGGTATTTTGGTAATTTTGC
*
38259806 -AAGTCAAGGGTATTTTGGTAA-TTT-C
1 AAACT-AAGGGTATTTTGGTAATTTTGC
* * *
38259831 ATAAATCAGGGGTATTTTGGTAATTTTGT
1 A-AACT-AAGGGTATTTTGGTAATTTTGC
* *
38259860 AAACCAAGGGTATTTTAGTAATT
1 AAACTAAGGGTATTTTGGTAATT
38259883 CTACCCTATA
Statistics
Matches: 205, Mismatches: 44, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.02
26 23 0.11
27 143 0.70
28 34 0.17
29 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AAACTAAGGGTATTTTGGTAATTTTGC
Found at i:38259720 original size:54 final size:53
Alignment explanation
Indices: 38259625--38259874 Score: 173
Period size: 54 Copynumber: 4.6 Consensus size: 53
38259615 GCAAACCAAT
* * ** * * *
38259625 GGTATTTCTATAATTTTTGAAAGTCAAGGATATTTCTATAATTTTGTAAATTAGG
1 GGTAATTCTGTAATTTTACAAA-TCAAGGGTATTTCGATAATTTT-AAAATTAGG
* *
38259680 GGTAATTCTGTAATTTTCCAAATCAAGGGTATTTCGATAATTTTCAAAATTAAG
1 GGTAATTCTGTAATTTTACAAATCAAGGGTATTTCGATAATTTT-AAAATTAGG
* * * * * * *
38259734 GGT-ATTCTGGTAATTTTACAAACCCAGGG-ACTCCGGTAATTTTAAAAGTCGTG
1 GGTAATTCT-GTAATTTTACAAATCAAGGGTATTTCGATAATTTTAAAATTAG-G
* * * * * * *
38259787 GGTATTTCGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTCATAAATCAGG
1 GGTAATTCTGTAATTTTACAAATCAAGGGTATTTCGATAATTTTA-AAATTAGG
* ** *
38259841 GGT-ATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 GGTAATTCT-GTAATTTTACAAATCAAGGGTATTT
38259875 TAGTAATTCT
Statistics
Matches: 152, Mismatches: 37, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
52 5 0.03
53 39 0.26
54 86 0.57
55 22 0.14
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (53 bp):
GGTAATTCTGTAATTTTACAAATCAAGGGTATTTCGATAATTTTAAAATTAGG
Found at i:38259875 original size:54 final size:53
Alignment explanation
Indices: 38259672--38259874 Score: 180
Period size: 54 Copynumber: 3.8 Consensus size: 53
38259662 ATAATTTTGT
* * * *
38259672 AAATTAGGGGTAATTCT-GTAATTTTCCAAATCAAGGGTATTTCGATAATTTTCA
1 AAATCAGGGGT-ATTCTGGTAATTTTACAAACCAAGGGTATTTCGGTAA-TTTCA
* * * * * *
38259726 AAATTAAGGGTATTCTGGTAATTTTACAAACCCAGGG-ACTCCGGTAATTTTA
1 AAATCAGGGGTATTCTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTCA
** *
38259778 AAAGTC-GTGGGTATT-TCGGTAATTTTACAAGTCAAGGGTATTTTGGTAATTTCA
1 AAA-TCAG-GGGTATTCT-GGTAATTTTACAAACCAAGGGTATTTCGGTAATTTCA
* **
38259832 TAAATCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT
1 -AAATCAGGGGTATTCTGGTAATTTTACAAACCAAGGGTATTT
38259875 TAGTAATTCT
Statistics
Matches: 120, Mismatches: 21, Indels: 16
0.76 0.13 0.10
Matches are distributed among these distances:
52 8 0.07
53 38 0.32
54 69 0.57
55 5 0.04
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.37
Consensus pattern (53 bp):
AAATCAGGGGTATTCTGGTAATTTTACAAACCAAGGGTATTTCGGTAATTTCA
Found at i:38259928 original size:27 final size:27
Alignment explanation
Indices: 38259864--38259928 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
38259854 TTTTGTAAAC
*
38259864 CAAGGGTATTTTAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
38259891 TAGGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
38259918 CAAGCGTATTT
1 CAAGGGTATTT
38259929 AGGTAATACT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:38259934 original size:27 final size:26
Alignment explanation
Indices: 38259864--38259944 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
38259854 TTTTGTAAAC
38259864 CAAGGGTATTTTAGTAATTCTACCCTA
1 CAAGGGTA-TTTAGTAATTCTACCCTA
* * *
38259891 TAGGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGTATTT-AGTAATTCTACCCTA
* * *
38259918 CAAGCGTATTTAGGTAATACTAGCCTA
1 CAAGGGTATTTA-GTAATTCTACCCTA
38259945 TAAATATGAG
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 4 0.09
27 39 0.91
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (26 bp):
CAAGGGTATTTAGTAATTCTACCCTA
Found at i:38262641 original size:22 final size:22
Alignment explanation
Indices: 38262613--38262658 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
38262603 ACGCCGTAGT
* *
38262613 CAGGACAACACATAGCCTTAAA
1 CAGGACAACAAATAGCCGTAAA
*
38262635 CAGGACAGCAAATAGCCGTAAA
1 CAGGACAACAAATAGCCGTAAA
38262657 CA
1 CA
38262659 TCGTAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.46, C:0.26, G:0.17, T:0.11
Consensus pattern (22 bp):
CAGGACAACAAATAGCCGTAAA
Found at i:38263189 original size:41 final size:41
Alignment explanation
Indices: 38263024--38263189 Score: 242
Period size: 41 Copynumber: 4.0 Consensus size: 41
38263014 CTTAAAAGCC
* *
38263024 ATCGGTGGATCCACGGTCGCCAAGCAACCATGCGATCCTTA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
* * *
38263065 ATCGGTTGATCCACGGTCATCAAGAAACCATGCGATCCTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
* * *
38263106 ATCAGTGGATCCATGGTCGTCAAGCAACCATGCGATCTTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
* *
38263147 ATCGGTGGATCCACGATCGTCAAGCAACCATACGATCCTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
38263188 AT
1 AT
38263190 TTCTTCCTCC
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 109 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (41 bp):
ATCGGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCA
Found at i:38263479 original size:27 final size:27
