Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 73 of 203
Found at i:23276164 original size:58 final size:61
Alignment explanation
Indices: 23276034--23276165 Score: 175
Period size: 58 Copynumber: 2.2 Consensus size: 61
23276024 TTCCAAAAAA
* * *
23276034 ATATTATTTTAAT-AGTTTAATATTAAATTAAATTTAATATTTATCTTATGGATAAATATT
1 ATATTAATTTAATAAATTTAATATTAAATTAAATCTAATATTTATCTTATGGATAAATATT
* *
23276094 ATATTAATTTAATAAATTTAATATTAAAATT-AATCTACTATTTATC-T-T-GATAAGTATT
1 ATATTAATTTAATAAATTTAATATT-AAATTAAATCTAATATTTATCTTATGGATAAATATT
23276152 ATATTAATTTAATA
1 ATATTAATTTAATA
23276166 TTAAAATGAT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
58 23 0.35
59 1 0.02
60 13 0.20
61 23 0.35
62 5 0.08
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (61 bp):
ATATTAATTTAATAAATTTAATATTAAATTAAATCTAATATTTATCTTATGGATAAATATT
Found at i:23277745 original size:22 final size:22
Alignment explanation
Indices: 23277717--23277762 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
23277707 AATATATATA
23277717 CAGAACAAATCAGATACAGATG
1 CAGAACAAATCAGATACAGATG
**
23277739 CAGAACATGTCAGATACAGATG
1 CAGAACAAATCAGATACAGATG
23277761 CA
1 CA
23277763 AATTCCTACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (22 bp):
CAGAACAAATCAGATACAGATG
Found at i:23278543 original size:63 final size:58
Alignment explanation
Indices: 23278468--23278591 Score: 140
Period size: 63 Copynumber: 2.1 Consensus size: 58
23278458 AAATTCTCTC
* * * *
23278468 ACACGACTTGGACAGACGCCTGTGTCTTTGGCTCGTGTGACTCTAATTCCAAAACAGTGAGTT
1 ACACGACCTGGACACAAGCCTGTGTCTTTGACTC--GTG--T-TAATTCCAAAACAGTGAGTT
** *
23278531 ACACGACCTGGACACAAGTTTGTGTCTTTGACTCGTGTTAATTCCAAAATAGTGAGTT
1 ACACGACCTGGACACAAGCCTGTGTCTTTGACTCGTGTTAATTCCAAAACAGTGAGTT
23278589 ACA
1 ACA
23278592 TGATCTACCA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
58 22 0.41
59 1 0.02
61 3 0.06
63 28 0.52
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (58 bp):
ACACGACCTGGACACAAGCCTGTGTCTTTGACTCGTGTTAATTCCAAAACAGTGAGTT
Found at i:23279821 original size:27 final size:27
Alignment explanation
Indices: 23279760--23279823 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
23279750 ACAGCGAAAA
*
23279760 ATAAAAATTTTGACGATTTTACCCCTG
1 ATAAAATTTTTGACGATTTTACCCCTG
* *
23279787 ATATAATTTTTGGAC-ATTTTACCTCT-
1 ATAAAATTTTT-GACGATTTTACCCCTG
23279813 AGTAAAATTTT
1 A-TAAAATTTT
23279824 GAGAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.87
28 3 0.10
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (27 bp):
ATAAAATTTTTGACGATTTTACCCCTG
Found at i:23283566 original size:12 final size:12
Alignment explanation
Indices: 23283549--23283576 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23283539 CTCCACTGGT
23283549 AATTTTGTGGAA
1 AATTTTGTGGAA
23283561 AATTTTGTGGAA
1 AATTTTGTGGAA
23283573 AATT
1 AATT
23283577 CAGCAGACGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (12 bp):
AATTTTGTGGAA
Found at i:23287528 original size:28 final size:27
Alignment explanation
Indices: 23287473--23287534 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
23287463 CATGTATCCC
23287473 TTTTATAAATATACATACACGTACATAT
1 TTTTATAAATATACATACAC-TACATAT
*
23287501 TTTTATAAATATATATACA-TACTTATAT
1 TTTTATAAATATACATACACTAC--ATAT
23287529 TTTTAT
1 TTTTAT
23287535 TTTATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.10
28 28 0.90
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (27 bp):
TTTTATAAATATACATACACTACATAT
Found at i:23298682 original size:42 final size:43
Alignment explanation
Indices: 23298613--23298694 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
23298603 CCAGGAATGG
*
23298613 GCAGTTCAAATTTTGGATCAAAATGGGGCATAAGGTGATCAAA
1 GCAGCTCAAATTTTGGATCAAAATGGGGCATAAGGTGATCAAA
* * **
23298656 GCAGCTCAAATTTT-GATCAGATTGGGGCATGTGGTGATC
1 GCAGCTCAAATTTTGGATCAAAATGGGGCATAAGGTGATC
23298695 TTGTCATACC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 21 0.62
43 13 0.38
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.28
Consensus pattern (43 bp):
GCAGCTCAAATTTTGGATCAAAATGGGGCATAAGGTGATCAAA
Found at i:23299669 original size:49 final size:49
Alignment explanation
Indices: 23299596--23299724 Score: 215
Period size: 49 Copynumber: 2.6 Consensus size: 49
23299586 GCCATAAGTT
23299596 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGGCTACAAAT-
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGGCTACAAATC
*
23299644 TGTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGGGTACAAATC
1 T-TATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGGCTACAAATC
* *
23299694 TTATTTCCCTGAAGTTGCAGTGGAACAAATT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAAATT
23299725 AAAGCTAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
48 1 0.01
49 74 0.97
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (49 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACCGGCTACAAATC
Found at i:23300516 original size:6 final size:6
Alignment explanation
Indices: 23300500--23300544 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
23300490 TTTTATCTTA
23300500 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
23300545 TTGAACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:23301653 original size:19 final size:19
Alignment explanation
Indices: 23301629--23301682 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
23301619 AATTTTTGAG
23301629 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23301648 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
23301667 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
23301683 ACATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:23301700 original size:23 final size:22
Alignment explanation
Indices: 23301629--23301705 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 22
23301619 AATTTTTGAG
*
23301629 GATATGCAATCTTAG---ATAT
1 GATATGTAATCTTAGAACATAT
*
23301648 GATATGCAATCTTAG---ATAT
1 GATATGTAATCTTAGAACATAT
23301667 GATATGTAATCTTAGAACATAT
1 GATATGTAATCTTAGAACATAT
*
23301689 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
23301706 GATTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 33 0.63
22 6 0.12
23 13 0.25
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
GATATGTAATCTTAGAACATAT
Found at i:23302623 original size:19 final size:20
Alignment explanation
Indices: 23302582--23302623 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
23302572 ATTTCTAGGC
* *
23302582 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
23302602 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
23302621 CAT
1 CAT
23302624 CACATCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:23306686 original size:6 final size:6
Alignment explanation
Indices: 23306677--23306709 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
23306667 TAAAAGTGAT
23306677 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
23306710 TGGAGAGGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:23308001 original size:44 final size:44
Alignment explanation
Indices: 23307912--23308355 Score: 316
Period size: 44 Copynumber: 10.1 Consensus size: 44
23307902 CAGATCAGTA
* * ** * *
23307912 AAGATAGCAGGTCATGTCTTCTTATATTGGTAG-GAAGTGGATCG
1 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
23307956 AAGATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCG
1 AAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* ** *
23308000 AAGAAAGCAGATCTTGTCTT--CAT-TTACTGGCGTGAAGTAGATTG
1 AAG-ATGCAGATCTTGTCTTCCCATATTGGTGGC--GAAGTAGATCG
* * * * * * *
23308044 AAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCA
1 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*** * *
23308088 AAGATGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* * * * *
23308131 AAGATAGCAGATCCTGTCTTCCTATATTAGTAGCGAAGTGGATCG
1 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*
23308176 AAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
* ** *
23308220 AAGAAAGCAGATCTTGTCTT--CAT-TTACTGGCGTGAAGTAGATTG
1 AAG-ATGCAGATCTTGTCTTCCCATATTGGTGGC--GAAGTAGATCG
* * * * * * *
23308264 AAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCA
1 AAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
*** * *
23308308 AAGATGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCG
1 AAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
23308351 AAGAT
1 AAGAT
23308356 AGNNNNNNNN
Statistics
Matches: 313, Mismatches: 68, Indels: 39
0.75 0.16 0.09
Matches are distributed among these distances:
42 13 0.04
43 96 0.31
44 146 0.47
45 46 0.15
46 4 0.01
47 8 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (44 bp):
AAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCG
Found at i:23308108 original size:87 final size:88
Alignment explanation
Indices: 23307945--23308232 Score: 337
Period size: 87 Copynumber: 3.3 Consensus size: 88
23307935 ATATTGGTAG
* * * * * * * * * *
23307945 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCA
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTAGTAGCGAAGTGGATCAAAG-ATGCA
*
23308009 GATCTTGTCTTCATTTACTGGCGT
65 GATCTTGTCTTCATGTACTGGCGT
* * *
23308033 GAAGTAGATTGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGGATCAAAGATGCAG
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTAGTAGCGAAGTGGATCAAAGATGCAG
*
23308097 ATCTTGTCTTCATGTATTGGCGT
66 ATCTTGTCTTCATGTACTGGCGT
* *
23308120 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGCAG
1 GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTAGTAGCGAAGTGGATCAAAGATGCAG
*** * *
23308185 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCATGTACTGG-CGT
*
23308209 GAAGTAGATCGAAGAAAGCAGATC
1 GAAGTAGATCGAAGATAGCAGATC
23308233 TTGTCTTCAT
Statistics
Matches: 172, Mismatches: 25, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
87 66 0.38
88 60 0.35
89 46 0.27
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (88 bp):
GAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTAGTAGCGAAGTGGATCAAAGATGCAG
ATCTTGTCTTCATGTACTGGCGT
Found at i:23308169 original size:132 final size:132
Alignment explanation
Indices: 23307912--23308355 Score: 452
Period size: 132 Copynumber: 3.4 Consensus size: 132
23307902 CAGATCAGTA
* *
23307912 AAGATAGCAGGTCATGTCTTCTTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AAGATAGCAGGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCA
* * * * * * * *
23307977 CATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTT-C-AT-TTACTGGCGTGAAGTA
66 TATATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGTAGC--GAAGTA
*
23308039 GATTG
128 GATCG
* * *
23308044 AAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCA
1 AAGATAGCAGGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCA
* *
23308109 TGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGTAGCGAAGTGGAT
66 TATATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGTAGCGAAGTAGAT
23308174 CG
131 CG
* * * * * * *
23308176 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
1 AAGATAGCAGGTCATGTCTTCCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTT
* * * * * * *
23308240 CATTTACTGGCGTGAAGTAGATTGAAGATAGCAGGTCCTATCTTCCTATATTGGTAG-GAAGTGG
64 CATATATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGTAGCGAAGTAG
*
23308304 ATCA
129 ATCG
* * * * * *
23308308 AAGAT-GCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAT
1 AAGATAGCAGGTCATGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT
23308356 AGNNNNNNNN
Statistics
Matches: 268, Mismatches: 39, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
130 1 0.00
131 65 0.24
132 128 0.48
133 68 0.25
134 6 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (132 bp):
AAGATAGCAGGTCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCA
TATATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGTAGCGAAGTAGAT
CG
Found at i:23308284 original size:89 final size:88
Alignment explanation
Indices: 23308120--23308357 Score: 259
Period size: 89 Copynumber: 2.7 Consensus size: 88
23308110 GTATTGGCGT
* * * * *
23308120 GAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTAGTAGC--GAAGTGGATCGAAGAT-G
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTT-C-AT-TTACTGGCGTGAAGTAGATCGAAGATAG
* * *
23308182 CAGATCTTGTCTTCCCATACTGGTGG
63 CAGATCCTATCTTCCCATACTGGTAG
*
23308208 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGATTGAAGATAGCA
1 -GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGATCGAAGATAGCA
* * *
23308273 GGTCCTATCTTCCTATATTGGTAG
65 GATCCTATCTTCCCATACTGGTAG
* * * * *
23308297 GAAGTGGATCAAAG-ATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGATCGAAGATAG
23308358 NNNNNNNNNN
Statistics
Matches: 128, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
86 6 0.05
87 45 0.35
88 27 0.21
89 50 0.39
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (88 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGATCGAAGATAGCAG
ATCCTATCTTCCCATACTGGTAG
Found at i:23308327 original size:220 final size:219
Alignment explanation
Indices: 23307912--23308357 Score: 829
Period size: 220 Copynumber: 2.0 Consensus size: 219
23307902 CAGATCAGTA
* * *
23307912 AAGATAGCAGGTCATGTCTTCTTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AAGATAGCAGATCATGTCTTCCTATATTAGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
* *
23307977 CATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGAT
66 CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGAT
23308042 TGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTT
131 TGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTT
23308107 CATGTATTGGCGTGAAGTAGATCG
196 CATGTATTGGCGTGAAGTAGATCG
*
23308131 AAGATAGCAGATCCTGTCTTCCTATATTAGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 AAGATAGCAGATCATGTCTTCCTATATTAGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTC
23308196 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGA
65 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGA
23308261 TTGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCT
130 TTGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCT
23308326 TCATGTATTGGCGTGAAGTAGATCG
195 TCATGTATTGGCGTGAAGTAGATCG
23308351 AAGATAG
1 AAGATAG
23308358 NNNNNNNNNN
Statistics
Matches: 220, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
219 29 0.13
220 191 0.87
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (219 bp):
AAGATAGCAGATCATGTCTTCCTATATTAGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
CATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATTTACTGGCGTGAAGTAGAT
TGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTT
CATGTATTGGCGTGAAGTAGATCG
Found at i:23310403 original size:19 final size:20
Alignment explanation
Indices: 23310362--23310403 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
23310352 ATTTCTAGGC
* *
23310362 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
23310382 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
23310401 CAT
1 CAT
23310404 CACATCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:23311383 original size:28 final size:27
Alignment explanation
Indices: 23311328--23311389 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
23311318 CATGTATCCC
23311328 TTTTATAAATATACATACACGTACATAT
1 TTTTATAAATATACATACAC-TACATAT
*
23311356 TTTTATAAATATATATACA-TACTTATAT
1 TTTTATAAATATACATACACTAC--ATAT
23311384 TTTTAT
1 TTTTAT
23311390 TTTATAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.10
28 28 0.90
