Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 139 of 290
Found at i:43930238 original size:46 final size:46
Alignment explanation
Indices: 43930185--43930274 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
43930175 AATAACAGTT
*
43930185 TTCAGTCCAGTTTGAAAATGGTGCCTTATGAGGCTTTGTATGGGTG
1 TTCAGTCCAGTTTGAAAATGGCGCCTTATGAGGCTTTGTATGGGTG
43930231 TTCAGTCCAGTTTGAAAATGGCGCCTTATGAGGCTTTGTATGGG
1 TTCAGTCCAGTTTGAAAATGGCGCCTTATGAGGCTTTGTATGGG
43930275 CGTAAGTGTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (46 bp):
TTCAGTCCAGTTTGAAAATGGCGCCTTATGAGGCTTTGTATGGGTG
Found at i:43933981 original size:35 final size:35
Alignment explanation
Indices: 43933935--43934002 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
43933925 GCAAGTTATA
43933935 ATACAATAATTTACAATCTGATGAACGACTTACGG
1 ATACAATAATTTACAATCTGATGAACGACTTACGG
43933970 ATACAATAATTTACAATCTGATGAACGACTTAC
1 ATACAATAATTTACAATCTGATGAACGACTTAC
43934003 AGATTGAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (35 bp):
ATACAATAATTTACAATCTGATGAACGACTTACGG
Found at i:43937227 original size:30 final size:30
Alignment explanation
Indices: 43937193--43937255 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
43937183 ACTTAACAAG
43937193 CAAATGACTCTAAAATAATAACAAAATTAA
1 CAAATGACTCTAAAATAATAACAAAATTAA
* *
43937223 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGACTCTAAAATAATAACAAAATTAA
43937253 CAA
1 CAA
43937256 TAAATAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGACTCTAAAATAATAACAAAATTAA
Found at i:43937309 original size:22 final size:22
Alignment explanation
Indices: 43937283--43937331 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43937273 ATATCCAAAT
43937283 AATAACAACAAAATAGTAGCAA
1 AATAACAACAAAATAGTAGCAA
* * * *
43937305 CATAATATCAAAATGGTAGCAA
1 AATAACAACAAAATAGTAGCAA
43937327 AATAA
1 AATAA
43937332 GGAGAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.12, G:0.10, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAGTAGCAA
Found at i:43952227 original size:19 final size:19
Alignment explanation
Indices: 43952203--43952325 Score: 182
Period size: 19 Copynumber: 6.7 Consensus size: 19
43952193 TTAAATCTCC
*
43952203 AAGATTGCATATTATATCT
1 AAGATTGCATATCATATCT
43952222 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
43952241 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
* *
43952258 AATATCGCATATCATATCT
1 AAGATTGCATATCATATCT
43952277 AAGATTGC--ATCATATCT
1 AAGATTGCATATCATATCT
*
43952294 AATATTGCATATCATATCT
1 AAGATTGCATATCATATCT
43952313 AAGATTGCATATC
1 AAGATTGCATATC
43952326 CTTAAAGATT
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
17 31 0.33
19 62 0.67
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:43952258 original size:36 final size:36
Alignment explanation
Indices: 43952216--43952322 Score: 187
Period size: 36 Copynumber: 3.0 Consensus size: 36
43952206 ATTGCATATT
* *
43952216 ATATCTAAGATTGCATATCATATCTAAGATTGTATC
1 ATATCTAATATTGCATATCATATCTAAGATTGCATC
*
43952252 ATATCTAATATCGCATATCATATCTAAGATTGCATC
1 ATATCTAATATTGCATATCATATCTAAGATTGCATC
43952288 ATATCTAATATTGCATATCATATCTAAGATTGCAT
1 ATATCTAATATTGCATATCATATCTAAGATTGCAT
43952323 ATCCTTAAAG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (36 bp):
ATATCTAATATTGCATATCATATCTAAGATTGCATC
Found at i:43952275 original size:55 final size:54
Alignment explanation
Indices: 43952203--43952325 Score: 167
Period size: 55 Copynumber: 2.2 Consensus size: 54
43952193 TTAAATCTCC
* *
43952203 AAGATTGCATATTATATCTAAGATTGCATATCATATCTAAGATTG-TATCATATCT
1 AAGATCGCATATCATATCTAAGATTGC--ATCATATCTAAGATTGATATCATATCT
* *
43952258 AATATCGCATATCATATCTAAGATTGCATCATATCTAATATTGCATATCATATCT
1 AAGATCGCATATCATATCTAAGATTGCATCATATCTAAGATTG-ATATCATATCT
*
43952313 AAGATTGCATATC
1 AAGATCGCATATC
43952326 CTTAAAGATT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
53 15 0.25
55 45 0.75
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (54 bp):
AAGATCGCATATCATATCTAAGATTGCATCATATCTAAGATTGATATCATATCT
Found at i:43953232 original size:84 final size:84
Alignment explanation
Indices: 43953060--43953753 Score: 1125
Period size: 84 Copynumber: 8.3 Consensus size: 84
43953050 ATCATCTTGG
* * *
43953060 ACCCTACTGCTTAGGGGGTTAAGGTGAATCGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GATA
1 ACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
*
43953123 AGATCGGCAAATTTAACCTGTT
63 AGATCTGCAAATTTAACCTGTT
* * *
43953145 ACCCTACTGCTTAGGGGATTAATGCGGGTCTTCGAACTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
43953210 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
*
43953229 ACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTCGATCTGCTCCGCTACTGCTTAGGGAGATA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGCTTAGGGAGATA
*
43953294 AGATCTGC-----GAACCTGTT
63 AGATCTGCAAATTTAACCTGTT
*
43953311 ACCCTACTGCTTAGGGGATTAAGGCGAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
43953376 TCTGTAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
* *
43953395 ACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCCGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
*
43953460 TTTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
*
43953479 ACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
43953544 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
*
43953563 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCACTACT-CTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
43953627 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
43953646 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
43953711 TCTGCAAATTTAACCTGTT
66 TCTGCAAATTTAACCTGTT
*
43953730 ACCCTACTACTTAGGGGATTAAGG
1 ACCCTACTGCTTAGGGGATTAAGG
43953754 TGCTGAATTT
Statistics
Matches: 569, Mismatches: 29, Indels: 23
0.92 0.05 0.04
Matches are distributed among these distances:
79 37 0.07
81 1 0.00
82 62 0.11
83 84 0.15
84 324 0.57
85 24 0.04
87 37 0.07
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (84 bp):
ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTT
Found at i:43953682 original size:251 final size:249
Alignment explanation
Indices: 43953060--43953755 Score: 1123
Period size: 251 Copynumber: 2.8 Consensus size: 249
43953050 ATCATCTTGG
* * *
43953060 ACCCTACTGCTTAGGGGGTTAAGGTGAATCGTCTTCGATCTGCTCCGCTACTGCTTA-GG-GATA
1 ACCCTACTGCTTAGGGGATTAAGGCG-A--GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
* * * *
43953123 AGATCGGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAATGCGGGTCTTCGAACTGCTCC
63 AGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCC
43953188 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG
128 ACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGG
* *
43953253 CGAGTCGTCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCGAACCTGTT
193 TGAGTCGTC-TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTGTT
*
43953311 ACCCTACTGCTTAGGGGATTAAGGCGAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
* * *
43953376 TCTGTAAATTTAACCTGTTACCCTACCGCTTAGGGGATTAAGGCGAGTCTTCGATCCGCTCCACT
66 TCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACT
*
43953441 ACTGCTTAGGGAGATAAGATTTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGA
131 ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGA
*
43953506 GTC-T-TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTT
196 GTCGTCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGC-----GAACCTGTT
*
43953563 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTACTCCACTACT-CTTAGGGAGATAAGA
1 ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
43953627 TCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACT
66 TCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACT
*
43953692 ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTACTTAGGGGATTAAGGTG
131 ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTG
43953756 CTGAATTTTG
Statistics
Matches: 416, Mismatches: 22, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
247 38 0.09
248 25 0.06
249 3 0.01
250 132 0.32
251 163 0.39
252 55 0.13
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (249 bp):
ACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGA
TCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACT
ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGA
GTCGTCTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTGTT
Found at i:43953733 original size:335 final size:333
Alignment explanation
Indices: 43953060--43953753 Score: 1119
Period size: 334 Copynumber: 2.1 Consensus size: 333
43953050 ATCATCTTGG
* * * *
43953060 ACCCTACTGCTTAGGGGGTTAAGGTGAATCGTCTTCGATCTGCTCCGCTACTGCTTAGGGATAAG
1 ACCCTACTGCTTAGGGGATTAAGGCGAA-CGTCTTCGATCCGCTCCACTACTGCTTAGGGATAAG
* *
43953125 ATCGGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAATGCGGGTCTTCGAACTGCTCCAC
65 ATCGGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGAACTGCTCCAC
43953190 TACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
130 TACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
* *
43953255 AGTCGTCGTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTG
195 AGTCGTC-TCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTG
*
43953320 CTTAGGGGATTAAGGCGAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAAT
259 CTTAGGGGATTAAGGCGAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAAT
43953385 TTAACCTGTT
324 TTAACCTGTT
*
43953395 ACCCTACCGCTTAGGGGATTAAGGCG-A-GTCTTCGATCCGCTCCACTACTGCTTAGGGAGATAA
1 ACCCTACTGCTTAGGGGATTAAGGCGAACGTCTTCGATCCGCTCCACTACTGCTTA-GG-GATAA
** * *
43953458 GATTTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCCA
64 GATCGGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGAACTGCTCCA
43953523 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
129 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
*
43953588 GAGTC-T-TCGATCTACTCCACTACT-CTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCC
194 GAGTCGTCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGC-----GAACCTGTTACCC
*
43953650 TACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
254 TACTGCTTAGGGGATTAAGGCGAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
43953715 CAAATTTAACCTGTT
319 CAAATTTAACCTGTT
*
43953730 ACCCTACTACTTAGGGGATTAAGG
1 ACCCTACTGCTTAGGGGATTAAGG
43953754 TGCTGAATTT
Statistics
Matches: 334, Mismatches: 18, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
330 20 0.06
331 16 0.05
332 25 0.07
333 3 0.01
334 135 0.40
335 135 0.40
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (333 bp):
ACCCTACTGCTTAGGGGATTAAGGCGAACGTCTTCGATCCGCTCCACTACTGCTTAGGGATAAGA
TCGGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGAACTGCTCCACT
ACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGA
GTCGTCTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCGAACCTGTTACCCTACTGCT
TAGGGGATTAAGGCGAATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAAATTT
AACCTGTT
Found at i:43954717 original size:8 final size:8
Alignment explanation
Indices: 43954704--43954761 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
43954694 GCCTCTCCAT
43954704 TTTTTTTC
1 TTTTTTTC
43954712 -TTTTTTC
1 TTTTTTTC
43954719 TCTTTTTTC
1 T-TTTTTTC
*
43954728 --TTTTTA
1 TTTTTTTC
43954734 TTTTTTTC
1 TTTTTTTC
*
43954742 TCTTTTTC
1 TTTTTTTC
*
43954750 TCTTTTTC
1 TTTTTTTC
43954758 TTTT
1 TTTT
43954762 CTTTTCTCCT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
6 5 0.12
7 7 0.17
8 23 0.55
9 7 0.17
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:43954726 original size:16 final size:16
Alignment explanation
Indices: 43954705--43954776 Score: 76
Period size: 16 Copynumber: 4.4 Consensus size: 16
43954695 CCTCTCCATT
43954705 TTTTTTCTTTTTTCTC
1 TTTTTTCTTTTTTCTC
*
43954721 TTTTTTC-TTTTTAT-
1 TTTTTTCTTTTTTCTC
43954735 TTTTTTCTCTTTTTCTC
1 TTTTTTCT-TTTTTCTC
*
43954752 TTTTTCTTTTCTTTTCTCC
1 TTTTT-TCTT-TTTTCT-C
43954771 TTTTTT
1 TTTTTT
43954777 GAAATAGAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
14 7 0.15
15 6 0.13
16 13 0.28
17 6 0.13
18 9 0.19
19 6 0.13
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTCTTTTTTCTC
Found at i:43954737 original size:31 final size:30
Alignment explanation
Indices: 43954704--43954761 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
43954694 GCCTCTCCAT
43954704 TTTTTTTCT-TTTTTCTCTTTTTTCTTTTTA
1 TTTTTTTCTCTTTTTCTC-TTTTTCTTTTTA
43954734 TTTTTTTCTCTTTTTCTCTTTTTCTTTT
1 TTTTTTTCTCTTTTTCTCTTTTTCTTTT
43954762 CTTTTCTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.83
Consensus pattern (30 bp):
TTTTTTTCTCTTTTTCTCTTTTTCTTTTTA
Found at i:43960617 original size:46 final size:46
Alignment explanation
Indices: 43960567--43960739 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
43960557 TGGTTGAGCA
43960567 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43960613 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
43960658 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
43960706 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43960740 GGGCGGGTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:43960723 original size:93 final size:93
Alignment explanation
Indices: 43960564--43960734 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
43960554 GGATGGTTGA
* *
43960564 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
43960629 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
43960657 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
43960722 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
43960735 ACTTAGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43968254 original size:47 final size:46
Alignment explanation
Indices: 43968137--43968309 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 46
43968127 GGATGGTTGA
43968137 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAAT
* *
43968184 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GT-GAGATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAG-GATGCGAA-T
*
43968227 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAAT
*
43968277 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
43968310 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 6, Indels: 24
0.78 0.04 0.17
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
45 31 0.28
46 29 0.27
47 30 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAT
Found at i:43968306 original size:93 final size:92
Alignment explanation
Indices: 43968137--43968306 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
43968127 GGATGGTTGA
* *
43968137 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
43968202 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
43968229 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAACTCGTTGAGT
43968294 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
43968307 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 34 0.46
93 40 0.54
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGCCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43972119 original size:22 final size:21
Alignment explanation
Indices: 43972089--43972154 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
43972079 TATAAATTAA
43972089 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
43972111 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
43972132 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
43972151 ATCT
1 ATCT
43972155 AATATTGCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:43972141 original size:19 final size:19
Alignment explanation
Indices: 43972106--43972167 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
43972096 AGATTACAAG
43972106 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
43972127 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
43972146 ATCATATCTAATATTGCAT
1 ATCATATCTAAGATTGCAT
43972165 ATC
1 ATC
43972168 CTTAAAGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 31 0.77
20 1 0.03
21 8 0.20
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:43977594 original size:40 final size:40
Alignment explanation
Indices: 43977504--43977724 Score: 227
Period size: 40 Copynumber: 5.5 Consensus size: 40
43977494 CTCAAGTAAT
* * * *
43977504 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
43977542 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
43977582 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
43977622 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
43977662 CTTC-GAATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
43977703 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
43977725 CATTCGAATA
Statistics
Matches: 148, Mismatches: 27, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 91 0.61
41 27 0.18
42 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:43978373 original size:38 final size:38
Alignment explanation
Indices: 43978320--43978482 Score: 308
Period size: 38 Copynumber: 4.3 Consensus size: 38
43978310 TGCTTACCTA
*
43978320 TGGCCGAACACACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
43978358 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
*
43978396 TGGCCGAACATACACATCAACTCATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
43978434 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
43978472 TGGCCGAACAT
1 TGGCCGAACAT
43978483 GCATGTCTAT
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 122 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:43983537 original size:6 final size:6
Alignment explanation
Indices: 43983528--43983583 Score: 76
Period size: 6 Copynumber: 9.3 Consensus size: 6
43983518 ATATATATGA
* * *
43983528 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAC TTTAAT TTTAAT
1 TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT
*
43983576 TTTAAT TT
1 TTTGAT TT
43983584 CTGCTACTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.21, C:0.02, G:0.11, T:0.66
Consensus pattern (6 bp):
TTTGAT
Found at i:43984196 original size:10 final size:10
Alignment explanation
Indices: 43984173--43984207 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
43984163 ATTATATTTT
43984173 TATTT-TATA
1 TATTTATATA
*
43984182 AATTTATATA
1 TATTTATATA
43984192 TATTTATATA
1 TATTTATATA
43984202 TATTTA
1 TATTTA
43984208 ATTTTTAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TATTTATATA
Found at i:43984319 original size:99 final size:100
Alignment explanation
Indices: 43984209--43984402 Score: 322
Period size: 99 Copynumber: 1.9 Consensus size: 100
43984199 ATATATTTAA
* *
43984209 TTTTTAGAATTTATAAAGTCATTTTTATTTTCAAAACATATGAATTCCATGTGGGACTTTTTTAT
1 TTTTTAGAATTTATAAAGTAATTTTTATTTTCAAAACATATGAATTCCATGTGGGACTTTTTGAT
*
43984274 TGAAGTGCCACGTA-G-TACATTCTTATTTAACTGAT
66 TGAAGTG--ACATATGATACATTCTTATTTAACTGAT
43984309 TTTTTA-AATTTATAAAGTAATTTTTATTTTCAAAACATATGAATTCCATGTGGGACTTTTTGAT
1 TTTTTAGAATTTATAAAGTAATTTTTATTTTCAAAACATATGAATTCCATGTGGGACTTTTTGAT
43984373 TGAAGTGACATATGATACATTCTTATTTAA
66 TGAAGTGACATATGATACATTCTTATTTAA
43984403 ATTTTTTAAT
Statistics
Matches: 89, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
97 4 0.04
98 1 0.01
99 78 0.88
100 6 0.07
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.45
Consensus pattern (100 bp):
TTTTTAGAATTTATAAAGTAATTTTTATTTTCAAAACATATGAATTCCATGTGGGACTTTTTGAT
TGAAGTGACATATGATACATTCTTATTTAACTGAT
Found at i:43987013 original size:30 final size:30
Alignment explanation
Indices: 43986977--43987035 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
43986967 AACAACACCA
43986977 GGTAGTCTTCCCATCCCCTACTGACTAGAG
1 GGTAGTCTTCCCATCCCCTACTGACTAGAG
43987007 GGTAGTCTTCCCATCCCCTACTGACTAGA
1 GGTAGTCTTCCCATCCCCTACTGACTAGA
43987036 CAAGGCTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.20, C:0.34, G:0.19, T:0.27
Consensus pattern (30 bp):
GGTAGTCTTCCCATCCCCTACTGACTAGAG
Found at i:43996737 original size:21 final size:21
Alignment explanation
Indices: 43996711--43996762 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
43996701 AAATGACAGT
* * *
43996711 GAAACAACATCAAAATGGTAG
1 GAAACAACAGCAAAATAGTAA
*
43996732 GAAACAATAGCAAAATAGTAA
1 GAAACAACAGCAAAATAGTAA
*
43996753 TAAACAACAG
1 GAAACAACAG
43996763 TGAAAAAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.58, C:0.13, G:0.15, T:0.13
Consensus pattern (21 bp):
GAAACAACAGCAAAATAGTAA
Found at i:43997627 original size:23 final size:24
Alignment explanation
Indices: 43997581--43997628 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
43997571 AAATATTAAA
*
43997581 ATATATAATTTTATAACTTTATTT
1 ATATATAATTTTATAACTTAATTT
43997605 ATATAT-ATTTTATAA-TTAAATTT
1 ATATATAATTTTATAACTT-AATTT
43997628 A
1 A
43997629 AAAAAATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 2 0.09
23 14 0.64
24 6 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
ATATATAATTTTATAACTTAATTT
Found at i:43999110 original size:28 final size:28
Alignment explanation
Indices: 43999070--43999126 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
43999060 AACCCGTAAC
43999070 ACTAAAGAATATATATATTAGATGTAGA
1 ACTAAAGAATATATATATTAGATGTAGA
43999098 ACTAAAGAATATATATATTAGATGTAGA
1 ACTAAAGAATATATATATTAGATGTAGA
43999126 A
1 A
43999127 AAATAAATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.51, C:0.04, G:0.14, T:0.32
Consensus pattern (28 bp):
ACTAAAGAATATATATATTAGATGTAGA
Found at i:44009949 original size:49 final size:49
Alignment explanation
Indices: 44009775--44009999 Score: 270