Alignment explanation
Indices: 38263449--38263761 Score: 156
Period size: 27 Copynumber: 11.6 Consensus size: 27
38263439 GGTAAATCTA
*
38263449 CAAACCAAGGGTATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * **
38263476 CAAACCAATGGTATTT-TTTAAAATTTTG
1 CAAATCAAGGGTATTTCGGT--AATTTTG
* *
38263504 -AAAGTCAAGAGTATTTCTGTAATTTTG
1 CAAA-TCAAGGGTATTTCGGTAATTTTG
* * ** *
38263531 TAAATCAGGGGTATTTTTGTAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* * *** *
38263558 CAAATTAAAGGTATTTCAAAAATTTTC
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
38263585 CAAATC-AGAGGTATTTTGGTAATTTTA
1 CAAATCAAG-GGTATTTCGGTAATTTTG
* * * *
38263612 AAAATCAATGG-ATTTCAGTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
38263638 CAAGTCGAA-GGTATTTTGGTAATTTTAG
1 CAAATC-AAGGGTATTTCGGTAATTTT-G
* * ** *
38263666 -AAATCAGGGGTAATTCCTTAATTTTA
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
38263692 TAAAT-AAGGGGTATTTTGGTAATTTTG
1 CAAATCAA-GGGTATTTCGGTAATTTTG
* * * *
38263719 TAAACCAAGGGTA-TTCAGTAATTTTT
1 CAAATCAAGGGTATTTCGGTAATTTTG
* *
38263745 TAAACCAAGGGTATTTC
1 CAAATCAAGGGTATTTC
38263762 AATAATTCTA
Statistics
Matches: 219, Mismatches: 52, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
26 46 0.21
27 149 0.68
28 22 0.10
29 2 0.01
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGGTAATTTTG
Found at i:38263572 original size:54 final size:54
Alignment explanation
Indices: 38263435--38263743 Score: 198
Period size: 54 Copynumber: 5.7 Consensus size: 54
38263425 TACAAGGGTG
* * * * * * * *
38263435 TTTTGGTAAATCTACAAACCAAGGGTATTTCGGTAATTTTGCAAACCA-ATGGTA
1 TTTTGGTAATTTTAAAAATCAAAGGTATTTCAGTAATTTTACAAATCAGA-GGTA
* * * * ** *
38263489 TTTT-TTAAAATTTTGAAAGTC-AAGAGTATTTCTGTAATTTTGTAAATCAGGGGTA
1 TTTTGGT--AATTTTAAAAATCAAAG-GTATTTCAGTAATTTTACAAATCAGAGGTA
* ** * ** *
38263544 TTTTTGTAATTTTCCAAATTAAAGGTATTTCAAAAATTTTCCAAATCAGAGGTA
1 TTTTGGTAATTTTAAAAATCAAAGGTATTTCAGTAATTTTACAAATCAGAGGTA
* *
38263598 TTTTGGTAATTTTAAAAATCAATGG-ATTTCAGTAATTTTACAAGTC-GAAGGTA
1 TTTTGGTAATTTTAAAAATCAAAGGTATTTCAGTAATTTTACAAATCAG-AGGTA
* ** * ** * * *
38263651 TTTTGGTAATTTTAGAAATCAGGGGTAATTCCTTAATTTTATAAATAAGGGGTA
1 TTTTGGTAATTTTAAAAATCAAAGGTATTTCAGTAATTTTACAAATCAGAGGTA
** * *
38263705 TTTTGGTAATTTTGTAAACCAAGGGTA-TTCAGTAATTTT
1 TTTTGGTAATTTTAAAAATCAAAGGTATTTCAGTAATTTT
38263744 TTAAACCAAG
Statistics
Matches: 198, Mismatches: 48, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
52 1 0.01
53 55 0.28
54 101 0.51
55 40 0.20
56 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTAAAAATCAAAGGTATTTCAGTAATTTTACAAATCAGAGGTA
Found at i:38263827 original size:27 final size:27
Alignment explanation
Indices: 38263753--38263820 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
38263743 TTTAAACCAA
* *
38263753 GGGTATTTCAATAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTAGCCTACAG
*
38263780 GGGCATTTCAGTAATTCTAGCCTACAG
1 GGGTATTTCAGTAATTCTAGCCTACAG
38263807 GGGTATTTCAGTAA
1 GGGTATTTCAGTAA
38263821 CACTAGCTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTAGCCTACAG
Found at i:38263832 original size:27 final size:27
Alignment explanation
Indices: 38263773--38263832 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
38263763 ATAATTCTAC
**
38263773 CCTACAGGGGCATTTCAGTAATTCTAG
1 CCTACAGGGGCATTTCAGTAACACTAG
*
38263800 CCTACAGGGGTATTTCAGTAACACTAG
1 CCTACAGGGGCATTTCAGTAACACTAG
*
38263827 CTTACA
1 CCTACA
38263833 TATATGAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (27 bp):
CCTACAGGGGCATTTCAGTAACACTAG
Found at i:38270449 original size:55 final size:53
Alignment explanation
Indices: 38270362--38270530 Score: 196
Period size: 55 Copynumber: 3.1 Consensus size: 53
38270352 ATTAGGGTTT
*
38270362 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGC-ATTGGTAA-GTTTATAAGGC
* * * * *
38270417 AAGGATACCATGTAAGACCGTGTCAAGACATGGCATTGATAAGTTACTGTAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTT--TATAAGGC
* * * *
38270472 AAAGG-TCCCATGCAAGACCATGTCAAGGCATGACATTGGTAAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTATAAGGC
38270525 AAGGAT
1 AAGGAT
38270531 TACATCTCCG
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
52 4 0.04
53 9 0.09
54 7 0.07
55 71 0.75
56 4 0.04
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTATAAGGC
Found at i:38280218 original size:43 final size:43
Alignment explanation
Indices: 38280165--38280388 Score: 279
Period size: 43 Copynumber: 5.4 Consensus size: 43
38280155 GGTTTAATGT
38280165 ATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCCAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCCAATTA
* *
38280208 ATTGGCACTAAGTGTACGATACAATTATAGCCTCGGCTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCCAATTA
* *
38280251 ATTGGCACTAAGTATGTGATACAATTATAGCCTCGG-C---TA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCCAATTA
* *
38280290 A-T-----TAATTGTGCGATACAATTATAGCCTCGGCCAAATA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCCAATTA
* * * *
38280327 ATTAGCACTAAGTGTGCGATACAATTATAGCTTCAGCTAATTA
1 ATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCCAATTA
*
