Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 388 of 438
Found at i:120977772 original size:18 final size:19
Alignment explanation
Indices: 120977734--120977774 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
120977724 TGGTTCATAT
120977734 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
120977753 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
120977771 TTTC
1 TTTC
120977775 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:120977939 original size:27 final size:28
Alignment explanation
Indices: 120977875--120977947 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
120977865 ATACGTGGAT
* *
120977875 TCCTCCCAAACACACCCGGAATATTATAAA
1 TCCTCCCAAACACA-CCAGAATATCAT-AA
*
120977905 TCCT-CCAAACACACCAGTATATCAT-A
1 TCCTCCCAAACACACCAGAATATCATAA
120977931 TCCTCCCAAACACACCA
1 TCCTCCCAAACACACCA
120977948 ATAAGGCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
26 5 0.13
27 12 0.31
28 9 0.23
29 9 0.23
30 4 0.10
ACGTcount: A:0.38, C:0.38, G:0.04, T:0.19
Consensus pattern (28 bp):
TCCTCCCAAACACACCAGAATATCATAA
Found at i:120977945 original size:29 final size:29
Alignment explanation
Indices: 120977875--120977946 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
120977865 ATACGTGGAT
* *
120977875 TCCTCCCAAACACACCCGGAATATTATAAA
1 TCCTCCCAAACACACCCAGAATATCAT-AA
*
120977905 TCCT-CCAAACACA-CCAGTATATCAT-A
1 TCCTCCCAAACACACCCAGAATATCATAA
120977931 TCCTCCCAAACACACC
1 TCCTCCCAAACACACC
120977947 AATAAGGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 5 0.14
27 9 0.24
28 10 0.27
29 9 0.24
30 4 0.11
ACGTcount: A:0.38, C:0.39, G:0.04, T:0.19
Consensus pattern (29 bp):
TCCTCCCAAACACACCCAGAATATCATAA
Found at i:120978177 original size:8 final size:10
Alignment explanation
Indices: 120978148--120978188 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
120978138 ATTCTAATAA
*
120978148 TCACATATTT
1 TCACACATTT
120978158 TCACACATTT
1 TCACACATTT
120978168 TCACA-A-TT
1 TCACACATTT
*
120978176 TCATACATTT
1 TCACACATTT
120978186 TCA
1 TCA
120978189 TTCAATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 19 0.70
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (10 bp):
TCACACATTT
Found at i:120978394 original size:11 final size:11
Alignment explanation
Indices: 120978378--120978402 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
120978368 ATAAATCATA
120978378 TATATATATAT
1 TATATATATAT
120978389 TATATATATAT
1 TATATATATAT
120978400 TAT
1 TAT
120978403 TATTTCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATATATATAT
Found at i:120978426 original size:15 final size:15
Alignment explanation
Indices: 120978406--120978452 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
120978396 ATATTATTAT
120978406 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
120978421 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
120978436 TTCAATCAATATAAA
1 TTCAATCAATATAAA
120978451 TT
1 TT
120978453 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:120979832 original size:19 final size:19
Alignment explanation
Indices: 120979808--120979845 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
120979798 TTGAGATTGC
120979808 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
120979827 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
120979846 TATTCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:120979939 original size:6 final size:7
Alignment explanation
Indices: 120979921--120979946 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
120979911 CACTCCCTTT
120979921 TAAAAAA
1 TAAAAAA
120979928 TAAAAAA
1 TAAAAAA
120979935 TAAAAAA
1 TAAAAAA
120979942 TAAAA
1 TAAAA
120979947 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:120981964 original size:24 final size:24
Alignment explanation
Indices: 120981937--120981990 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
120981927 TTTCTTTCTT
*
120981937 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
120981961 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
120981985 TTGCAT
1 TTGCAT
120981991 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:120981979 original size:19 final size:19
Alignment explanation
Indices: 120981957--120982000 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
120981947 CCCATGCATT
120981957 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
120981976 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
120981995 TGCATT
1 TGCATT
120982001 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:120986082 original size:88 final size:86
Alignment explanation
Indices: 120985933--120986154 Score: 338
Period size: 88 Copynumber: 2.5 Consensus size: 86
120985923 AGCTGAAGAT
**
120985933 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAATAGATCGAAGACATAGCTAATTTGGCT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTT-GCT
*
120985998 TTCACGTGTTTACGTTAAAGCAG
64 TTCACGTGTTTACGTTAAAGCAA
120986021 ATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAGCTAATTTGCTT
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGC-GGGAGCAGATCGAAGACATAGCTAATTTGCTT
*
120986086 TCACGTGTTTACGTTGAAGCAA
65 TCACGTGTTTACGTTAAAGCAA
* * *
120986108 ATCTAAGATGATTTGGCATCTCTATAGC-GGCGGAGAGCAGATCGAAG
1 ATCCAAGATGATTTGGCATCTCTGTATCAGGCGG-GAGCAGATCGAAG
120986155 GTAACAGATT
Statistics
Matches: 125, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
85 2 0.02
86 16 0.13
87 49 0.39
88 58 0.46
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.28
Consensus pattern (86 bp):
ATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGAGCAGATCGAAGACATAGCTAATTTGCTTT
CACGTGTTTACGTTAAAGCAA
Found at i:120986180 original size:44 final size:44
Alignment explanation
Indices: 120986117--120987399 Score: 1765
Period size: 44 Copynumber: 29.4 Consensus size: 44
120986107 AATCTAAGAT
* * *
120986117 GATTTGGCATCTCTATAGCGGCGGAGAGCAGATCGAAGGTAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986161 GATTTGGCGTCTCTGTAGCGG-GG-GAGCAGATTGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
120986203 GATTTGGCGTCTCTGTAGCGGCGG-GAGCAGATCGAAAATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986246 GATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
120986290 GATTTGGAGTCTCTGTAGCGGCGG-GAGCAGATCGAAGATAGCT
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
120986333 GATTTGGCGTCTCTGTAGCGCCTCTGTAGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTA--G---C-G--GCGGAGAGCAGATCGAAGATAACA
* *
120986385 GATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
120986429 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986473 -ATTTGGCGTCTCTGTTGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
120986516 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
120986560 GATTTGGCATCTCTGTAGCGGC-GAAAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986603 GATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986647 AATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
120986691 GATTTGGCGTCTCTGTAGCGGCGGAGAGCTGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
120986731 GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAAATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986775 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
120986819 AATTCGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986863 GATTTGGCGTCTCTGTAGCAGCGGAGAGCTGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * * *
120986903 GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATTGAAAATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986947 GATTTGGCGTATCTGTAGCGGCGGAGAGCAAATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
120986991 AATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120987035 GATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** * * * *
120987079 GATTTGGCGTCTCTGTAATGGCAGAGAGCAGATCAAAAATAGCA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
** *
120987123 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACC
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
120987167 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
120987211 GATTTGGCGTCTCTGTAGCGGCGGAGAGCTGATCGAAGAT----
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* ** *
120987251 GATTTGGCATCTCTGTAGCGGCATAGAGCAGATCAAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
120987295 AATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120987339 GATTTGGCGTCTCTGTAGCGGCGGTGAGCAGATCGAAGATAACG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
120987383 GATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTA
120987400 TTAGACGGGG
Statistics
Matches: 1101, Mismatches: 113, Indels: 50
0.87 0.09 0.04
Matches are distributed among these distances:
40 106 0.10
42 37 0.03
43 155 0.14
44 758 0.69
45 1 0.00
46 1 0.00
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 4 0.00
52 35 0.03
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.22
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:120986351 original size:172 final size:175
Alignment explanation
Indices: 120986117--120987399 Score: 1781
Period size: 172 Copynumber: 7.3 Consensus size: 175
120986107 AATCTAAGAT
* * *