Period size: 49 Copynumber: 4.5 Consensus size: 49
44009765 TGAGGTCGCA
* * * * *
44009775 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACG
* * * **
44009826 TGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACG
*
44009876 TGTGTAGTACTAAGTGCAGTCTACTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
* * ***
44009925 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGCATAATTGGTCGTA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
*
44009974 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
44010000 TGCGTACCAG
Statistics
Matches: 150, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 75 0.50
50 43 0.29
51 32 0.21
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACG
Found at i:44018093 original size:19 final size:18
Alignment explanation
Indices: 44018029--44018093 Score: 105
Period size: 18 Copynumber: 3.6 Consensus size: 18
44018019 TTGGGTCCTG
44018029 TGGG-CCACACGGGCGTA
1 TGGGTCCACACGGGCGTA
*
44018046 TGGGTCCACACGGGCGTG
1 TGGGTCCACACGGGCGTA
44018064 TGGGTCCACACGGGCGTA
1 TGGGTCCACACGGGCGTA
44018082 TGGGTCCCACAC
1 TGGGT-CCACAC
44018094 AGGCTGACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.09
18 34 0.77
19 6 0.14
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (18 bp):
TGGGTCCACACGGGCGTA
Found at i:44022384 original size:20 final size:20
Alignment explanation
Indices: 44022369--44022406 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44022359 TGTTCAAAGT
44022369 AAAGTTACGATTTTC-AACC
1 AAAGTTACGATTTTCAAACC
*
44022388 CAAGTTACGATTTTCAAAC
1 AAAGTTACGATTTTCAAAC
44022407 ACATTAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (20 bp):
AAAGTTACGATTTTCAAACC
Found at i:44023889 original size:21 final size:21
Alignment explanation
Indices: 44023833--44023899 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
44023823 GTCTAGGCCG
44023833 TGTGGAGGCC-TACATGCCCA
1 TGTGGAGGCCATACATGCCCA
* *
44023853 TGTGAAGGCCACACATGCCCA
1 TGTGGAGGCCATACATGCCCA
** *
44023874 TGTGGAGGGGATACATGCCCG
1 TGTGGAGGCCATACATGCCCA
44023895 TGTGG
1 TGTGG
44023900 TTAGCCCGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 9 0.23
21 30 0.77
ACGTcount: A:0.21, C:0.25, G:0.34, T:0.19
Consensus pattern (21 bp):
TGTGGAGGCCATACATGCCCA
Found at i:44028380 original size:6 final size:6
Alignment explanation
Indices: 44028369--44028401 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
44028359 ATCTTGTGTC
44028369 AAAAAG AAAAAG AAAAA- AAAAAG AAAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAA
44028402 GAGATGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.20
6 14 0.56
7 6 0.24
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:44028389 original size:11 final size:11
Alignment explanation
Indices: 44028369--44028403 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
44028359 ATCTTGTGTC
44028369 AAAAAGAAAAAG
1 AAAAA-AAAAAG
44028381 AAAAAAAAAAG
1 AAAAAAAAAAG
*
44028392 AAAAAAGAAAG
1 AAAAAAAAAAG
44028403 A
1 A
44028404 GATGATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:44029212 original size:61 final size:58
Alignment explanation
Indices: 44029136--44029272 Score: 186
Period size: 61 Copynumber: 2.3 Consensus size: 58
44029126 TTATTATGTA
* *
44029136 ATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAAAAATAAATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAAT--AAA-AAAAATAAATAATTTAATAAC
* *
44029197 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAACAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAAAATAAATAATTTAATAAC
44029255 ATTCTTAATATAATTATT
1 ATT-TTAATATAATTATT
44029273 TTTATATTAA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
58 20 0.29
59 17 0.24
61 32 0.46
62 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAAAATAAATAATTTAATAAC
Found at i:44034309 original size:5 final size:5
Alignment explanation
Indices: 44034301--44034344 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
44034291 AGCATATCAT
* *
44034301 ATATC ATATC AAATC ATATC ATATC ATATC GATTTTC ATATC AT
1 ATATC ATATC ATATC ATATC ATATC ATATC -A-TATC ATATC AT
44034345 GTCGTAAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 28 0.85
6 2 0.06
7 3 0.09
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (5 bp):
ATATC
Found at i:44035169 original size:15 final size:15
Alignment explanation
Indices: 44035149--44035205 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
44035139 CGATGAATTT
44035149 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
44035164 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
44035179 ATTGAATTTATATTG
1 ATTGAATTTATATTG
44035194 ATTGAA-TTATAT
1 ATTGAATTTATAT
44035206 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:44035607 original size:23 final size:23
Alignment explanation
Indices: 44035589--44035686 Score: 141
Period size: 21 Copynumber: 4.4 Consensus size: 23
44035579 AGGCACTTTA
44035589 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
44035612 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
44035633 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
44035656 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
44035677 TGTGTCGTAT
1 TGTGTCGTAT
44035687 ACTGATCAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
21 36 0.52
22 4 0.06
23 29 0.42
ACGTcount: A:0.13, C:0.22, G:0.27, T:0.38
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:44035639 original size:44 final size:44
Alignment explanation
Indices: 44035576--44035686 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
44035566 GGCTTTATCG
* *
44035576 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
*
44035620 ATCAGGCACCTCGTGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
* * * *
44035664 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
44035687 ACTGATCAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 59 1.00
ACGTcount: A:0.15, C:0.23, G:0.25, T:0.37
Consensus pattern (44 bp):
ATCAGGCACCTCATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
Found at i:44038240 original size:19 final size:19
Alignment explanation
Indices: 44038216--44038254 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
44038206 CACATGGAGT
44038216 AAGCTAACTTAGCTTAGTA
1 AAGCTAACTTAGCTTAGTA
44038235 AAGCTAACTTAGCTTAGTA
1 AAGCTAACTTAGCTTAGTA
44038254 A
1 A
44038255 GCTTTAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
AAGCTAACTTAGCTTAGTA
Found at i:44038663 original size:35 final size:35
Alignment explanation
Indices: 44038617--44038737 Score: 125
Period size: 35 Copynumber: 3.5 Consensus size: 35
44038607 CAAGGTTCCT
*
44038617 TATATCATCACATATGGCCAAATATACAAGTACAA
1 TATAACATCACATATGGCCAAATATACAAGTACAA
* * * * * **
44038652 TAAAACATCACATGTAGTCAAATATTCAAGTTTAA
1 TATAACATCACATATGGCCAAATATACAAGTACAA
* * *
44038687 TATAACATCATATGTGGCCAAAGATACAAGTACAA
1 TATAACATCACATATGGCCAAATATACAAGTACAA
* *
44038722 TATATCATCATATATG
1 TATAACATCACATATG
44038738 TACATACCTA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (35 bp):
TATAACATCACATATGGCCAAATATACAAGTACAA
Found at i:44045182 original size:30 final size:29
Alignment explanation
Indices: 44045126--44045186 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 29
44045116 ATCCAAGATG
44045126 ACTTGACTCGAGCCTTCTTGCAAAGACCAT
1 ACTTGACTCGAGCCTTC-TGCAAAGACCAT
*
44045156 ACTTGACTCGAGCCCTTC-GACGAAGACCAT
1 ACTTGACTCGAG-CCTTCTG-CAAAGACCAT
44045186 A
1 A
44045187 GCACCCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 1 0.04
30 22 0.79
31 5 0.18
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (29 bp):
ACTTGACTCGAGCCTTCTGCAAAGACCAT
Found at i:44046180 original size:22 final size:22
Alignment explanation
Indices: 44046155--44046203 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
44046145 ATAACAGAAT
* *
44046155 ATATCATAGCATATCAAATTTC
1 ATATCAGAGCATATCAAATATC
* *
44046177 ATATCGGAGCATATCATATATC
1 ATATCAGAGCATATCAAATATC
44046199 ATATC
1 ATATC
44046204 GTATCGTATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (22 bp):
ATATCAGAGCATATCAAATATC
Found at i:44046204 original size:22 final size:22
Alignment explanation
Indices: 44046162--44046204 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44046152 AATATATCAT
*
44046162 AGCATATCAAATTTCATATCGG
1 AGCATATCAAATATCATATCGG
*
44046184 AGCATATCATATATCATATCG
1 AGCATATCAAATATCATATCG
44046205 TATCGTATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (22 bp):
AGCATATCAAATATCATATCGG
Found at i:44046304 original size:22 final size:22
Alignment explanation
Indices: 44046251--44046306 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
44046241 GTAGCATGTT
* *
44046251 TCATATCTTATCATATCATAAC
1 TCATATCATGTCATATCATAAC
** *
44046273 TCATGCCATGTCATATCATATC
1 TCATATCATGTCATATCATAAC
44046295 TCATATCATGTC
1 TCATATCATGTC
44046307 CTACCCCAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.39
Consensus pattern (22 bp):
TCATATCATGTCATATCATAAC
Found at i:44047415 original size:16 final size:17
Alignment explanation
Indices: 44047384--44047416 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44047374 AAAAAAACTC
*
44047384 AAAGAAAAGTGAAAGAA
1 AAAGAAAAGAGAAAGAA
44047401 AAAGAAAA-AGAAAGAA
1 AAAGAAAAGAGAAAGAA
44047417 CAAAAGGAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (17 bp):
AAAGAAAAGAGAAAGAA
Found at i:44049456 original size:19 final size:20
Alignment explanation
Indices: 44049432--44049476 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
44049422 TTGAGATGGA
44049432 ATGATATTCAACTTTGTGG-
1 ATGATATTCAACTTTGTGGT
* *
44049451 ATGATATTTAACTTTTTGGT
1 ATGATATTCAACTTTGTGGT
44049471 ATGATA
1 ATGATA
44049477 GGGACATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.47
Consensus pattern (20 bp):
ATGATATTCAACTTTGTGGT
Found at i:44055512 original size:191 final size:191
Alignment explanation
Indices: 44055171--44055551 Score: 593
Period size: 191 Copynumber: 2.0 Consensus size: 191
44055161 ATAATCTCTC
* *
44055171 TTACATGAAATAGTCATACCTTTTTCCCTCCTATGACTAAGTTGTCTCCACTTCAAACGAGTCGA
1 TTACACGAAATAGTCATACCTTTTTCCCTCCTATGACTAAGTTGTCTCCACTTCAAACGAGTCCA
* *** * * *
44055236 GTTTAACTCTTTAACAGATGTGGGATGTCTGGTTTCACCGGTCACCGTTGATCCTTCCAAAACAT
66 GTTCAACTCTTTAACAGACAAGGGACGTCCGGTTTCACAGGTCACCGTTGATCCTTCCAAAACAT
* *
44055301 AAAGACTTTTAATATTTTTACCTTTCATAGAAAAGAAGAGCCTCATGAGATACCTTAATGT
131 AAAGACTTTCAATATTTTTACCTTTCATAAAAAAGAAGAGCCTCATGAGATACCTTAATGT
* **
44055362 TTACACGAAATAGTCATACCTTTTTCTCTCCTATGACCT-AGTTGTCTCTGCTTCAAACGAGTCC
1 TTACACGAAATAGTCATACCTTTTTCCCTCCTATGA-CTAAGTTGTCTCCACTTCAAACGAGTCC
44055426 AGTTCAACTCTTTAACAGACAAGGGACGTCCGGTTTCACAGGTCACCGTTGATCCTTCCAAAACA
65 AGTTCAACTCTTTAACAGACAAGGGACGTCCGGTTTCACAGGTCACCGTTGATCCTTCCAAAACA
* * *
44055491 TAAAGACTTTCAATCTTTTTACCTTTTATAAAAAAGAAGAGCCTTATGAGATACCTTAATG