38280370 ATCGGCACTAAGTGTGCGA
1 ATTGGCACTAAGTGTGCGA
38280389 GTTCGTTGAA
Statistics
Matches: 155, Mismatches: 16, Indels: 20
0.81 0.08 0.10
Matches are distributed among these distances:
33 25 0.16
34 1 0.01
37 3 0.02
38 2 0.01
39 3 0.02
43 121 0.78
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (43 bp):
ATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCCAATTA
Found at i:38280350 original size:76 final size:76
Alignment explanation
Indices: 38280224--38280371 Score: 233
Period size: 76 Copynumber: 1.9 Consensus size: 76
38280214 ACTAAGTGTA
* * * * *
38280224 CGATACAATTATAGCCTCGGCTAATTAATTGGCACTAAGTATGTGATACAATTATAGCCTCGGCT
1 CGATACAATTATAGCCTCGGCCAAATAATTAGCACTAAGTATGCGATACAATTATAGCCTCAGCT
38280289 AATTAATTGTG
66 AATTAATTGTG
* *
38280300 CGATACAATTATAGCCTCGGCCAAATAATTAGCACTAAGTGTGCGATACAATTATAGCTTCAGCT
1 CGATACAATTATAGCCTCGGCCAAATAATTAGCACTAAGTATGCGATACAATTATAGCCTCAGCT
38280365 AATTAAT
66 AATTAAT
38280372 CGGCACTAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 65 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (76 bp):
CGATACAATTATAGCCTCGGCCAAATAATTAGCACTAAGTATGCGATACAATTATAGCCTCAGCT
AATTAATTGTG
Found at i:38281269 original size:22 final size:22
Alignment explanation
Indices: 38281244--38281325 Score: 74
Period size: 22 Copynumber: 3.6 Consensus size: 22
38281234 TTATATGGCC
38281244 ATGTGAAAATGGCTTATTCATG
1 ATGTGAAAATGGCTTATTCATG
* * * *
38281266 ATGTTAATATGGCGTATATTTGATT
1 ATGTGAAAATGGC-T-TA-TTCATG
*
38281291 ATGCGAAAATGGCTTATTCATG
1 ATGTGAAAATGGCTTATTCATG
* *
38281313 ATGTTAATATGGC
1 ATGTGAAAATGGC
38281326 GTATATTTAA
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
22 25 0.56
23 3 0.07
24 3 0.07
25 14 0.31
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (22 bp):
ATGTGAAAATGGCTTATTCATG
Found at i:38281304 original size:47 final size:47
Alignment explanation
Indices: 38281248--38281340 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
38281238 ATGGCCATGT
*
38281248 GAAAATGGCTTATTCATGATGTTAATATGGCGTATATTTGATTATGC
1 GAAAATGGCTTATTCATGATGTTAATATGGCGTATATTTAATTATGC
38281295 GAAAATGGCTTATTCATGATGTTAATATGGCGTATATTTAATTATG
1 GAAAATGGCTTATTCATGATGTTAATATGGCGTATATTTAATTATG
38281341 TATTGAGCTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (47 bp):
GAAAATGGCTTATTCATGATGTTAATATGGCGTATATTTAATTATGC
Found at i:38282724 original size:46 final size:46
Alignment explanation
Indices: 38282672--38282847 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
38282662 TGGTTGAGCA
38282672 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38282718 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
38282763 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38282811 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38282848 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 64 0.58
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38282828 original size:93 final size:93
Alignment explanation
Indices: 38282669--38282839 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
38282659 GGATGGTTGA
* **
38282669 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38282734 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
38282762 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38282827 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38282840 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:38285552 original size:46 final size:46
Alignment explanation
Indices: 38285448--38285665 Score: 183
Period size: 46 Copynumber: 4.7 Consensus size: 46
38285438 AGATTTGTGT
* * * ** *
38285448 GCCAGTGTAAGACCATGTATGGGACATGGCATC-GGCATTGAGACAAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGATGAGA
* *
38285496 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-AGTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATGAGA
* * **
38285542 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGA
* * * ** * *
38285588 GCCAATGTCAGACATGTCTGGGACATGCGTTGGCTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGA
* *
38285632 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC
38285666 ACGGTTACAT
Statistics
Matches: 141, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
44 29 0.21
45 2 0.01
46 81 0.57
47 18 0.13
48 11 0.08
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGA
Found at i:38291177 original size:22 final size:23
Alignment explanation
Indices: 38291105--38291212 Score: 96
Period size: 23 Copynumber: 4.7 Consensus size: 23
38291095 GATATATCAG
* *
38291105 CTCGAAAGAGCTTACTGTTTTCAT
1 CTCGATAGAGCTTACTG-TTTCAA
* *
38291129 CTC-ATTAGGGCTTATTGTTTCAA
1 CTCGA-TAGAGCTTACTGTTTCAA
*
38291152 CTCG-TATGAGCTTACTG-TTCAG
1 CTCGATA-GAGCTTACTGTTTCAA
**
38291174 CTCGATAGAGCTTACCATTTCAA
1 CTCGATAGAGCTTACTGTTTCAA
*
38291197 CTCAATAGAGCTTACT
1 CTCGATAGAGCTTACT
38291213 ATTCATCAGC
Statistics
Matches: 67, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
22 18 0.27
23 37 0.55
24 12 0.18
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (23 bp):
CTCGATAGAGCTTACTGTTTCAA
Found at i:38291595 original size:31 final size:31
Alignment explanation
