Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2057
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: 447875
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 3
Found at i:124803 original size:16 final size:16
Alignment explanation
Indices: 124782--124833 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
124772 TAAACTAGAT
* *
124782 TGACCCGTATCCGAAA
1 TGACCCGAACCCGAAA
124798 TGACCCGAACCCGAAA
1 TGACCCGAACCCGAAA
* *
124814 TGATCCGAACTCGAAA
1 TGACCCGAACCCGAAA
124830 TGAC
1 TGAC
124834 TTGAACCCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (16 bp):
TGACCCGAACCCGAAA
Found at i:124839 original size:16 final size:16
Alignment explanation
Indices: 124792--124841 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
124782 TGACCCGTAT
*
124792 CCGAAATGACCCGAAC
1 CCGAAATGACTCGAAC
124808 CCGAAATGA-TCCGAAC
1 CCGAAATGACT-CGAAC
* *
124824 TCGAAATGACTTGAAC
1 CCGAAATGACTCGAAC
124840 CC
1 CC
124842 AAAACGGCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 27 0.96
17 1 0.04
ACGTcount: A:0.36, C:0.32, G:0.18, T:0.14
Consensus pattern (16 bp):
CCGAAATGACTCGAAC
Found at i:125979 original size:16 final size:16
Alignment explanation
Indices: 125940--125980 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
125930 TTGAATTCGT
*
125940 GTCATTTCGGGTTCAG
1 GTCATTTTGGGTTCAG
*
125956 GTCATTTTGGGTTTAG
1 GTCATTTTGGGTTCAG
125972 GTCATTTTG
1 GTCATTTTG
125981 AATTCATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.12, C:0.12, G:0.29, T:0.46
Consensus pattern (16 bp):
GTCATTTTGGGTTCAG
Found at i:132039 original size:26 final size:27
Alignment explanation
Indices: 131996--132051 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
131986 ATGTTTAATT
*
131996 AAAATATTATTGAAATATA-AAAAATA
1 AAAATATTATTAAAATATAGAAAAATA
*
132022 AAAATATT-TTAAATATATAGAAAAGTA
1 AAAATATTATTAAA-ATATAGAAAAATA
132049 AAA
1 AAA
132052 GTAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 13 0.50
27 9 0.35
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAATATTATTAAAATATAGAAAAATA
Found at i:133762 original size:17 final size:17
Alignment explanation
Indices: 133740--133773 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
133730 GATAAAGTGT
133740 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
133757 TTGAAAAAAAAAAAAAA
1 TTGAAAAAAAAAAAAAA
133774 ATTTAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (17 bp):
TTGAAAAAAAAAAAAAA
Found at i:133803 original size:21 final size:21
Alignment explanation
Indices: 133779--133835 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
133769 AAAAAATTTA
133779 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
133800 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
133821 AATGTATCGATACAT
1 AATGTATCGATACAT
133836 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:133915 original size:19 final size:19
Alignment explanation
Indices: 133891--133958 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
133881 AATTCAACAA
133891 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
133910 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
133925 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
133942 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
133959 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:133930 original size:13 final size:13
Alignment explanation
Indices: 133912--133936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
133902 ACATAAGTTT
133912 TGTATCGATACAA
1 TGTATCGATACAA
133925 TGTATCGATACA
1 TGTATCGATACA
133937 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:133934 original size:32 final size:32
Alignment explanation
Indices: 133893--133955 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
133883 TTCAACAATT
*
133893 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
133925 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
133956 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:134016 original size:13 final size:13
Alignment explanation
Indices: 133998--134023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
133988 CATTTTTCTG
133998 TGTATCGATACAT
1 TGTATCGATACAT
134011 TGTATCGATACAT
1 TGTATCGATACAT
134024 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:134020 original size:33 final size:33
Alignment explanation
Indices: 133978--134044 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
133968 GCCAAGGAAA
***
133978 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
134011 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
134044 T
1 T
134045 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:136557 original size:28 final size:27
Alignment explanation
Indices: 136490--136562 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
136480 CTTCACAATC
* *
136490 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
136517 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
136545 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
136563 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:136607 original size:51 final size:51
Alignment explanation
Indices: 136545--136715 Score: 207
Period size: 51 Copynumber: 3.3 Consensus size: 51
136535 TTATTTCTGA
* *
136545 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
136596 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
136649 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
136701 GAGGATACTCCAACC
1 GGGGATACTCCAACC
136716 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 37 0.38