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (27 bp):
TTTTATAAATATACATACACTACATAT
Found at i:23311697 original size:14 final size:13
Alignment explanation
Indices: 23311673--23311721 Score: 71
Period size: 14 Copynumber: 3.6 Consensus size: 13
23311663 TATATACTTG
*
23311673 ATTTTTTTTATGT
1 ATTTTTTTTATTT
23311686 ATTTTATTTTATTT
1 ATTTT-TTTTATTT
23311700 ATTTTTATTTATTT
1 ATTTTT-TTTATTT
23311714 ATTTTTTT
1 ATTTTTTT
23311722 GATGGTTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
13 8 0.24
14 25 0.76
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (13 bp):
ATTTTTTTTATTT
Found at i:23314237 original size:21 final size:21
Alignment explanation
Indices: 23314213--23314252 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23314203 ATTTTAAAAA
23314213 TAAAAAAAAT-ATATATAGATT
1 TAAAAAAAATCATAT-TAGATT
*
23314234 TAAAAATAATCATATTAGA
1 TAAAAAAAATCATATTAGA
23314253 GAATAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (21 bp):
TAAAAAAAATCATATTAGATT
Found at i:23315555 original size:29 final size:30
Alignment explanation
Indices: 23315519--23315615 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 30
23315509 AAATAACATT
*
23315519 TCAATCACTAAACTTT-C-AAAAGTGATAAC
1 TCAATCACTAAACTTTACGAAAA-TGATAAA
*
23315548 TCAATCACTAAACTTTACGAAAATTATAAA
1 TCAATCACTAAACTTTACGAAAATGATAAA
** * * **
23315578 TCAATCACTAATGTTTTCAAAAATGGCAAA
1 TCAATCACTAAACTTTACGAAAATGATAAA
23315608 TCAATCAC
1 TCAATCAC
23315616 CTCGAGCCCA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 16 0.28
30 37 0.65
31 4 0.07
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (30 bp):
TCAATCACTAAACTTTACGAAAATGATAAA
Found at i:23319543 original size:3 final size:3
Alignment explanation
Indices: 23319535--23319580 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
23319525 GAAATCGTCG
*
23319535 ACA ACA ACA ACA ATA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
23319581 ATACAGAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
ACA
Found at i:23327307 original size:93 final size:93
Alignment explanation
Indices: 23327148--23327318 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
23327138 GATGGAAGTT
* * *
23327148 TAAACTTAGGCAAATTCTTTTTTTTTTAATTTGCCTATTATTGCTACTAATATCTAAACTTAGGC
1 TAAACTTAGGCAAATTCTTTTTTTGTAAATTTGCATATTATTGCTACTAATATCTAAACTTAGGC
23327213 AGATAGCTACATTGACGCTATTGATTTC
66 AGATAGCTACATTGACGCTATTGATTTC
* *
23327241 TAAACTTAGGCATATTCTTTTTTTGTAAATTTTCATATTATTGCTACTAATATCTAAACTTAGGC
1 TAAACTTAGGCAAATTCTTTTTTTGTAAATTTGCATATTATTGCTACTAATATCTAAACTTAGGC
*
23327306 AGATAGTTACATT
66 AGATAGCTACATT
23327319 CTTTTTTTGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (93 bp):
TAAACTTAGGCAAATTCTTTTTTTGTAAATTTGCATATTATTGCTACTAATATCTAAACTTAGGC
AGATAGCTACATTGACGCTATTGATTTC
Found at i:23328013 original size:3 final size:3
Alignment explanation
Indices: 23328005--23328034 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
23327995 CATTTCTTGC
23328005 CTT CTT CTT CTT CTT CTT C-T CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
23328035 ACCTGCTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:23329855 original size:21 final size:23
Alignment explanation
Indices: 23329815--23329865 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
23329805 ATACATGAAA
* *
23329815 TTAAAAAAATAACTCTTAATT-T
1 TTAAAAAAATAACACATAATTAT
23329837 TTAAAAAAATAA-ACATAATTAT
1 TTAAAAAAATAACACATAATTAT
*
23329859 CTAAAAA
1 TTAAAAA
23329866 CAATGTTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAAAAAATAACACATAATTAT
Found at i:23354485 original size:45 final size:45
Alignment explanation
Indices: 23354421--23354513 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
23354411 ACAGATACTC
*
23354421 GGTGGATTCAGCACATAGAAACCACCTTATTAATCAATGATGTCT
1 GGTGGAATCAGCACATAGAAACCACCTTATTAATCAATGATGTCT
*
23354466 GGTGGAATCAGCACATAGAAACCACCTTATTAATCAATGATGTTT
1 GGTGGAATCAGCACATAGAAACCACCTTATTAATCAATGATGTCT
23354511 GGT
1 GGT
23354514 TCACATAGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGAAACCACCTTATTAATCAATGATGTCT
Found at i:23354577 original size:51 final size:50
Alignment explanation
Indices: 23354519--23354705 Score: 250
Period size: 51 Copynumber: 3.7 Consensus size: 50
23354509 TTGGTTCACA
* *
23354519 TAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGGTACACG
* * * * * *
23354570 TAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCATCCGGTACACG
* *
23354621 TAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGGTACACG
23354671 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
23354706 TACTTTCACT
Statistics
Matches: 116, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
49 2 0.02
50 42 0.36
51 70 0.60
52 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGGTACACG
Found at i:23354693 original size:101 final size:101
Alignment explanation
Indices: 23354517--23354701 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
23354507 GTTTGGTTCA
*
23354517 CATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
23354582 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
23354619 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
*
23354683 CATAGTACTACACATGTGA
65 CATAGTACTACACACGTGA
23354702 CCATTACTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:23356660 original size:21 final size:21
Alignment explanation
Indices: 23356634--23356673 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23356624 ATTGGGTGGA
23356634 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTGT
*
23356655 TCAGCTCTTACGAGCTTCT
1 TCAGCTCTCACGAGCTTCT
23356674 ATTTAGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.33, G:0.17, T:0.35
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTGT
Found at i:23356681 original size:21 final size:21
Alignment explanation
Indices: 23356634--23356681 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
23356624 ATTGGGTGGA
*
23356634 TCAGCTCTCACGAGCTTCTGT
1 TCAGCTCTCACGAGCTTCTAT
*
23356655 TCAGCTCTTACGAGCTTCTAT
1 TCAGCTCTCACGAGCTTCTAT
*
23356676 TTAGCT
1 TCAGCT
23356682 TTCAAGCTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.38
Consensus pattern (21 bp):
TCAGCTCTCACGAGCTTCTAT
Found at i:23357951 original size:18 final size:19
Alignment explanation
Indices: 23357924--23357962 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23357914 ATTTTGAAAT
23357924 AAAATAG-AAAACTTTGGA
1 AAAATAGAAAAACTTTGGA
* *
23357942 AAAATTGAAAAATTTTGGA
1 AAAATAGAAAAACTTTGGA
23357961 AA
1 AA
23357963 CAGGGGTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.56, C:0.03, G:0.15, T:0.26
Consensus pattern (19 bp):
AAAATAGAAAAACTTTGGA
Found at i:23359799 original size:87 final size:87
Alignment explanation
Indices: 23359653--23359940 Score: 326
Period size: 87 Copynumber: 3.3 Consensus size: 87
23359643 GTACAGACAT
* * * * *
23359653 GTTGCAGTTTAAACT-TCCAGATCATATAATAGTACGCAACAACGCTGACGTACATGCGGTACAG
1 GTTGCAG-TTAAACTGT-CAGATTAGATAATAGTACGCAACAAAGATGACGTACAAGCGGTACAG
* *
23359717 TACGGTAAACCACTGTACCGATAA
64 TACGGTAAACCACTATACCAATAA
* * * * *
23359741 GTTGCAGTTAAACTGTTAGATTAGATAATAGTACGCAGCAAAGATGAGGTACAAGCGGTATAGTG
1 GTTGCAGTTAAACTGTCAGATTAGATAATAGTACGCAACAAAGATGACGTACAAGCGGTACAGTA
* *
23359806 CGGTAAACCGCTATACTAATAA
66 CGGTAAACCACTATACCAATAA
* * * * * *
23359828 GTTGTAGTTAAACTGCCATATTAGATAATAGTACACAACAAAGTTGACGTACAAGCGGTACAGTG
1 GTTGCAGTTAAACTGTCAGATTAGATAATAGTACGCAACAAAGATGACGTACAAGCGGTACAGTA
*
23359893 CGATAAACCACTATACCAATAA
66 CGGTAAACCACTATACCAATAA
** * *
23359915 GTTATAGTTAAACTGCCAGATCAGAT
1 GTTGCAGTTAAACTGTCAGATTAGAT
23359941 CAAAATCAGT
Statistics
Matches: 170, Mismatches: 29, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
87 162 0.95
88 8 0.05
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (87 bp):
GTTGCAGTTAAACTGTCAGATTAGATAATAGTACGCAACAAAGATGACGTACAAGCGGTACAGTA
CGGTAAACCACTATACCAATAA
Found at i:23364266 original size:113 final size:113
Alignment explanation
Indices: 23364068--23364442 Score: 750
Period size: 113 Copynumber: 3.3 Consensus size: 113
23364058 AACTTGACTC
23364068 ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATATTTATCCACTTCTATATTTTCGTTCTTCT
1 ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATATTTATCCACTTCTATATTTTCGTTCTTCT
23364133 ATTTGTCGTTTTTAACAATGAGGACATTGTTAATTATGTAAAATATTT
66 ATTTGTCGTTTTTAACAATGAGGACATTGTTAATTATGTAAAATATTT
23364181 ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATATTTATCCACTTCTATATTTTCGTTCTTCT
1 ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATATTTATCCACTTCTATATTTTCGTTCTTCT
23364246 ATTTGTCGTTTTTAACAATGAGGACATTGTTAATTATGTAAAATATTT
66 ATTTGTCGTTTTTAACAATGAGGACATTGTTAATTATGTAAAATATTT
23364294 ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATATTTATCCACTTCTATATTTTCGTTCTTCT
1 ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATATTTATCCACTTCTATATTTTCGTTCTTCT
23364359 ATTTGTCGTTTTTAACAATGAGGACATTGTTAATTATGTAAAATATTT
66 ATTTGTCGTTTTTAACAATGAGGACATTGTTAATTATGTAAAATATTT
23364407 ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATA
1 ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATA
23364443 AAATTGAATT
Statistics
Matches: 262, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 262 1.00
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.46
Consensus pattern (113 bp):
ACCTTCCTTTCTTGGGATCCTACTTACTGTACAATATTTATCCACTTCTATATTTTCGTTCTTCT
ATTTGTCGTTTTTAACAATGAGGACATTGTTAATTATGTAAAATATTT
Found at i:23366249 original size:25 final size:25
Alignment explanation
Indices: 23366219--23366288 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
23366209 CGTTCTAACC
*
23366219 CACAGCTCGTGTGAGCATACTGATT
1 CACAGCTCGTGTGAGCATACCGATT
*
23366244 CACAGCTCATGTGAGCATACCGATT
1 CACAGCTCGTGTGAGCATACCGATT
* *
23366269 CACAGATTGTGTGAGCATAC
1 CACAGCTCGTGTGAGCATAC
23366289 ATGTACAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
CACAGCTCGTGTGAGCATACCGATT
Found at i:23371522 original size:25 final size:26
Alignment explanation
Indices: 23371494--23371556 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 26
23371484 TTTATGGGTC
*
23371494 GTATGAGCTTCTC-GATAAATGGCTT
1 GTATGAGCTTCTCTGATAAACGGCTT
*
23371519 GTATGAGATTC-CTGATAAACGGCTT
1 GTATGAGCTTCTCTGATAAACGGCTT
* *
23371544 GCAAGAGCTTCTC
1 GTATGAGCTTCTC
23371557 ATTATACAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (26 bp):
GTATGAGCTTCTCTGATAAACGGCTT
Found at i:23371626 original size:25 final size:24
Alignment explanation
Indices: 23371566--23371626 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 24
23371556 CATTATACAA
23371566 CTCACATGAGCTTCACGTTACATGG
1 CTCA-ATGAGCTTCACGTTACATGG
* *
23371591 CTCGAAAGAGCTTCCCGATTACAT-G
1 CTC-AATGAGCTTCACG-TTACATGG
23371616 CTCATATGAGC
1 CTCA-ATGAGC
23371627 ATACCTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 1 0.03
25 22 0.73
26 7 0.23
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (24 bp):
CTCAATGAGCTTCACGTTACATGG
Found at i:23377284 original size:42 final size:42
Alignment explanation
Indices: 23377223--23377343 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
23377213 CACAATACCA
* *
23377223 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCACATCG
1 ATGCCATAGCCCAGATATGGTCTTACACGTAATCTCACATCG
* * *
23377265 GTGCCATAGCCCA-ACTATGGTCTTACACGAAATCTCATATCG
1 ATGCCATAGCCCAGA-TATGGTCTTACACGTAATCTCACATCG
23377307 ATGCCAT-GTCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATAG-CCCAGATATGGTCTTACACGTAATCTCA
23377344 GTAACTCTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.03
42 66 0.96
43 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATAGCCCAGATATGGTCTTACACGTAATCTCACATCG
Found at i:23379873 original size:18 final size:19
Alignment explanation
Indices: 23379846--23379881 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
23379836 CAATATAGGG
*
23379846 TCATTGATTTC-ACTTAAA
1 TCATTCATTTCAACTTAAA
23379864 TCATTCATTTCAACTTAA
1 TCATTCATTTCAACTTAA
23379882 GCAAACAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.19, G:0.03, T:0.44
Consensus pattern (19 bp):
TCATTCATTTCAACTTAAA
Found at i:23401799 original size:21 final size:21
Alignment explanation
Indices: 23401739--23401799 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
23401729 TTTGGGGCTA
* *
23401739 ATTTAAAAATGATTTAAAGATCC
1 ATTT-AAAAT-ATTTAAAAATAC
* **
23401762 ATTAAAAATATGGAAAAATAC
1 ATTTAAAATATTTAAAAATAC
23401783 ATTTAAAATATTTAAAA
1 ATTTAAAATATTTAAAA
23401800 TTACCTTAAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
21 22 0.73
22 5 0.17
23 3 0.10
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTTAAAATATTTAAAAATAC
Found at i:23401915 original size:21 final size:21
Alignment explanation
Indices: 23401889--23401928 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
23401879 ATAACGTGTA
23401889 AGATCTATAAATGTTAATTCT
1 AGATCTATAAATGTTAATTCT
23401910 AGATCTATAAATGTTAATT
1 AGATCTATAAATGTTAATT
23401929 TTACACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (21 bp):
AGATCTATAAATGTTAATTCT
Found at i:23404133 original size:24 final size:24
Alignment explanation
Indices: 23404106--23404156 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
23404096 CTCAAGTTAT
23404106 TTCTAAACTTAGTGGGAAAACACA
1 TTCTAAACTTAGTGGGAAAACACA
23404130 TTCTAAACTTAGTGGGAAAACACA
1 TTCTAAACTTAGTGGGAAAACACA
23404154 TTC
1 TTC
23404157 ATTTTCGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (24 bp):
TTCTAAACTTAGTGGGAAAACACA
Found at i:23406198 original size:41 final size:42
Alignment explanation
Indices: 23406102--23406198 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 42
23406092 TTACGAAAAC
* *
23406102 GCTTTCAACTGGAAAAATTTTTAGTTGATTTGCAAAACAATA
1 GCTTTCAACTGGAAGAATTTTCAGTTGATTTGCAAAACAATA
* *
23406144 -CTTTCAACTGGAAGAGTTTTCAGTTGATTTGCAAAAGAA-A
1 GCTTTCAACTGGAAGAATTTTCAGTTGATTTGCAAAACAATA
*
23406184 GCTTTCAGCTGGAAG
1 GCTTTCAACTGGAAG
23406199 CGCTTTCTGC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.02
41 48 0.98
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (42 bp):
GCTTTCAACTGGAAGAATTTTCAGTTGATTTGCAAAACAATA
Found at i:23408768 original size:21 final size:19
Alignment explanation
Indices: 23408722--23408796 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
23408712 AATCTTCAAG
23408722 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
23408741 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
23408760 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
23408781 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
23408797 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:23422795 original size:20 final size:20
Alignment explanation
Indices: 23422770--23422807 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23422760 CAAATTAAAC
*
23422770 AATAGTTCTATCTCTTGATA
1 AATAGTTATATCTCTTGATA
*
23422790 AATAGTTATATCTTTTGA
1 AATAGTTATATCTCTTGA
23422808 ACAATTGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (20 bp):
AATAGTTATATCTCTTGATA
Found at i:23428688 original size:88 final size:88
Alignment explanation
Indices: 23428567--23429701 Score: 2099
Period size: 88 Copynumber: 12.9 Consensus size: 88
23428557 GAAATCACAA
* * * * * * * * *
23428567 AGCCTTGTCTCCTTGGGTCGTAGTGGAGTAGGTTGAAGATAGCAAATCTTCCCTTCCTGCATCAA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* *