Indices: 38291557--38291650 Score: 161
Period size: 31 Copynumber: 3.0 Consensus size: 31
38291547 TTAAATTCTG
38291557 AATTATACGGGCTTACTAAGCTATAAAGCTT
1 AATTATACGGGCTTACTAAGCTATAAAGCTT
* * *
38291588 AATTATACAGGCTTACCAAGCTATAAAACTT
1 AATTATACGGGCTTACTAAGCTATAAAGCTT
38291619 AATTATACGGGCTTACTAAGCTATAAAGCTT
1 AATTATACGGGCTTACTAAGCTATAAAGCTT
38291650 A
1 A
38291651 CTTTGTTTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (31 bp):
AATTATACGGGCTTACTAAGCTATAAAGCTT
Found at i:38312984 original size:15 final size:15
Alignment explanation
Indices: 38312961--38312995 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
38312951 CACCCAAATC
*
38312961 ACATAACTCCTAATG
1 ACATGACTCCTAATG
38312976 ACATGACTCCTAATG
1 ACATGACTCCTAATG
38312991 ACATG
1 ACATG
38312996 TCATTCGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.11, T:0.26
Consensus pattern (15 bp):
ACATGACTCCTAATG
Found at i:38315325 original size:39 final size:40
Alignment explanation
Indices: 38315230--38315452 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
38315220 TTGAATGATG
*
38315230 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
38315268 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
38315309 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38315348 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38315387 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
38315426 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
38315453 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:38315416 original size:79 final size:81
Alignment explanation
Indices: 38315230--38315452 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
38315220 TTGAATGATG
* * *
38315230 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
38315291 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
38315309 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
38315371 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
38315387 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
38315451 TG
66 TG
38315453 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:38315474 original size:79 final size:79
Alignment explanation
Indices: 38315230--38315485 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
38315220 TTGAATGATG
* * * *
38315230 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
38315291 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
38315309 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
38315373 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
38315387 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
38315451 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
38315467 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
38315486 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:38323354 original size:79 final size:81
Alignment explanation
Indices: 38323218--38323402 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
38323208 TTGAATGATG
*
38323218 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
38323282 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38323297 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38323359 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
38323377 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38323403 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:38323416 original size:40 final size:40
Alignment explanation
Indices: 38323219--38323402 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
38323209 TGAATGATGT
* * * *
38323219 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38323259 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
38323299 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38323337 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38323378 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38323403 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38323424 original size:79 final size:79
Alignment explanation
Indices: 38323271--38323435 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
38323261 GGACTAAGAT
* **
38323271 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38323336 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38323350 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38323413 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38323429 CCGAAGG
1 CCGAAGG
38323436 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38332770 original size:41 final size:41
Alignment explanation
Indices: 38332621--38332770 Score: 144
Period size: 41 Copynumber: 3.6 Consensus size: 41
38332611 AGTCCGACTC
* * * *
38332621 TTAGCACCGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* * * * * *
38332660 TTAGACTACTGGTTCGAAGGCCCTTCGGAACTAAGTCCAGTTA
1 TTAG-C-ACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
*
38332703 TGA-CACTGGCTCTAAAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTAGCACTGGCTC--AAAAGCCCTTCGAAACTAAGTTCGGTTA
38332745 TTAGCACTGGCTCAAAAGCCCTTCGA
1 TTAGCACTGGCTCAAAAGCCCTTCGA
38332771 GACCAAGCTC
Statistics
Matches: 86, Mismatches: 18, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