120986117 GATTTGGCATCTCTATAGCGGCGGAGAGCAGATCGAAGGTAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * * *
120986182 -GG-GAGCAGATTGAAGATAATAGATTTGGCGTCTCTGTAGCGGCGGGAGCAGATCGAAAATAAC
66 CGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGCGAGAGCAGATCGAAAATAGC
* *
120986245 AGATTTGGCGTCTCTGTAGTGGCAGAGAGCAGATCGAAGATAACA
131 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
120986290 GATTTGGAGTCTCTGTAGCGGCGG-GAGCAGATCGAAGATAGCTGATTTGGCGTCTCTGTAGCGC
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA--G-
** * *
120986354 CTCTGTAGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGTAGATC
63 --C-G--GCGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGC-GAGAGCAGATC
*
120986419 GAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
122 GAAAATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986473 -ATTTGGCGTCTCTGTTGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* * *
120986537 CGGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTAGCGGCGAAAGCAGATCGAAGATAGC
66 CGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGCGAGAGCAGATCGAAAATAGC
* *
120986602 AGATTTGACGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAGCA
131 AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120986647 AATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
*
120986712 CGGAGAGCTGATCGAAG---AT-GATTTGGCATCTCTGTAGCGGCGGAGAGCAGATCGAAAATAG
66 CGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGC-GAGAGCAGATCGAAAATAG
* *
120986773 CAGATTTGGCGTCTCTGTAGCGGTGGAGAGCAGATCAAAGATAACA
130 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * * *
120986819 AATTCGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCAG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
120986884 CGGAGAGCTGATCGAAG---AT-GATTTGGCATCTCTGTAGCGGCGAAGAGCAGATTGAAAATAG
66 CGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGCG-AGAGCAGATCGAAAATAG
* *
120986945 CAGATTTGGCGTATCTGTAGCGGCGGAGAGCAAATCGAAGATAACA
130 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
120986991 AATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* ** * ** *
120987056 CGGAGAGTAGATCGAAGATAGCAGATTTGGCGTCTCTGTAATGGCAGAGAGCAGATCAAAAATAG
66 CGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGC-GAGAGCAGATCGAAAATAG
** *
120987121 CAGATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACC
130 CAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
120987167 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAGCGG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
* *
120987232 CGGAGAGCTGATCGAAG---AT-GATTTGGCATCTCTGTAGCGGCATAGAGCAGATC-AAAGATA
66 CGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGC-GAGAGCAGATCGAAA-ATA
* * * * *
120987292 ACAAATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCAAAGATAATA
129 GCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
120987339 GATTTGGCGTCTCTGTAGCGGCGGTGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTA
120987400 TTAGACGGGG
Statistics
Matches: 1005, Mismatches: 84, Indels: 43
0.89 0.07 0.04
Matches are distributed among these distances:
171 26 0.03
172 461 0.46
173 21 0.02
174 62 0.06
175 123 0.12
176 152 0.15
177 3 0.00
178 2 0.00
180 1 0.00
181 3 0.00
182 58 0.06
183 93 0.09
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.22
Consensus pattern (175 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTGTAGCGG
CGGAGAGCAGATCGAAGATAATAGATTTGGCATCTCTGTAGCGGCGAGAGCAGATCGAAAATAGC
AGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:120987717 original size:17 final size:18
Alignment explanation
Indices: 120987690--120987735 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
120987680 AGTACAACCC
*
120987690 AAAAT-AAAAAAT-AATA
1 AAAATAAAAAAATGAAGA
120987706 AAAATAAAAAAATGAAGA
1 AAAATAAAAAAATGAAGA
*
120987724 AAAAGAAAAAAA
1 AAAATAAAAAAA
120987736 CCTAACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 5 0.19
17 7 0.27
18 14 0.54
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.11
Consensus pattern (18 bp):
AAAATAAAAAAATGAAGA
Found at i:120988421 original size:2 final size:2
Alignment explanation
Indices: 120988414--120988440 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
120988404 TGCACATAAC
120988414 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
120988441 CATTTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120988931 original size:19 final size:19
Alignment explanation
Indices: 120988907--120988944 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
120988897 TTGAGATTGC
120988907 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
120988926 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
120988945 TATTCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:120991061 original size:24 final size:24
Alignment explanation
Indices: 120991034--120991087 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
120991024 TTCTTTCCTT
120991034 TTGCATT-CATCACATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
*
120991058 TTGCATTGCATCATATGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
120991082 TTGCAT
1 TTGCAT
120991088 CATTTGCATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 18 0.64
25 10 0.36
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:120991076 original size:19 final size:19
Alignment explanation
Indices: 120991054--120991097 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
120991044 CACATGCATT
120991054 TGCATTGCATTGCATCATA
1 TGCATTGCATTGCATCATA
*
120991073 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATA
120991092 TGCATT
1 TGCATT
120991098 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATA
Found at i:120996307 original size:39 final size:39
Alignment explanation
Indices: 120996253--120996405 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
120996243 GAATGTTCGA
*
120996253 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
120996292 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
120996331 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
120996370 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
120996406 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:120996421 original size:40 final size:39
Alignment explanation
Indices: 120996254--120996435 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
120996244 AATGTTCGAG
* *
120996254 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
120996293 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
120996332 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
120996371 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
120996411 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
120996436 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:120996647 original size:16 final size:16
Alignment explanation
Indices: 120996626--120996659 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
120996616 CGGCCTTAAC
120996626 TAAGCCGTTGTTTGTG
1 TAAGCCGTTGTTTGTG
120996642 TAAGCCGTTGTTTGTG
1 TAAGCCGTTGTTTGTG
120996658 TA
1 TA
120996660 TGAAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.15, C:0.12, G:0.29, T:0.44
Consensus pattern (16 bp):
TAAGCCGTTGTTTGTG
Found at i:121004411 original size:39 final size:39
Alignment explanation
Indices: 121004357--121004509 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
121004347 GAATGTTCGA
*
121004357 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
121004396 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
121004435 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
121004474 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
121004510 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:121004525 original size:40 final size:39
Alignment explanation
Indices: 121004358--121004539 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
121004348 AATGTTCGAG
* *
121004358 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
121004397 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
121004436 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
121004475 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
121004515 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
121004540 TGTTTTGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:121011248 original size:13 final size:13
Alignment explanation
Indices: 121011230--121011255 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
121011220 TAAGTAAGTT
121011230 TTGATCTATTTTA
1 TTGATCTATTTTA
121011243 TTGATCTATTTTA
1 TTGATCTATTTTA
121011256 AATTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTGATCTATTTTA
Found at i:121011310 original size:17 final size:17
Alignment explanation
Indices: 121011288--121011322 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
121011278 AGATCTCTAC
121011288 TTTATTTATACTTCTTA
1 TTTATTTATACTTCTTA
121011305 TTTATTTATACTTCTTA
1 TTTATTTATACTTCTTA
121011322 T
1 T
121011323 GCCTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATTTATACTTCTTA
Found at i:121012514 original size:1 final size:1
Alignment explanation
Indices: 121012467--121012496 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
121012457 TGCAAAAGAT
121012467 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