23428632 CAGCGAAACAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23428655 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23428720 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23428743 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23428808 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23428831 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23428896 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23428919 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23428984 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23429007 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23429072 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23429095 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23429160 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23429183 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23429248 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23429271 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23429336 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23429359 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23429424 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
23429447 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
23429512 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * *
23429535 AGCCTTGCCTCCATGGGTTCTAGTGGAGCAGGTTGAAGATAGCAAATCTTGCTTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
23429600 CAGTGAAGCAGATCGAAGATATC
66 CAGTGAAGCAGATCGAAGATACC
* *
23429623 AGCCTTGTCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
23429688 TAGTGAAGCAGATC
66 CAGTGAAGCAGATC
23429702 AAAGGTTAGG
Statistics
Matches: 1024, Mismatches: 23, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 1024 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
CAGTGAAGCAGATCGAAGATACC
Found at i:23431638 original size:9 final size:9
Alignment explanation
Indices: 23431624--23431648 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23431614 ATTTTATTTA
23431624 TAAATATGT
1 TAAATATGT
23431633 TAAATATGT
1 TAAATATGT
23431642 TAAATAT
1 TAAATAT
23431649 AGATATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (9 bp):
TAAATATGT
Found at i:23434863 original size:49 final size:48
Alignment explanation
Indices: 23434791--23434887 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 48
23434781 AATGGTATGT
* *
23434791 TTTTTTAATCGCACCTATCTGACAGGCGCGAATCAATTTATTATTATTA
1 TTTTTTAATCGCACCTATCTGACAAGCACGAATCAATTTATTA-TATTA
** * *
23434840 TTTTTTAATCGTGCCTATCTGACAAGCACTAATCAATTTTTTATATTA
1 TTTTTTAATCGCACCTATCTGACAAGCACGAATCAATTTATTATATTA
23434888 AAAAATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 5 0.12
49 37 0.88
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (48 bp):
TTTTTTAATCGCACCTATCTGACAAGCACGAATCAATTTATTATATTA
Found at i:23435491 original size:55 final size:56
Alignment explanation
Indices: 23435431--23435548 Score: 186
Period size: 55 Copynumber: 2.1 Consensus size: 56
23435421 TATTTAAACA
** * *
23435431 AAAAAATAT-TTTTTAATATAAAAAATTGATTCGTGCCTGTCAGGTAGGCGCGATT
1 AAAAAATATATTTTTAATATAAAAAATTGATTCACGCCTGTCAGATAGGCACGATT
23435486 AAAAAA-ATATTTTTAATATAAAAAATTGATTCACGCCTGTCAGATAGGCACGATT
1 AAAAAATATATTTTTAATATAAAAAATTGATTCACGCCTGTCAGATAGGCACGATT
23435541 AAAAAATA
1 AAAAAATA
23435549 ATAAAAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
54 2 0.04
55 54 0.95
56 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (56 bp):
AAAAAATATATTTTTAATATAAAAAATTGATTCACGCCTGTCAGATAGGCACGATT
Found at i:23435495 original size:46 final size:47
Alignment explanation
Indices: 23435448--23435641 Score: 194
Period size: 48 Copynumber: 4.0 Consensus size: 47
23435438 ATTTTTTAAT
** *
23435448 ATAAAAAATTGATTCGTGCCTGTCAGGTAGGCGCGATTAAAAAAATATTTTTAA
1 ATAAAAAATTGATTCACGCCTGTCAGATAGGCGCGATT-AAAAAA-A----T-A
*
23435502 TATAAAAAATTGATTCACGCCTGTCAGATAGGCACGATT-AAAAAATA
1 -ATAAAAAATTGATTCACGCCTGTCAGATAGGCGCGATTAAAAAAATA
* * *
23435549 ATAAAAAATTAATTCACGCCTGTCAAATTGGCGCGATTAAAAAAATA
1 ATAAAAAATTGATTCACGCCTGTCAGATAGGCGCGATTAAAAAAATA
* * *
23435596 ATAAAAAAATTGATTC-GGCAATGCCAGATAGGCGCGATTAAAAAAA
1 AT-AAAAAATTGATTCACGC-CTGTCAGATAGGCGCGATTAAAAAAA
23435642 ATACCATTTT
Statistics
Matches: 122, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
46 34 0.28
47 13 0.11
48 35 0.29
52 1 0.01
53 5 0.04
55 34 0.28
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.26
Consensus pattern (47 bp):
ATAAAAAATTGATTCACGCCTGTCAGATAGGCGCGATTAAAAAAATA
Found at i:23435592 original size:47 final size:46
Alignment explanation
Indices: 23435503--23435603 Score: 157
Period size: 46 Copynumber: 2.2 Consensus size: 46
23435493 TATTTTTAAT
* *
23435503 ATAAAAAATTGATTCACGCCTGTCAGATAGGCACGATTAAAAAATA
1 ATAAAAAATTAATTCACGCCTGTCAAATAGGCACGATTAAAAAATA
* *
23435549 ATAAAAAATTAATTCACGCCTGTCAAATTGGCGCGATTAAAAAAATA
1 ATAAAAAATTAATTCACGCCTGTCAAATAGGCACGATT-AAAAAATA
23435596 ATAAAAAA
1 ATAAAAAA
23435604 ATTGATTCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
46 34 0.68
47 16 0.32
ACGTcount: A:0.50, C:0.14, G:0.13, T:0.24
Consensus pattern (46 bp):
ATAAAAAATTAATTCACGCCTGTCAAATAGGCACGATTAAAAAATA
Found at i:23435852 original size:25 final size:24
Alignment explanation
Indices: 23435730--23435853 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 24
23435720 ATATAAATAC
23435730 ATAAATATTTTCAAAAAA-ATATA
1 ATAAATATTTTCAAAAAATATATA
* *
23435753 AT-AATAAATTT-AAAAAATA-AAA
1 ATAAAT-ATTTTCAAAAAATATATA
*
23435775 AT-AATATTGTTGACAAGAAATA-ATA
1 ATAAATATT-TT--CAAAAAATATATA
*
23435800 ATATATA-TTT-AAAAAATATGAATAA
1 ATAAATATTTTCAAAAAATAT--AT-A
23435825 ATAAATATTTTCAAAAAATTATATA
1 ATAAATATTTTCAAAAAA-TATATA
23435850 ATAA
1 ATAA
23435854 TAAATTTAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 26
0.70 0.07 0.23
Matches are distributed among these distances:
21 9 0.11
22 18 0.23
23 7 0.09
24 4 0.05
25 24 0.30
26 8 0.10
27 6 0.08
28 3 0.04
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.34
Consensus pattern (24 bp):
ATAAATATTTTCAAAAAATATATA
Found at i:23435855 original size:28 final size:26
Alignment explanation
Indices: 23435793--23435858 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 26
23435783 GTTGACAAGA
23435793 AATAATAATATATATTTAAAAAATATG
1 AATAATAA-ATATATTTAAAAAATATG
*
23435820 AATAAATAAATAT-TTTCAAAAAATTATAT
1 AAT-AATAAATATATTT-AAAAAA-TAT-G
23435849 AATAATAAAT
1 AATAATAAAT
23435859 TTAAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 3 0.09
27 13 0.38
28 15 0.44
29 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
AATAATAAATATATTTAAAAAATATG
Found at i:23441658 original size:213 final size:213
Alignment explanation
Indices: 23441291--23442276 Score: 1945
Period size: 213 Copynumber: 4.6 Consensus size: 213
23441281 TATATTCACT
23441291 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
1 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
23441356 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
66 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
23441421 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
131 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
23441486 TAACACGTATACCTCTCC
196 TAACACGTATACCTCTCC
23441504 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
1 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
23441569 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
66 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
23441634 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
131 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
23441699 TAACACGTATACCTCTCC
196 TAACACGTATACCTCTCC
23441717 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
1 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
23441782 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
66 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
23441847 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
131 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
23441912 TAACACGTATACCTCTCC
196 TAACACGTATACCTCTCC
23441930 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
1 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
23441995 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
66 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
23442060 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
131 TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
23442125 TAACACGTATACCTCTCC
196 TAACACGTATACCTCTCC
*
23442143 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAATTT
1 ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
* *
23442208 TATTAATAATAAATTGATAACTTAAATAAGTATTACTATATTTTTAATATTATACATATATTAAT
66 TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
23442273 TTAC
131 TTAC
23442277 ATAATACATA
Statistics
Matches: 770, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
213 770 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (213 bp):
ACCCATAATTCAGTGGAAGATTAGTTTAAAAGCAAAGATTGCTTATGTAAGCTATATTTAAAATT
TATTAATAATAAGTTGATAACTTAAATAAGTATTACTATATTTTTAATATTATAAATATATTAAT
TTACGTATGTAAGCTATATTTAAATTTTATTAATAATATTTAAACATATTTTGTTGTCAAATCAA
TAACACGTATACCTCTCC
Found at i:23442281 original size:9 final size:9
Alignment explanation
Indices: 23442273--23442416 Score: 133
Period size: 9 Copynumber: 16.9 Consensus size: 9
23442263 ATATATTAAT
23442273 TTACATAA-
1 TTACATAAC
23442281 -TACATAAC
1 TTACATAAC
23442289 TTACATAAC
1 TTACATAAC
* *
23442298 CTACTTAA-
1 TTACATAAC
23442306 -TACATAAC
1 TTACATAAC
*
23442314 TTGCATAAC
1 TTACATAAC
23442323 TTACATAA-
1 TTACATAAC
*
23442331 -TACACAAC
1 TTACATAAC
*
23442339 TTACATAAG
1 TTACATAAC
*
23442348 TTTCATAA-
1 TTACATAAC
*
23442356 -TACACAAC
1 TTACATAAC
**
23442364 TTACGCAAC
1 TTACATAAC
23442373 TTACATAAC
1 TTACATAAC
*
23442382 TTACACAAC
1 TTACATAAC
23442391 TTACATAAC
1 TTACATAAC
*
23442400 TTACACAAC
1 TTACATAAC
23442409 TTACATAA
1 TTACATAA
23442417 TGTATAACTT
Statistics
Matches: 110, Mismatches: 18, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
7 24 0.22
9 86 0.78
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (9 bp):
TTACATAAC
Found at i:23442307 original size:25 final size:25
Alignment explanation
Indices: 23442274--23442404 Score: 127
Period size: 25 Copynumber: 5.2 Consensus size: 25
23442264 TATATTAATT
23442274 TACATAATACATAACTTACATAACC
1 TACATAATACATAACTTACATAACC
* * *
23442299 TACTTAATACATAACTTGCATAACT
1 TACATAATACATAACTTACATAACC
* **
23442324 TACATAATACACAACTTACATAAGT
1 TACATAATACATAACTTACATAACC
* * ** *
23442349 TTCATAATACACAACTTACGCAACT
1 TACATAATACATAACTTACATAACC
* *
23442374 TACATAACTTACACAACTTACATAACT
1 TACATAA--TACATAACTTACATAACC
23442401 TACA
1 TACA
23442405 CAACTTACAT
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
25 70 0.78
27 20 0.22
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (25 bp):
TACATAATACATAACTTACATAACC
Found at i:23447906 original size:21 final size:21
Alignment explanation
Indices: 23447879--23447944 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
23447869 CAACTTAAAA
* *
23447879 CAGAGGCGGCAGCAAGGGAAG
1 CAGAGGCCGCAGCAAGAGAAG
* ** *
23447900 TAGAGGCTACAGCGAGAGAAG
1 CAGAGGCCGCAGCAAGAGAAG
*
23447921 CAGAGGCCGCAGCGAGAGAAG
1 CAGAGGCCGCAGCAAGAGAAG
23447942 CAG
1 CAG
23447945 CGAGAGAAGC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.42, T:0.03
Consensus pattern (21 bp):
CAGAGGCCGCAGCAAGAGAAG
Found at i:23447946 original size:12 final size:12
Alignment explanation
Indices: 23447909--23447977 Score: 72
Period size: 12 Copynumber: 6.0 Consensus size: 12
23447899 GTAGAGGCTA
23447909 CAGCGAGAGAAG
1 CAGCGAGAGAAG
**
23447921 CA--GAG-GCCG
1 CAGCGAGAGAAG
23447930 CAGCGAGAGAAG
1 CAGCGAGAGAAG
23447942 CAGCGAGAGAAG
1 CAGCGAGAGAAG
*
23447954 CAGCGATAGAAG
1 CAGCGAGAGAAG
* *
23447966 CTGCGATAGAAG
1 CAGCGAGAGAAG
23447978 TAGAGGTTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
9 4 0.08
10 3 0.06
11 3 0.06
12 38 0.79
ACGTcount: A:0.38, C:0.19, G:0.39, T:0.04
Consensus pattern (12 bp):
CAGCGAGAGAAG
Found at i:23448450 original size:43 final size:42
Alignment explanation
Indices: 23448416--23448729 Score: 395
Period size: 42 Copynumber: 7.4 Consensus size: 42
23448406 GTTTGTGAAA
*
23448416 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATCT-TTAGCGGCGTTTTT-TCC
* * *
23448459 -AAGCGCCGCTATAGAACATTA-CTTGTAACGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATCTT-TAGCGGCGTTTT-TTCC
*
23448501 TAAGCGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCC
23448544 -AAGCGCCGCTAAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCT-AAAGAACATGATCTTTAGCGGCGTTTTTTCC
* * *
23448586 TAAGCGCCGCTAAAGAATATGATCTGTAGCGGCGTTTTTTCA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
23448628 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* * *
23448671 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGTGTTTTTTTCTG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-C
*
23448715 TAAGCGCCGCAAAAG
1 TAAGCGCCGCTAAAG
23448730 TTAGCGACGT
Statistics
Matches: 241, Mismatches: 19, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
41 2 0.01
42 114 0.47
43 102 0.42
44 23 0.10
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:23448508 original size:85 final size:84
Alignment explanation
Indices: 23448416--23448710 Score: 395
Period size: 85 Copynumber: 3.5 Consensus size: 84
23448406 GTTTGTGAAA
* * *
23448416 TAAGCGCCGCTAAAGAACACT-A-CTGTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATCTGTTAGCGGCGTTTTT-TCCAAGCGCCGCTAAAGAACATG
*
23448479 A-CTTGTAACGGCGTTTTCTTCC
64 ATCTT-TAGCGGCGTTTT-TTCC
*
23448501 TAAGCGCCGCTAAAAAACATGATCT-TTAGCGGCGTTTTTTTCCAAGCGCCGCTAAAAGAACATG
1 TAAGCGCCGCTAAAGAACATGATCTGTTAGCGGCG-TTTTTTCCAAGCGCCGCT-AAAGAACATG
23448565 ATCTTTAGCGGCGTTTTTTCC
64 ATCTTTAGCGGCGTTTTTTCC
* *
23448586 TAAGCGCCGCTAAAGAATATGATCTG-TAGCGGCGTTTTTTCATAAGCGCCGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTGTTAGCGGCGTTTTTTC-CAAGCGCCGCTAAAGAACATGA
23448650 TCTTTAGCGGCGTTTATTTCC
65 TCTTTAGCGGCGTTT-TTTCC
* *
23448671 TTAGCGCCGCTAAAGAACATGATCT-TTAGCGGTGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTGTTAGCGGCGTTTTTT
23448711 TCTGTAAGCG
Statistics
Matches: 190, Mismatches: 11, Indels: 18
0.87 0.05 0.08
Matches are distributed among these distances:
84 34 0.18
85 126 0.66
86 27 0.14
87 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTGTTAGCGGCGTTTTTTCCAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTTTTCC
Found at i:23452822 original size:25 final size:22
Alignment explanation
Indices: 23452771--23452825 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
23452761 TATTATTTTA
* *
23452771 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
23452793 TGTATATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
23452817 TCGTATATA
1 T-GTATATA
23452826 GCTTGGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
24 9 0.32
25 7 0.25
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:23453982 original size:18 final size:18
Alignment explanation
Indices: 23453928--23453983 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
23453918 TGTTTATAAT
*
23453928 TTTATTCATTTATTTAT-
1 TTTATTTATTTATTTATG
23453945 TATTATTGT-TTTACTTTATG
1 T-TTATT-TATTTA-TTTATG
23453965 TTTATTTATTTATTTATG
1 TTTATTTATTTATTTATG
23453983 T
1 T
23453984 GTCCATTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 1 0.03
18 17 0.52
19 14 0.42
20 1 0.03
ACGTcount: A:0.21, C:0.04, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTATTTATTTATTTATG
Found at i:23457321 original size:30 final size:29
Alignment explanation
Indices: 23457287--23457345 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
23457277 AAACCTTTTA
*
23457287 TTTTCCCCCAAAATTTTTACTCCCTCTCAC
1 TTTTCCCCCAAAACTTTTACTCCCT-TCAC
* *
23457317 TTTTCCCCTAAAACTTTTATTCCCTTCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCAC
23457346 ATCCCACCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.42
Consensus pattern (29 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCAC
Found at i:23459217 original size:11 final size:11
Alignment explanation
Indices: 23459199--23459231 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
23459189 GCATATAACT
23459199 TTAA-TATTAA
1 TTAAGTATTAA
23459209 TTAAGTATTAA
1 TTAAGTATTAA
23459220 TTAAGATATTAA
1 TTAAG-TATTAA
23459232 AACTCTATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.19
11 11 0.52
12 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (11 bp):
TTAAGTATTAA
Found at i:23461633 original size:22 final size:20
Alignment explanation
Indices: 23461599--23461647 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
23461589 ATATATTATG
* *
23461599 TTATAAAAATTAATTACATTAA
1 TTATATAAATTAAATA-A-TAA
*
23461621 TTATATAAGTTAAATAATAA
1 TTATATAAATTAAATAATAA
23461641 TTATATA
1 TTATATA
23461648 TTTATATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 10 0.42
21 1 0.04
22 13 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTATATAAATTAAATAATAA
Found at i:23461947 original size:17 final size:18
Alignment explanation
Indices: 23461925--23461959 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23461915 TATATATTTT
23461925 TAAAAATT-ATTTTTAAA
1 TAAAAATTAATTTTTAAA
23461942 TAAAAATTAATTTTTAAA
1 TAAAAATTAATTTTTAAA
23461960 AAATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAAAATTAATTTTTAAA
Found at i:23465679 original size:436 final size:433
Alignment explanation
Indices: 23464487--23467734 Score: 3583
Period size: 434 Copynumber: 7.6 Consensus size: 433
23464477 ACCAGCCTAA
* *
23464487 GGCTAAATGGGGTTTA-TTCGAGCATGAAATTAATCGTACTCGATTGGGGTTTAAAAATGGATTT
1 GGCTAAATGGGGTTTAGTT-GAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTT
* * * * *
23464551 GAATGTAATGGTGATAAGTGAAAATGAGGAAGGACTTAAAAAGTAATTAAACCAAAAAATAAGAA
65 GAATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACC-AAAAATAAGGA
* ** ** * * *
23464616 AATCGAAAAAAAAATGAAAGTAAACTTGAATAGCTACTGATGATTGAAAAAGAAAAGAATTATTA
129 AAT-G-GAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTT
*
23464681 TTAATTCTATT-CAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTATACAT-TTTTCATA
192 TTAATTCTATTAC-AGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATAC-TCTTTTCATA
* *
23464744 TGCCAAATTTAGCATGATTCCTTCTAAGATTATGCCTAACAACCAACTAAATTCA-ATTTTTTTT
255 TGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTT
* * * **
23464808 ATATTCTTAGAGTTTGACAAATTCACAA--T-ATTTTTAATCAACCACTAATTCAACAACTTCTT
320 CTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTT-TT
* * * *
23464870 -GATTTGGCCCCTTTTATTGCTTCTTGTTCCAATTTAG-CCAATTTGCTT
384 CAATTTGGCCCATTTTATTGTTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * * *
23464918 GACTAAATGGGGTTTAGTTGAGCATGAAATTTATCATACTCGATTGGAGTTTAAAAATGGATTTC
1 GGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* * * * ** *
23464983 AACGTAAAGATGATAGGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAATTAAAAAAAAAGGAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAA-CCAAAAATAAGGAA
*
23465048 ATGGGAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCATG--A-A-AAAAGAATTGTTTT
130 AT-GG-AAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTT
* * * * * *
23465109 TAATTCTATTTCACTGTGTTTTTTCTAAGCCACCATTACAAGGTATTTACACACTTTTCATCTGC
193 TAATTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATGC
* * * * *
23465174 CAAATTTAGCATGATTACTCATATGATTATGCCTAACAACCAACAAAAATAAGATTTTTTTTCTA
258 CAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTTCTA
* * * * *
23465239 TTCATAGAGTTTGAAAAAATCATAATATGATTTTTTATCAGCCACTAATTCTGCAACTTTTCAAT
323 TTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAAT
* * * * *
23465304 TTGACCTATTTTATTGTTTCCCGTTCCAATTGAGCGCAATTTGCTT
388 TTGGCCCATTTTATTGTTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * * * *
23465350 GGCTAAATGGGTTTTAGTTTAGCATGAAATTAATCATACTCGATTGAGATTTAATATTGGATTTG
1 GGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* * * *
23465415 ATTGTAATGGTGATAAGTGAAGAGGCGAATA-GACTTAAAAAGAAATTTAACCAAAAATAAGGAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAA-AGGACTTAAAAAGAAATTGAACCAAAAATAAGGAA
** *
23465479 ATGGAAAAAAATTGGCAACAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAATAATTGTTTTT
130 ATGGAAAAAAA-TGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTT
* * * * *
23465544 AATTCTATTCCAGTGTGCTTTTTTTCCAAGTCACCATTACAAGGTATTTATACACTTTTCATCTG
194 AATTCTATTACAGTGTG--TTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATG
* **
23465609 CCAAATTTAGCATGATTCCTCCTAAGATTAGGCCTAACAATTAACTAAAATCAGATTTTCTTTT-
257 CCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAGATTTT-TTTTC
* * * * * *
23465673 TATTCATAGGGTTTGACAAATTCACAATTTGGTTTTTAATCAGTCACTAGTTCTCCAAC-TTTCA
321 TATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCA
* **
23465737 ATTTCGCCCATTTTATTACTTCTCGTTCCAATTTAGCCCAATTTGCTT
386 ATTTGGCCCATTTTATTGTTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * * * * * * *
23465785 GACCAAATTGGGTTTAGTTAAGCATGAAACTAATCATACTCCACTGGGGTTGAAAAGGGGATTT-
1 GGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
** * * *
23465849 AACATAATGGTGATAAGTGAAAGGGAGAAAAGACTTAAAAAGCAATTGAACCAAAAATAAGGAAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
* * * *
23465914 TGAAAAAAAAAATGGCAGTAAACTTGAATAGCTACTAATACGTGAAAGCGAAAAGAATTGTTTTT
131 TG--GAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTT
* * * * * * *
23465979 AATTCTATTACAATGTGCTTTTTCGAAGCAACCCTTACAAGGTATTTGT-CTTTTTTCTTTCATA
194 AATTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATAC---TCT-TTTCATA
** * *
23466043 TGTAAAATTTAGCATGATTCCTCCTAAGATTATGTCTAACAACCAACTAAAATCAAAATTTTTTT
255 TGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATC-AGATTTTTTT
* * * * *
23466108 TCTTTTAATAGAGTTTGACAAATTCACAATCTGGTTCTTAATCAACCACTAATTCTGCAACTTTT
319 TCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTT
* * *
23466173 CAATTTGGCCTA-TTTATTTCTTTC-CGTTTCAATTTAGCCCAATTTGCTT
384 CAATTTGGCCCATTTTA-TTGTTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * *
23466222 GGCTAAATGGGGTTTACTTGAGCATGAAATTAATCATACTTGATTAGGGTTTAAAAGTGGGTTTG
1 GGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* * * * * *
23466287 AATGTAACGGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGTAATTAAATCAAAAATAAAGAAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
* * *
23466352 TGG-AAAAAATGGCAGTAAACTTGAATATCTACTGATGTGTGAAAGAGAGAAGAATTGTTTTTAA
131 TGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAA
* * *
23466416 TTCTATTACAGTGTGTTTTTTCAAAGCCACTA-CACAAGATATTTATACTCTTTTCATATGCCAA
196 TTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATGCCAA
23466480 ATTTAGC---A-------T--G---AT---T-----CCAACTAAAATCAG-TTTTTTTTCTATTC
261 ATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTTCTATTC
* * * * * *
23466521 ATAGAGTTTGACAAATTCACAATTTGATTTTTAATGAGTCATTAATTATGCAATTTTTCAATTTG
326 ATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAATTTG
* * *
23466586 GCCCCTTTTATTGTTTCTCG-TCCTAATTTATCCCAATTTTCTT
391 GCCCATTTTATTGTTTCTCGTTCC-AATTTAGCCCAATTTGCTT
* * * *
23466629 GGCTAAATGGGGTTTAGTTCAACATGAAATTAATCATACTCGATTGGGGTTTAAAATTCGATTTG
1 GGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* * * * * * *
23466694 AACGTAATTGTGATAGGTGAAAAAGAGAAATGACTT-AAAAGGAATTGAACCAAAAATAAAGAAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
* * * * * *
23466758 CGGAAAAAAATGCCAGTAAACTTGAATAGCTATTGATGTGTGAAAGAGAAAAGAATTATTATTAA
131 TGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAA
*
23466823 TTCTATTATAGTGTGTTTTTTCAAAGCCACCA-TACAAGGTAGCTATTTATACTCTTTTCATATG
196 TTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAA-G--G-TATTTATACTCTTTTCATATG
* * *
23466887 CCAAATTTAGCGTGATTCCTCCTCAGATTATGCCTAACAACCAACTAAAATCA-AATTTTTTTCT
257 CCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTTCT
* * ** * * * *
23466951 ATTCATAGAGTTCGACAAATTCACAATCTAATTAGTAATCAGTCATTCATTCTGCAACTTTTCAT
322 ATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAA
* * * *
23467016 TTTGGCCCTTTTTATTGCTTCTTGTTCCAATTTAGCCCAATTAGCTT
387 TTTGGCCCATTTTATTGTTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * * * * * *
23467063 GGGTAAATGGTGTTTAGTTAAGAATGAAATTAATCATACTCTATTGGGGATTAAAAGTGGATATC
1 GGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* * * * *
23467128 AATGTAATTGTGATAGGTGAAAAGGAGAGAA-AATTTTAAAA-AAATTGAACCAAAAATAAGGAA
66 AATGTAATGGTGATAAGTGAAAAGGAGA-AAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAA
* * * * *
23467191 ATGG-AAAAAATGGCAATAAACTTGAATAACTGCTGATGCATGAAAGAGAAAAGAATTCTTTTTA
130 ATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTA
* **
23467255 A-TCTATTCCAGTGTGTGTTTTT-AAAGCCACCATT-CAAGGTATTTATACTCTTTTCATATATC
195 ATTCTATTACAGTGTGT-TTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATGCC
* * * *
23467317 AAATTTAACATGATTCCTCCTAAGTTTATTCCTAACAACCAACTAAAATCAGAATTTTTATT-TA
259 AAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAG-ATTTTTTTTCTA
* * * * * * *
23467381 TTTATAAAGTTTGA-AAGATTCACAATCTGATTTTTAATCAACTGA-TAATTTTGTAACTTTTTA
323 TTCATAGAGTTTGACAA-ATTCACAATCTGATTTTTAATCAGC-CACTAATTCTGCAACTTTTCA
* * *
23467444 AATTGGCCCCTTTTATTGCTTTC-CATTCCAATTTAGCCCAATTTGCTT
386 ATTTGGCCCATTTTATTG-TTTCTCGTTCCAATTTAGCCCAATTTGCTT
* * * *
23467492 GGCTAAATAGGGTTTAGTTGAGTATGAAATTAATCATACTCGATTGAGGTTTAAAAGTGAATTTG
1 GGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
* *** * * *** *
23467557 ATTGTAACAATGATAAGTGAAAATGAGAAAGGACTTAAAAAGCAATTGAATGGAAAATAATGAAA
66 AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
* *
23467622 TGGAAAAAAAATTGGCTGTAAACTTGAATAGCTACAGATGCGTGAAAGAGAAAAGAATTGTTTTT
131 TGG-AAAAAAA-TGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTT
* * *
23467687 AATTTTATTATAGTGTGTTTTTTTCCAAGCCACCATTACAAGGTATTT
194 AATTCTATTACAGTGTG-TTTTTTCAAAGCCACCATTACAAGGTATTT
23467735 GTAATAGGCC
Statistics
Matches: 2363, Mismatches: 370, Indels: 163
0.82 0.13 0.06
Matches are distributed among these distances:
406 106 0.04
407 201 0.09
408 13 0.01
411 32 0.01
413 1 0.00
414 1 0.00
416 2 0.00
419 1 0.00
421 2 0.00
423 1 0.00
426 2 0.00
427 114 0.05
428 106 0.04
429 177 0.07
430 66 0.03
431 234 0.10
432 143 0.06
433 135 0.06
434 333 0.14
435 261 0.11
436 218 0.09
437 139 0.06
438 75 0.03
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Consensus pattern (433 bp):
GGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTG
AATGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAA
TGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAA
TTCTATTACAGTGTGTTTTTTCAAAGCCACCATTACAAGGTATTTATACTCTTTTCATATGCCAA
ATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTTCTATTC
ATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAATTTG
GCCCATTTTATTGTTTCTCGTTCCAATTTAGCCCAATTTGCTT
Found at i:23469247 original size:23 final size:23
Alignment explanation
Indices: 23469210--23469256 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
23469200 CATTTCCCCC
23469210 TTATAATTTACATTTTTTTTATTT
1 TTATAATTTACA-TTTTTTTATTT
*
23469234 TTATACTTT-CATTTTTTTATTT
1 TTATAATTTACATTTTTTTATTT
23469256 T
1 T
23469257 CATTAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 2 0.09
24 8 0.36
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.72
Consensus pattern (23 bp):
TTATAATTTACATTTTTTTATTT
Found at i:23470373 original size:24 final size:25
Alignment explanation
Indices: 23470346--23470396 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
23470336 AATTTAATGA
*
23470346 TTGA-GCTTTAAATATGTCATAAGC
1 TTGATGCTTTAAACATGTCATAAGC
* *
23470370 TTGATGTTTTAAACATGTTATAAGC
1 TTGATGCTTTAAACATGTCATAAGC
23470395 TT
1 TT
23470397 ATTAATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.43
Consensus pattern (25 bp):
TTGATGCTTTAAACATGTCATAAGC
Found at i:23475579 original size:73 final size:73
Alignment explanation
Indices: 23475446--23475629 Score: 280
Period size: 73 Copynumber: 2.5 Consensus size: 73
23475436 NNNNNNNNTT
** * * *
23475446 TCGCAATATGAGTTGATTTTTTG-AAAGTAGAATTTGAAAATACCTCGGTGTGACCCGAGGCTCA
1 TCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCA
23475510 ACTCACCTC
65 ACTCACCTC
* * *
23475519 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAA
1 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAA
23475584 CTCACCTC
66 CTCACCTC
23475592 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
1 TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
23475630 CAGGAATTGA
Statistics
Matches: 102, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
72 6 0.06
73 96 0.94
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (73 bp):
TCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAA
CTCACCTC
Found at i:23475834 original size:86 final size:85
Alignment explanation
Indices: 23475541--23475889 Score: 364
Period size: 86 Copynumber: 4.0 Consensus size: 85
23475531 TTGATTTTTG
* *
23475541 AAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
23475606 GATTTTTGAAAAACAGAAATT-
66 GATTTTTG-AAAACA-TAATTA
* * * ** * **
23475627 --GAACAGGAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAAACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
23475690 GATTCTTTCAAAAACATAA-TA
66 GATT-TTT-GAAAACATAATTA
** * * ** * *
23475711 ATGAAAACAGAAATGGAAAATACCTTGGTGTGACCTGAGGCTCAGTTCACCTCTAGCAATATGAA
1 A--AAAACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
23475776 TTGATTTTTGAAAACATAAGTTA
64 TTGATTTTTGAAAACATAA-TTA
* *
23475799 AAAAACAGAAATGGAAAATACCTCAGCCTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTT
1 AAAAACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
23475864 GGTTTTTGCCAAACAGTAATTG
66 GATTTTTG-AAAACA-TAATTA
23475886 AAAA
1 AAAA
23475890 TACCTCAGCG
Statistics
Matches: 214, Mismatches: 38, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
83 1 0.00
84 61 0.29
85 9 0.04
86 70 0.33
87 14 0.07
88 59 0.28
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (85 bp):
AAAAACAGAAATGGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAACATAATTA
Found at i:23475920 original size:73 final size:73
Alignment explanation
Indices: 23475801--23475943 Score: 223
Period size: 73 Copynumber: 2.0 Consensus size: 73
23475791 ATAAGTTAAA
* * * *
23475801 AAACAGAAATGGAAAATACCTCAGCCTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGG
1 AAACAGAAATGGAAAATACCTCAGCCTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
23475866 TTTTTGCC
66 TTTTTGCC
* * *
23475874 AAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATGGAAAATACCTCAGCCTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
23475939 TTTTT
66 TTTTT
23475944 TTTTGAAAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 63 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (73 bp):
AAACAGAAATGGAAAATACCTCAGCCTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGCC
Found at i:23476002 original size:77 final size:79
Alignment explanation
Indices: 23475799--23476046 Score: 217
Period size: 77 Copynumber: 3.2 Consensus size: 79