39 4 0.05
40 8 0.09
41 37 0.43
42 25 0.29
43 12 0.14
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (41 bp):
TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
Found at i:38335219 original size:48 final size:49
Alignment explanation
Indices: 38335151--38335370 Score: 233
Period size: 48 Copynumber: 4.6 Consensus size: 49
38335141 AAGATGCCAC
* *
38335151 GATATG-AGAGCCAATGTAAGACCATGTTTGGAACATGGCATCAGC---
1 GATATGTAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATT
*
38335196 GATATTGTAAGAGCCAGTATAAGACCATGTTTGGGACATGGCATCAGCATT
1 GATA-TGT-AGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATT
* * *
38335247 GATATGT-GCGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCATT
1 GATATGTAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATT
* * * * *
38335295 GAGACG-AGAGCTC-GTGTAAGACCATGTCTGGGACATGGCATC-GACCTC
1 GATATGTAGAGC-CAGTGTAAGACCATGTTTGGGACATGGCATCAG-CATT
*
38335343 GATATGT-GAGCCAGTGTAAGTCCATGTT
1 GATATGTAGAGCCAGTGTAAGACCATGTT
38335371 CAAAACATGG
Statistics
Matches: 147, Mismatches: 17, Indels: 19
0.80 0.09 0.10
Matches are distributed among these distances:
45 4 0.03
46 2 0.01
47 2 0.01
48 132 0.90
50 3 0.02
51 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
GATATGTAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCAGCATT
Found at i:38346832 original size:29 final size:28
Alignment explanation
Indices: 38346786--38346845 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
38346776 TTTTCATTTA
*
38346786 TTTCACAATTCAAACCCTCAATTTACACT
1 TTTCACAATTCAAACCCT-AATATACACT
* * *
38346815 TTTCACAATTTAATCCCTAATATACATT
1 TTTCACAATTCAAACCCTAATATACACT
38346843 TTT
1 TTT
38346846 ACTCAAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTCACAATTCAAACCCTAATATACACT
Found at i:38353030 original size:12 final size:13
Alignment explanation
Indices: 38353006--38353034 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38352996 GGGCTATAAC
38353006 TATTGCATTTATT
1 TATTGCATTTATT
38353019 TATTGC-TTTATT
1 TATTGCATTTATT
38353031 TATT
1 TATT
38353035 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:38357752 original size:51 final size:50
Alignment explanation
Indices: 38357676--38357813 Score: 172
Period size: 51 Copynumber: 2.8 Consensus size: 50
38357666 TATTGTGAGG
38357676 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAGATAA-TT-GA
* * * *
38357727 TCACGTGTGTAGTACTAAGTGCAGGCTAGTACGTGTA-CCAGATAATTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAGATAATTGA
* * * *
38357776 TCGCATGTGTAGTACTAAGTGAAAGCTACTATGCGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
38357814 TAGATAGCCT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 31 0.42
50 5 0.07
51 38 0.51
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAGATAATTGA
Found at i:38381143 original size:43 final size:43
Alignment explanation
Indices: 38380974--38381126 Score: 220
Period size: 43 Copynumber: 3.6 Consensus size: 43
38380964 ATATCGTACA
* * *
38380974 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAATCACATATCG
* * *
38381017 ATGCCACTGTCCCAGACAAGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAATCACATATCG
*
38381058 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAATCACATATCG
*
38381101 ATGCCAGTGTCCCAGACATGGTCTTA
1 ATGCCAATGTCCCAGACATGGTCTTA
38381127 TATGAGAACA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
41 30 0.31
42 16 0.16
43 52 0.53
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGCAATCACATATCG
Found at i:38382258 original size:15 final size:15
Alignment explanation
Indices: 38382238--38382270 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
38382228 TAAAACACGA
38382238 AAATTC-CACATATAT
1 AAATTCACACATA-AT
38382253 AAATTCACACATAAT
1 AAATTCACACATAAT
38382268 AAA
1 AAA
38382271 CACAGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (15 bp):
AAATTCACACATAAT
Found at i:38390121 original size:27 final size:27
Alignment explanation
Indices: 38390090--38390258 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
38390080 TAAATTGTAC
38390090 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
38390117 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38390143 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
38390171 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38390199 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38390226 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
38390253 AGCACT
1 AGCACT
38390259 GNNNNNNNNN
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38390204 original size:82 final size:81
Alignment explanation
Indices: 38390091--38390246 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38390081 AAATTGTACA
* *
38390091 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
38390155 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
38390172 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
38390237 TGCGAGTTGA
65 TGCGAATTGA
38390247 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38397673 original size:40 final size:40
Alignment explanation