121012497 GGAAAAAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:121012794 original size:15 final size:17
Alignment explanation
Indices: 121012766--121012806 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
121012756 ATTTTAAGAT
*
121012766 TTATCTTTAATTTAT-A
1 TTATTTTTAATTTATAA
*
121012782 -TATTTTTATTTTATAA
1 TTATTTTTAATTTATAA
121012798 TTATTTTTA
1 TTATTTTTA
121012807 GGATAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 1 0.05
17 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTTAATTTATAA
Found at i:121013396 original size:20 final size:21
Alignment explanation
Indices: 121013356--121013424 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
121013346 ATATATATTT
*
121013356 TTTAA-AATACTAATTACAAATA
1 TTTAATAATA-TAATT-TAAATA
*
121013378 TTTAATAGT-TAATTTAAATA
1 TTTAATAATATAATTTAAATA
*
121013398 TTTAA-AATATAATTTATATA
1 TTTAATAATATAATTTAAATA
121013418 TTCTAAT
1 TT-TAAT
121013425 TAAATTTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 2 0.05
20 22 0.56
21 8 0.21
22 5 0.13
23 2 0.05
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.46
Consensus pattern (21 bp):
TTTAATAATATAATTTAAATA
Found at i:121022344 original size:39 final size:38
Alignment explanation
Indices: 121022318--121022397 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 38
121022308 TTATAATTAC
*
121022318 ATAAAAATTTATATATAACCATTTAATTAATTTATTGAA
1 ATAAAAATATATATATAACCATTTAATT-ATTTATTGAA
* *
121022357 ATTAATATATATATATAACCATTTAATTAATTTATTGAA
1 ATAAAAATATATATATAACCATTTAATT-ATTTATTGAA
121022396 AT
1 AT
121022398 TAATTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (38 bp):
ATAAAAATATATATATAACCATTTAATTATTTATTGAA
Found at i:121022398 original size:39 final size:39
Alignment explanation
Indices: 121022327--121022401 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
121022317 CATAAAAATT
121022327 TATATATAACCATTTAATTAATTTATTGAAATTAATATA
1 TATATATAACCATTTAATTAATTTATTGAAATTAATATA
121022366 TATATATAACCATTTAATTAATTTATTGAAATTAAT
1 TATATATAACCATTTAATTAATTTATTGAAATTAAT
121022402 TAATAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (39 bp):
TATATATAACCATTTAATTAATTTATTGAAATTAATATA
Found at i:121024183 original size:16 final size:16
Alignment explanation
Indices: 121024162--121024194 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
121024152 TATCTGTATC
121024162 AAGATGTATTAAAATA
1 AAGATGTATTAAAATA
121024178 AAGATGTATTAAAATA
1 AAGATGTATTAAAATA
121024194 A
1 A
121024195 TATTATTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (16 bp):
AAGATGTATTAAAATA
Found at i:121028431 original size:47 final size:47
Alignment explanation
Indices: 121028322--121028432 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
121028312 CCGGGATAAG
*
121028322 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
121028369 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
121028416 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
121028433 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:121029204 original size:4 final size:4
Alignment explanation
Indices: 121029195--121029239 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
121029185 CCCTTTTCTT
* *
121029195 TTTC TTTC TTTC TTTC CTTC TTTC TTTC TTTC CTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
121029240 CACGTTTGCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:121029217 original size:16 final size:16
Alignment explanation
Indices: 121029196--121029239 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
121029186 CCTTTTCTTT
121029196 TTCTTTCTTTCTTTCC
1 TTCTTTCTTTCTTTCC
121029212 TTCTTTCTTTCTTTCC
1 TTCTTTCTTTCTTTCC
121029228 TTCTTTCTTTCT
1 TTCTTTCTTTCT
121029240 CACGTTTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTTCTTTCTTTCC
Found at i:121032728 original size:3 final size:3
Alignment explanation
Indices: 121032720--121032756 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
121032710 TTATATTTAA
121032720 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
121032757 CATGTGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:121033271 original size:56 final size:55
Alignment explanation
Indices: 121033181--121033288 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 55
121033171 GCATCCATTG
* * *
121033181 GATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGAAA
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATT-AATTTGAAA
*
121033237 GATGATAAATCATCACTTTTAATTTGAATTGTGCTCATAAAAAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATTAATTTG
121033289 CAATCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
55 6 0.12
56 42 0.88
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGTGCTCATAAAAAATTAATTTGAAA
Found at i:121037310 original size:15 final size:15
Alignment explanation
Indices: 121037290--121037326 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
121037280 CTACTTACAA
121037290 GGACTTGTAATTCAT
1 GGACTTGTAATTCAT
121037305 GGACTTGTAATTCAT
1 GGACTTGTAATTCAT
*
121037320 AGACTTG
1 GGACTTG
121037327 ATCCATGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (15 bp):
GGACTTGTAATTCAT
Found at i:121037437 original size:23 final size:24
Alignment explanation
Indices: 121037411--121037463 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
121037401 GCTCGGTGTT
121037411 GTATTTCTCTTTAAGAACTTT-CA
1 GTATTTCTCTTTAAGAACTTTCCA
*
121037434 GTATTTCTCTTTAAGAGCTTTCCA
1 GTATTTCTCTTTAAGAACTTTCCA
121037458 -TATTTC
1 GTATTTC
121037464 CACCGGGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 26 0.93
24 2 0.07
ACGTcount: A:0.23, C:0.19, G:0.09, T:0.49
Consensus pattern (24 bp):
GTATTTCTCTTTAAGAACTTTCCA
Found at i:121037842 original size:15 final size:15
Alignment explanation
Indices: 121037809--121037842 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
121037799 TATTTGAGTG
* *
121037809 AGACGATAGAATTGG
1 AGACGATAGAATCGA
121037824 AGACGATAGAATCGA
1 AGACGATAGAATCGA
121037839 AGAC
1 AGAC
121037843 TTATATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (15 bp):
AGACGATAGAATCGA
Found at i:121039177 original size:7 final size:8
Alignment explanation
Indices: 121039156--121039184 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
121039146 AAATAATATA
121039156 AATTTTTT
1 AATTTTTT
121039164 AATTTTTT
1 AATTTTTT
121039172 AATTTTTT
1 AATTTTTT
121039180 AATTT
1 AATTT
121039185 AAATTTTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (8 bp):
AATTTTTT
Found at i:121040917 original size:19 final size:18
Alignment explanation
Indices: 121040895--121040947 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
121040885 TTAGTAAAAT
121040895 AAAATAAAATAATATTTCA
1 AAAATAAAATAATATTT-A
*
121040914 AAAATAATAT-ATATCTTA
1 AAAATAAAATAATAT-TTA
* *
121040932 AAATTAAAATACTATT
1 AAAATAAAATAATATT
121040948 ATTATTGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATAAAATAATATTTA
Found at i:121041248 original size:23 final size:23
Alignment explanation
Indices: 121041218--121041265 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
121041208 CTAAATATGT
121041218 TTTAAAAAGTTGACATCTTTATC
1 TTTAAAAAGTTGACATCTTTATC
121041241 TTTAAAAAGTTGACATCTTTATC
1 TTTAAAAAGTTGACATCTTTATC
121041264 TT
1 TT
121041266 CGGATACCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.46
Consensus pattern (23 bp):
TTTAAAAAGTTGACATCTTTATC
Found at i:121042184 original size:3 final size:3
Alignment explanation
Indices: 121042176--121042201 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
121042166 AAATCAATGT
121042176 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
121042202 TAGATCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:121046696 original size:19 final size:18
Alignment explanation
Indices: 121046638--121046774 Score: 67
Period size: 19 Copynumber: 7.7 Consensus size: 18
121046628 CAATTTTATT
*
121046638 AAAAATTA-AAAAAATAA
1 AAAAATTATAAAATATAA
* * *
121046655 AAAAATTGTAAAATTTTAT
1 AAAAATTATAAAA-TATAA
*
121046674 AAAAATTATAAAATATAG
1 AAAAATTATAAAATATAA
*
121046692 AAAAA-TATAGAAAAAT-A
1 AAAAATTATA-AAATATAA
*
121046709 TAAAATT-T----TATAA
1 AAAAATTATAAAATATAA
*
121046722 AGAAAATTATAAAAAATGTAA
1 A-AAAATTAT--AAAATATAA
*
121046743 AGAAA-TATAAAATTCATAA
1 AAAAATTATAAAA-T-ATAA
121046762 AAAAATTATAAAA
1 AAAAATTATAAAA
121046775 ATTATCGTAC
Statistics
Matches: 88, Mismatches: 16, Indels: 29
0.66 0.12 0.22
Matches are distributed among these distances:
12 2 0.02
13 1 0.01
14 6 0.07
15 1 0.01
17 20 0.23
18 19 0.22
19 24 0.27
20 10 0.11
21 5 0.06
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAATTATAAAATATAA
Found at i:121046737 original size:10 final size:10
Alignment explanation
Indices: 121046633--121046779 Score: 70
Period size: 10 Copynumber: 15.4 Consensus size: 10
121046623 TTATTCAATT
*
121046633 TTATTAAAAA
1 TTATAAAAAA
121046643 TTA-AAAAAA
1 TTATAAAAAA
121046652 -TA-AAAAAA
1 TTATAAAAAA
* **
121046660 TTGTAAAATT
1 TTATAAAAAA
121046670 TTAT-AAAAA
1 TTATAAAAAA
121046679 TTAT--AAAA
1 TTATAAAAAA
121046687 -TATAGAAAAA
1 TTATA-AAAAA
121046697 -TATAGAAAAA
1 TTATA-AAAAA
**
121046707 -TATAAAATT
1 TTATAAAAAA
121046716 TTATAAAGAAAA
1 TTAT-AA-AAAA
121046728 TTATAAAAAA
1 TTATAAAAAA
*
121046738 TGTA-AAGAAA
1 T-TATAAAAAA
121046748 -TAT--AAAA
1 TTATAAAAAA
121046755 TTCATAAAAAAA
1 TT-AT-AAAAAA