23475789 ACATAAGTTA
* * * * * * *
23475799 AAAAACAGAAATGGAAAATACCTCAGCCTGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAG--
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
**
23475862 ----TTGGTTTTTG
66 AAATTTTTTTTTTG
* * *
23475872 CCAAA-CAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
*
23475936 T-GA-TTTTTTTTTG
65 TAAATTTTTTTTTTG
* * * ** * **
23475949 AAAAGCAGAACTTGAAAATATCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
23476014 AAATTTTTTTTTTG
66 AAATTTTTTTTTTG
*
23476028 AGAAGCAGAAATTGGAAAA
1 AAAAGCAGAAATT-GAAAA
23476047 AACATCTATT
Statistics
Matches: 143, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
73 52 0.36
74 3 0.02
76 3 0.02
77 58 0.41
78 1 0.01
79 21 0.15
80 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (79 bp):
AAAAGCAGAAATTGAAAATACCTCAACGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
AAATTTTTTTTTTG
Found at i:23476180 original size:333 final size:325
Alignment explanation
Indices: 23475502--23476347 Score: 1118
Period size: 333 Copynumber: 2.6 Consensus size: 325
23475492 GGTGTGACCC
*
23475502 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAATACCTCAG
****
23475567 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAACA
65 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT----TTTTG-AA---AACA
* *
23475632 GGAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----T
122 -GAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTT
* * *
23475693 TCTTTCAAAAACATAATAATGAAAACAGAAATGGAAAATACCTTGGTGTGACCTGAGGCTCAGTT
186 TCTTTCAAAAACAGAATAATGAAAACAGAAATGGAAAATACCTGGGTATGACCTGAGGCTCAGTT
23475758 CACCTCTAGCAATATGAATTGATTTTTGAAAACATAAGTTAAAAAACAGAAATGGAAAATACCTC
251 CACCTCTAGCAATATGAATTGATTTTTGAAAACATAAGTTAAAAAACAGAAATGGAAAATACCTC
23475823 AGCCTGTCCT
316 AGCCTGTCCT
* * * *
23475833 GAGGCTCAACTCACCTCTCGCAGTATGAGTTGGTTTTTGCCAAACAGTAATTGAAAATACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTGAAAATACCTCAG
* *
23475898 CGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAGCAGAACTTG
65 CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAA-CAGAA-TTG
* * * *
23475963 AAAATATCTCAACGTGTCTTGAGGCTCAACTTATTTCTCGCAATATGAGTTAAATTTTTTTTTTG
128 AAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT-AATTTTTTCTTTC
* * * *** *
23476028 AGAAGCAGAA-ATTGGAAAAAACATCTATTGAAAATACCTCGGCGTATGACCTGAGGCTCCA-TT
192 AAAAACAGAATAAT-G--AAAACAGAAATGGAAAATACCT-GG-GTATGACCTGAGGCT-CAGTT
23476091 CACCTCTAGCAATATGAATTGATTTTTGAAAACATAAGTTAAAAAACAGAAATGGAAAATACCTC
251 CACCTCTAGCAATATGAATTGATTTTTGAAAACATAAGTTAAAAAACAGAAATGGAAAATACCTC
* *
23476156 AGCTTGTCTT
316 AGCCTGTCCT
*
23476166 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAAC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGC
* ** *
23476231 GTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA----ATTTTGAAAACAGAAATTGAA
66 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAG-AATTGAA
23476292 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTT
130 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT-AATTTT
23476348 GAAAACAGAA
Statistics
Matches: 457, Mismatches: 44, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
323 5 0.01
324 53 0.12
325 1 0.00
326 2 0.00
327 62 0.14
328 13 0.03
329 13 0.03
331 121 0.26
332 59 0.13
333 126 0.28
334 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (325 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGC
GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAACAGAATTGAAA
ATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTAATTTTTTCTTTCAAAA
ACAGAATAATGAAAACAGAAATGGAAAATACCTGGGTATGACCTGAGGCTCAGTTCACCTCTAGC
AATATGAATTGATTTTTGAAAACATAAGTTAAAAAACAGAAATGGAAAATACCTCAGCCTGTCCT
Found at i:23476250 original size:72 final size:72
Alignment explanation
Indices: 23476133--23476512 Score: 532
Period size: 72 Copynumber: 5.2 Consensus size: 72
23476123 CATAAGTTAA
* * * **
23476133 AAAACAGAAATGGAAAATACCTCAGCTTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
*
23476198 ATTTTTG
66 AATTTTG
23476205 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
23476270 AATTTTG
66 AATTTTG
23476277 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
23476342 AATTTTG
66 AATTTTG
* *
23476349 AAAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
** *
23476414 TTTTTTTTTT
66 ---AATTTTG
* * ** *
23476424 AACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGT
1 AA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
23476488 TG-ATTTTG
64 TGAATTTTG
*
23476496 AAAAACAAAAATT-AAAA
1 -AAAACAGAAATTGAAAA
23476513 GGCTTAACTC
Statistics
Matches: 283, Mismatches: 19, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
72 218 0.77
73 2 0.01
75 9 0.03
76 54 0.19
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (72 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTG
Found at i:23476746 original size:72 final size:73
Alignment explanation
Indices: 23476628--23476769 Score: 241
Period size: 72 Copynumber: 2.0 Consensus size: 73
23476618 TTTGAAACAT
* *
23476628 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
23476693 ATGAGTTG
66 ATGAGTTG
* *
23476701 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
23476765 ATGAG
66 ATGAG
23476770 CTGATTTTGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 60 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:23476981 original size:75 final size:74
Alignment explanation
Indices: 23476800--23477205 Score: 487
Period size: 75 Copynumber: 5.4 Consensus size: 74
23476790 ATTAAAAGGT
* * * * * * *
23476800 TCAACCCACCTCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTAAAAACAGAAATTGAAAATACCTCAGCGTG
23476864 TCCTGAGGC
66 TCCTGAGGC
23476873 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTTAAAAACAGAAATTGAAAATACCTCAGCAT
1 TCAACTCACCTCTCGCAATATGAGTTG-TTTTTTTTAAAAACAGAAATTGAAAATACCTCAGC--
*
23476938 GTGAACC-GAGGC
63 GTG-TCCTGAGGC
* * *
23476950 TCAACTCACCTCTCGCAATATAAGTTGTTTTTTTTTTTGAAAACAGAAATTGAAAATACCTCAAC
1 TCAACTCACCTCTCGCAATATGAGTTG---TTTTTTTTAAAAACAGAAATTGAAAATACCTCAGC
*
23477015 GTGTCTTGAGGC
63 GTGTCCTGAGGC
** * ** * *
23477027 TCAACTCATTTCTCGCAATATAAGTTG--AATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTAAAAACAGAAATTGAAAATACCTCAGCGTG
23477090 TCCTGAGGC
66 TCCTGAGGC
** * *
23477099 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTG-TTTTTTTTAAAAACAGAAATTGAAAATACCTCAGCGT
23477164 GTCCTGAGGC
65 GTCCTGAGGC
* *
23477174 TCAACTCACCTCTAGCAATATGAGTTGATTTT
1 TCAACTCACCTCTCGCAATATGAGTTGTTTTT
23477206 GAAAAACAAA
Statistics
Matches: 293, Mismatches: 29, Indels: 21
0.85 0.08 0.06
Matches are distributed among these distances:
72 66 0.23
73 26 0.09
74 4 0.01
75 93 0.32
76 1 0.00
77 67 0.23
78 2 0.01
79 34 0.12
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGTTTTTTTTAAAAACAGAAATTGAAAATACCTCAGCGTG
TCCTGAGGC
Found at i:23477366 original size:71 final size:71
Alignment explanation
Indices: 23477223--23477398 Score: 214
Period size: 71 Copynumber: 2.5 Consensus size: 71
23477213 AAAAATTAAA
* * * * * * **
23477223 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATACCTCGGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
23477286 GCCCCG
66 GCCCCG
*
23477292 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
* **
23477357 GTCTTG
66 GCCCCG
23477363 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
23477399 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 26 0.28
70 3 0.03
71 63 0.68
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAAAAAAAACTAAAAATACCTCAACGT
GCCCCG
Found at i:23489901 original size:21 final size:20
Alignment explanation
Indices: 23489875--23489947 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
23489865 ACATATATGT
23489875 ATAATAATGATGAAAATAATA
1 ATAATAAT-ATGAAAATAATA
23489896 ATAATAATAGTGAAAATAAATA
1 ATAATAATA-TGAAAAT-AATA
23489918 AT-ATAATAAT-AAATATAATA
1 ATAATAAT-ATGAAA-ATAATA
* *
23489938 GTAACAATAT
1 ATAATAATAT
23489948 TAGTAATATG
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 11 0.24
21 27 0.60
22 7 0.16
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.30
Consensus pattern (20 bp):
ATAATAATATGAAAATAATA
Found at i:23489919 original size:16 final size:15
Alignment explanation
Indices: 23489890--23489932 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
23489880 AATGATGAAA
23489890 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
23489904 AGTGAA-AATAAATAAT
1 A-T-AATAATAAATAAT
23489920 ATAATAATAAATA
1 ATAATAATAAATA
23489933 TAATAGTAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.12
15 13 0.52
16 9 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:23493274 original size:36 final size:36
Alignment explanation
Indices: 23493227--23493299 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
23493217 GTGAATGGGA
23493227 AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
1 AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
23493263 AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
1 AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
23493299 A
1 A
23493300 GTTCTTGAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (36 bp):
AACAAGAGATTCCAAGCTCATTGATTATCAAAAACT
Found at i:23495607 original size:94 final size:94
Alignment explanation
Indices: 23495471--23496515 Score: 1138
Period size: 94 Copynumber: 11.3 Consensus size: 94
23495461 GATTCCAGTC
* * * ** *
23495471 CCCCTGAAGTTGTAGTGGGTTGGAATAAAGCTACAATGGCGAATCTTATCTCTTTGAAGTTACAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* *
23495536 TGGAGCAAGGTGAAGCTATAAATCCTATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * * *
23495565 CCCCTAAAGTTGCAGTGGGTTAGAACT-AAGCTACCATAGCGAATATTATGTCCTTAAAGTTGCA
1 CCCCTGAAGTTGCAGTGGGTTGGAA-TGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
23495629 GTGGAGCAAGATGAAGCTACAAATCCTATA
65 GTGGAGCAAGATGAAGCTACAAATCCTATA
* ** * *
23495659 CCCCTGAAGTTGCAATGGGTTGGAATGAAATTACCATAGC-AACCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* * * *
23495723 TGGAGTAAAATGAAGTTACAAATGCTATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * *
23495752 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCAA
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
23495817 TGGAGCAAGATGAAGCTACAAATACTATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * ** * * * * * *
23495846 CCCCTGAAGTTGTAGTGGGTTAGAATGAAATTACCATAGTGAATCTTATCTCCTTTAAATTACAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* *
23495911 T-GAACAAGATGAAGCTACAAATCATATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * * *
23495939 CCCTTGAAGTTGTAGTGGGTTGGAATAAAGCTACAACAGTGAATCTTATCTCCTTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
23496004 TGGAGAAAGATGAAGCTACAAATCCTATA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * *
23496033 CACCTGAAGTTACAGTAGGTTGGAATGAAGCTATAATAGCAAATCTTATCTCCCTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* *
23496098 TGGAGCAAGATGAAGCTATAAATCCTACA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * * ** ** *
23496127 CTCCTGAAGTAGCAGTAGGTTGGAATGAAGCTACAATAGAAAATCTTAAGTCCCTGAAATTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
*
23496192 TGGAGCAAGATGAAGCTACAAATCCTGTA
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * *
23496221 CCCCTGAAGTTGCAGTGGGTT-G--TAAAGCTACAATAGCAAACCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
* * * *
23496283 TGAAGCAACATAAAGCTTCAAATCCTAT-
66 TGGAGCAAGATGAAGCTACAAATCCTATA
* * *
23496311 CCCTCTG-A-----A----GTTGGAATGAAGCTACAATAGTGAATCCTATCTCCATGAAGTTGCA
1 CCC-CTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
* * *
23496366 GTGGAGCAAGATAAAGCTACAAATTCTATG
65 GTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
23496396 CCCCT-ACA-TTGTAGTGGGTTGGAACGAAACTACAATAGCGAATTTTATCTCCCTGAAGTTCCA
1 CCCCTGA-AGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCA
23496459 GTGGAGCAAGATGAAGCTACAAATCCTATA
65 GTGGAGCAAGATGAAGCTACAAATCCTATA
** **
23496489 CCATTGAAGTTGTTGTGGGTTGGAATG
1 CCCCTGAAGTTGCAGTGGGTTGGAATG
23496516 GAATTATAAC
Statistics
Matches: 806, Mismatches: 124, Indels: 42
0.83 0.13 0.04
Matches are distributed among these distances:
81 3 0.00
82 1 0.00
84 60 0.07
85 5 0.01
89 1 0.00
90 4 0.00
91 60 0.07
93 234 0.29
94 437 0.54
95 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (94 bp):
CCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAAGATGAAGCTACAAATCCTATA
Found at i:23495687 original size:44 final size:44
Alignment explanation
Indices: 23495546--23496241 Score: 196
Period size: 44 Copynumber: 14.9 Consensus size: 44
23495536 TGGAGCAAGG
* *
23495546 TGAAGCTATAAATCCTATACCCCTAAAGTTGCAGTGGGTTAGAA
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA
** ** * * **
23495590 CT-AAGCTACCATAGCGAATATTATGTCCTTAAAGTTGCAGTGGAGCAAG-A
1 -TGAAGCTA-C--A---AATCCTATACCCCTGAAGTTGCAGTGG-GTTAGAA
* *
23495640 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGAA
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA
** * *
23495684 TGAAATTACCATAGCAACCT-TATCTCCCTGAAGTTGCAGTGGAG-TAAAA
1 TGAAGCTA-CA-A--ATCCTATA-C-CCCTGAAGTTGCAGTGG-GTTAGAA
* * *
23495733 TGAAGTTACAAATGCTATACCCCTGAAGTTGCAGTGGGTTGGAA
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA
* * * * **
23495777 TGAAACTACCATAGCGAATCTTAT-CTCCCTAAAGTTGCAATGGAGCAAG-A
1 TGAAGCTA-C--A---AATCCTATAC-CCCTGAAGTTGCAGTGG-GTTAGAA
* *
23495827 TGAAGCTACAAATACTATACCCCTGAAGTTGTAGTGGGTTAGAA
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA
** * * * * * ****
23495871 TGAAATTACCATAGTGAATCTTAT-CTCCTTTAAATTACAGTGAACAAG-A
1 TGAAGCTA-C--A---AATCCTATAC-CCCTGAAGTTGCAGTGGGTTAGAA
* * * *
23495920 TGAAGCTACAAATCATATACCCTTGAAGTTGTAGTGGGTTGGAA
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA
* * * * **
23495964 TAAAGCTACAACAGTGAATCT-TATCTCCTTAAAGTTGCAGTGGAGAAAG-A
1 TGAAGCTACAA-A-T---CCTATA-C-CCCTGAAGTTGCAGTGG-GTTAGAA
* * * *
23496014 TGAAGCTACAAATCCTATACACCTGAAGTTACAGTAGGTTGGAA
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA
* * **
23496058 TGAAGCTATAATAGCAAATCTTAT-CTCCCTAAAGTTGCAGTGGAGCAAG-A
1 TGAAGC-----TA-CAAATCCTATAC-CCCTGAAGTTGCAGTGG-GTTAGAA
* * * * * *
23496108 TGAAGCTATAAATCCTACACTCCTGAAGTAGCAGTAGGTTGGAA
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA
* * * **
23496152 TGAAGCTACAATAGAAAATCTTA-AGTCCCTGAAATTGCAGTGGAGCAAG-A
1 TGAAGCTAC------AAATCCTATA-CCCCTGAAGTTGCAGTGG-GTTAGAA
*
23496202 TGAAGCTACAAATCCTGTACCCCTGAAGTTGCAGTGGGTT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTT
23496242 GTAAAGCTAC
Statistics
Matches: 462, Mismatches: 123, Indels: 134
0.64 0.17 0.19
Matches are distributed among these distances:
43 31 0.07
44 168 0.36
45 18 0.04
46 7 0.02
47 8 0.02
48 11 0.02
49 45 0.10
50 163 0.35
51 11 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.26
Consensus pattern (44 bp):
TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA
Found at i:23495788 original size:187 final size:188
Alignment explanation
Indices: 23495471--23496569 Score: 1157
Period size: 187 Copynumber: 5.9 Consensus size: 188
23495461 GATTCCAGTC
* * * ** *
23495471 CCCCTGAAGTTGTAGTGGGTTGGAAT-AAAGCTACAATGGCGAATCTTATCTCTTTGAAGTTACA
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAA-CTACAATAGCAAATCTTATCTCCCTGAAGTTGCA
* * * *
23495535 GTGGAGCAAGGTGAAGCTATAAATCCTATACCCCTAAAGTTGCAGTGGGTTAGAACT-AAGCTAC
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAA-TGAAGCTAC
* * *
23495599 CATAGCGAATATTATGTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