Indices: 38397590--38397892 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
38397580 TTGAATGCTG
* * * * * *
38397590 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
38397630 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
38397670 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
38397710 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
38397750 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
38397790 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
38397830 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
38397869 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38397893 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:38403201 original size:46 final size:46
Alignment explanation
Indices: 38403151--38403418 Score: 400
Period size: 46 Copynumber: 5.8 Consensus size: 46
38403141 TGGTTGAGCA
38403151 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
38403197 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38403243 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
38403288 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
38403336 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
38403382 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38403419 GCGGGTTACA
Statistics
Matches: 203, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
42 2 0.01
43 5 0.02
45 3 0.01
46 154 0.76
47 29 0.14
48 3 0.01
50 5 0.02
51 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38403398 original size:139 final size:139
Alignment explanation
Indices: 38403148--38403411 Score: 501
Period size: 139 Copynumber: 1.9 Consensus size: 139
38403138 GGATGGTTGA
38403148 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
* *
38403213 TGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
66 TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
38403278 TGTAACTAG
131 TGTAACTAG
38403287 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
*
38403352 TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCG
66 TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTCG
38403412 CTTATGGGCG
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 122 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (139 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGA
TGTAACTAG
Found at i:38405249 original size:26 final size:26
Alignment explanation
Indices: 38405218--38405299 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 26
38405208 TGAAATGCCC
38405218 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
38405244 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
38405270 ATCGTGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
38405296 ATCA
1 ATCA
38405300 ATTTGTACCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
25 2 0.04
26 47 0.96
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:38416197 original size:30 final size:30
Alignment explanation
Indices: 38416150--38416208 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
38416140 TTTACAAGCC
*
38416150 TAGGGGCTAAATCGTAAATATGTGAAAGTT
1 TAGGGGCTAAATCGTAAATATGTAAAAGTT
* *
38416180 TAGGGGTTAAAAT-GTAAATTTGTAAAAGT
1 TAGGGGCT-AAATCGTAAATATGTAAAAGT
38416209 ATGATTTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.32
Consensus pattern (30 bp):
TAGGGGCTAAATCGTAAATATGTAAAAGTT
Found at i:38416607 original size:43 final size:44
Alignment explanation
Indices: 38416543--38416675 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 44
38416533 AGATATGTGG
* * *
38416543 CATCCGAACTCGTTGAAAGGTCTGAGTTCATTATGGATGCA-AC
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCATAA
*
38416586 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATGGTGGATGCGATTCATGTAA
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCAT--T--ATG-GATGCA--TAA
* * *
38416637 CATCCGAGCTTGTTAAGAGGTCCGAGTTCATTATGGATG
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATG
38416676 TGTTATATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
43 29 0.39
45 1 0.01
46 3 0.04
47 6 0.08
48 5 0.07
49 1 0.01
51 29 0.39
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (44 bp):
CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCATAA
Found at i:38428497 original size:38 final size:38
Alignment explanation
Indices: 38428448--38428529 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 38
38428438 GGCTTAAAGA
* * * *
38428448 CCCGCAGGCTTCGTGTTGGTAAAATATCCGGGTTAAAT
1 CCCGCAAGCTTCGTGCTGGTAAAATAGCCGGGATAAAT
**
38428486 CCCGCAAGCTTCGTGCTGGTATTATAGCCGGGATAAAT
1 CCCGCAAGCTTCGTGCTGGTAAAATAGCCGGGATAAAT
38428524 CCCGCA
1 CCCGCA
38428530 GACCTAGTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (38 bp):
CCCGCAAGCTTCGTGCTGGTAAAATAGCCGGGATAAAT
Found at i:38428540 original size:38 final size:38
Alignment explanation
Indices: 38428475--38428549 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
38428465 GGTAAAATAT
* * *
38428475 CCGGGTTAAATCCCGCAAGCTTCGTGCTGGTATTATAG
1 CCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATAG
38428513 CCGGGATAAATCCCGC-AGACCTAGTGCTGGTATTATA
1 CCGGGATAAATCCCGCAAG-CCTAGTGCTGGTATTATA