121046767 TTAT-AAAAA
1 TTATAAAAAA
121046776 TTAT
1 TTAT
121046780 CGTACAAAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 31
0.71 0.08 0.20
Matches are distributed among these distances:
7 6 0.06
8 15 0.14
9 27 0.25
10 41 0.38
11 8 0.07
12 12 0.11
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:121046779 original size:9 final size:9
Alignment explanation
Indices: 121046584--121046779 Score: 80
Period size: 9 Copynumber: 20.9 Consensus size: 9
121046574 TGTAACAAAT
*
121046584 AAAATGATA
1 AAAATTATA
121046593 AAAA--ATA
1 AAAATTATA
*
121046600 AAAATTAATG
1 AAAATT-ATA
*
121046610 AAAGTTATA
1 AAAATTATA
*
121046619 AAAATTATTC
1 AAAATTA-TA
**
121046629 AATTTTATTA
1 AAAATTA-TA
121046639 AAAATTA-A
1 AAAATTATA
* *
121046647 AAAAATAAA
1 AAAATTATA
*
121046656 AAAATTGTA
1 AAAATTATA
*
121046665 AAATTTTATA
1 AAA-ATTATA
121046675 AAAATTAT-
1 AAAATTATA
121046683 AAAA-TATA
1 AAAATTATA
*
121046691 GAAAAATATA
1 -AAAATTATA
*
121046701 GAAAAATATA
1 -AAAATTATA
*
121046711 AAATTTTATAAA
1 AAA-ATTAT--A
121046723 GAAAATTATA
1 -AAAATTATA
* *
121046733 AAAAATGTA
1 AAAATTATA
*
121046742 AAGAAATAT-
1 AA-AATTATA
121046751 AAAATTCATAAA
1 AAAATT-AT--A
121046763 AAAATTATA
1 AAAATTATA
121046772 AAAATTAT
1 AAAATTAT
121046780 CGTACAAAAA
Statistics
Matches: 145, Mismatches: 24, Indels: 36
0.71 0.12 0.18
Matches are distributed among these distances:
7 10 0.07
8 14 0.10
9 55 0.38
10 50 0.34
11 2 0.01
12 11 0.08
13 3 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:121046997 original size:40 final size:38
Alignment explanation
Indices: 121046953--121047065 Score: 104
Period size: 40 Copynumber: 2.9 Consensus size: 38
121046943 ATTTATGATT
* *
121046953 TTTATAAAATTTTACAATTTTTTATAATTTTTTTACAATC
1 TTTATAAAATTTTATAATTTTTTATAATTTTTTTA-AA-A
* **
121046993 TTTATAAATTTTTCATAATTTTCAAT-ATTTTTATTAAAA
1 TTTATAAAATTTT-ATAATTTTTTATAATTTTT-TTAAAA
* *
121047032 TTTA-ATAATTTATATATTTTTTTATAATTTTTTT
1 TTTATAAAATTT-TATAATTTTTTATAATTTTTTT
121047066 GCTACATGTC
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
38 16 0.27
39 11 0.19
40 20 0.34
41 12 0.20
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (38 bp):
TTTATAAAATTTTATAATTTTTTATAATTTTTTTAAAA
Found at i:121047014 original size:10 final size:10
Alignment explanation
Indices: 121046933--121047064 Score: 67
Period size: 10 Copynumber: 13.4 Consensus size: 10
121046923 TAATGGTGCA
121046933 TTTTATAATT
1 TTTTATAATT
* *
121046943 ATTTATGA-T
1 TTTTATAATT
**
121046952 TTTTATAAAA
1 TTTTATAATT
*
121046962 TTTTACAATT
1 TTTTATAATT
121046972 TTTTATAATT
1 TTTTATAATT
*
121046982 TTTT-TACAAT
1 TTTTATA-ATT
*
121046992 CTTTATAAATT
1 TTTTAT-AATT
*
121047003 TTTCATAATT
1 TTTTATAATT
**
121047013 TTCAAT-A-T
1 TTTTATAATT
**
121047021 TTTTATTAAAA
1 TTTTA-TAATT
*
121047032 TTTAATAA-T
1 TTTTATAATT
* *
121047041 TTATATATTT
1 TTTTATAATT
121047051 TTTTATAATT
1 TTTTATAATT
121047061 TTTT
1 TTTT
121047065 TGCTACATGT
Statistics
Matches: 88, Mismatches: 26, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
8 4 0.05
9 16 0.18
10 56 0.64
11 11 0.12
12 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:121054360 original size:20 final size:20
Alignment explanation
Indices: 121054335--121054379 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
121054325 CATTTCCCTT
121054335 AAACAGGTCTTCGAGACCTA
1 AAACAGGTCTTCGAGACCTA
121054355 AAACAGGTCTTCGAGACCTA
1 AAACAGGTCTTCGAGACCTA
121054375 AAACA
1 AAACA
121054380 TGTCCAGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
AAACAGGTCTTCGAGACCTA
Found at i:121066648 original size:18 final size:17
Alignment explanation
Indices: 121066608--121066650 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
121066598 TAATAAATTG
121066608 AAAAATTAAATATTAGA
1 AAAAATTAAATATTAGA
121066625 ATAAAATTAAA-ATTTAAGA
1 A-AAAATTAAATA-TT-AGA
121066644 AAAAATT
1 AAAAATT
121066651 CGATCTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.09
18 17 0.74
19 4 0.17
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAAATTAAATATTAGA
Found at i:121082144 original size:25 final size:25
Alignment explanation
Indices: 121082115--121082179 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
121082105 CCATATAACG
* *
121082115 AGAAGCTCATGTGAGCCAATT-ATCG
1 AGAAGCTCATGAGAGCC-ATTAATCA
* *
121082140 GGAAGCTCAAGAGAGCCATTAATCA
1 AGAAGCTCATGAGAGCCATTAATCA
121082165 AGAAGCTCATGAGAG
1 AGAAGCTCATGAGAG
121082180 TCAAATATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 3 0.09
25 30 0.91
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (25 bp):
AGAAGCTCATGAGAGCCATTAATCA
Found at i:121082883 original size:99 final size:100
Alignment explanation
Indices: 121082780--121082987 Score: 321
Period size: 99 Copynumber: 2.1 Consensus size: 100
121082770 CAAAATTCTC
121082780 TTTACAAAAGTTGTTTATCTAACAAAAACCTTTCATTTTCTATCAT-AAA-TCATAATTCAAGCA
1 TTTACAAAAGTTGTTTATCTAACAAAAACCTTTCATTTTCTATCATAAAACTCATAATTCAAGCA
121082843 TACTCATCCATGGAAAAACCCTAATACATTAACGGT
66 TA-TCATCCATGGAAAAACCCTAATACATTAACGGT
* * *
121082879 TTTACAAAGGTTGTTTATCTAATAACAACCTTTCATTTTCTATCATAAAACTTCATAATTCAAGC
1 TTTACAAAAGTTGTTTATCTAACAAAAACCTTTCATTTTCTATCATAAAAC-TCATAATTCAAGC
* * * *
121082944 ATATCATCCATGGAAAAATCCTAATTCTTTAATGGT
65 ATATCATCCATGGAAAAACCCTAATACATTAACGGT
121082980 TTTACAAA
1 TTTACAAA
121082988 TTAATCCCCG
Statistics
Matches: 99, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
99 43 0.43
100 3 0.03
101 37 0.37
102 16 0.16
ACGTcount: A:0.38, C:0.19, G:0.07, T:0.36
Consensus pattern (100 bp):
TTTACAAAAGTTGTTTATCTAACAAAAACCTTTCATTTTCTATCATAAAACTCATAATTCAAGCA
TATCATCCATGGAAAAACCCTAATACATTAACGGT
Found at i:121086784 original size:41 final size:40
Alignment explanation
Indices: 121086677--121086789 Score: 106
Period size: 37 Copynumber: 2.9 Consensus size: 40
121086667 CGGATAGTTT
* * *
121086677 GAAGAAATAAGTTGACACCCAGTGTCTCATCGGCTAAGCC
1 GAAGTAATAATTTGACACCCAGTGTCTCATCGACTAAGCC
* ** * * *
121086717 GAAGT-A-AATTTG-TACCCAGTACCTCATCGAATTTATCC
1 GAAGTAATAATTTGACACCCAGTGTCTCATCG-ACTAAGCC
*
121086755 GAAGTAATAATTTGACACCCAGTGTCTCATTGACT
1 GAAGTAATAATTTGACACCCAGTGTCTCATCGACT
121086790 CAAAGTTGAA
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
37 14 0.25
38 14 0.25
39 2 0.04
40 12 0.22
41 13 0.24
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (40 bp):
GAAGTAATAATTTGACACCCAGTGTCTCATCGACTAAGCC
Found at i:121087703 original size:8 final size:8
Alignment explanation
Indices: 121087689--121087722 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
121087679 TTTAATTATA
121087689 ATAATAAT
1 ATAATAAT
*
121087697 TTAATAAT
1 ATAATAAT
*
121087705 ATAATGAT
1 ATAATAAT
121087713 ATAATAAT
1 ATAATAAT
121087721 AT
1 AT
121087723 TTACTTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (8 bp):
ATAATAAT
Found at i:121089121 original size:17 final size:19
Alignment explanation
Indices: 121089079--121089122 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
121089069 ATGAAATTTT
*
121089079 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
121089098 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
121089116 AA-TATTA
1 AATTATTA
121089123 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:121090239 original size:18 final size:18
Alignment explanation
Indices: 121090218--121090268 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
121090208 ACAATTCTTT
121090218 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCTCC
* *
121090236 TCTCTTCATCTATT-TCC
1 TCTCTTCTTCTTTTCTCC
*
121090253 TCTTCTTTTTCTTTTC
1 TC-TCTTCTTCTTTTC
121090269 CTCTATAGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (18 bp):
TCTCTTCTTCTTTTCTCC
Found at i:121091983 original size:19 final size:20
Alignment explanation
Indices: 121091959--121091996 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
121091949 GGTACCACCA
121091959 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
121091978 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
121091997 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:121092292 original size:46 final size:45
Alignment explanation
Indices: 121092225--121092393 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
121092215 CGCCCTTAAG
* *
121092225 TGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATT-GCATCCATAAA
* **
121092271 TGAACTCGGACTCAACTCAACGAGTTC-GA-A-TGCCTAGTTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTG-C-A--TCCAT-AAA
* *
121092318 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACA-TTGCATCCATAAA
121092364 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
121092394 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 2 0.02
45 1 0.01
46 59 0.57
47 31 0.30
48 2 0.02
49 2 0.02
50 1 0.01
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTGCATCCATAAA
Found at i:121092341 original size:93 final size:93
Alignment explanation
Indices: 121092226--121092396 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
121092216 GCCCTTAAGT
*
121092226 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
121092291 CGAGTTCGAATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * *
121092319 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
121092384 CGAGTTCGGATGC
66 CGAGTTCGAATGC