129 AATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * *
23495659 CCCCTGAAGTTGCAATGGGTTGGAATGAAATTACCATAGC-AACCTTATCTCCCTGAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCAAATCTTATCTCCCTGAAGTTGCAG
* * * * * *
23495723 TGGAGTAAAATGAAGTTACAAATGCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACCA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAA
* * *
23495788 TAGCGAATCTTATCTCCCTAAAGTTGCAATGGAGCAAGATGAAGCTACAAATACTATA
131 TAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * ** * * * *
23495846 CCCCTGAAGTTGTAGTGGGTTAGAATGAAATTACCATAGTGAATCTTATCTCCTTTAAATTACAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCAAATCTTATCTCCCTGAAGTTGCAG
* * * * *
23495911 T-GAACAAGATGAAGCTACAAATCATATACCCTTGAAGTTGTAGTGGGTTGGAATAAAGCTACAA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAA
* * *
23495975 CAGTGAATCTTATCTCCTTAAAGTTGCAGTGGAGAAAGATGAAGCTACAAATCCTATA
131 TAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * * *
23496033 CACCTGAAGTTACAGTAGGTTGGAATGAAGCTATAATAGCAAATCTTATCTCCCTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCAAATCTTATCTCCCTGAAGTTGCAG
* * * * *
23496098 TGGAGCAAGATGAAGCTATAAATCCTACACTCCTGAAGTAGCAGTAGGTTGGAATGAAGCTACAA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAA
** * *
23496163 TAGAAAATCTTAAGTC-CCTGAAA-TTGCAGTGGAGCAAGATGAAGCTACAAATCCTGTA
131 TAGCGAATCTT-A-TCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
*
23496221 CCCCTGAAGTTGCAGTGGGTT-G--T-AAAGCTACAATAGCAAACCTTATCTCCCTGAAGTTGCA
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAA-CTACAATAGCAAATCTTATCTCCCTGAAGTTGCA
* * * *
23496282 GTGAAGCAACATAAAGCTTCAAATCCTAT-CCCTCTG-A-----A----GTTGGAATGAAGCTAC
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCC-CTGAAGTTGCAGTGGGTTGGAATGAAGCTAC
* * * * * * *
23496336 AATAGTGAATCCTATCTCCATGAAGTTGCAGTGGAGCAAGATAAAGCTACAAATTCTATG
129 AATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
* * * * *
23496396 CCCCT-ACA-TTGTAGTGGGTTGGAACGAAACTACAATAGCGAATTTTATCTCCCTGAAGTTCCA
1 CCCCTGA-AGTTGCAGTGGGTTGGAATGAAACTACAATAGCAAATCTTATCTCCCTGAAGTTGCA
** ** * *
23496459 GTGGAGCAAGATGAAGCTACAAATCCTATACCATTGAAGTTGTTGTGGGTTGGAATGGAA-TTAT
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAAT-GAAGCTAC
* * * * * * *
23496523 AACAACAAATCTCATCTCCTTAAAGTTGAAATTGAGCAAGATGAAGC
129 AATAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGC
23496570 CATGATACTA
Statistics
Matches: 753, Mismatches: 131, Indels: 55
0.80 0.14 0.06
Matches are distributed among these distances:
173 2 0.00
174 17 0.02
175 64 0.08
177 57 0.08
178 6 0.01
179 1 0.00
184 5 0.01
185 58 0.08
186 1 0.00
187 364 0.48
188 166 0.22
189 10 0.01
190 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (188 bp):
CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCAAATCTTATCTCCCTGAAGTTGCAG
TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTGGAATGAAGCTACAA
TAGCGAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA
Found at i:23495989 original size:281 final size:280
Alignment explanation
Indices: 23495471--23496514 Score: 1124
Period size: 281 Copynumber: 3.8 Consensus size: 280
23495461 GATTCCAGTC
* * ** * *
23495471 CCCCTGAAGTTGTAGTGGGTTGGAAT-AAAGCTACAATGGCGAATCTTATCTCTTTGAAGTTACA
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAA-CTACAATAGCGAATCTTATCTCCCTAAAGTTGCA
* * * *
23495535 GTGGAGCAAGGTGAAGCTATAAATCCTATACCCCTAAAGTTGCAGTGGGTTAGAACT-AAGCTAC
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAA-TGAAACTAC
* * * *
23495599 CATAGCGAATATTATGT-CCTTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCC
129 AATAGCGAATCTTATCTCCCTGAAA-TTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCC
* * * *
23495663 TGAAGTTGCAATGGGTTGGAATGAAA-TTACCATAGCAACCTTATCTCCCTGAAGTTGCAGTGGA
193 TGAAGTTGCAGTGGGTTGGAAT-AAAGCTACAATAGAAACCTTATCTCCCTGAAGTTGCAGTGGA
*
23495727 GTAAAATGAAGTTACAAATGCTATA
257 G-AAAATGAAGTTACAAATCCTATA
* *
23495752 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACCATAGCGAATCTTATCTCCCTAAAGTTGCAA
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAG
* * * *
23495817 TGGAGCAAGATGAAGCTACAAATACTATACCCCTGAAGTTGTAGTGGGTTAGAATGAAATTACCA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAATGAAACTACAA
* * * * * * *
23495882 TAGTGAATCTTATCTCCTTTAAATTACAGT-GAACAAGATGAAGCTACAAATCATATACCCTTGA
131 TAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA
* * * * * *
23495946 AGTTGTAGTGGGTTGGAATAAAGCTACAACAGTGAATCTTATCTCCTTAAAGTTGCAGTGGAGAA
196 AGTTGCAGTGGGTTGGAATAAAGCTACAATAG-AAACCTTATCTCCCTGAAGTTGCAGTGGAGAA
*
23496011 AGATGAAGCTACAAATCCTATA
260 A-ATGAAGTTACAAATCCTATA
* * * * * *
23496033 CACCTGAAGTTACAGTAGGTTGGAATGAAGCTATAATAGCAAATCTTATCTCCCTAAAGTTGCAG
1 CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAG
* * * * * * *
23496098 TGGAGCAAGATGAAGCTATAAATCCTACACTCCTGAAGTAGCAGTAGGTTGGAATGAAGCTACAA
66 TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAATGAAACTACAA
** ** *
23496163 TAGAAAATCTTAAGTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTGTACCCCTGA
131 TAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA
*
23496228 AGTTGCAGTGGGTT-G--TAAAGCTACAATAGCAAACCTTATCTCCCTGAAGTTGCAGTGAAGCA
196 AGTTGCAGTGGGTTGGAATAAAGCTACAATAG-AAACCTTATCTCCCTGAAGTTGCAGTGGAG-A
* *
23496290 ACATAAAGCTT-CAAATCCTAT-
259 AAATGAAG-TTACAAATCCTATA
* * * * *
23496311 CCCTCTG-A-----A----GTTGGAATGAAGCTACAATAGTGAATCCTATCTCCATGAAGTTGCA
1 CCC-CTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCA
* * * * * *
23496366 GTGGAGCAAGATAAAGCTACAAATTCTATGCCCCT-ACA-TTGTAGTGGGTTGGAACGAAACTAC
65 GTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA-AGTTGCAGTGGGTTAGAATGAAACTAC
* * * **
23496429 AATAGCGAATTTTATCTCCCTGAAGTTCCAGTGGAGCAAGATGAAGCTACAAATCCTATACCATT
129 AATAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCT
**
23496494 GAAGTTGTTGTGGGTTGGAAT
194 GAAGTTGCAGTGGGTTGGAAT
23496515 GGAATTATAA
Statistics
Matches: 644, Mismatches: 105, Indels: 38
0.82 0.13 0.05
Matches are distributed among these distances:
268 90 0.14
269 71 0.11
271 1 0.00
273 1 0.00
278 3 0.00
279 59 0.09
280 61 0.09
281 306 0.48
282 52 0.08
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (280 bp):
CCCCTGAAGTTGCAGTGGGTTGGAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAG
TGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGTTAGAATGAAACTACAA
TAGCGAATCTTATCTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGA
AGTTGCAGTGGGTTGGAATAAAGCTACAATAGAAACCTTATCTCCCTGAAGTTGCAGTGGAGAAA
ATGAAGTTACAAATCCTATA
Found at i:23496389 original size:84 final size:84
Alignment explanation
Indices: 23496145--23496500 Score: 277
Period size: 93 Copynumber: 4.0 Consensus size: 84
23496135 GTAGCAGTAG
* * * ** * *
23496145 GTTGGAATGAAGCTACAATAGAAAATCTTAAGTCCCTGAAATTGCAGTGGAGCAAGATGAAGCTA
1 GTTGGAACGAAGCTACAATAG-GAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAGCTA
*
23496210 CAAATCCTGTACCC-CTGAA
65 CAAATCCTATACCCTCTGAA
*** * * * *
23496229 GTTGCAGTGGGTTGTAAAGCTACAATAGCAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAACAT
1 G-T----TGGAACG--AAGCTACAATAGGAATCC-TATCTCCCTGAAGTTGCAGTGGAGCAAGAT
*
23496294 AAAGCTTCAAATCCTAT-CCCTCTGAA
58 AAAGCTACAAATCCTATACCCTCTGAA
* *
23496320 GTTGGAATGAAGCTACAATAGTGAATCCTATCTCCATGAAGTTGCAGTGGAGCAAGATAAAGCTA
1 GTTGGAACGAAGCTACAATAG-GAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAGCTA
* * *
23496385 CAAATTCTATGCCCCTACATTGTAGTGG
65 CAAATCCTAT-ACCCT-C--TG-A---A
* ** * *
23496413 GTTGGAACGAAACTACAATAGCGAATTTTATCTCCCTGAAGTTCCAGTGGAGCAAGATGAAGCTA
1 GTTGGAACGAAGCTACAATAG-GAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAGCTA
*
23496478 CAAATCCTATACCAT-TGAA
65 CAAATCCTATACCCTCTGAA
23496497 GTTG
1 GTTG
23496501 TTGTGGGTTG
Statistics
Matches: 218, Mismatches: 35, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
84 59 0.27
85 5 0.02
86 9 0.04
87 2 0.01
88 2 0.01
89 7 0.03
90 8 0.04
91 57 0.26
92 3 0.01
93 66 0.30
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (84 bp):
GTTGGAACGAAGCTACAATAGGAATCCTATCTCCCTGAAGTTGCAGTGGAGCAAGATAAAGCTAC
AAATCCTATACCCTCTGAA
Found at i:23497118 original size:24 final size:25
Alignment explanation
Indices: 23497091--23497137 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
23497081 GCAAAAAAAA
23497091 AAAGAAAAAAACAAAAG-CAGAAAC
1 AAAGAAAAAAACAAAAGACAGAAAC
** *
23497115 AAAGAGTAAAACAGAAGACAGAA
1 AAAGAAAAAAACAAAAGACAGAA
23497138 TAGAGAAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.70, C:0.11, G:0.17, T:0.02
Consensus pattern (25 bp):
AAAGAAAAAAACAAAAGACAGAAAC
Found at i:23497166 original size:12 final size:12
Alignment explanation
Indices: 23497151--23497175 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23497141 AGAAGCAGCA
23497151 AAAGAAAAAAAT
1 AAAGAAAAAAAT
23497163 AAAGAAAAAAAT
1 AAAGAAAAAAAT
23497175 A
1 A
23497176 TTTTGTAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAGAAAAAAAT
Found at i:23498260 original size:27 final size:27
Alignment explanation
Indices: 23498230--23498281 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
23498220 CATTTTCCCC
*
23498230 CTTTAATTTACATTTTTTATTTTTTTA
1 CTTTAATTTACATTTTATATTTTTTTA
* *
23498257 CTTTCATTTTCATTTTATATTTTTT
1 CTTTAATTTACATTTTATATTTTTT
23498282 ATTTTCATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.19, C:0.10, G:0.00, T:0.71
Consensus pattern (27 bp):
CTTTAATTTACATTTTATATTTTTTTA
Found at i:23501525 original size:3 final size:3
Alignment explanation
Indices: 23501449--23501516 Score: 82
Period size: 3 Copynumber: 22.7 Consensus size: 3
23501439 AAACATAAAC
** * * * *
23501449 AAT AAT AAT AGC AAA AAT AGT AAT AAT AAT AAT AAT AAT AAC AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23501497 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
23501517 GGTAATAATT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:23503117 original size:50 final size:50
Alignment explanation
Indices: 23502999--23503148 Score: 146
Period size: 50 Copynumber: 3.0 Consensus size: 50
23502989 TTTCAGTATG
*
23502999 TTTAACTGCAATGTCAGGGAAGTAAGATTCATCGTCGTAGCTTCAATCTA
1 TTTAACTGTAATGTCAGGGAAGTAAGATTCATCGTCGTAGCTTCAATCTA
** * * ** * *
23503049 TTCCATTATACCGCCAGGGAAGTAAGATTCA-CTGTTGTAGCTTCAATCTA
1 TTTAACTGTAATGTCAGGGAAGTAAGATTCATC-GTCGTAGCTTCAATCTA
* * *
23503099 TTTAACTGTAATATCAGGGAAGTGAGA-T--TCGCCAGTAGCTTCAATCTA
1 TTTAACTGTAATGTCAGGGAAGTAAGATTCATCGTC-GTAGCTTCAATCTA
23503147 TT
1 TT
23503149 CCACTGCACC
Statistics
Matches: 77, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
47 1 0.01
48 17 0.22
49 2 0.03
50 57 0.74
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (50 bp):
TTTAACTGTAATGTCAGGGAAGTAAGATTCATCGTCGTAGCTTCAATCTA
Found at i:23503515 original size:132 final size:132
Alignment explanation
Indices: 23503342--23503982 Score: 964
Period size: 132 Copynumber: 4.9 Consensus size: 132
23503332 CCAGGGAAAG
** * *
23503342 TAAGATTTGCCATCTTCGACCTGCTT-CACTACTGCTTAGGGAGACAGGATCTGCAATCTTCAAC
1 TAAGATTCACCATCTTCGATCTG-TTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAAC
*
23503406 CTACTCCACTACTGCCTAGGGAGATAGGACTAATGACTTAAA-CATGCTTCTCCACTATCTTGGG
65 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATC-TGCTTCTCCACTATCTTGGG
23503470 AAGA
129 AAGA
* * *
23503474 TAAGATTCACCATCTTCAATCTGTTCCACTACTGCTTAGGGAGATAGAATCTACAATCTTCAACC
1 TAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
* *
23503539 TACTCCACTACTGTTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAA
66 TACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATCTTGGGAA
23503604 GA
131 GA
* * * * **
23503606 TAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGGGACAGAATCTGTAATCTTTGACC
1 TAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
* *
23503671 TATTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAA
66 TACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATCTTGGGAA
23503736 GA
131 GA
* * * *
23503738 TAAGATTCACTATCTTTGATCTGTTCCACTACTGCTTAGGGGGACAGAATCTGCAATCTTCAACA
1 TAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
* * *
23503803 TACTCCACTACTGCTTAGGGAGATAGGACTAATAACTTAAATCTGCTTCTCCACTGTCTTGGAAA
66 TACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATCTTGGGAA
23503868 GA
131 GA
** *
23503870 TAAGATTCACCATCTTCGATCTACTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
1 TAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
* **
23503935 TACTCCACTACTGC-TAGGGAGATAGGACTAATGGCTTCGATCTGCTTC
66 TACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTC
23503983 GCTGTTAGTA
Statistics
Matches: 465, Mismatches: 42, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
131 32 0.07
132 432 0.93
133 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
TAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
TACTCCACTACTGCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATCTTGGGAA
GA
Found at i:23504039 original size:45 final size:46
Alignment explanation
Indices: 23503997--23504107 Score: 129
Period size: 44 Copynumber: 2.5 Consensus size: 46
23503987 TTAGTACAAA
**
23503997 AAGGCAAGATCTGCTATCTTCAG-TCTGCTCCATTGTCAGTACAGG
1 AAGGCAAGATCTGCTATCTTCAGATCTGCTCCACCGTCAGTACAGG
* * * * *
23504042 AAGGCAAG-GCTGGTTTCTTC-GATCTGCTTCGCCGTCAGTACAGG
1 AAGGCAAGATCTGCTATCTTCAGATCTGCTCCACCGTCAGTACAGG
*
23504086 AAGGCATGATCTGCTATCTTCA
1 AAGGCAAGATCTGCTATCTTCA
23504108 TTGATCTGTT
Statistics
Matches: 52, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
43 1 0.02
44 34 0.65
45 17 0.33
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (46 bp):
AAGGCAAGATCTGCTATCTTCAGATCTGCTCCACCGTCAGTACAGG
Found at i:23504079 original size:44 final size:45
Alignment explanation
Indices: 23503969--23504106 Score: 145
Period size: 45 Copynumber: 3.1 Consensus size: 45
23503959 GGACTAATGG
* ** *
23503969 CTTCGATCTGCTTCGCTGTTAGTACAAAAAGGCAAGATCTGCTAT
1 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTAT
* ** * *
23504014 CTTC-AGTCTGCTCCATTGTCAGTACAGGAAGGCAAG-GCTGGTTT
1 CTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTAT
* * *
23504058 CTTCGATCTGCTTCGCCGTCAGTACAGGAAGGCATGATCTGCTAT
1 CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTAT
23504103 CTTC
1 CTTC
23504107 ATTGATCTGT
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
44 35 0.48
45 38 0.52
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (45 bp):
CTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGAGCTGCTAT
Found at i:23505126 original size:30 final size:30
Alignment explanation
Indices: 23505092--23505154 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
23505082 AACTTTCTGA
23505092 AGACCTTTCTGAGTTTGACATGTGTTTAGG
1 AGACCTTTCTGAGTTTGACATGTGTTTAGG
23505122 AGACCTTTCTGAGTTTGACATGTGTTTAGG
1 AGACCTTTCTGAGTTTGACATGTGTTTAGG
23505152 AGA
1 AGA
23505155 TCTACAGGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.13, G:0.27, T:0.38
Consensus pattern (30 bp):
AGACCTTTCTGAGTTTGACATGTGTTTAGG
Found at i:23505380 original size:1 final size:1
Alignment explanation
Indices: 23505374--23505434 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
23505364 TTGGCCTCTC
* * * * * * * *
23505374 TTTTTTTTTCTTCTTTTTCTTTCTTTTTTTTCTTTTTTTTCTTTTTTTTTTGTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23505435 ATTGAATCTG
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.87
Consensus pattern (1 bp):
T
Found at i:23505420 original size:9 final size:9
Alignment explanation
Indices: 23505377--23505422 Score: 74