38428550 TTCGGGCCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 2 0.06
38 31 0.94
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (38 bp):
CCGGGATAAATCCCGCAAGCCTAGTGCTGGTATTATAG
Found at i:38428609 original size:43 final size:43
Alignment explanation
Indices: 38428548--38428672 Score: 205
Period size: 43 Copynumber: 2.9 Consensus size: 43
38428538 GCTGGTATTA
*
38428548 TATTCGGGCCTTCGTGCCTAGCAAGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
*
38428591 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * *
38428634 TATTCGAGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGA
38428673 AATGATATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:38432072 original size:18 final size:18
Alignment explanation
Indices: 38432049--38432090 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
38432039 ATATGTGGCA
38432049 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
38432067 TCCGAGCTCGTTGAGAGG
1 TCCGAGCTCGTTGAGAGG
38432085 TCCGAG
1 TCCGAG
38432091 TTCATGGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.38, T:0.21
Consensus pattern (18 bp):
TCCGAGCTCGTTGAGAGG
Found at i:38441493 original size:46 final size:44
Alignment explanation
Indices: 38441392--38441612 Score: 171
Period size: 46 Copynumber: 4.8 Consensus size: 44
38441382 ATATCTGTGT
38441392 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAACACATCTCGTAGC
* * * *
38441438 AGATGCATGTCCCAAACATGTCTTACACTGACTTACGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAAC--ACATCTCGTA-GC
* *
38441484 CGATGCATGTCCCAGACATGTCTTACACTAGCAC-TCGTC-TCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAACACATC-TCGT--A-GC
* * * * * *
38441530 TGATGCCATGTACTAGACATGGTCTTACACTAACTC-TCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAACACATC-T--CGTAGC
*
38441578 CGATGCATGTCCCAGACATGTCTTACACTAGCACA
1 CGATGCATGTCCCAGACATGTCTTACACTAACACA
38441613 CAATAACCCA
Statistics
Matches: 138, Mismatches: 24, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
43 2 0.01
44 16 0.12
45 14 0.10
46 60 0.43
47 24 0.17
48 21 0.15
51 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAACACATCTCGTAGC
Found at i:38442518 original size:31 final size:31
Alignment explanation
Indices: 38442480--38442542 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
38442470 ATCATTATAG
*
38442480 TACACCTTATGTTATCAACATTACCTAATGT
1 TACACCTTATGTCATCAACATTACCTAATGT
38442511 TACACCTTATGTCATCAACATTACCTAATGT
1 TACACCTTATGTCATCAACATTACCTAATGT
38442542 T
1 T
38442543 GACTTTACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (31 bp):
TACACCTTATGTCATCAACATTACCTAATGT
Found at i:38447379 original size:25 final size:25
Alignment explanation
Indices: 38447331--38447379 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
38447321 ATATCCAATT
* * *
38447331 AATTGGAAATGGAATGTTAATTGTG
1 AATTGAAAATGAAATGGTAATTGTG
*
38447356 AATTGAAAATGAAATGGTAGTTGT
1 AATTGAAAATGAAATGGTAATTGT
38447380 TGGTGCTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.35
Consensus pattern (25 bp):
AATTGAAAATGAAATGGTAATTGTG
Found at i:38449307 original size:47 final size:47
Alignment explanation
Indices: 38449203--38449297 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
38449193 ACACGTGAAG
38449203 GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTAGGAAATCTTT
1 GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTAGGAAATCTTT
*
38449250 GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTGGGAAATCTTT
1 GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTAGGAAATCTTT
38449297 G
1 G
38449298 ACTCTATGAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (47 bp):
GGAATAATGAGAGTGATAGCTTTATGCTTCACTTTTAGGAAATCTTT
Found at i:38449472 original size:39 final size:39
Alignment explanation
Indices: 38449415--38449525 Score: 141
Period size: 39 Copynumber: 2.8 Consensus size: 39
38449405 TTTTGACTGT
* * *
38449415 TGTGATATATACGAGTATTGTCATATATGCTTAAACGTTA
1 TGTGATA-ATATGAGTATTGTGATATATGCTTAAACATTA
* *
38449455 TGTGATAATATGAGTATTGTGATATAAGCTTAAATATTA
1 TGTGATAATATGAGTATTGTGATATATGCTTAAACATTA
* * *
38449494 TGTGATTATATGTGTAATGTGATATATGCTTA
1 TGTGATAATATGAGTATTGTGATATATGCTTA
38449526 CAAGTGAATA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
39 55 0.89
40 7 0.11
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.42
Consensus pattern (39 bp):
TGTGATAATATGAGTATTGTGATATATGCTTAAACATTA
Found at i:38455233 original size:27 final size:27
Alignment explanation
Indices: 38455203--38455380 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
38455193 ATATTGAGTC
* * * *
38455203 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
38455230 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38455257 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
38455285 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
38455312 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
38455339 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
38455366 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38455381 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:38455342 original size:82 final size:81