121092397 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:121094134 original size:27 final size:27
Alignment explanation
Indices: 121094103--121094163 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
121094093 TTTATTAAAC
* *
121094103 TACCCCTAAGTATG-AAAATTACCGTTT
1 TACCCCTAAG-ATGCAAAATGACCGTTA
*
121094130 TACCCCT-AGGTGCAAAATGACCGTTA
1 TACCCCTAAGATGCAAAATGACCGTTA
121094156 TACCCCTA
1 TACCCCTA
121094164 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (27 bp):
TACCCCTAAGATGCAAAATGACCGTTA
Found at i:121095762 original size:34 final size:35
Alignment explanation
Indices: 121095711--121095782 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
121095701 ATTCTGTAGT
*
121095711 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
121095745 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
121095780 TAG
1 TAG
121095783 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:121108014 original size:40 final size:41
Alignment explanation
Indices: 121107954--121108080 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 41
121107944 CGGAATACAA
* *
121107954 CCGGATA-TAACCACGT-GCACGAATGCCTTTGGGTCTTAGC
1 CCGGATAGTAACAAC-TAGCACGAATGCCTTCGGGTCTTAGC
*
121107994 CCGGATAG-AACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATAGTAACAACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
121108034 CCAGAT-GTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATAGTAACAACTAGCACGAA-TGCCTTCGGGTCTTAGC
121108074 CCGGATA
1 CCGGATA
121108081 TAATTTCCAG
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
39 4 0.05
40 70 0.95
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (41 bp):
CCGGATAGTAACAACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:121109901 original size:44 final size:44
Alignment explanation
Indices: 121109847--121109944 Score: 187
Period size: 44 Copynumber: 2.2 Consensus size: 44
121109837 TTGATATCTC
121109847 AAAGTCCATGGTTGTACCAAGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTGTACCAAGGAAATTAAGGAAGAATTGACGGA
*
121109891 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTGTACCAAGGAAATTAAGGAAGAATTGACGGA
121109935 AAAGTCCATG
1 AAAGTCCATG
121109945 TTCATAACAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.40, C:0.12, G:0.27, T:0.21
Consensus pattern (44 bp):
AAAGTCCATGGTTGTACCAAGGAAATTAAGGAAGAATTGACGGA
Found at i:121109956 original size:44 final size:44
Alignment explanation
Indices: 121109847--121109977 Score: 167
Period size: 44 Copynumber: 3.0 Consensus size: 44
121109837 TTGATATCTC
* * *
121109847 AAAGTCCATGGTTGTACCAAGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACGGA
* *
121109891 AAAGTCCATGGTTGTACCATGGAAATTAAGGAAGAATTGACGGA
1 AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACGGA
* *
121109935 AAAGTCCAT-GTTCATAACATGGCATTTAA-GAAGGAATTGACGG
1 AAAGTCCATGGTT-ATAACATGGAAATTAAGGAA-GAATTGACGG
121109978 TTAAGGATAC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
43 6 0.08
44 74 0.93
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (44 bp):
AAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGACGGA
Found at i:121110090 original size:47 final size:47
Alignment explanation
Indices: 121109980--121110140 Score: 134
Period size: 47 Copynumber: 3.4 Consensus size: 47
121109970 ATTGACGGTT
* * * * * *
121109980 AAGGATACCATTTAAGACCATGTCAAGACATGGCATTG--GTAAGGC
1 AAGGATACCATGTAAGACCATATCAAGACATGGCATCGACATTAGAC
* * *
121110025 AAGGAT-CCTGTGTAAGACCATTTCAAGACATGGCATCGACATT-GATT
1 AAGGATACC-ATGTAAGACCATATCAAGACATGGCATCGACATTAGA-C
* ** *
121110072 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGACATTAAGAC
1 AAGGA-TACCATGTAAGACCATATCAAGACATGGCATCGACATT-AGAC
121110120 AAGGATACCATGTAAGACCAT
1 AAGGATACCATGTAAGACCAT
121110141 GTTTGGAACA
Statistics
Matches: 92, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
44 2 0.02
45 31 0.34
46 1 0.01
47 35 0.38
48 21 0.23
49 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (47 bp):
AAGGATACCATGTAAGACCATATCAAGACATGGCATCGACATTAGAC
Found at i:121110296 original size:55 final size:54
Alignment explanation
Indices: 121110167--121110363 Score: 263
Period size: 55 Copynumber: 3.6 Consensus size: 54
121110157 TTGGTAAGAT
* * *
121110167 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
121110221 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * *
121110276 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
121110329 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
121110364 ATGGTAAGTT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.26
54 42 0.33
55 43 0.34
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:121121171 original size:14 final size:14
Alignment explanation
Indices: 121121152--121121181 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
121121142 GTCCTTTCAT
*
121121152 TCCCTCATTCATCA
1 TCCCTCATCCATCA
121121166 TCCCTCATCCATCA
1 TCCCTCATCCATCA
121121180 TC
1 TC
121121182 ATTCTCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Found at i:121122016 original size:20 final size:21
Alignment explanation
Indices: 121121978--121122016 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
121121968 AGTTTATTTA
121121978 TGTTATAATTGTTGCAAATTG
1 TGTTATAATTGTTGCAAATTG
121121999 TGTT-TAATT-TTGCTAAAT
1 TGTTATAATTGTTGC-AAAT
121122017 CTATTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (21 bp):
TGTTATAATTGTTGCAAATTG
Found at i:121129106 original size:16 final size:16
Alignment explanation
Indices: 121129082--121129152 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
121129072 TGAATTACTG
*
121129082 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCA
*
121129098 ATTATAGCTCTATTCA
1 ATTACAGCTCTATTCA
121129114 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* *
121129130 ATTACAGCCCTATTCT
1 ATTACAGCTCTATTCA
121129146 ATTACAG
1 ATTACAG
121129153 TGAACCAAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:121132523 original size:40 final size:40
Alignment explanation
Indices: 121132438--121132588 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
121132428 AATTGAATGA
* * *
121132438 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
121132478 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
121132519 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
121132558 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
121132589 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:121132602 original size:40 final size:40
Alignment explanation
Indices: 121132475--121132604 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
121132465 ATGCTGGAAA
* * * *
121132475 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
121132515 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
121132555 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
121132595 TTATATCCGG
1 TTATATCCGG
121132605 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:121136236 original size:6 final size:6
Alignment explanation
Indices: 121136221--121136263 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
121136211 ATTAAGTCAA
* * *
121136221 TTTA-T TTTATT TTTATT TCTATT TTTATG TTTATT GTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT
121136264 CTTAGACTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
5 4 0.13
6 27 0.87
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:121136245 original size:12 final size:11
Alignment explanation
Indices: 121136221--121136263 Score: 59
Period size: 12 Copynumber: 3.7 Consensus size: 11
121136211 ATTAAGTCAA
121136221 TTTATTTTATT
1 TTTATTTTATT
121136232 TTTATTTCTATT
1 TTTATTT-TATT
121136244 TTTATGTTTATT
1 TTTAT-TTTATT
*
121136256 GTTATTTT
1 TTTATTTT
121136264 CTTAGACTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 10 0.34
12 17 0.59
13 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (11 bp):
TTTATTTTATT
Found at i:121138924 original size:20 final size:20
Alignment explanation
Indices: 121138895--121138939 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
121138885 AGCACATGTA
* *
121138895 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
121138915 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
121138935 TTCAT
1 TTCAT
121138940 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:121140640 original size:30 final size:30
Alignment explanation
Indices: 121140606--121140666 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
121140596 GGACAAGCAA
121140606 ACGCTTAAGTGTGGGGATATTTGATAAACC
1 ACGCTTAAGTGTGGGGATATTTGATAAACC
*
121140636 ACGCTTAAGTGTGGGGATATTTGATATACC
1 ACGCTTAAGTGTGGGGATATTTGATAAACC
121140666 A
1 A
121140667 TAAAAGTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.31
Consensus pattern (30 bp):
ACGCTTAAGTGTGGGGATATTTGATAAACC
Found at i:121145448 original size:27 final size:28
Alignment explanation
Indices: 121145403--121145458 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
121145393 ATATTGTTTG
* *
121145403 ACAAGTTTAAGTACTAAATTAGACAAAA
1 ACAAGTTTAAGTACTAAATAAGAAAAAA
121145431 ACAAG-TTAAGTA-TGAAATAAGAAAAAA
1 ACAAGTTTAAGTACT-AAATAAGAAAAAA
121145458 A
1 A
121145459 AACTAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.04
27 19 0.76
28 5 0.20
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.21