130 TAAAGACTTTCAATATTTTTACCTTTCATAAAAAAGAAGAGCCTCATGAGATACCTTAATG
44055552 CCGCTTGAAT
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
191 170 0.99
192 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.33
Consensus pattern (191 bp):
TTACACGAAATAGTCATACCTTTTTCCCTCCTATGACTAAGTTGTCTCCACTTCAAACGAGTCCA
GTTCAACTCTTTAACAGACAAGGGACGTCCGGTTTCACAGGTCACCGTTGATCCTTCCAAAACAT
AAAGACTTTCAATATTTTTACCTTTCATAAAAAAGAAGAGCCTCATGAGATACCTTAATGT
Found at i:44060601 original size:21 final size:21
Alignment explanation
Indices: 44060577--44060621 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
44060567 AAATCTCTAC
*
44060577 AATTTCTCCTTAAAGCTCTCA
1 AATTTCTCATTAAAGCTCTCA
* **
44060598 AATTTTTCATTAAATTTCTCA
1 AATTTCTCATTAAAGCTCTCA
44060619 AAT
1 AAT
44060622 CTCTTTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (21 bp):
AATTTCTCATTAAAGCTCTCA
Found at i:44061789 original size:7 final size:7
Alignment explanation
Indices: 44061777--44061801 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44061767 AGTTGTTTCA
44061777 TATTTAG
1 TATTTAG
44061784 TATTTAG
1 TATTTAG
44061791 TATTTAG
1 TATTTAG
44061798 TATT
1 TATT
44061802 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:44062363 original size:30 final size:30
Alignment explanation
Indices: 44062299--44062363 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
44062289 AACGACATAG
* * * * *
44062299 GCCCATCAACAGCGGCTACACAATCGCCGG
1 GCCCATCAACAACGCCCACACAATCACCGA
*
44062329 GCCCATCAACAACGCCCACACAATCATCGA
1 GCCCATCAACAACGCCCACACAATCACCGA
44062359 GCCCA
1 GCCCA
44062364 ATGCCTCAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.43, G:0.17, T:0.09
Consensus pattern (30 bp):
GCCCATCAACAACGCCCACACAATCACCGA
Found at i:44072541 original size:37 final size:37
Alignment explanation
Indices: 44072399--44072543 Score: 220
Period size: 37 Copynumber: 3.9 Consensus size: 37
44072389 GCTCAGACGA
* * * * *
44072399 AATCTCCACATGAAGTTATCGGGTCTTACCCAGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
44072436 AATCTCCACGA-GTAGTCATCGGGTCTTACTCGGACAT
1 AATCTCCAC-ACGTAGTCATCGGGTCTTACCCGGACAT
44072473 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
44072510 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
44072544 ATATATTTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
36 1 0.01
37 98 0.98
38 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:44072852 original size:46 final size:47
Alignment explanation
Indices: 44072754--44073228 Score: 483
Period size: 46 Copynumber: 10.1 Consensus size: 47
44072744 ACACGTTTCG
* * * *
44072754 CATTAGCCATTCGGCCTTACCACATATATGC-TGTTCACA-TCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * *
44072799 TATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCAT-A
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
44072845 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACA-T-ATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
44072890 CA-TGGCCATTCAGCCTTAT--CACATACGCATGTTCA-ATTCAT-A
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
44072932 CATTGGCCATTCGG--TTATCACGGATATATATATACAGGTTCACAATTCATCA
1 CATTGGCCATTCGGCCTTATCAC------ACATACGCATGTTCAC-ATTCATCA
*
44072984 CATTGGCCATTCGACCTT-TCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
44073030 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACA-TCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
44073080 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTACATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATT-CATCA
* * ***
44073128 CACTAGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
44073179 CATTGGCCATTCGACCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44073226 CAT
1 CAT
44073229 AAAATCCTAA
Statistics
Matches: 362, Mismatches: 38, Indels: 58
0.79 0.08 0.13
Matches are distributed among these distances:
41 5 0.01
42 20 0.06
43 13 0.04
44 19 0.05
45 31 0.09
46 76 0.21
47 44 0.12
48 33 0.09
49 11 0.03
50 36 0.10
51 45 0.12
52 23 0.06
53 4 0.01
54 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44073009 original size:23 final size:24
Alignment explanation
Indices: 44072977--44073056 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
44072967 AGGTTCACAA
44072977 TTCATCACATTGGCCATTCGACCT
1 TTCATCACATTGGCCATTCGACCT
** *
44073001 TTCA-CACATACG-CATGTTC-A-CA
1 TTCATCACATTGGCCA--TTCGACCT
*
44073023 TTCATCACATTGGCCATTCGGCCT
1 TTCATCACATTGGCCATTCGACCT
44073047 TATCA-CACAT
1 T-TCATCACAT
44073057 ATATATACGG
Statistics
Matches: 42, Mismatches: 7, Indels: 14
0.67 0.11 0.22
Matches are distributed among these distances:
22 10 0.24
23 13 0.31
24 16 0.38
25 3 0.07
ACGTcount: A:0.25, C:0.33, G:0.11, T:0.31
Consensus pattern (24 bp):
TTCATCACATTGGCCATTCGACCT
Found at i:44073062 original size:98 final size:97
Alignment explanation
Indices: 44072754--44073228 Score: 576
Period size: 98 Copynumber: 5.0 Consensus size: 97
44072744 ACACGTTTCG
* * * * *
44072754 CATTAGCCATTCGGCCTTA-C-CAC--ATATATGC-TGTTCACATCATCATATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATCATCACATTGGCCATTCGAC
* * *
44072814 CTTATCTCATATATGCATGTTCACATTCAT-A
66 CTTATCACACATACGCATGTTCACATTCATCA
* ** *
44072845 CATTGGCCATTCAGCCTTATCACAC----ATACGCATGTTCACAT-ATCACA-TGGCCATTC-AG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATCATCACATTGGCCATTCGA-
44072903 CCTTAT--CACATACGCATGTTCA-ATTCAT-A
65 CCTTATCACACATACGCATGTTCACATTCATCA
*
44072932 CATTGGCCATTCGG--TTATCACGGATATATATATACAGGTTCACAATTCATCACATTGGCCATT
1 CATTGGCCATTCGGCCTTATCAC--ACATATATATACAGGTTCAC-A-TCATCACATTGGCCATT
44072995 CGACCTT-TCACACATACGCATGTTCACATTCATCA
62 CGACCTTATCACACATACGCATGTTCACATTCATCA
* *
44073030 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATCATCACATTGGCCATTCGGC
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATCATCACATTGGCCATTCGAC
44073095 CTTATCACACATACGCATGTTCACATTACATCA
66 CTTATCACACATACGCATGTTCACATT-CATCA
* * *
44073128 CACTAGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGA
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACA-TCATCACATTGGCCATTCGA
*
44073193 CCTTATCACACATACGCATGTTCACATCCATCA
65 CCTTATCACACATACGCATGTTCACATTCATCA
44073226 CAT
1 CAT
44073229 AAAATCCTAA
Statistics
Matches: 340, Mismatches: 20, Indels: 41
0.85 0.05 0.10
Matches are distributed among these distances:
85 7 0.02
87 21 0.06
88 14 0.04
90 15 0.04
91 38 0.11
92 11 0.03
93 4 0.01
94 7 0.02
95 13 0.04
96 40 0.12
97 30 0.09
98 87 0.26
99 46 0.14
100 7 0.02
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (97 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATCATCACATTGGCCATTCGAC
CTTATCACACATACGCATGTTCACATTCATCA
Found at i:44073087 original size:50 final size:51
Alignment explanation
Indices: 44073016--44073206 Score: 284
Period size: 51 Copynumber: 3.8 Consensus size: 51
44073006 ACATACGCAT
44073016 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGG
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGG
***
44073067 GTTCACA-TCATCACATTGGCCATTCGGCCTTATCACACATACGCAT----
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGG
* *
44073113 GTTCACATTACATCACACTAGCCATTCGGCCTTATCACACATATATATACGG
1 GTTCACATT-CATCACATTGGCCATTCGGCCTTATCACACATATATATACGG
*
44073165 GTTCACATTCATCACATTGGCCATTCGACCTTATCACACATA
1 GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
44073207 CGCATGTTCA
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
46 7 0.06
47 1 0.01
48 33 0.27
50 36 0.29
51 37 0.30
52 9 0.07
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (51 bp):
GTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGG
Found at i:44077248 original size:40 final size:40
Alignment explanation
Indices: 44077204--44077591 Score: 595
Period size: 40 Copynumber: 9.8 Consensus size: 40
44077194 AGCATGATTT
* * * *
44077204 CTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
** * *
44077244 CTCTTCGGGGTTTAGCACGGATATATCACTAGCATG-ATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
44077283 CTCCTC-GGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
44077322 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
44077362 CTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
44077402 CTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
44077442 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
44077482 CTCCTCGGGACTTAG-CCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
44077521 CTAC-TCGGGACTTAGCCCGGATATATCCACTAGCACGAATG
1 CT-CTTCGGGACTTAGCCCGGATATAT-CACTAGCACGAATG
44077562 CTCTTCGGGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
44077592 CTCAATTCCT
Statistics
Matches: 319, Mismatches: 23, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
38 24 0.08
39 52 0.16
40 205 0.64
41 38 0.12
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:44078966 original size:37 final size:37
Alignment explanation
Indices: 44078874--44079015 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
44078864 GCTCAGACGA
* * * *
44078874 AATCTCCACATGAAGTTATCGGGTCTTACCC-GACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
44078910 AATCT-C-CACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
44078945 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
44078982 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
44079016 ATATATTTCC
Statistics
Matches: 99, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
34 20 0.20
35 10 0.10
36 6 0.06
37 63 0.64
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:44079014 original size:74 final size:71
Alignment explanation
Indices: 44078874--44079015 Score: 221
Period size: 71 Copynumber: 2.0 Consensus size: 71
44078864 GCTCAGACGA
* *
44078874 AATCTCCACATGAAGTTATCGGGTCTTACCCGACAAAATCTCCACGTAGTCATCGGGTCTTACCC
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGACAAAATCTCCACGTAGTCATCGGGTCTTACCC
44078939 GGACAT
66 GGACAT
* *
44078945 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCC-GACAAAATCT-C-CACGTAGTCATCGGGTCTTA
44079010 CCCGGA
63 CCCGGA
44079016 ATATATTTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
71 28 0.44
72 9 0.14
73 1 0.02
74 26 0.41
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (71 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGACAAAATCTCCACGTAGTCATCGGGTCTTACCC
GGACAT
Found at i:44079288 original size:47 final size:47
Alignment explanation
Indices: 44079226--44079707 Score: 712
Period size: 47 Copynumber: 10.1 Consensus size: 47
44079216 ACACGTTTCG
* * * **
44079226 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
44079273 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44079320 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44079367 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