Alignment explanation
Indices: 38455224--38455379 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
38455214 TGCTATATAA
* *
38455224 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
38455289 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
38455306 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
38455370 CACTTAGTGC
65 CACTTAGTGC
38455380 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:38465697 original size:6 final size:6
Alignment explanation
Indices: 38465686--38465711 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
38465676 TAAACACTTT
38465686 TAATTA TAATTA TAATTA TAATTA TA
1 TAATTA TAATTA TAATTA TAATTA TA
38465712 TGTTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:38469035 original size:19 final size:18
Alignment explanation
Indices: 38469011--38469058 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
38469001 TTTGATATTG
*
38469011 TTAAATTTCTATAATTAGT
1 TTAAATTT-GATAATTAGT
**
38469030 TTAAATTTGATCTTTAGT
1 TTAAATTTGATAATTAGT
38469048 TTAAATTTGAT
1 TTAAATTTGAT
38469059 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (18 bp):
TTAAATTTGATAATTAGT
Found at i:38469048 original size:18 final size:18
Alignment explanation
Indices: 38469025--38469063 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
38469015 ATTTCTATAA
38469025 TTAGTTTAAATTTGATCT
1 TTAGTTTAAATTTGATCT
*
38469043 TTAGTTTAAATTTGATTT
1 TTAGTTTAAATTTGATCT
38469061 TTA
1 TTA
38469064 AATTTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (18 bp):
TTAGTTTAAATTTGATCT
Found at i:38470725 original size:43 final size:43
Alignment explanation
Indices: 38470678--38470917 Score: 226
Period size: 43 Copynumber: 5.7 Consensus size: 43
38470668 TAACCTTTCT
* * *
38470678 ACAAACGCCGCTAAA-AAGCATGACCTGTAGGGGTGATTTTCCC
1 ACAAACGCCGCTAAAGAA-CATGACCTTTAGGGGCGATTTTACC
*
38470721 ACAAACG-C-CTAAA-AAGCATGACCTTTAGGGGTGA-TTTACC
1 ACAAACGCCGCTAAAGAA-CATGACCTTTAGGGGCGATTTTACC
* * *
38470761 -CATAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
1 ACA-AACGCCGCTAAAGAACATGACCTTTAGGGGCGATTTTACC
* * * *
38470804 ACAAATGCCGCTAAAGAACA-GACCTTTAGTGGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGGGGCGATTTTACC
* *** * *
38470846 ACAAACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGGGGCGATTTTACC
*
38470889 ACAAACACCGCTAAAGAGA-ATGACCTTTA
1 ACAAACGCCGCTAAAGA-ACATGACCTTTA
38470918 ACGATGCTTT
Statistics
Matches: 174, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
39 2 0.01
40 9 0.05
41 26 0.15
42 60 0.34
43 74 0.43
44 3 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGGGGCGATTTTACC
Found at i:38470737 original size:41 final size:43
Alignment explanation
Indices: 38470678--38470786 Score: 154
Period size: 41 Copynumber: 2.6 Consensus size: 43
38470668 TAACCTTTCT
*
38470678 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTTCCC
1 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
*
38470721 ACAAACG-C-CTAAAAAGCATGACCTTTAGGGGTGATTTACCC
1 ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
*
38470762 A-TAACGCCGCTAAAGAA-CATGACCT
1 ACAAACGCCGCTAAA-AAGCATGACCT
38470787 TTAGCGGCGC
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
40 4 0.07
41 33 0.55
42 14 0.23
43 9 0.15
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAAGCATGACCTGTAGGGGTGATTTACCC
Found at i:38470918 original size:43 final size:43
Alignment explanation
Indices: 38470764--38470920 Score: 228
Period size: 43 Copynumber: 3.7 Consensus size: 43
38470754 ATTTACCCAT
*
38470764 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACA
1 AACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
* **
38470807 AATGCCGCTAAAGAACA-GACCTTTAGTGGCGCTTTTATCACA
1 AACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
* *
38470849 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACA
1 AACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
*
38470892 AACACCGCTAAAGAGA-ATGACCTTTAACG
1 AACGCCGCTAAAGA-ACATGACCTTTAACG
38470921 ATGCTTTATC
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 39 0.38
43 62 0.61
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
AACGCCGCTAAAGAACATGACCTTTAACGGCGCTTTTATCACA
Found at i:38470929 original size:85 final size:86
Alignment explanation
Indices: 38470764--38470954 Score: 226
Period size: 85 Copynumber: 2.2 Consensus size: 86
38470754 ATTTACCCAT
* * * **
38470764 AACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAATGCCGCTAAAGAACAGACCT
1 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAACAGACCT
** *
38470829 TTAGTGGCGCTTTTATC-ACA
66 TTAACGACGCTTTTATCAACA
38470849 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAGA-ATGAC
1 AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGA-ACA-GAC
*
38470913 CTTTAACGATGC-TTTATCAACA
64 CTTTAACGACGCTTTTATCAACA
* * * *
38470935 AATGCTTCTATAGAGCATGA
1 AACGCCTCTAAAGAACATGA
38470955 ATTTTAGAGG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 59 0.66
86 31 0.34
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (86 bp):
AACGCCTCTAAAGAACATGACCTTTAACAGCGCTTTTATCACAAACACCGCTAAAGAACAGACCT
TTAACGACGCTTTTATCAACA
Done.