Consensus pattern (28 bp):
ACAAGTTTAAGTACTAAATAAGAAAAAA
Found at i:121160582 original size:21 final size:21
Alignment explanation
Indices: 121160533--121160591 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
121160523 ATAATAAATC
*
121160533 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
121160553 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
121160575 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
121160592 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:121163984 original size:48 final size:47
Alignment explanation
Indices: 121163868--121164084 Score: 226
Period size: 48 Copynumber: 4.6 Consensus size: 47
121163858 TATGTGTGCT
* * *
121163868 AGTGTAAGACATGTCTGGGACATGCATC-GGC-C-ACATTATGAGAGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAGA-TAT-AAAGCC
* *
121163914 AATGTAAGAAATGTCTGGGACATGCATCGGGCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAGATATA-AAGCC
** * * * *
121163962 AGTGTAAGACATGTCTGGGACATGCATCGGTATTGAGAT-GAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAGATATAAAGCC
* *
121164008 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAGATATA-AAGCC
* * *
121164056 AATGTAAGACCTGTCTGGGACAGGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
121164085 ACTTTGATGT
Statistics
Matches: 141, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
46 64 0.45
47 6 0.04
48 69 0.49
49 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGGCTCGAGATATAAAGCC
Found at i:121164022 original size:94 final size:92
Alignment explanation
Indices: 121163868--121164084 Score: 294
Period size: 94 Copynumber: 2.3 Consensus size: 92
121163858 TATGTGTGCT
121163868 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGGCAATGTAAGAAATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTATGAGAGGCAATGTAAGAAATGTCTGGG
* *
121163933 ACATGCATCGGGCTCGAGATATACAAGCC
64 ACATGCATCAGCCTCGAGATATACAAGCC
* * *
121163962 AGTGTAAGACATGTCTGGGACATGCATCGG-TATTGA-GATGAGAGCTAGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATT-ATGA-GAG-GC-AATGTAAGAAATGTCTG
121164025 GGACATGCATCAGCCTCGAGATATACAAGCC
62 GGACATGCATCAGCCTCGAGATATACAAGCC
* * *
121164056 AATGTAAGACCTGTCTGGGACAGGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
121164085 ACTTTGATGT
Statistics
Matches: 111, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
91 5 0.05
92 4 0.04
93 2 0.02
94 100 0.90
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATTATGAGAGGCAATGTAAGAAATGTCTGGGAC
ATGCATCAGCCTCGAGATATACAAGCC
Found at i:121164106 original size:94 final size:94
Alignment explanation
Indices: 121163916--121164126 Score: 282
Period size: 94 Copynumber: 2.2 Consensus size: 94
121163906 TGAGAGGCAA
* * * *
121163916 TGTAAGAAATGTCTGGGACATGCATCGGGCTCGAGATATACAAGCCAGTGTAAGACATGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCCAATGTAAGACATGTCTGGG
* * * *
121163981 ACATGCATCGGTATTGAGATGAGAGCTAG
66 ACAGGCATCGCTATTGAGATGAGACCCAG
*
121164010 TGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCCAATGTAAGACCTGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCCAATGTAAGACATGTCTGGG
**
121164075 ACAGGCATCGACT-TTGATG-TGCTACCCAG
66 ACAGGCATCG-CTATTGA-GATGAGACCCAG
121164104 TGTAAGACTATGTCTGGGACATG
1 TGTAAGAC-ATGTCTGGGACATG
121164127 GCGTCGGCAT
Statistics
Matches: 103, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
94 87 0.84
95 16 0.16
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (94 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATACAAGCCAATGTAAGACATGTCTGGG
ACAGGCATCGCTATTGAGATGAGACCCAG
Found at i:121169338 original size:2 final size:2
Alignment explanation
Indices: 121169331--121169357 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
121169321 ATGTCAATAG
121169331 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
121169358 GATTATGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121170207 original size:13 final size:13
Alignment explanation
Indices: 121170189--121170220 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
121170179 AGGAGATGGG
121170189 CGTGTGCCCAAGC
1 CGTGTGCCCAAGC
*
121170202 CGTGTGCCCAGGC
1 CGTGTGCCCAAGC
121170215 CGTGTG
1 CGTGTG
121170221 AAGTCTGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.09, C:0.34, G:0.38, T:0.19
Consensus pattern (13 bp):
CGTGTGCCCAAGC
Found at i:121171956 original size:3 final size:3
Alignment explanation
Indices: 121171948--121172019 Score: 73
Period size: 3 Copynumber: 25.0 Consensus size: 3
121171938 TTATAAAATA
*
121171948 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TA- TAT TAT AGAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
121171995 TA- AAT TGAT TA- TAT TAT TA- TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT
121172020 GAAATAAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
2 9 0.16
3 44 0.76
4 5 0.09
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:121171996 original size:29 final size:28
Alignment explanation
Indices: 121171946--121172021 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 28
121171936 AATTATAAAA
* *
121171946 TATATTATTATTATTATTATTATTATT-AT
1 TATATTATTA-TATTATGATTA-AATTGAT
*
121171975 TATTTTATTATATTATAGATTAAATTGAT
1 TATATTATTATATTAT-GATTAAATTGAT
121172004 TATATTATTATATTATGA
1 TATATTATTATATTATGA
121172022 AATAAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 11 0.27
29 30 0.73
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (28 bp):
TATATTATTATATTATGATTAAATTGAT
Found at i:121172027 original size:29 final size:29
Alignment explanation
Indices: 121171973--121172029 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
121171963 TATTATTATT
* *
121171973 ATTATTTTATTATATTATAGATTAAATTG
1 ATTATATTATTATATTATAGAATAAATTG
121172002 ATTATATTATTATATTAT-GAAATAAATT
1 ATTATATTATTATATTATAG-AATAAATT
121172030 AAGAAAAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATAGAATAAATTG
Found at i:121172440 original size:21 final size:20
Alignment explanation
Indices: 121172403--121172444 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
121172393 ATTTATTTAC
121172403 TTATTATTTAAGAAATAATAA
1 TTATTATTTAAGAAAT-ATAA
*
121172424 TTATTA-TTAAGTTAATATAA
1 TTATTATTTAAG-AAATATAA
121172444 T
1 T
121172445 AATATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TTATTATTTAAGAAATATAA
Found at i:121173609 original size:19 final size:20
Alignment explanation
Indices: 121173585--121173632 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
121173575 GATCAGTTGG
121173585 ACCTTT-GATTAATTAACAT
1 ACCTTTGGATTAATTAACAT
121173604 ACCTTTTTTGGATTAATTAACAT
1 ACC---TTTGGATTAATTAACAT
121173627 ACCTTT
1 ACCTTT
121173633 TTTTGACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
22 3 0.12
23 16 0.64
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (20 bp):
ACCTTTGGATTAATTAACAT
Found at i:121173617 original size:23 final size:23
Alignment explanation
Indices: 121173591--121173635 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
121173581 TTGGACCTTT
121173591 GATTAATTAACATACCTTTTTTG
1 GATTAATTAACATACCTTTTTTG
121173614 GATTAATTAACATACCTTTTTT
1 GATTAATTAACATACCTTTTTT
121173636 TGACTGACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (23 bp):
GATTAATTAACATACCTTTTTTG
Found at i:121173703 original size:13 final size:13
Alignment explanation
Indices: 121173672--121173705 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
121173662 TTTTAATTTC
121173672 AATTT-ATTTAAT
1 AATTTAATTTAAT
121173684 AATTTTAATTTAAT
1 AA-TTTAATTTAAT
121173698 AATTTAAT
1 AATTTAAT
121173706 CCATGGAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 9 0.45
14 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:121179196 original size:41 final size:43
Alignment explanation
Indices: 121179122--121179329 Score: 138
Period size: 44 Copynumber: 4.8 Consensus size: 43
121179112 TTTATCAAAT
* ** *
121179122 CACCGGCATTTAGCCTACTAGGTTTTAAACCCGAAT-TCA-TC
1 CACCGGCATTTAGCCTACTAGGCTCGAAGCCCGAATATCATTC
* * *
121179163 CACCGGCATTTCGCCTGCTAGGCTCGAAGCCCG-ATATCATTT
1 CACCGGCATTTAGCCTACTAGGCTCGAAGCCCGAATATCATTC
* * **
121179205 CACCGGCATTATAGCCTTCTAGGCTCGAGGGCCCGAATAGGA-TC
1 CACCGGCATT-TAGCCTACTAGGCTCGA-AGCCCGAATATCATTC
* ** * *
121179249 TCATCGGCATTATAGCCTGTTAGGCTCAAAGGCCCG-ATATCATTT
1 -CACCGGCATT-TAGCCTACTAGGCTCGAA-GCCCGAATATCATTC
* * * *
121179294 CACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 CACCGGCATT-TAGCCTACTAGGCTCGAA-GCCCGA
121179330 TTAGTACCGT
Statistics
Matches: 133, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
40 2 0.02
41 30 0.23
42 11 0.08
43 15 0.11
44 41 0.31
45 34 0.26
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (43 bp):
CACCGGCATTTAGCCTACTAGGCTCGAAGCCCGAATATCATTC
Found at i:121179291 original size:89 final size:87
Alignment explanation
Indices: 121179166--121179329 Score: 238
Period size: 89 Copynumber: 1.9 Consensus size: 87
121179156 ATTCATCCAC
* * * * *
121179166 CGGCATTTCGCCTGCTAGGCTCGAAGCCCGATATCATTTCACCGGCATTATAGCCTTCTAGGCTC
1 CGGCATTTAGCCTGCTAGGCTCAAAGCCCGATATCATTTCACCAGAATTATAGCCTGCTAGGCTC
* *
121179231 GAGGGCCCGAATAGGATCTCAT
66 AAAGGCCCGAATAGGATCTCAT
*
121179253 CGGCATTATAGCCTGTTAGGCTCAAAGGCCCGATATCATTTCACCAGAATTATAGCCTGCTAGGC
1 CGGCATT-TAGCCTGCTAGGCTCAAA-GCCCGATATCATTTCACCAGAATTATAGCCTGCTAGGC