44079414 CATTGGCCATTCGGCCTTATCACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCAC--ACATACGCATGTTCACATTCATCA
44079463 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
44079510 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT---GTTCACATTCATCA
44079560 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
***
44079607 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
44079658 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
44079705 CAT
1 CAT
44079708 AAAATCCTAA
Statistics
Matches: 398, Mismatches: 28, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
47 267 0.67
49 43 0.11
50 44 0.11
51 44 0.11
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44079751 original size:240 final size:233
Alignment explanation
Indices: 44079257--44079736 Score: 628
Period size: 240 Copynumber: 2.0 Consensus size: 233
44079247 ACATATATTC
* * *
44079257 ATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACA
1 ATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAGGTTCACATTCATCACA
44079322 TTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
66 TTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
44079387 CACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACAGGTT
131 CACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACA-ACATACACAGGTT
* ** * * * **
44079452 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACGC
195 CACATCCATCACATT-GAAAAT--GCCTAATCACAAATACAA
*
44079494 ATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATC
1 ATGTTCACATTCATCACATTGGCCATTCGGCCTTAT--CACATATATACA-GGTTCACATTCATC
44079559 ACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCT
63 ACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCT
* * *
44079624 TATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ACATACG
128 TATCACACATACACAT----GTTCACATTCATCACATTGGCCATTCGGCCTTATCACAACATACA
* *
44079688 CATGTTCACATCCATCACA-T-AAAAT-CCTAAATCA-AAATATAA
189 CAGGTTCACATCCATCACATTGAAAATGCCT-AATCACAAATACAA
*
44079730 ATTTTCA
1 ATGTTCA
44079737 TGTATTCACA
Statistics
Matches: 214, Mismatches: 21, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
236 13 0.06
237 40 0.19
239 11 0.05
240 91 0.43
241 1 0.00
242 21 0.10
244 37 0.17
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (233 bp):
ATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAGGTTCACATTCATCACA
TTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
CACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAACATACACAGGTTC
ACATCCATCACATTGAAAATGCCTAATCACAAATACAA
Found at i:44083738 original size:40 final size:40
Alignment explanation
Indices: 44083694--44084080 Score: 620
Period size: 40 Copynumber: 9.8 Consensus size: 40
44083684 AGCATGATTT
* * * *
44083694 CTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
** *
44083734 CTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
44083774 CTC-TC-GGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
44083812 CTC-TCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
44083851 CTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
*
44083891 CTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
44083931 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
* *
44083971 CTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
44084011 CTAC-TCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CT-CTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
44084051 CTCTTCGGGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATATATCACT
44084081 CTCAATTCTC
Statistics
Matches: 325, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
38 34 0.10
39 38 0.12
40 252 0.78
41 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
Found at i:44085445 original size:72 final size:73
Alignment explanation
Indices: 44085348--44085486 Score: 235
Period size: 72 Copynumber: 1.9 Consensus size: 73
44085338 GCTCAGACGA
* *
44085348 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAAAATCTCCACA-GTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
44085412 CCGGACAT
66 CCGGACAT
* *
44085420 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTA
1 AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
44085485 CC
66 CC
44085487 CGGAATATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 43 0.69
73 19 0.31
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (73 bp):
AATCTCCACACGAAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTA
CCGGACAT
Found at i:44085462 original size:37 final size:37
Alignment explanation
Indices: 44085348--44085490 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
44085338 GCTCAGACGA
* * * *
44085348 AATCTCCACATGAAGTTATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
44085385 AATCTCCACA-GTAGTCATCGGGTCTTA-CCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
44085420 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
44085457 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
44085491 ATATATTTCC
Statistics
Matches: 101, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
35 17 0.17
36 32 0.32
37 52 0.51
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:44085764 original size:47 final size:47
Alignment explanation
Indices: 44085702--44086187 Score: 648
Period size: 47 Copynumber: 10.1 Consensus size: 47
44085692 ACACGTGTCG
* * *
44085702 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
44085749 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
44085796 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
44085843 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
44085890 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ATATATGCATGTTCACATTCATCA
* *
44085943 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
** *
44085990 CATTGGCCATTCGGCCTTATCACACATATATATACGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACATATATGCA-TGTTCACATTCATCA
* * *
44086040 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* **
44086087 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CAC--ATATATGCATGTTCACATTCATCA
* * *
44086138 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
44086185 CAT
1 CAT
44086188 AAAATCCTAA
Statistics
Matches: 388, Mismatches: 38, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
47 250 0.64
48 8 0.02
49 15 0.04
50 33 0.09
51 40 0.10
53 42 0.11
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:44085961 original size:100 final size:98
Alignment explanation
Indices: 44085702--44086187 Score: 783
Period size: 94 Copynumber: 5.0 Consensus size: 98
44085692 ACACGTGTCG
* *
44085702 CATTAGCCATTCGGCCTTA-C-CACATATAT-T-CATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
* * *
44085763 CCTTATCTCATATATGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
* * *
44085796 CATTGGCCATTCGGCCTTAT--CTC--ATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
44085857 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
*
44085890 CATTGGCCATTCGGCCTTATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTC
1 CATTGGCCATTCGGCCTTATCA--CACATATATATACAGGTTCACATTCATCACATTGGCCATTC
44085955 GGCCTTATCACACATACGCATGTTCACATTCATCA
64 GGCCTTATCACACATACGCATGTTCACATTCATCA
*
44085990 CATTGGCCATTCGGCCTTATCACACATATATATAC-GGTTCACATTCATCACATTGGCCATTTGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
44086054 CCTTATCACACATACGCATGTTCACATTCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
*
44086087 CATTGGCCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
*
44086152 CCTTATCACACATACGCATGTTCACATCCATCA
66 CCTTATCACACATACGCATGTTCACATTCATCA
44086185 CAT
1 CAT
44086188 AAAATCCTAA
Statistics
Matches: 369, Mismatches: 13, Indels: 16
0.93 0.03 0.04
Matches are distributed among these distances:
92 4 0.01
93 1 0.00
94 101 0.27
97 96 0.26
98 76 0.21
100 91 0.25
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (98 bp):
CATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATTCATCACATTGGCCATTCGG
CCTTATCACACATACGCATGTTCACATTCATCA
Found at i:44095668 original size:48 final size:48
Alignment explanation
Indices: 44095597--44095736 Score: 208
Period size: 48 Copynumber: 2.9 Consensus size: 48
44095587 TAGGGTTATG
*
44095597 TACGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGACC
1 TACGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGACA
* *
44095645 TACGATCCCATGTAAGACCATGTCTGGGACATGGTTTTGGCATCGATA
1 TACGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGACA
** * * *
44095693 TGTGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATC
1 TACGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATC
44095737 CTACCATGTG
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (48 bp):
TACGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGACA
Found at i:44104828 original size:44 final size:43
Alignment explanation
Indices: 44104780--44104936 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
44104770 TGTGTTATCG
* * *
44104780 TGTAAGACCACGTATGGGACATTGGCATCA-ACTTATGATTTACG
1 TGTAAGACCACGTCTAGGACATTGGCATCATA-TT-TGATTTACA
* * * * *
44104824 TGTAAGATCACTTTTGGGACATTGGCATTATATTTGATTT-CA
1 TGTAAGACCACGTCTAGGACATTGGCATCATATTTGATTTACA
* *
44104866 TGTAAGACTC-TGTCTAGGACAGTGGCATCGATATTTGA-TTACA
1 TGTAAGAC-CACGTCTAGGACATTGGCATC-ATATTTGATTTACA
44104909 TGTAAGACCACGTCTAGGACATTGGCAT
1 TGTAAGACCACGTCTAGGACATTGGCAT
44104937 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
42 24 0.26
43 41 0.44
44 28 0.30
45 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACGTCTAGGACATTGGCATCATATTTGATTTACA
Found at i:44105099 original size:21 final size:21
Alignment explanation
Indices: 44105073--44105116 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
44105063 GAGGATAAGG
44105073 TAAGTACAAAGCATATGTATA
1 TAAGTACAAAGCATATGTATA
44105094 TAAGTACAAAGCATATGTATA
1 TAAGTACAAAGCATATGTATA
44105115 TA
1 TA
44105117 TGTGAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.30
Consensus pattern (21 bp):
TAAGTACAAAGCATATGTATA
Found at i:44105702 original size:9 final size:9
Alignment explanation
Indices: 44105688--44105716 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
44105678 AGATTGAATG
44105688 ATGGATATT
1 ATGGATATT
44105697 ATGGATATT
1 ATGGATATT
44105706 ATGGATATT
1 ATGGATATT
44105715 AT
1 AT
44105717 TCAGTAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (9 bp):
ATGGATATT
Found at i:44117335 original size:19 final size:20
Alignment explanation
Indices: 44117311--44117391 Score: 69
Period size: 20 Copynumber: 4.1 Consensus size: 20
44117301 CTGACTTATT
44117311 TTAAAATCATTTTGA-TGTG-
1 TTAAAATCATTTTGACT-TGA
* *
44117330 TTAAAATGATTTT-ATTTTGA
1 TTAAAATCATTTTGA-CTTGA
* *
44117350 TTTAAATCATTTTGACTTGC
1 TTAAAATCATTTTGACTTGA