Period size: 9 Copynumber: 4.9 Consensus size: 9
23505367 GCCTCTCTTT
23505377 TTTTTTCTTC
1 TTTTTT-TTC
23505387 TTTTTCTTTC
1 TTTTT-TTTC
23505397 TTTTTTTTC
1 TTTTTTTTC
23505406 TTTTTTTTC
1 TTTTTTTTC
23505415 TTTTTTTT
1 TTTTTTTT
23505423 TTGTATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
9 21 0.60
10 13 0.37
11 1 0.03
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:23505424 original size:13 final size:13
Alignment explanation
Indices: 23505372--23505434 Score: 65
Period size: 13 Copynumber: 4.7 Consensus size: 13
23505362 CCTTGGCCTC
*
23505372 TCTTTTTTTTTCT
1 TCTTTTTTTTTTT
23505385 TCTTTTTCTTTCTTT
1 TCTTTTT-TTT-TTT
23505400 T-TTTTCTTTTTTT
1 TCTTTT-TTTTTTT
*
23505413 TCTTTTTTTTTTG
1 TCTTTTTTTTTTT
*
23505426 TATTTTTTT
1 TCTTTTTTT
23505435 ATTGAATCTG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
13 25 0.58
14 14 0.33
15 4 0.09
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.86
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:23505431 original size:12 final size:11
Alignment explanation
Indices: 23505374--23505434 Score: 58
Period size: 9 Copynumber: 5.6 Consensus size: 11
23505364 TTGGCCTCTC
23505374 TTTTTTTTTCT
1 TTTTTTTTTCT
23505385 TCTTTTTCTTTC-
1 T-TTTTT-TTTCT
23505397 -TTTTTTTTC-
1 TTTTTTTTTCT
23505406 -TTTTTTTTCT
1 TTTTTTTTTCT
*
23505416 TTTTTTTTTGT
1 TTTTTTTTTCT
23505427 ATTTTTTT
1 -TTTTTTT
23505435 ATTGAATCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
9 13 0.30
10 5 0.11
11 10 0.23
12 12 0.27
13 4 0.09
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:23505431 original size:22 final size:21
Alignment explanation
Indices: 23505374--23505434 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 21
23505364 TTGGCCTCTC
*
23505374 TTTTTTTTTCTTCTTTTTCTT
1 TTTTTTTTTCTTTTTTTTCTT
23505395 TCTTTTTTTTCTTTTTTTTCTT
1 T-TTTTTTTTCTTTTTTTTCTT
*
23505417 TTTTTTTTGTATTTTTTT
1 TTTTTTTT-TCTTTTTTT
23505435 ATTGAATCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
21 8 0.22
22 28 0.78
ACGTcount: A:0.02, C:0.10, G:0.02, T:0.87
Consensus pattern (21 bp):
TTTTTTTTTCTTTTTTTTCTT
Found at i:23508144 original size:19 final size:20
Alignment explanation
Indices: 23508115--23508166 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
23508105 CACTTTGTGA
* *
23508115 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
23508134 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
23508154 AAATG-AATGCAAA
1 AAATGTAATGCAAA
23508167 AAGATACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:23510398 original size:3 final size:3
Alignment explanation
Indices: 23510307--23510389 Score: 103
Period size: 3 Copynumber: 27.7 Consensus size: 3
23510297 AAAACTAAAC
** * * * *
23510307 AAT AAT AAT AGC AAA AAT AGT ATT AAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
23510355 AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23510390 GGTAATAATT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23511163 original size:21 final size:22
Alignment explanation
Indices: 23511134--23511175 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23511124 TTATATTTAA
* *
23511134 AAACGAAAATAAGAT-TAAAAG
1 AAACAAAAAAAAGATCTAAAAG
23511155 AAACAAAAAAAAGATCTAAAA
1 AAACAAAAAAAAGATCTAAAA
23511176 AGGGCAGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.71, C:0.07, G:0.10, T:0.12
Consensus pattern (22 bp):
AAACAAAAAAAAGATCTAAAAG
Found at i:23512876 original size:434 final size:433
Alignment explanation
Indices: 23511591--23515018 Score: 4310
Period size: 434 Copynumber: 7.9 Consensus size: 433
23511581 GTACAAATTT
* * * * *
23511591 TACTTGATTGTGGTTTAAAACTGGATTTGAACGTAATGGTGATAAGTGAAAATGAGAAATGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* *
23511656 AAAAAGCAATTGAACCAAAAATAAGGAAATGGGAAAAAATGGCAGTAAACTTGAATAGCTACTAA
66 AAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGA
* * * * *
23511721 TGCATGAAAGAGAAAAAAATTGTTTTTAATTCTATTTCAGTGTGTTTTTTCCAAACCACCATTAT
131 TGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTAC
* * * *
23511786 AAGGTATTTACAAACTTTTCATATGCCAAATTTAGCATGATTACTCATAAGATTATGCCTAACAA
196 AAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAA
* * * *
23511851 CTAACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTAAAAAATTCACAATCTGATTTTTAATC
261 CCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATC
* * * * *
23511916 AGCCACTAATTAAT-CAACCTTTCAATTTGGCTCC-TTTTATTTCTTCCCGTTCTAATTTAGCCC
326 AGCCACTAATT-CTGCAACTTTTCAATTTGGC-CCATTTTATTGCTTCCCGTTCCAATTTAGCCA
*
23511979 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAGTCA
389 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* * *
23512024 TACTCAATAGGGGTTTAAAAGTGGATTTGAACGTAA---TGA-AGGTGAAAAGGAGAAAGGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* * * * * *
23512085 GAAAAGCAATTGAACCAAAAATAAGGAAGTGGGAAAAAATGGCAGTAAACTTGAAAAGCTTCTTA
66 AAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGA
* * *
23512150 TGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTACAATGTGTTTTTTCTAAGCCACCATTA-
131 TGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTAC
* ** ** * ** *
23512214 ATAGATGGTTATATTCTTTTTATATGCCAAATTTAGCATGATTCCTTATGAGATTATGCCTAACA
196 A-AGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACA
* * * * *
23512279 ACCAACTAAAATAAGATTTTTTTTCTATTCATATAGTTTGACAAAATCATAATCTGATTTTTTTA
260 ACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGA-TTTTTAA
* * * * *** * *
23512344 TCAGCCACTAATTCAGCCACTTTTCAATTTGTCCCCTTTTATTGCTTCAAATTTCAATTTAGCCC
324 TCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCA
* * *
23512409 AATTTTCTTGACTAAATGGGTTTTAGTTGAGCATGAAATTAATCA
389 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* * * *** * *
23512454 TACTCTATTGAGGTTTAAAATTGGATTTGGTTGTAATGGTGATAAGTGAAAAGGTGAATA-AACT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAA-AGGACT
*
23512518 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATTGGTAGTAAACTTGAATAGCTACT
65 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAA-TGGCAGTAAACTTGAATAGCTACT
* * * * *
23512583 GATGCGTGAAAGAGAAAATAATTGTTTTTAATTATATTCCAGCGTGTTTTTTCCAAGTCACTATT
129 GATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATT
* * * * *
23512648 ACAAGGTATTTATACACTTTTCATCTGTCAAATTTAGCATTATTTCTCCTAAGATTATGCTTAAC
194 ACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
* * * * *
23512713 AACCAACTAAAATTAGATTTTTTTTCTATTCATGGAGTTTGAGAAATTCACAATATAATTTTTAA
259 AACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAA
* * *
23512778 TCAGCCACTTATTCTGTAACTTTTCAATTTGGCCCTTTTTATTGCTTCCCGTTCCAATTTAGCCA
324 TCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCA
23512843 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
389 AATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
*
23512888 TACACGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGG-GTAAAGGACT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAG-AAAGGACT
* * * *
23512952 TAAAAAGTAATTTAACCAAAAATAAGGAAATGG-AAAAAATGGAAGTAGACTTGAATAGCTACTG
65 TAAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTG
* * * * *
23513016 ATGTGTGAAAGAGATAAGAATTATTTTTAATTCTATTCCAGTGTGTTTTTTCGAAGCCAGCATTA
130 ATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTA
* *
23513081 CAAAGTATTTATACACTTTTCATATGTCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACA
195 CAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACA
* * * * * * *
23513146 ACCAATTAAAATTAGA-TTTTTTTCTATTTATAGAGTTTAAAAAACTCACAATCAGATTTTTAAT
260 ACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAAT
* * *
23513210 CAGCCACTAATTTTGTAACTTTTCAATTTGGCCCATTTTATTGCTTCCCATTCCAATTTAGCCAA
325 CAGCCACTAATTCTGCAACTTTTCAATTTGGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCAA
* *
23513275 ATTTGCTTGGCTAAATGTGGTTTAGTTGAGAATGAAATTAATCA
390 ATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* * *
23513319 TACTCGATTGGGGTTTAAAAGTGGATTTGGAA-GTAAAGGTAATAAGTGAAAAGGAGAAAAGACT
1 TACTCGATTGGGGTTTAAAAGTGGATTT-GAACGTAATGGTGATAAGTGAAAAGGAGAAAGGACT
* * * * * *
23513383 TAAAAAGAAATTGAACCAAAAGTAAGGAAATGGTAAAAAAATGACAATAAGCTTGAATAGCTATT
65 TAAAAAGCAATTGAACCAAAAATAAGGAAATGG-AAAAAAATGGCAGTAAACTTGAATAGCTACT
* *
23513448 GATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTGTTTTT-GAAGCCTCCAT
129 GATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGT-TTTTTCCAAGCCACCAT
* * * *
23513512 TACAAGGTATTAATAGACTTTTCATATGCCATATTGAGCATGATTCCTCCTAAGATTATGCCTAA
193 TACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAA
* *
23513577 TAATCAACTAAAATCAGA-TTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTA
258 CAACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTA
* * * * * * *
23513641 ATCAACCACTAATTATGAAAAATTTT-AATTTGGTCCC-TTCTATTGCTTTCTGTTCCAATTTAG
323 ATCAGCCACTAATTCTG-CAACTTTTCAATTTGG-CCCATTTTATTGCTTCCCGTTCCAATTTAG
* * *
23513704 CCCAAATTTGCTTGGCTAAATGCGATTTAGTTGAACATGAAATTAATCA
386 -CCAAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
* ** * * *
23513753 TACTCGATTGGGATTTAAAAGTAAATTTGAATGTAATGGTGATAGGTGAAAAGGAGAGAGGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* *
23513818 -CAAAGAAATTGAACCAAAAATAAGGAAATGGAAAAAAAATGGCAGTAAACTTGAATAGCTA-TA
66 AAAAAGCAATTGAACCAAAAATAAGGAAATGG-AAAAAAATGGCAGTAAACTTGAATAGCTACT-
* ** * *
23513881 GATGCGTGAAAGAGAAAAGAACTGTTTTTAATTCTATTTTAGTGTGTTTTTTCTAGGCCACCATT
129 GATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATT
* *
23513946 ACAAGTTATTCATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
194 ACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
* * * *
23514011 AACCAACTAAAATCATATTTGTTTGT-TATTTATAGAGTTTGACAAATTCATAATCTGATTTTTA
259 AACCAACTAAAATCAGATTT-TTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTA
* * * * * * **
23514075 ATCAGCCCCTATTTCTACAACTATTCAATTTGACCCATTTTATTTCTTCATGTTCCAATTTAGCC
323 ATCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCATTTTATTGCTTCCCGTTCCAATTTAGCC
* * *
23514140 TAATTTGTTTGGCTAAATGTGGTTTAGTTGAGCATGAAATTAATCA
388 AAATTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
** * * * * *
23514186 TACTTTATTTGGGTTTAAAAGTGGATTTAAACATAATGGCGATAGGTGAAAAGGAGAAAGGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* * * ** *
23514251 AAAAGGCAATCGAACCAAAAATAAGGAACTGGCAAAAATTTGGCAGTAAACTTGAATATCTACTG
66 AAAAAGCAATTGAACCAAAAATAAGGAAATGG-AAAAAAATGGCAGTAAACTTGAATAGCTACTG
* * * * * * * *
23514316 ATGTGTGAAAGAGAAAAAAAATGCTTTTAATTCTATTTCTA-TGTATTTTTTCCAAGTCAACATT
130 ATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTA-TTCCAGTGTGTTTTTTCCAAGCCACCATT
* *
23514380 ACAAGGTATTTATAC-CATTTTCATATACCAAATTTAGCATGATTCCTCCTAAGATTATTCCTAA
194 ACAAGGTATTTATACAC-TTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAA
* * * * *
23514444 CAACCAACTAAAATCACATTTGTTTTCTATTCATAGAGTTTGACAAATTCAAAATCTAATTTTCA
258 CAACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTA
* * * * * * *
23514509 GTCAGCCCCTAATTCTGTAACTTTTCAATTTGGCCCCTTTTATTGCTTCTCATTCTAA-TTAGCC
323 ATCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCATTTTATTGCTTCCCGTTCCAATTTAGCC
*
23514573 TAATTTGCTTGGCTAAATGGGGGTTTAGTTGAGCATGAAATTAATCA
388 AAATTTGCTTGGCTAAAT-GGGGTTTAGTTGAGCATGAAATTAATCA
* * * *
23514620 TACTCAAATGGGGTTTAAAAGTGGATTTGAACATAATGATGATAAGTGAAAAGGAGAAAGGACTT
1 TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
* * * * * *
23514685 -GAAAGACAATTGAACCAAAAATAAGGAACTAGAAAAAAGTCGACAGTAAACTTGAATAACTACT
66 AAAAAG-CAATTGAACCAAAAATAAGGAAATGGAAAAAAAT-GGCAGTAAACTTGAATAGCTACT
* * ** *
23514749 GATGCGTGATAGAGAAAAGAATTGCTTTTAATTCTATTTTAATGTGTTTTTTCCAAGCCACCATT
129 GATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATT
* *** * * * *
23514814 GCAAGGTATTTATACACTTTTCATATATAAAATTTAGCATGATTCTTCATAAGATGATGCCTAAT
194 ACAAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAAC
* ** * * *
23514879 GATTAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGATAAGTTCACAATTTGATTTTTAA
259 AACCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAA
* * * * * *
23514944 TCAGCCACTAATACTGCAACTTTTCAATTTGACCCATTTTATTGCTTCTCGTTCCAGTTTTGCCC
324 TCAGCCACTAATTCTGCAACTTTTCAATTTGGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCA
23515009 AATTTGCTTG
389 AATTTGCTTG
23515019 TTTATTTAAA
Statistics
Matches: 2596, Mismatches: 360, Indels: 76
0.86 0.12 0.03
Matches are distributed among these distances:
428 1 0.00
429 241 0.09
430 129 0.05
431 227 0.09
432 163 0.06
433 607 0.23
434 1025 0.39
435 202 0.08
436 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (433 bp):
TACTCGATTGGGGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGGACTT
AAAAAGCAATTGAACCAAAAATAAGGAAATGGAAAAAAATGGCAGTAAACTTGAATAGCTACTGA
TGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTAC
AAGGTATTTATACACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAA
CCAACTAAAATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATC
AGCCACTAATTCTGCAACTTTTCAATTTGGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCAAA
TTTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCA
Found at i:23514330 original size:867 final size:864
Alignment explanation
Indices: 23511602--23515014 Score: 4322
Period size: 867 Copynumber: 3.9 Consensus size: 864
23511592 ACTTGATTGT
* *
23511602 GGTTTAAAACTGGATTTGAACGTAATGGTGATAAGTGAAAATGAGAAATGACTTAAAAAGCAATT
1 GGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAA-GACTTAAAAAGCAATT
* * *
23511667 GAACCAAAAATAAGGAAATGG-GAAAAAATGGCAGTAAACTTGAATAGCTACTAATGCATGAAAG
65 GAACCAAAAATAAGGAAATGGAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAG
* * *
23511731 AGAAAAAAATTGTTTTTAATTCTATTTCAGTGTGTTTTTTCCAAACCACCATTATAAGGTATTTA
130 AGAAAAAAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTA
* * * *
23511796 CAAACTTTTCATATGCCAAATTTAGCATGATTACTCATAAGATTATGCCTAACAACTAACTAAAA
195 -TAACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAA
* * * *
23511861 TCAGATTTTTTTTCTATTCATGGAGTTTAAAAAATTCACAATCTGATTTTTAATCAGCCACTAAT
259 TCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTTAATCAGCCACTAAT
* * * * *
23511926 TAAT-CAACCTTTCAATTTGGCTCCTTTTATTTCTTCCCGTTCTAATTTAGCCCAATTTGCTTGG
324 T-ATGAAACTTTTCAATTTGGC-CCTTTTATTGCTTCCCGTTCCAATTTAGCCAAATTTGCTTGG
* *
23511990 CTAAATGGGGTTTAGTTGAGCATGAAATTAGTCATACTCAATAGGGGTTTAAAAGTGGATTTGAA
387 CTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAAAAGTGGATTTGAA
* * * *
23512055 CGTAA---TGA-AGGTGAAAAGGAGAAAGGACTTGAAAAGCAATTGAACCAAAAATAAGGAAGTG
452 CGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAATG
* * * *
23512116 GGAAAAAATGGCAGTAAACTTGAAAAGCTTCTTATGCGTGAAAGAGAAAAGAATTGTTTTTAATT
517 GAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAATT
* * ** ** *
23512181 CTATTACAATGTGTTTTTTCTAAGCCACCATTA-ATAGATGGTTATATTCTTTTTATATGCCAAA
582 CTATTTCAATGTGTTTTTTCTAAGCCACCATTACA-AGTTATTTATACACTTTTCATATGCCAAA
* * *
23512245 TTTAGCATGATTCCTTATGAGATTATGCCTAACAACCAACTAAAATAAGATTTTTTTTCTATTCA
646 TTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTTCTATTCA
* * * * *
23512310 TATAGTTTGACAAAATCATAATCTGATTTTTTTATCAGCCACTAATTC-AGCCACTTTTCAATTT
711 TAGAGTTTGACAAATTCACAATCTGA-TTTTTAATCAGCCACTAATTCTA-CAACTTTTCAATTT
* * * * *
23512374 GTCCCCTTTTATTGCTTCAAATTTCAATTTAGCCCAATTT-TCTTGACTAAATG-GGTTTTAGTT
774 GACCCATTTTATTGCTTCATATTCCAATTTAGCCCAATTTGT-TTGGCTAAATGTGG-TTTAGTT
23512437 GAGCATGAAATTAATCATACTCTA-TTG
837 GAGCATGAAATTAATCATACTCTATTTG
* *** * *
23512464 AGGTTTAAAATTGGATTTGGTTGTAATGGTGATAAGTGAAAAGGTGAATAAACTTAAAAAGCAAT
1 -GGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAA-AGACTTAAAAAGCAAT