121179318 TCAAAGGCCCGA
64 TCAAAGGCCCGA
121179330 TTAGTACCGT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
87 7 0.10
88 15 0.22
89 45 0.67
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (87 bp):
CGGCATTTAGCCTGCTAGGCTCAAAGCCCGATATCATTTCACCAGAATTATAGCCTGCTAGGCTC
AAAGGCCCGAATAGGATCTCAT
Found at i:121179317 original size:44 final size:44
Alignment explanation
Indices: 121179163--121179330 Score: 205
Period size: 44 Copynumber: 3.8 Consensus size: 44
121179153 CGAATTCATC
* *
121179163 CACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCGATATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTT
* * * ** *
121179205 CACCGGCATTATAGCCTTCTAGGCTCGAGGGCCCGAATAGGATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCG-ATATCATTT
* *
121179250 CATCGGCATTATAGCCTGTTAGGCTCAAAGGCCCGATATCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTT
* *
121179294 CACCAGAATTATAGCCTGCTAGGCTCAAAGGCCCGAT
1 CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAT
121179331 TAGTACCGTA
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 10 0.10
43 15 0.14
44 44 0.42
45 36 0.34
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (44 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATATCATTT
Found at i:121181921 original size:13 final size:13
Alignment explanation
Indices: 121181903--121181952 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
121181893 GACACATGGG
121181903 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
*
121181916 CGTGTGTGACATATGGG
1 CGTGTGT--C-TA-GGC
121181933 CGTGTGTCTAGGC
1 CGTGTGTCTAGGC
121181946 CGTGTGT
1 CGTGTGT
121181953 GACACACGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 16 0.52
14 2 0.06
15 2 0.06
16 2 0.06
17 9 0.29
ACGTcount: A:0.10, C:0.18, G:0.40, T:0.32
Consensus pattern (13 bp):
CGTGTGTCTAGGC
Found at i:121181934 original size:30 final size:30
Alignment explanation
Indices: 121181893--121181958 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
121181883 CACACGAGTA
121181893 GACACATGGGCGTGTGTCTAGGCCGTGTGT
1 GACACATGGGCGTGTGTCTAGGCCGTGTGT
*
121181923 GACATATGGGCGTGTGTCTAGGCCGTGTGT
1 GACACATGGGCGTGTGTCTAGGCCGTGTGT
121181953 GACACA
1 GACACA
121181959 CGGTCTGCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.17, C:0.20, G:0.38, T:0.26
Consensus pattern (30 bp):
GACACATGGGCGTGTGTCTAGGCCGTGTGT
Found at i:121183460 original size:38 final size:38
Alignment explanation
Indices: 121183409--121183485 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
121183399 TAAAACTAGG
121183409 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
1 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
*
121183447 TCCCTATACATGCCACTCACTTGATGTTTCTAACTTTA
1 TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
121183485 T
1 T
121183486 AAATACTCCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.29, G:0.06, T:0.40
Consensus pattern (38 bp):
TCCCTATACATGCCACTCACTTGATATTTCTAACTTTA
Found at i:121184571 original size:50 final size:50
Alignment explanation
Indices: 121184487--121184827 Score: 331
Period size: 50 Copynumber: 6.8 Consensus size: 50
121184477 CGAAGCTCTT
* * * * * *
121184487 TGGTACTCATAGTAGCTTGCACTTGGTGCTACACATGCGACCTAATAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* * * ** *
121184537 TAGTACGCGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* * * ** * * *
121184587 TGATACACGTAGTAGCCTGCATTTAGTACTACACACATGATCGAAGCTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATC
* * *
121184638 GGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAAC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* * ** * * *
121184688 TGGTACACATAGTAGCCTGTACTTAATACTACACACATGATCGAAGCTATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATC
* ** * *
121184739 GGGTATGCATAGTAGCCCGCACTTAGTACTACACATGCGACCTAACAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
* *
121184789 TGGTACACGTAGTAGCCTGTACTTAGTACTACACATGTG
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
121184828 TTCTCACAAT
Statistics
Matches: 231, Mismatches: 58, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
50 154 0.67
51 77 0.33
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATC
Found at i:121184651 original size:101 final size:101
Alignment explanation
Indices: 121184539--121184823 Score: 453
Period size: 101 Copynumber: 2.8 Consensus size: 101
121184529 TAATAATCTA
* ** * *
121184539 GTACGCGTAGTAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
* *
121184604 TGCATTTAGTACTACACACATGATCGAAGCTATCGG
66 TGTACTTAGTACTACACACATGATCGAAGCTATCGG
* *
121184640 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTGGTACACATAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
*
121184705 TGTACTTAATACTACACACATGATCGAAGCTATCGG
66 TGTACTTAGTACTACACACATGATCGAAGCTATCGG
* * *
121184741 GTATGCATAGTAGCCCGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCC
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
121184806 TGTACTTAGTACTACACA
66 TGTACTTAGTACTACACA
121184824 TGTGTTCTCA
Statistics
Matches: 168, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 168 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGTACACGTAGTAGCC
TGTACTTAGTACTACACACATGATCGAAGCTATCGG
Found at i:121184724 original size:151 final size:151
Alignment explanation
Indices: 121184488--121184827 Score: 376
Period size: 151 Copynumber: 2.3 Consensus size: 151
121184478 GAAGCTCTTT
* * * * * * * * *
121184488 GGTACTCATAGTAGCTTGCACTTGGTGCTACACATGCGACCTAATAATCTAGTACGCGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACATAGTAGC
* * * * * *
121184553 CTGCACTTAGTACTACACACATGACCTAA-CCATCTGATACACGTAGTAGCCTGCATTTAGTACT
66 CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
* * *
121184617 ACACACATGATCGAAGCTATCG
131 ACACACACGACCGAA-CAATCG
* *
121184639 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTGGTACACATAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACATAGTAGC
* * * * **
121184704 CTGTACTTAATACTACACACATGATCGAAGCTATCGGGTATGCATAGTAGCCCGCACTTAGTACT
66 CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
** * *
121184769 ACACATGCGACCTAACAATCT
131 ACACACACGACCGAACAATCG
* *
121184790 GGTACACGTAGTAGCCTGTACTTAGTACTACACATGTG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
121184828 TTCTCACAAT
Statistics
Matches: 156, Mismatches: 32, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
151 119 0.76
152 37 0.24
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (151 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAAACTAGTACACATAGTAGC
CTGCACTTAATACTACACACATGACCGAAGCCATCGGATACACATAGTAGCCCGCACTTAGTACT
ACACACACGACCGAACAATCG
Found at i:121186845 original size:27 final size:27
Alignment explanation
Indices: 121186804--121186905 Score: 150
Period size: 27 Copynumber: 3.8 Consensus size: 27
121186794 AACACGCTAG
121186804 GAAAGGAATGCCTTTGTGGCAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
121186831 GAAAGGAATGACTTTGTGACAATATAT
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
121186858 GGAAGGAATGCCTTTGTGGCAATATAC
1 GAAAGGAATGCCTTTGTGGCAATATAT
* *
121186885 GAAATGAATGCCTTCGTGGCA
1 GAAAGGAATGCCTTTGTGGCA
121186906 GACTTTGAAG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (27 bp):
GAAAGGAATGCCTTTGTGGCAATATAT
Found at i:121192234 original size:41 final size:42
Alignment explanation
Indices: 121192156--121192234 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
121192146 AATACTCGAT
* *
121192156 ATCTCATACACTAAGTGCCAATACATAGTTGAAGCTATTATA
1 ATCTCACACACTAAGTGCCAATACATAGCTGAAGCTATTATA
*
121192198 ATCTCACACACTAAGTGCC-TTACATAGCTGAAGCTAT
1 ATCTCACACACTAAGTGCCAATACATAGCTGAAGCTAT
121192235 CTCGATCTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
41 16 0.47
42 18 0.53
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (42 bp):
ATCTCACACACTAAGTGCCAATACATAGCTGAAGCTATTATA
Found at i:121192243 original size:41 final size:42
Alignment explanation
Indices: 121192156--121192313 Score: 123
Period size: 41 Copynumber: 3.9 Consensus size: 42
121192146 AATACTCGAT
* * *
121192156 ATCTCATACACTAAGTGCCAATACATAGTTGAAGCTATTATA
1 ATCTCACACACTAAGTGCCAATACATAGCTGAAGCTATTACA
* *
121192198 ATCTCACACACTAAGTGCC-TTACATAGCTGAAGCTATCT-CG
1 ATCTCACACACTAAGTGCCAATACATAGCTGAAGCTAT-TACA
* * ** *
121192239 ATCTCGCGCACTAAGTGCC-ATGTATAG-TCGAAGCTATTCCGA
1 ATCTCACACACTAAGTGCCAATACATAGCT-GAAGCTATTAC-A
* * *
121192281 AT-T-GCACACTAAGTGCCAA-ATATAGCGGAAGCT
1 ATCTCACACACTAAGTGCCAATACATAGCTGAAGCT
121192314 TTCTTGAATC
Statistics
Matches: 96, Mismatches: 14, Indels: 14
0.77 0.11 0.11
Matches are distributed among these distances:
40 26 0.27
41 49 0.51
42 21 0.22
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
ATCTCACACACTAAGTGCCAATACATAGCTGAAGCTATTACA
Found at i:121192298 original size:40 final size:40
Alignment explanation
Indices: 121192204--121192344 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
121192194 TATAATCTCA
* * * * *
121192204 CACACTAAGTGCCTTACATAGCTGAAGCTATCTCGATCTCG
1 CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGA-ATCG
* * *
121192245 CGCACTAAGTGCCATGTATAGTC-GAAGCTATTC-CGAATTG
1 CACACTAAGTGCCATATATAG-CGGAAGCT-TTCTCGAATCG
* *
121192285 CACACTAAGTGCCAAATATAGCGGAAGCTTTCTTGAATCG