* *
44117370 TTAAAATCAATTTCACTTGA
1 TTAAAATCATTTTGACTTGA
44117390 TT
1 TT
44117392 TTAAAATTGT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
18 1 0.02
19 14 0.29
20 33 0.67
21 1 0.02
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.49
Consensus pattern (20 bp):
TTAAAATCATTTTGACTTGA
Found at i:44124704 original size:54 final size:53
Alignment explanation
Indices: 44124583--44124950 Score: 318
Period size: 54 Copynumber: 6.8 Consensus size: 53
44124573 CCAAACTATT
* * *
44124583 TAAAATTATCGAAATACCCCCA-TTTGAAAAATTACCGAAATACCTTCGGATTG
1 TAAAATTATCGAAATA-CCCCAGTTTGTAAAATTACCGAAATACCCTCGAATTG
* * * *
44124636 TAAAATTACCGAAATACCCTCAGTTTGTAAAATCACTGAAAAACCCTCGAATTG
1 TAAAATTATCGAAATACCC-CAGTTTGTAAAATTACCGAAATACCCTCGAATTG
* * * * * *
44124690 TAAAGTTATTGAAATACCCTAGTTTGTAAAATTATCGAAATACCTTC-AGATTA
1 TAAAATTATCGAAATACCCCAGTTTGTAAAATTACCGAAATACCCTCGA-ATTG
* * * * * * *
44124743 TAAAATTACCGAAATACCCCTGATTTGTAAAATCAACAAAATACCCTTGGATTG
1 TAAAATTATCGAAATACCCCAG-TTTGTAAAATTACCGAAATACCCTCGAATTG
* *
44124797 TAAAATTATCGAAATACCCCTGATTTGTAAAATTACCGAAATGCCCTC-AGATTG
1 TAAAATTATCGAAATACCCCAG-TTTGTAAAATTACCGAAATACCCTCGA-ATTG
* * * *
44124851 TAAAATTAAT-GAAAGACTCCC-GATTTGTAAAATTACCAAAATACCC-CTGATTTA
1 TAAAATT-ATCGAAATAC-CCCAG-TTTGTAAAATTACCGAAATACCCTC-GAATTG
** *
44124905 TAAAATTA-CTGAAATACCCTTGTAGTGTAAAATTACCGAAATACCC
1 TAAAATTATC-GAAATACCCCAGT-TTGTAAAATTACCGAAATACCC
44124951 CTATAGGGTA
Statistics
Matches: 256, Mismatches: 45, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
52 4 0.02
53 64 0.25
54 182 0.71
55 6 0.02
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (53 bp):
TAAAATTATCGAAATACCCCAGTTTGTAAAATTACCGAAATACCCTCGAATTG
Found at i:44124828 original size:81 final size:80
Alignment explanation
Indices: 44124583--44124950 Score: 309
Period size: 81 Copynumber: 4.6 Consensus size: 80
44124573 CCAAACTATT
* * * * *
44124583 TAAAATTATCGAAATACCCC-CATTTGAAAAATTACCGAAATACCTTCGGATTGTAAAATTACCG
1 TAAAATTACCGAAATACCCCTGATTTGTAAAATTAACGAAATACCCT-GGATTGTAAAATTACCG
* *
44124647 AAATA-CCCTCAGTTTG
65 AAATACCCCTGA-TTTA
* * * * * ** * * *
44124663 TAAAATCACTGAAA-AACCCTCGAATTGTAAAGTTATTGAAATACCCTAGTTTGTAAAATTATCG
1 TAAAATTACCGAAATACCCCT-GATTTGTAAAATTAACGAAATACCCTGGATTGTAAAATTACCG
* *
44124727 AAATACCTTCAGA-TTA
65 AAATACC-CCTGATTTA
* * *
44124743 TAAAATTACCGAAATACCCCTGATTTGTAAAATCAACAAAATACCCTTGGATTGTAAAATTATCG
1 TAAAATTACCGAAATACCCCTGATTTGTAAAATTAACGAAATACCC-TGGATTGTAAAATTACCG
*
44124808 AAATACCCCTGATTTG
65 AAATACCCCTGATTTA
* * * * *
44124824 TAAAATTACCGAAATGCCCTCAGA-TTGTAAAATTAATGAAAGACTCC-CGATTTGTAAAATTAC
1 TAAAATTACCGAAATACCC-CTGATTTGTAAAATTAACGAAATAC-CCTGGA-TTGTAAAATTAC
*
44124887 CAAAATACCCCTGATTTA
63 CGAAATACCCCTGATTTA
* * * *
44124905 TAAAATTACTGAAATACCCTTG-TAGTGTAAAATTACCGAAATACCC
1 TAAAATTACCGAAATACCCCTGAT-TTGTAAAATTAACGAAATACCC
44124951 CTATAGGGTA
Statistics
Matches: 226, Mismatches: 50, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
79 4 0.02
80 71 0.31
81 144 0.64
82 7 0.03
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (80 bp):
TAAAATTACCGAAATACCCCTGATTTGTAAAATTAACGAAATACCCTGGATTGTAAAATTACCGA
AATACCCCTGATTTA
Found at i:44124950 original size:27 final size:26
Alignment explanation
Indices: 44124583--44124950 Score: 267
Period size: 27 Copynumber: 13.7 Consensus size: 26
44124573 CCAAACTATT
* **
44124583 TAAAATTATCGAAATACCC-CCATTTG
1 TAAAATTACCGAAATACCCTTGA-TTG
*
44124609 AAAAATTACCGAAATA-CCTTCGGATTG
1 TAAAATTACCGAAATACCCTT--GATTG
* *
44124636 TAAAATTACCGAAATACCCTCAGTTTG
1 TAAAATTACCGAAATACCCT-TGATTG
* * * *
44124663 TAAAATCACTGAAAAACCCTCGAATTG
1 TAAAATTACCGAAATACCCTTG-ATTG
* ** * *
44124690 TAAAGTTATTGAAATACCCTAGTTTG
1 TAAAATTACCGAAATACCCTTGATTG
* *
44124716 TAAAATTATCGAAATA-CCTTCAGATTA
1 TAAAATTACCGAAATACCCTT--GATTG
*
44124743 TAAAATTACCGAAATACCCCTGATTTG
1 TAAAATTACCGAAATACCCTTGA-TTG
* * *
44124770 TAAAATCAACAAAATACCCTTGGATTG
1 TAAAATTACCGAAATACCCTT-GATTG
* *
44124797 TAAAATTATCGAAATACCCCTGATTTG
1 TAAAATTACCGAAATACCCTTGA-TTG
* *
44124824 TAAAATTACCGAAATGCCCTCAGATTG
1 TAAAATTACCGAAATACCCT-TGATTG
** * *
44124851 TAAAATTAATGAAAGACTCC-CGATTTG
1 TAAAATTACCGAAATAC-CCTTGA-TTG
* * *
44124878 TAAAATTACCAAAATACCCCTGATTTA
1 TAAAATTACCGAAATACCCTTGA-TTG
* *
44124905 TAAAATTACTGAAATACCCTTGTAGTG
1 TAAAATTACCGAAATACCCTTG-ATTG
44124932 TAAAATTACCGAAATACCC
1 TAAAATTACCGAAATACCC
44124951 CTATAGGGTA
Statistics
Matches: 270, Mismatches: 55, Indels: 33
0.75 0.15 0.09
Matches are distributed among these distances:
25 5 0.02
26 40 0.15
27 211 0.78
28 14 0.05
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.29
Consensus pattern (26 bp):
TAAAATTACCGAAATACCCTTGATTG
Found at i:44125467 original size:27 final size:27
Alignment explanation
Indices: 44125409--44125470 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
44125399 CTATGTACCT
* * *
44125409 ATCATATTTATCGATGACTCTGTGTCG
1 ATCATATTTACCCATGACTCTGTGCCG
*
44125436 ATCATATTTACCCATGACTGTGTGCC-
1 ATCATATTTACCCATGACTCTGTGCCG
44125462 AGTCATATT
1 A-TCATATT
44125471 ACCGTCACTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (27 bp):
ATCATATTTACCCATGACTCTGTGCCG
Found at i:44125503 original size:32 final size:32
Alignment explanation
Indices: 44125456--44125526 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
44125446 CCCATGACTG
* * *
44125456 TGTGCCAGTCATATTACCGTCACTGATGGCTA
1 TGTGCCAGACATATTACAGTCACCGATGGCTA
* * *
44125488 TGTGCCAGACTTATTACAGTTACCGATGGCTT
1 TGTGCCAGACATATTACAGTCACCGATGGCTA
44125520 TGTGCCA
1 TGTGCCA
44125527 ATTATAATAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (32 bp):
TGTGCCAGACATATTACAGTCACCGATGGCTA
Found at i:44125809 original size:27 final size:27
Alignment explanation
Indices: 44125742--44125809 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
44125732 TGTTACTGAG
* * ** *
44125742 ATGGGC-TAGGCCCAATTGATTCTGTT
1 ATGGGCTTTGGCCCAAATGATAATGTA
* *
44125768 ATGGGCTGTGACCCAAATGATAATGTA
1 ATGGGCTTTGGCCCAAATGATAATGTA
44125795 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
44125810 CTTATGCTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATAATGTA
Found at i:44126519 original size:20 final size:19
Alignment explanation
Indices: 44126494--44126561 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
44126484 CAGCCTGTGG
*
44126494 TATCGATATTTCTTTAAAAA
1 TATCGATATTT-TATAAAAA
44126514 TATCGATACTTTTATAAAAA
1 TATCGATA-TTTTATAAAAA
*
44126534 TATCGATACTTGTGA-AAAAA
1 TATCGATA-TT-TTATAAAAA
44126554 TATCGATA
1 TATCGATA
44126562 CCAATATGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 39 0.89
21 5 0.11
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (19 bp):
TATCGATATTTTATAAAAA
Found at i:44126562 original size:20 final size:20
Alignment explanation
Indices: 44126508--44126562 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
44126498 GATATTTCTT
*
44126508 TAAAAATATCGATACTTTTA
1 TAAAAATATCGATACTTTGA
44126528 TAAAAATATCGATACTTGTGA
1 TAAAAATATCGATACTT-TGA
44126549 -AAAAATATCGATAC
1 TAAAAATATCGATAC
44126563 CAATATGCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 31 0.94
21 2 0.06
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (20 bp):
TAAAAATATCGATACTTTGA
Found at i:44133708 original size:41 final size:41
Alignment explanation
Indices: 44133662--44133743 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
44133652 GTGATTCCTT
44133662 AGGACAAGATTGATATCTAGCACACAAGCATACATTAAACA
1 AGGACAAGATTGATATCTAGCACACAAGCATACATTAAACA
*
44133703 AGGACAATATTGATATCTAGCACACAAGCATACATTAAACA
1 AGGACAAGATTGATATCTAGCACACAAGCATACATTAAACA
44133744 TAATCTTGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (41 bp):
AGGACAAGATTGATATCTAGCACACAAGCATACATTAAACA
Found at i:44136426 original size:23 final size:23
Alignment explanation
Indices: 44136399--44136489 Score: 87
Period size: 24 Copynumber: 3.9 Consensus size: 23
44136389 ATAGCTCGTA
**
44136399 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTGTTTCAGCTCAAC
*
44136422 GGAGCTTACTG-TTCAGCTCAAC
1 AGAGCTTACTGTTTCAGCTCAAC
* *
44136444 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTACTG-TTTCAGCTCAAC
*
44136468 AGAGAC-TATTGTTATCAGCTCA
1 AGAG-CTTACTGTT-TCAGCTCA
44136490 TGAAGAGCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
22 18 0.32
23 12 0.21
24 25 0.45
25 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (23 bp):
AGAGCTTACTGTTTCAGCTCAAC
Found at i:44136448 original size:22 final size:22
Alignment explanation
Indices: 44136399--44136471 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
44136389 ATAGCTCGTA
*
44136399 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
* *
44136422 GGAGCTTACTGTTCAGCTCAAC
1 AGAGCTTACTGTTCAGCTCAAT
*
44136444 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTA-C-TGTTCAGCTCAAT
44136468 AGAG
1 AGAG
44136472 ACTATTGTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
22 16 0.38
23 11 0.26
24 15 0.36
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:44146544 original size:22 final size:23
Alignment explanation
Indices: 44146498--44146544 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
44146488 TATTGGAGCC
*
44146498 TACTGATTCAGCTCGAAAGAGCT
1 TACTGATTCAGCTCGAAAGAACT
44146521 TACT-ATTCAGCTC-AACAGAACT
1 TACTGATTCAGCTCGAA-AGAACT
44146543 TA
1 TA
44146545 TCGTTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 2 0.09
22 16 0.73
23 4 0.18
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (23 bp):
TACTGATTCAGCTCGAAAGAACT
Found at i:44156924 original size:45 final size:44
Alignment explanation
Indices: 44156873--44156970 Score: 117
Period size: 45 Copynumber: 2.2 Consensus size: 44
44156863 GAGTCATGGT
44156873 CGGTAAGCTCCT-TCGAGCAGAACAGTAAGCTCTATTGAACTGAAA
1 CGGTAAGCT-CTATCGAGCAGAACAGTAAGCTCTATTGAACTG-AA
* * ** *
44156918 CGGTAAGCTCTATTGAGCTGAATGGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATCGAGCAGAACAGTAAGCTCTATTGAACTGAA
*
44156962 CGATAAGCT
1 CGGTAAGCT
44156971 TCAATGAGCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 12 0.26
45 34 0.74
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CGGTAAGCTCTATCGAGCAGAACAGTAAGCTCTATTGAACTGAA
Found at i:44156947 original size:22 final size:22
Alignment explanation
Indices: 44156873--44156983 Score: 118
Period size: 22 Copynumber: 5.0 Consensus size: 22
44156863 GAGTCATGGT
* *
44156873 CGGTAAGCTCCT-TCGAGCAGAA
1 CGGTAAGCT-CTATTGAGCTGAA
* *
44156895 CAGTAAGCTCTATTGAACTGAAA
1 CGGTAAGCTCTATTGAGCTG-AA
44156918 CGGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
*
44156940 TGGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
* *
44156962 CGATAAGCT-TCAATGAGCTGAA
1 CGGTAAGCTCT-ATTGAGCTGAA
44156984 ACATAAGCTC
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