* *
23512529 TGAACCAAAAATAAGGAAATGGAAAAAAATTGGTAGTAAACTTGAATAGCTACTGATGCGTGAAA
64 TGAACCAAAAATAAGGAAATGGAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAA
* * * * *
23512594 GAGAAAATAATTGTTTTTAATTATATTCCAGCGTGTTTTTTCCAAGTCACTATTACAAGGTATTT
129 GAGAAAAAAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTT
* * * * *
23512659 ATACACTTTTCATCTGTCAAATTTAGCATTATTTCTCCTAAGATTATGCTTAACAACCAACTAAA
194 ATA-ACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAA
* * * * *
23512724 ATTAGATTTTTTTTCTATTCATGGAGTTTGAGAAATTCACAATATAATTTTTAATCAGCCACTTA
258 ATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTTAATCAGCCACTAA
* *
23512789 TTCTGTAACTTTTCAATTTGGCCCTTTTTATTGCTTCCCGTTCCAATTTAGCCAAATTTGCTTGG
323 TTATGAAACTTTTCAATTTGGCCC-TTTTATTGCTTCCCGTTCCAATTTAGCCAAATTTGCTTGG
* *
23512854 CTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACACGATTGGGGTTTAAAAGTGGATTTGAA
387 CTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAAAAGTGGATTTGAA
* *
23512919 CGTAATGGTGATAAGTGAAAAGG-GTAAAGGACTTAAAAAGTAATTTAACCAAAAATAAGGAAAT
452 CGTAATGGTGATAAGTGAAAAGGAG-AAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAAT
* * * * *
23512983 GG-AAAAAATGGAAGTAGACTTGAATAGCTACTGATGTGTGAAAGAGATAAGAATTATTTTTAAT
516 GGAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAAT
* * * * *
23513047 TCTATTCCAGTGTGTTTTTTCGAAGCCAGCATTACAAAG-TATTTATACACTTTTCATATGTCAA
581 TCTATTTCAATGTGTTTTTTCTAAGCCACCATTAC-AAGTTATTTATACACTTTTCATATGCCAA
* * * *
23513111 ATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAATTAAAATTAGA-TTTTTTTCTATTT
645 ATTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTTCTATTC
* * * * * **
23513175 ATAGAGTTTAAAAAACTCACAATCAGATTTTTAATCAGCCACTAATTTTGTAACTTTTCAATTTG
710 ATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTACAACTTTTCAATTTG
* ** * *
23513240 GCCCATTTTATTGCTTCCCATTCCAATTTAGCCAAATTTGCTTGGCTAAATGTGGTTTAGTTGAG
775 ACCCATTTTATTGCTTCATATTCCAATTTAGCCCAATTTGTTTGGCTAAATGTGGTTTAGTTGAG
* * *
23513305 AATGAAATTAATCATACTCGATTGG
840 CATGAAATTAATCATACTCTATTTG
* * *
23513330 GGTTTAAAAGTGGATTTGGAA-GTAAAGGTAATAAGTGAAAAGGAGAAAAGACTTAAAAAGAAAT
1 GGTTTAAAAGTGGATTT-GAACGTAATGGTGATAAGTGAAAAGGAG-AAAGACTTAAAAAGCAAT
* * * * * *
23513394 TGAACCAAAAGTAAGGAAATGGTAAAAAAATGACAATAAGCTTGAATAGCTATTGATGCGTGAAA
64 TGAACCAAAAATAAGGAAATGGAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAA
* * *
23513459 GAGAAAAGAATTGTTTTTAATTCTATTCCAGTGTGTGTTTTT-GAAGCCTCCATTACAAGGTATT
129 GAGAAAAAAATTGTTTTTAATTCTATTCCAGTGTGT-TTTTTCCAAGCCACCATTACAAGGTATT
* * * * *
23513523 AATAGACTTTTCATATGCCATATTGAGCATGATTCCTCCTAAGATTATGCCTAATAATCAACTAA
193 TATA-ACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAA
* *
23513588 AATCAGA-TTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAACCACTA
257 AATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTTAATCAGCCACTA
* * * *
23513652 ATTATGAAAAATTTT-AATTTGGTCCCTTCTATTGCTTTCTGTTCCAATTTAGCCCAAATTTGCT
322 ATTATG-AAACTTTTCAATTTGG-CCCTTTTATTGCTTCCCGTTCCAATTTAG-CCAAATTTGCT
* * * * * **
23513716 TGGCTAAATGCGATTTAGTTGAACATGAAATTAATCATACTCGATTGGGATTTAAAAGTAAATTT
384 TGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAAAAGTGGATTT
* * * *
23513781 GAATGTAATGGTGATAGGTGAAAAGGAGAGAGGACTT-CAAAGAAATTGAACCAAAAATAAGGAA
449 GAACGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAA
*
23513845 ATGGAAAAAAAATGGCAGTAAACTTGAATAGCTA-TAGATGCGTGAAAGAGAAAAGAACTGTTTT
514 ATGG-AAAAAAATGGCAGTAAACTTGAATAGCTACT-GATGCGTGAAAGAGAAAAGAATTGTTTT
* * * *
23513909 TAATTCTATTTTAGTGTGTTTTTTCTAGGCCACCATTACAAGTTATTCATACACTTTTCATATGC
577 TAATTCTATTTCAATGTGTTTTTTCTAAGCCACCATTACAAGTTATTTATACACTTTTCATATGC
* * *
23513974 CAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATCATATTTGTTTGT-T
642 CAAATTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGATTT-TTTTTCT
* * * * *
23514038 ATTTATAGAGTTTGACAAATTCATAATCTGATTTTTAATCAGCCCCTATTTCTACAACTATTCAA
706 ATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTACAACTTTTCAA
* * *
23514103 TTTGACCCATTTTATTTCTTCATGTTCCAATTTAGCCTAATTTGTTTGGCTAAATGTGGTTTAGT
771 TTTGACCCATTTTATTGCTTCATATTCCAATTTAGCCCAATTTGTTTGGCTAAATGTGGTTTAGT
*
23514168 TGAGCATGAAATTAATCATACTTTATTTG
836 TGAGCATGAAATTAATCATACTCTATTTG
* * * * * *
23514197 GGTTTAAAAGTGGATTTAAACATAATGGCGATAGGTGAAAAGGAGAAAGGACTTAAAAGGCAATC
1 GGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAA-GACTTAAAAAGCAATT
* * ** * *
23514262 GAACCAAAAATAAGGAACTGGCAAAAATTTGGCAGTAAACTTGAATATCTACTGATGTGTGAAAG
65 GAACCAAAAATAAGGAAATGGAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAG
* * * * * *
23514327 AGAAAAAAAATGCTTTTAATTCTATTTCTA-TGTATTTTTTCCAAGTCAACATTACAAGGTATTT
130 AGAAAAAAATTGTTTTTAATTCTA-TTCCAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTT
* * *
23514391 ATACCATTTTCATATACCAAATTTAGCATGATTCCTCCTAAGATTATTCCTAACAACCAACTAAA
194 ATAAC-TTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAA
* * * * * *
23514456 ATCACATTTGTTTTCTATTCATAGAGTTTGACAAATTCAAAATCTAATTTTCAGTCAGCCCCTAA
258 ATCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTTAATCAGCCACTAA
* * * * * *
23514521 TTCTGTAACTTTTCAATTTGGCCCCTTTTATTGCTTCTCATTCTAA-TTAGCCTAATTTGCTTGG
323 TTATGAAACTTTTCAATTTGG-CCCTTTTATTGCTTCCCGTTCCAATTTAGCCAAATTTGCTTGG
*
23514585 CTAAATGGGGGTTTAGTTGAGCATGAAATTAATCATACTCAAATGGGGTTTAAAAGTGGATTTGA
387 CTAAAT-GGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAAAAGTGGATTTGA
* * * *
23514650 ACATAATGATGATAAGTGAAAAGGAGAAAGGACTT-GAAAGACAATTGAACCAAAAATAAGGAAC
451 ACGTAATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGA-AATTGAACCAAAAATAAGGAAA
* * * * * *
23514714 TAGAAAAAAGTCGACAGTAAACTTGAATAACTACTGATGCGTGATAGAGAAAAGAATTGCTTTTA
515 TGGAAAAAAAT-GGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTA
* * * * ***
23514779 ATTCTATTTTAATGTGTTTTTTCCAAGCCACCATTGCAAGGTATTTATACACTTTTCATATATAA
579 ATTCTATTTCAATGTGTTTTTTCTAAGCCACCATTACAAGTTATTTATACACTTTTCATATGCCA
* * ** **
23514844 AATTTAGCATGATTCTTCATAAGATGATGCCTAATGATTAACTAAAATCAGATTTTTTTTCTATT
644 AATTTAGCATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTTCTATT
* * * * *
23514909 CATAGAGTTTGATAAGTTCACAATTTGATTTTTAATCAGCCACTAATACTGCAACTTTTCAATTT
709 CATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTACAACTTTTCAATTT
* * *
23514974 GACCCATTTTATTGCTTC-TCGTTCCAGTTTTGCCCAATTTG
774 GACCCATTTTATTGCTTCAT-ATTCCAATTTAGCCCAATTTG
23515015 CTTGTTTATT
Statistics
Matches: 2204, Mismatches: 304, Indels: 79
0.85 0.12 0.03
Matches are distributed among these distances:
863 81 0.04
864 443 0.20
865 437 0.20
866 231 0.10
867 607 0.28
868 403 0.18
869 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (864 bp):
GGTTTAAAAGTGGATTTGAACGTAATGGTGATAAGTGAAAAGGAGAAAGACTTAAAAAGCAATTG
AACCAAAAATAAGGAAATGGAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGA
GAAAAAAATTGTTTTTAATTCTATTCCAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
AACTTTTCATATGCCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAACTAAAATC
AGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTAATTTTTAATCAGCCACTAATTA
TGAAACTTTTCAATTTGGCCCTTTTATTGCTTCCCGTTCCAATTTAGCCAAATTTGCTTGGCTAA
ATGGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGGTTTAAAAGTGGATTTGAACGTA
ATGGTGATAAGTGAAAAGGAGAAAGGACTTAAAAAGAAATTGAACCAAAAATAAGGAAATGGAAA
AAAATGGCAGTAAACTTGAATAGCTACTGATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTAT
TTCAATGTGTTTTTTCTAAGCCACCATTACAAGTTATTTATACACTTTTCATATGCCAAATTTAG
CATGATTCCTCATAAGATTATGCCTAACAACCAACTAAAATCAGATTTTTTTTCTATTCATAGAG
TTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATTCTACAACTTTTCAATTTGACCCAT
TTTATTGCTTCATATTCCAATTTAGCCCAATTTGTTTGGCTAAATGTGGTTTAGTTGAGCATGAA
ATTAATCATACTCTATTTG
Found at i:23524024 original size:17 final size:18
Alignment explanation
Indices: 23523992--23524025 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23523982 CAAAGTTGTG
*
23523992 ATAATTATACATTTAAAA
1 ATAATTAGACATTTAAAA
23524010 ATAATTAGA-ATTTAAA
1 ATAATTAGACATTTAAA
23524026 TTACTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTAGACATTTAAAA
Found at i:23527854 original size:27 final size:26
Alignment explanation
Indices: 23527816--23527867 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
23527806 ACATCTAGAA
*
23527816 AAAAACATATAAATTATAAA-AAATTC
1 AAAAACATAT-AATTAAAAATAAATTC
*
23527842 AAAAATATGATAATTAAAAATAAATT
1 AAAAACAT-ATAATTAAAAATAAATT
23527868 AGTTGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAAACATATAATTAAAAATAAATTC
Found at i:23530165 original size:37 final size:38
Alignment explanation
Indices: 23530100--23530173 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 38
23530090 AATTAATTGA
*
23530100 TTTTTTAAAAATTTAAAAAATTCAAAAAATGTATAAAT
1 TTTTTTAAAAATTTAAAAAATTCAAAAAAGGTATAAAT
*
23530138 TTTTTTAAAAA-TTAAAAAATAT-TAAAAAGGTATAAA
1 TTTTTTAAAAATTTAAAAAAT-TCAAAAAAGGTATAAA
23530174 AATTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 21 0.64
38 12 0.36
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (38 bp):
TTTTTTAAAAATTTAAAAAATTCAAAAAAGGTATAAAT
Found at i:23530188 original size:17 final size:18
Alignment explanation
Indices: 23530142--23530188 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
23530132 ATAAATTTTT
23530142 TTAAAAAT-TAAAAAATA
1 TTAAAAATATAAAAAATA
*
23530159 TTAAAAAGGTATAAAAATTA
1 TTAAAAA--TATAAAAAATA
23530179 -TAAAAATATA
1 TTAAAAATATA
23530189 TATTTTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 11 0.42
19 7 0.27
20 8 0.31
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
TTAAAAATATAAAAAATA
Found at i:23539073 original size:21 final size:21
Alignment explanation
Indices: 23539049--23539092 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23539039 ATTTTTAAAA
23539049 AAATGAATTTTTAGA-ATTTTT
1 AAAT-AATTTTTAGATATTTTT
* *
23539070 AAATATTTTTTTGATATTTTT
1 AAATAATTTTTAGATATTTTT
23539091 AA
1 AA
23539093 TTTTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
AAATAATTTTTAGATATTTTT
Found at i:23556502 original size:18 final size:17
Alignment explanation
Indices: 23556481--23556515 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23556471 TTATTATTAA
*
23556481 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
23556499 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
23556516 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:23556622 original size:18 final size:17
Alignment explanation
Indices: 23556599--23556635 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23556589 AATTATTATT
23556599 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23556615 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23556632 AAAT
1 AAAT
23556636 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23556684 original size:61 final size:61
Alignment explanation
Indices: 23556496--23556686 Score: 196
Period size: 61 Copynumber: 3.2 Consensus size: 61
23556486 TTTTAATTAA
* *
23556496 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
* * * * * * ** * *
23556557 AATATATGATACT-ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATGAT-TTAATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTAAAATCAT
23556616 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
23556677 AATATATGAT
1 AATATATGAT
23556687 AGTATAAAGT
Statistics
Matches: 99, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
58 1 0.01
59 35 0.35
60 18 0.18
61 44 0.44
62 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAAATCAT
Found at i:23556742 original size:18 final size:17
Alignment explanation
Indices: 23556719--23556755 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23556709 AATTATTATT
23556719 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23556735 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23556752 AAAT
1 AAAT
23556756 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23556765 original size:120 final size:120
Alignment explanation
Indices: 23556461--23556756 Score: 540
Period size: 120 Copynumber: 2.5 Consensus size: 120
23556451 TTAATCATAT
*
23556461 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
*
23556526 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
23556581 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
* *
23556646 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATAGTATAAAGTATAA
66 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
23556701 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
23556757 TAAAATAATT
Statistics
Matches: 171, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
120 169 0.99
121 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
Found at i:23556867 original size:91 final size:91
Alignment explanation
Indices: 23556763--23556976 Score: 374
Period size: 91 Copynumber: 2.4 Consensus size: 91
23556753 AATTTAAAAT
* * *
23556763 AATTATTAGTAATAATTTTTCTTATATGAATTTGTATAATTTAATATAATAATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAATATAATAATTATTAAATATAA
23556828 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
23556854 AATTCTTGATAATAAATTTTCTTATATGAATTTGTATAATTTAATATAATAATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAATATAATAATTATTAAATATAA
23556919 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
* *
23556945 AATTCTTAATAATAAATATTCTTATGTGAATT
1 AATTCTTAATAATAAATTTTCTTATATGAATT
23556977 GACTAAAATG
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
91 116 1.00
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAATATAATAATTATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:23556892 original size:47 final size:46
Alignment explanation
Indices: 23556738--23556976 Score: 119
Period size: 47 Copynumber: 5.2 Consensus size: 46
23556728 TTAATTAAAA
* * * *
23556738 TATATG-ATTTAATAAAATTT-AAAATAATTATTAGTAATAATTTTTCT
1 TATATGAATTT-ATATAATTTCATAA-AATTCTTA-TAATAAATTTTCT
* * * **
23556785 TATATGAATTTGTATAATTTAATATAATAATTATTA-AATATAA-TTTAA
1 TATATGAATTTATATAATTT--CATAA-AATTCTTATAATA-AATTTTCT
23556833 TA-AT-AA--TATATAATTTCATAAAATTCTTGATAATAAATTTTCT
1 TATATGAATTTATATAATTTCATAAAATTCTT-ATAATAAATTTTCT
* * * **
23556876 TATATGAATTTGTATAATTTAATATAATAATTATTA-AATATAA-TTTAA
1 TATATGAATTTATATAATTT--CATAA-AATTCTTATAATA-AATTTTCT
*
23556924 TA-AT-AA--TATATAATTTCATAAAATTCTTAATAATAAATATTCT
1 TATATGAATTTATATAATTTCATAAAATTCTT-ATAATAAATTTTCT
*
23556967 TATGTGAATT
1 TATATGAATT
23556977 GACTAAAATG
Statistics
Matches: 146, Mismatches: 23, Indels: 46
0.68 0.11 0.21
Matches are distributed among these distances:
41 12 0.08
42 14 0.10
43 17 0.12
44 21 0.14
45 4 0.03
46 4 0.03
47 26 0.18
48 22 0.15
49 8 0.05
50 18 0.12
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (46 bp):
TATATGAATTTATATAATTTCATAAAATTCTTATAATAAATTTTCT
Found at i:23557076 original size:14 final size:14
Alignment explanation
Indices: 23557057--23557096 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23557047 TGGATTGCCA
23557057 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
23557071 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
23557085 GAAAAATGTTTT
1 GTAAAATGTTTT
23557097 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:23557109 original size:34 final size:35
Alignment explanation
Indices: 23557065--23557131 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
23557055 CAGTAAAATG
* *
23557065 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
* *
23557099 TTTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTT
23557132 TTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
Done.