1 CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGAATCG
121192325 CACACTAAGTGCCATATATA
1 CACACTAAGTGCCATATATA
121192345 TATCCGAATA
Statistics
Matches: 83, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
39 4 0.05
40 50 0.60
41 26 0.31
42 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCGGAAGCTTTCTCGAATCG
Found at i:121209140 original size:43 final size:43
Alignment explanation
Indices: 121209091--121209212 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
121209081 AATTACCGAG
* *
121209091 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* * *
121209133 ATTGTGATTACGTGTAAGACCATGTCTGAGACGTGGGCATCGTT
1 A-TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
* * *
121209177 ATATGATTTCGTGTAAGACCATGTTTGGGACATTGG
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGG
121209213 TATCCATATG
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
42 1 0.01
43 64 0.96
44 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.34
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
Found at i:121212350 original size:46 final size:46
Alignment explanation
Indices: 121212300--121212475 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
121212290 TATTTGGGCA
121212300 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
121212346 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
121212391 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
121212439 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
121212476 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:121212455 original size:93 final size:93
Alignment explanation
Indices: 121212296--121212467 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
121212286 TGGATATTTG
* *
121212296 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
121212361 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
121212389 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
121212454 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
121212468 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:121215447 original size:15 final size:15
Alignment explanation
Indices: 121215427--121215495 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
121215417 GTATCTTGGG
121215427 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
121215442 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
121215457 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
121215472 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
121215487 TTTCTTTAT
1 TTTCTTTAT
121215496 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:121215496 original size:30 final size:30
Alignment explanation
Indices: 121215418--121215505 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
121215408 CATAGTATCG
* * * *
121215418 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
121215448 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
121215478 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
121215506 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:121218042 original size:93 final size:92
Alignment explanation
Indices: 121217884--121218055 Score: 308
Period size: 93 Copynumber: 1.9 Consensus size: 92
121217874 GGGATATTTG
* *
121217884 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
121217949 TGAGTCCGAGTTCGTGAGATGTAACTA
66 TGAGTCCGAGTTCGTGAGATGTAACTA
*
121217976 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
121218041 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
121218056 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 25 0.33
93 51 0.67
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:121218053 original size:46 final size:46
Alignment explanation
Indices: 121217889--121218062 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
121217879 ATTTGGGCAT
* *
121217889 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
121217934 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
121217979 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
121218027 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
121218063 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 23 0.21
46 41 0.38
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:121223626 original size:24 final size:24
Alignment explanation
Indices: 121223579--121223626 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
121223569 AGACCTGATT
*
121223579 AAATAATAACATTTTTATTAAAAA
1 AAATAATAACATTTTTAATAAAAA
*
121223603 AAATAATAACA-TTTTAATAGAAA
1 AAATAATAACATTTTTAATAAAAA
121223626 A
1 A
121223627 TACAACTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAATAACATTTTTAATAAAAA
Found at i:121223628 original size:21 final size:23
Alignment explanation
Indices: 121223579--121223626 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
121223569 AGACCTGATT
121223579 AAATAATAACATTTTTATTAAAAA
1 AAATAATAACATTTTTA-TAAAAA
* *
121223603 AAATAATAACATTTTAATAGAAA
1 AAATAATAACATTTTTATAAAAA
121223626 A
1 A
121223627 TACAACTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (23 bp):
AAATAATAACATTTTTATAAAAA
Found at i:121231530 original size:10 final size:11
Alignment explanation
Indices: 121231501--121231533 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
121231491 CATGATTATG
121231501 CAATGATTCGA
1 CAATGATTCGA
*
121231512 CAGTGATTCGA
1 CAATGATTCGA
121231523 -AATGATTCGA
1 CAATGATTCGA
121231533 C
1 C
121231534 TTGATTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (11 bp):
CAATGATTCGA
Found at i:121231718 original size:48 final size:47
Alignment explanation
Indices: 121231648--121231778 Score: 174
Period size: 47 Copynumber: 2.8 Consensus size: 47
121231638 GTGTGAGTTA
* ***
121231648 TACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TTTTGGAAAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAAA--AGT
* *
121231696 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAAAAGT
*
121231743 TACCTTGATTTGGCTACGTGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
121231779 TATCGATTGA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
47 37 0.50
48 32 0.43
49 5 0.07
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAAAAGT
Found at i:121242271 original size:15 final size:16
Alignment explanation
Indices: 121242242--121242271 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
121242232 GTTTTGGGTT
121242242 TTCTTTATGTTTTCTA
1 TTCTTTATGTTTTCTA
121242258 TTCTTTAT-TTTTCT
1 TTCTTTATGTTTTCT
121242272 GAGATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.73
Consensus pattern (16 bp):
TTCTTTATGTTTTCTA
Found at i:121245166 original size:30 final size:30
Alignment explanation
Indices: 121245130--121245230 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
121245120 GACAAGATTG
* * *
121245130 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
121245160 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
121245188 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
121245217 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
121245231 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:121245242 original size:29 final size:28
Alignment explanation
Indices: 121245159--121245234 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
121245149 AAAATTGTAC
* *
121245159 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
121245187 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
121245216 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
121245235 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:121252910 original size:30 final size:30
Alignment explanation
Indices: 121252874--121252974 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
121252864 GACAAGATTG
* * *
121252874 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
121252904 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
121252932 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
121252961 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
121252975 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:121252986 original size:29 final size:28
Alignment explanation
Indices: 121252903--121252978 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
121252893 AAAATTGTAC
* *
121252903 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
121252931 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
121252960 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
121252979 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:121261285 original size:15 final size:16
Alignment explanation
Indices: 121261256--121261285 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
121261246 GTTTTGGGTT
121261256 TTCTTTATGTTTTCTA
1 TTCTTTATGTTTTCTA
121261272 TTCTTTAT-TTTTCT
1 TTCTTTATGTTTTCT
121261286 GAGATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.73
Consensus pattern (16 bp):
TTCTTTATGTTTTCTA
Found at i:121261415 original size:14 final size:14
Alignment explanation
Indices: 121261396--121261434 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
121261386 ATATTTAACT
121261396 TGTTCTTAATTATG
1 TGTTCTTAATTATG
121261410 TGTTCTTAATTATG
1 TGTTCTTAATTATG
121261424 TGTTCTTAATT
1 TGTTCTTAATT
121261435 CTTGTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Done.