21 3 0.04
22 53 0.70
23 20 0.26
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (22 bp):
CGGTAAGCTCTATTGAGCTGAA
Found at i:44156991 original size:44 final size:45
Alignment explanation
Indices: 44156893--44156994 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 45
44156883 CTTCGAGCAG
* *
44156893 AACAGTAAGCTCTATTGAACTGAAACGGTAAGCTCTATTGAGCTGA
1 AACA-TAAGCTCTATTGAACTGAAACGATAAGCTCTAATGAGCTGA
*** *
44156939 ATGGTAAGCTCTATTGAGCTG-AACGATAAGCT-TCAATGAGCTGA
1 AACATAAGCTCTATTGAACTGAAACGATAAGCTCT-AATGAGCTGA
44156983 AACATAAGCTCT
1 AACATAAGCTCT
44156995 TACGAGCTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.02
44 28 0.61
45 16 0.35
46 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (45 bp):
AACATAAGCTCTATTGAACTGAAACGATAAGCTCTAATGAGCTGA
Found at i:44175896 original size:13 final size:13
Alignment explanation
Indices: 44175866--44175904 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
44175856 AAATATATAC
* *
44175866 AAAATATTAAATT
1 AAAATATAAAAAT
*
44175879 CAAATATAAAAAT
1 AAAATATAAAAAT
44175892 AAAATATAAAAAT
1 AAAATATAAAAAT
44175905 TAAACAACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATATAAAAAT
Found at i:44176096 original size:17 final size:18
Alignment explanation
Indices: 44176076--44176114 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
44176066 TTTAATAAAA
44176076 AAATAAAATTT-AGAGAG
1 AAATAAAATTTAAGAGAG
*
44176093 AAATAAAATTTAAGTGAG
1 AAATAAAATTTAAGAGAG
44176111 AAAT
1 AAAT
44176115 TAAGAGAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (18 bp):
AAATAAAATTTAAGAGAG
Found at i:44184120 original size:91 final size:90
Alignment explanation
Indices: 44184001--44184172 Score: 263
Period size: 91 Copynumber: 1.9 Consensus size: 90
44183991 ATAAATTCCC
* *
44184001 TAAAAATATTTCAAGAAAGCTATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCTTTT
1 TAAAAATATTTCAAAAAAGCTATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCATTT
44184066 AATTGTTTAGCTAAATCCACTTTCT
66 AATTGTTTAGCTAAATCCACTTTCT
* * ** *
44184091 TAAAAATATTTCAAAAAAAGCTATTTTAAATGAAACAAACATATATTTGGCTTTTTCTTTTCATT
1 TAAAAATATTTC-AAAAAAGCTATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCATT
*
44184156 TAATTGTTTAGTTAAAT
65 TAATTGTTTAGCTAAAT
44184173 TCATTAAACA
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 12 0.16
91 61 0.84
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (90 bp):
TAAAAATATTTCAAAAAAGCTATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCATTT
AATTGTTTAGCTAAATCCACTTTCT
Found at i:44188566 original size:16 final size:16
Alignment explanation
Indices: 44188542--44188573 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44188532 GAGAAGAAAT
44188542 TATGAGTTTTGAGAAG
1 TATGAGTTTTGAGAAG
*
44188558 TATGGGTTTTGAGAAG
1 TATGAGTTTTGAGAAG
44188574 AAGAATAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TATGAGTTTTGAGAAG
Found at i:44192155 original size:26 final size:26
Alignment explanation
Indices: 44192126--44192175 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
44192116 CACCAATATT
* *
44192126 GCAGCAGAGCTGCCAGTAACAGTAAC
1 GCAGCAAAGCTACCAGTAACAGTAAC
* *
44192152 GCAGCAAAGTTACCAGTATCAGTA
1 GCAGCAAAGCTACCAGTAACAGTA
44192176 TATGGCACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGTAACAGTAAC
Found at i:44192203 original size:20 final size:20
Alignment explanation
Indices: 44192179--44192256 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
44192169 ATCAGTATAT
*
44192179 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAATAGC
*
44192199 GGCACAAAACCATCAATAGC
1 GGCACAAAGCCATCAATAGC
44192219 GGCACAAAGCCATCAATAGC
1 GGCACAAAGCCATCAATAGC
* *
44192239 GGCACAAATCCATAAATA
1 GGCACAAAGCCATCAATA
44192257 TCACAGTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.44, C:0.27, G:0.17, T:0.13
Consensus pattern (20 bp):
GGCACAAAGCCATCAATAGC
Found at i:44192574 original size:27 final size:27
Alignment explanation
Indices: 44192544--44192608 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
44192534 GGGTAAAATA
*
44192544 GTCATTTTATCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
*
44192571 GTCAGTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTG
44192598 GTCATTTTACC
1 GTCATTTTACC
44192609 TGCCTTAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTG
Found at i:44196099 original size:20 final size:20
Alignment explanation
Indices: 44196076--44196144 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
44196066 AGTAGCGACT
* *
44196076 CAAAGCTATCAGTAGAGGCA
1 CAAAGCCATCAATAGAGGCA
*
44196096 CAAAGCCATCAATAGTGGCA
1 CAAAGCCATCAATAGAGGCA
* * *
44196116 CAAAGACATCAATAGCGACA
1 CAAAGCCATCAATAGAGGCA
44196136 CAAAGCCAT
1 CAAAGCCAT
44196145 AAGTATCGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.43, C:0.25, G:0.19, T:0.13
Consensus pattern (20 bp):
CAAAGCCATCAATAGAGGCA
Found at i:44203135 original size:22 final size:22
Alignment explanation
Indices: 44203108--44203174 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
44203098 TCTCCGATTA
44203108 TTAGCACATTAATGCTCT-TCGT
1 TTAGCACATTAATGCTCTCT-GT
**
44203130 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAATGCTCTCTGT
* * * *
44203152 ATAGCATATTAATGATCCCTGT
1 TTAGCACATTAATGCTCTCTGT
44203174 T
1 T
44203175 CATTACTTCA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (22 bp):
TTAGCACATTAATGCTCTCTGT
Found at i:44207056 original size:43 final size:44
Alignment explanation
Indices: 44207009--44207121 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
44206999 CATTAACTTA
*
44207009 TGATTTACGTGTAAGACCATGTCTGGGAC-TTCGACATCG-TATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGT-GACATCGATATT
* * * *
44207052 TGATTT-TGTGTAAGACCCTGTCTGGAACAGTGGCATCGATATT
1 TGATTTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATT
* * *
44207095 TGA-TTACATGTAAGACCACGTTTGGGA
1 TGATTTACGTGTAAGACCATGTCTGGGA
44207122 TGTTGGCATT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 27 0.48
43 29 0.52
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.34
Consensus pattern (44 bp):
TGATTTACGTGTAAGACCATGTCTGGGACAGTGACATCGATATT
Found at i:44207089 original size:42 final size:43
Alignment explanation
Indices: 44207017--44207099 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 43
44207007 TATGATTTAC
* *
44207017 GTGTAAGACCATGTCTGGGACTTCGACATCG-TATTTGATTTT
1 GTGTAAGACCATGTCTGGAACGTCGACATCGATATTTGATTTT
* *
44207059 GTGTAAGACCCTGTCTGGAACAGT-GGCATCGATATTTGATT
1 GTGTAAGACCATGTCTGGAAC-GTCGACATCGATATTTGATT
44207100 ACATGTAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 25 0.71
43 10 0.29
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGAACGTCGACATCGATATTTGATTTT
Found at i:44210422 original size:98 final size:93
Alignment explanation
Indices: 44210309--44210482 Score: 249
Period size: 93 Copynumber: 1.8 Consensus size: 93
44210299 TCACATCTAA
* *
44210309 GTCGATGCCATGTCCCAGACAGGTCGTACACTAACTTTCATACATCGAGGCCGATGCCATGTCCC
1 GTCGATGCCATGTCCCAGACAGGTCGTACACTAA----CACACATC-AAGCCGATGCCATGTCCC
44210374 AGACAAGTCTTACACTGGCTCTTGTTTATCTGT
61 AGACAAGTCTTACACTGGCTCTTGTTTATCTGT
* * * *
44210407 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACACACCTCAAGTCGATGCCATGTCCCAGACA
1 GTCGATGCCATGTCCCAGACAGGTCGTACACTAACACACATCAAGCCGATGCCATGTCCCAGACA
44210472 AGTCTTACACT
66 AGTCTTACACT
44210483 AGTTTGCATA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
93 32 0.46
94 6 0.09
98 32 0.46
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (93 bp):
GTCGATGCCATGTCCCAGACAGGTCGTACACTAACACACATCAAGCCGATGCCATGTCCCAGACA
AGTCTTACACTGGCTCTTGTTTATCTGT
Found at i:44210557 original size:141 final size:142
Alignment explanation
Indices: 44210307--44210579 Score: 349
Period size: 141 Copynumber: 1.9 Consensus size: 142
44210297 TCTCACATCT
* *
44210307 AAGTCGATGCCATGTCCCAGACAGGTCGTACACTAACTTTCATACATCGAGGCCGATGCCATGTC
1 AAGTCGATGCCATGTCCCAGACAAGTCGTACACTAACTTTCATACATCGAGGCCAATGCCATGTC
** * **
44210372 CCAGACAAGTCTTACACTGGCTCTTGTTTATCTGTGTCGATGCCATGTCCCAGACAGGTCTTACA
66 CCAGACAAGTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGTCCCAGACAGGTCTTACA
44210437 CTGACACACCTC
131 CTGACACACCTC
* * * *
44210449 AAGTCGATGCCATGTCCCAGACAAGTCTTACACT-AGTTTGCATATC-TTGA-GCCAATGTCATG
1 AAGTCGATGCCATGTCCCAGACAAGTCGTACACTAACTTT-CATA-CATCGAGGCCAATGCCATG
* * *
44210511 TCCCAGATAGGTCTTACA-TAGGCTCTCATCTATCAATG-CTGTTGCCATGTCCCAGACAGGTCT
64 TCCCAGACAAGTCTTACACT-GGCTCTCATCTATCAATGTC-GATGCCATGTCCCAGACAGGTCT
44210574 TACACT
127 TACACT
44210580 AGCACGCACA
Statistics
Matches: 113, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
140 2 0.02
141 71 0.63
142 39 0.35
143 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (142 bp):
AAGTCGATGCCATGTCCCAGACAAGTCGTACACTAACTTTCATACATCGAGGCCAATGCCATGTC
CCAGACAAGTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGTCCCAGACAGGTCTTACA
CTGACACACCTC
Found at i:44214154 original size:21 final size:21
Alignment explanation
Indices: 44214128--44214183 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
44214118 AGCAGCGGTG
*
44214128 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
44214149 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
*
44214170 ACGGTGAGATTAGA
1 GCGGTGAGATTAGA
44214184 AACAATGATG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:44215932 original size:21 final size:21
Alignment explanation
Indices: 44215903--44215943 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
44215893 CTCTTGAAAC
*
44215903 AGGGGCACATG-CCTGTGTAGA
1 AGGGCCACATGTCCT-TGTAGA
44215924 AGGGCCACATGTCCTTGTAG
1 AGGGCCACATGTCCTTGTAG
44215944 CCTTCTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (21 bp):
AGGGCCACATGTCCTTGTAGA
Found at i:44217227 original size:49 final size:47
Alignment explanation
Indices: 44217115--44217332 Score: 183
Period size: 49 Copynumber: 4.6 Consensus size: 47
44217105 AGGGTACGAT
* *
44217115 GTCGACGCCATGTTCCAAACATGGTCTTACACTGGCTCTCACATCTAA
1 GTCGATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCACATCTAA
** *
44217163 GTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCGTTTATCTAT
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTC--ACATCTAA
* * * * *
44217212 GTTGATGCCATGTCCCAAACAGTTCTTACACT-G-ACACACCTC-AA
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACATCTAA
* * * * * * *
44217256 GCCGATGCCATGTCCCAGACAAGTCTTACACTAGCT-TGTATATCTTGAG
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCT-CACATC-T-AA
* *
44217305 GCCGATGCCATGTCCCAAACAAGTCTTA
1 GTCGATGCCATGTCCCAAACAGGTCTTA
44217333 TGCTAGCATG
Statistics
Matches: 137, Mismatches: 25, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
44 28 0.20
45 3 0.02
46 3 0.02
47 20 0.15
48 20 0.15
49 63 0.46
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACATCTAA
Found at i:44243686 original size:47 final size:47
Alignment explanation
Indices: 44243534--44243707 Score: 180
Period size: 47 Copynumber: 3.7 Consensus size: 47
44243524 TGTAACCCGC
* * * *
44243534 CCATAAGTGAACTC-GAACTCAACTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCAG-ACTCAACTCAACGAGTTCAGACAGTTCACAT
*
44243580 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC--A-GAC-AGTTCACAT
* * * *
44243630 -C-TTA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTTCACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACAGTTCACAT
44243674 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC
44243708 GGATGTTCAA
Statistics
Matches: 106, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
43 3 0.03
44 6 0.06
45 2 0.02
46 33 0.31
47 51 0.48
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (47 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCAGACAGTTCACAT
Found at i:44243702 original size:94 final size:93
Alignment explanation
Indices: 44243542--44243712 Score: 279
Period size: 94 Copynumber: 1.8 Consensus size: 93
44243532 GCCCATAAGT
* * *
44243542 GAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCAGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
44243607 CGAGTTCGGATGCCTAGTTACATCTTAC
66 CGAGTTCGGATGCCTAGTTACATCTTAC
* * *
44243635 GAACTCGGACTCAACTCAACGAGTTCAGACATTTCACATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTCAGAC-GTTCACATCCATAAGTGAACTCAGACTCAACTCA
44243700 ACGAGTTCGGATG
65 ACGAGTTCGGATG
44243713 TTCAACCATC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 26 0.37
94 45 0.63
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCAGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTTAC
Found at i:44244166 original size:30 final size:30
Alignment explanation
Indices: 44244132--44244191 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
44244122 CCTTAATACG
44244132 AACTTTTGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTTGCAAAATTACAC-TTTTGCCCCTA
*
44244162 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
44244192 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:44252414 original size:39 final size:39
Alignment explanation
Indices: 44252290--44252414 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
44252280 TATGAGATTG
*
44252290 AAAATATCTAGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCTGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
44252329 AAAATAT-TCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCT-GGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
44252368 AATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCTGGACATGAGGTCCGCAGGCTATATGCTGGA
44252407 AAAATATC
1 AAAATATC
44252415 CGGGTTAAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 72 0.97
40 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (39 bp):
AAAATATCTGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:44252431 original size:78 final size:76
Alignment explanation
Indices: 44252289--44252443 Score: 186
Period size: 78 Copynumber: 2.0 Consensus size: 76
44252279 GTATGAGATT
* * * *
44252289 GAAAATATCTAGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATTCGGACATGAGATCCGCA
1 GAAAATATCTAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
*
44252354 GGCTATATGCTA
66 GGCT-TACGCTA
* * * **
44252366 GAAATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCTAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
44252430 CAGGCTTACGCTA
64 CAGGCTTACGCTA
44252443 G
1 G
44252444 TAATGTATTC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
77 12 0.18
78 54 0.82
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (76 bp):
GAAAATATCTAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTTACGCTA
Found at i:44258773 original size:47 final size:47
Alignment explanation
Indices: 44258689--44259001 Score: 482
Period size: 47 Copynumber: 6.6 Consensus size: 47
44258679 TATTTGAATA
*
44258689 AATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44258738 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44258785 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44258834 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44258881 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
44258928 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44258975 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44259002 TCCCGAAGGG
Statistics
Matches: 245, Mismatches: 17, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
47 188 0.77
49 57 0.23
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44258801 original size:96 final size:96
Alignment explanation
Indices: 44258689--44259001 Score: 517
Period size: 96 Copynumber: 3.3 Consensus size: 96
44258679 TATTTGAATA
*
44258689 AATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
44258754 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
44258785 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
44258850 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
44258881 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * * *
44258944 TATGCGACAGGGCCGAGTGGCCAACGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
44258975 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
44259002 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 96 0.47
95 1 0.00
96 107 0.52
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:44259221 original size:37 final size:37
Alignment explanation
Indices: 44259120--44259221 Score: 159
Period size: 37 Copynumber: 2.8 Consensus size: 37
44259110 CCGAGCTCTA
* *
44259120 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCAGGT
44259157 AAGACCCGATGACTACGTGTGGAGATTTTGTCCAGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCAGGT
* * *
44259194 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
44259222 CGTCTGAGCT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCAGGT
Found at i:44264386 original size:39 final size:39
Alignment explanation
Indices: 44264259--44264383 Score: 187
Period size: 39 Copynumber: 3.2 Consensus size: 39
44264249 TATGAGATTG
*
44264259 AAAATATCCAGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* *
44264298 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * * *
44264337 AATATATCTGGACTTGAGGTCCGCAGGCTACATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
44264376 AAAATATC
1 AAAATATC
44264384 TGGGTTAAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:44264400 original size:39 final size:39
Alignment explanation
Indices: 44264278--44264404 Score: 132
Period size: 39 Copynumber: 3.3 Consensus size: 39
44264268 AGACATGAGG
* **
44264278 TCCGCAGGCTATATGCTGGAAAAATATC-CGGACATGAGA
1 TCCGCAGGCTATATGCTGGAAAAATATCTGGGTTA-GAGA
* * * *
44264317 TCCGCAGGCTATATGCTAGAAATATATCTGGACTT-GAGG
1 TCCGCAGGCTATATGCTGGAAAAATATCTGG-GTTAGAGA
* *
44264356 TCCGCAGGCTACATGCTGGAAAAATATCTGGGTTAAAGA
1 TCCGCAGGCTATATGCTGGAAAAATATCTGGGTTAGAGA
*
44264395 CCCGCAGGCT
1 TCCGCAGGCT
44264405 TACGCTAGTA
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
38 2 0.03
39 68 0.96
40 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (39 bp):
TCCGCAGGCTATATGCTGGAAAAATATCTGGGTTAGAGA
Found at i:44267655 original size:15 final size:16
Alignment explanation
Indices: 44267635--44267667 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44267625 AAATAATTTA
*
44267635 TTTCTCTTA-TTTTCT
1 TTTCTCTCACTTTTCT
44267650 TTTCTCTCACTTTTCT
1 TTTCTCTCACTTTTCT
44267666 TT
1 TT
44267668 CCTACCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.06, C:0.24, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCTCTCACTTTTCT
Found at i:44268111 original size:21 final size:21
Alignment explanation
Indices: 44268085--44268128 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
44268075 TTAAATTAGA
44268085 ATAAAA-ATGATAAGTTTTTTT
1 ATAAAATAT-ATAAGTTTTTTT
* *
44268106 ATAAAATATTTAATTTTTTTT
1 ATAAAATATATAAGTTTTTTT
44268127 AT
1 AT
44268129 TTTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
ATAAAATATATAAGTTTTTTT
Found at i:44268264 original size:8 final size:8
Alignment explanation
Indices: 44268251--44268280 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
44268241 AAAAAATATT
44268251 TTTTATAA
1 TTTTATAA
44268259 TTTTATAA
1 TTTTATAA
44268267 TTTTTATAA
1 -TTTTATAA
44268276 TTTTA
1 TTTTA
44268281 ATACAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTATAA
Found at i:44268271 original size:9 final size:9
Alignment explanation
Indices: 44268250--44268279 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44268240 AAAAAAATAT
44268250 TTTTTATAA
1 TTTTTATAA
44268259 -TTTTATAA
1 TTTTTATAA
44268267 TTTTTATAA
1 TTTTTATAA
44268276 TTTT
1 TTTT
44268280 AATACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44268423 original size:29 final size:31
Alignment explanation
Indices: 44268363--44268434 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 31
44268353 CTTATGTTTA
*
44268363 TATAATTTTTTAAATAATGTTTACAACTTTT
1 TATAATTTTTTAAATAATGTTTACAAATTTT
* *
44268394 TATAA-TTTTT-AATAATTTTTAAAATATTTT
1 TATAATTTTTTAAATAATGTTTACAA-ATTTT
*
44268424 TAT-GTTTTTTA
1 TATAATTTTTTA
44268435 TGCTTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 12 0.35
30 17 0.50
31 5 0.15
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (31 bp):
TATAATTTTTTAAATAATGTTTACAAATTTT
Found at i:44268475 original size:28 final size:28
Alignment explanation
Indices: 44268419--44268475 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
44268409 TTTTTAAAAT
* *
44268419 ATTTTTATGTTTTTTATGCTTTTTTTCA
1 ATTTTTATGTTTTTTATGATTTTTCTCA
44268447 ATTTTTAT-TTTTTTAAT-ATTTTTACTCA
1 ATTTTTATGTTTTTT-ATGATTTTT-CTCA
44268475 A
1 A
44268476 AATAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.68
Consensus pattern (28 bp):
ATTTTTATGTTTTTTATGATTTTTCTCA
Found at i:44268676 original size:21 final size:20
Alignment explanation
Indices: 44268650--44268689 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
44268640 ACTTAATAGG
*
44268650 TTTTTTATTTATTTATAAGCT
1 TTTTTTATATATTT-TAAGCT
44268671 TTTTTTATATATTTTAAGC
1 TTTTTTATATATTTTAAGC
44268690 CTAACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTTATATATTTTAAGCT
Found at i:44268802 original size:15 final size:16
Alignment explanation
Indices: 44268781--44268820 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
44268771 AATCCCTTCA
44268781 AAAATTATA-AAAAAT
1 AAAATTATATAAAAAT
*
44268796 TAAATTA-ATAAAAAT
1 AAAATTATATAAAAAT
44268811 AAAATTATAT
1 AAAATTATAT
44268821 TTTAGCTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 1 0.05
15 18 0.86
16 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTATATAAAAAT
Done.