52 18 0.18
53 32 0.33
54 11 0.11
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:136707 original size:105 final size:105
Alignment explanation
Indices: 136376--136715 Score: 282
Period size: 105 Copynumber: 3.2 Consensus size: 105
136366 CTCAATTCTC
* * * * ** *
136376 CACAATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTT-T-CTATAATCGGGGA
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGA
*
136439 TACTCCAACTCCGATTTTATTTCCAAAAAAAACACCAATTTCTT
66 TACTCCAACTCCGATTTTATTTCC---AAAAATACCAATTT-TT
* * * ** * * * * * *
136483 CACAATCGGGGACACTCCAACCCC-G-TTAATCATCGGGGATACTCCAA---CCCCGTTATTTCT
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTC---AAAACACCAATTTCTCCTTTA-ATC-
* * * *
136543 GAGGGGATACTCCAACCCCGACTTTATTTTC-AAAATATCAATTTTT
61 --GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
* * *
136589 CATAATCGGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATCGGGGA
1 CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGA
*
136654 TACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTT
66 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
136694 CACAATCGAGGATACTCCAACC
1 CACAATCGAGGATACTCCAACC
136716 TCGTTATTTC
Statistics
Matches: 176, Mismatches: 42, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
104 25 0.14
105 45 0.26
106 24 0.14
107 37 0.21
108 19 0.11
111 26 0.15
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (105 bp):
CACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
Found at i:136734 original size:28 final size:28
Alignment explanation
Indices: 136698--136779 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
136688 ATTTTTCACA
*
136698 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
136726 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
136754 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
136780 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:140186 original size:21 final size:22
Alignment explanation
Indices: 140144--140186 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
140134 TAGTTTTCTA
140144 TTTTCTTCTCTATTTTTCCTCT
1 TTTTCTTCTCTATTTTTCCTCT
140166 TTTTCTT-TCT-TTTTTCTCTCT
1 TTTTCTTCTCTATTTTTC-CTCT
140187 AATTTTTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 7 0.35
22 7 0.35
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTCTTCTCTATTTTTCCTCT
Found at i:140755 original size:165 final size:165
Alignment explanation
Indices: 140550--141431 Score: 953
Period size: 165 Copynumber: 5.3 Consensus size: 165
140540 TGAAATAATT
* * * * * *
140550 TGAATTTTTTAAAAATGATATAATTTAAATTTAATAACAATATTAGATAAATTTTAAAAATTAAA
1 TGAA-TTTTTAAAAATGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
* * ** ** * *
140615 AACTAAGAAAAATCCCCCCAAAAACATTTATGGAATAAAAAACTCCGTATTTCGGAAATAGAAGA
65 AACCAAGAAAAATCTCCCTGAAAACATTTACAGAGTAAAAAACTCTGTATTTCGGAAATAGAAGA
*
140680 ATTTCAAGAAAAAAATGAAACATTCATAAAAATGAA
130 ATTTCAAGAAAAAAATGAAACATTCATGAAAATGAA
* * *
140716 TGAATTTTTGAAAATGATTTAATATGAATTAAATAACAATATTTGATGAATTTTAAAAATTAAAA
1 TGAATTTTTAAAAATGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAA
*
140781 ACCAAGAAAAATCTCCCTGAAAACATTTACAGAGTAAAAAACTCTGTATTTCAGAAA-ATG-AGA
66 ACCAAGAAAAATCTCCCTGAAAACATTTACAGAGTAAAAAACTCTGTATTTCGGAAATA-GAAG-
* * * **
140844 AATTTCGAAG-AAAAACTAAAAAATGAATGAAAATGAA
129 AATTTC-AAGAAAAAAATGAAACATTCATGAAAATGAA
* * * *
140881 TGAATTTTTGAAAACTGATTTACTATGAATTAAATGATAATATTTGATAAATTTTAAAATTTAAA
1 TGAATTTTT-AAAAATGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
* * * * *
140946 AACCAAGAAAAATCTCCTTGAAAACATTTACAGAGTAGAAAACTCTATATTTTGGAAACTAG-GG
65 AACCAAGAAAAATCTCCCTGAAAACATTTACAGAGTAAAAAACTCTGTATTTCGGAAA-TAGAAG
* * *
141010 AATTGT-AAGAGAAAATTGAAACATTCATGAAAATGAT
129 AATT-TCAAGAAAAAAATGAAACATTCATGAAAATGAA
*
141047 TGAATTTTTTAAAAATGATTTAATATGAATTAAATAATAATATTTAATAAATTTTAAAAATT-AA
1 TGAA-TTTTTAAAAATGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
* * * * * * *
141111 AACTAAGAAAAAT-TTCCTGAAAACATTTACAGAGTAGAAAACTCAGTATTTCGAAAACAGAAAA
65 AACCAAGAAAAATCTCCCTGAAAACATTTACAGAGTAAAAAACTCTGTATTTCGGAAATAGAAGA
* *
141175 ATTTTAAGGAAAAAAATGAAACACTCATGAAAATGAA
130 ATTTCAA-GAAAAAAATGAAACATTCATGAAAATGAA
* *
141212 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
1 TGAATTTTTAAAAA-TGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
* * * * **
141277 AACCAAGAAACATCTCCCCGAAAATATTTAC-GAAGTAAAAAACTCTATATTTCAAAAATAGAGA
65 AACCAAGAAAAATCTCCCTGAAAACATTTACAG-AGTAAAAAACTCTGTATTTCGGAAATAGA-A
* * * *
141341 GAA-TTCTAA-AAGAAAATCAATA-ACTCAT-AAAATAAAA
128 GAATTTC-AAGAAAAAAATGAA-ACATTCATGAAAAT-GAA
* * * * * *
141378 AGAATTTTTAAAACTGATTTAATGGTG-ATTAAATGATAATATTTAAAAAATTTT
1 TGAATTTTTAAAAATGATTTAAT-ATGAATTAAATAATAATATTTGATAAATTTT
141432 TATGCTTGAA
Statistics
Matches: 608, Mismatches: 87, Indels: 43
0.82 0.12 0.06
Matches are distributed among these distances:
163 3 0.00
164 57 0.09
165 266 0.44
166 227 0.37
167 49 0.08
168 6 0.01
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (165 bp):
TGAATTTTTAAAAATGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAAA
ACCAAGAAAAATCTCCCTGAAAACATTTACAGAGTAAAAAACTCTGTATTTCGGAAATAGAAGAA
TTTCAAGAAAAAAATGAAACATTCATGAAAATGAA
Found at i:141207 original size:331 final size:330
Alignment explanation
Indices: 140550--141431 Score: 1025
Period size: 331 Copynumber: 2.7 Consensus size: 330
140540 TGAAATAATT
* * * * *
140550 TGAATTTTTTAAAAA-TGATATAATTTAAATTTAATAACAATATTAGATAAATTTTAAAAATTAA
1 TGAA-TTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAA
* * * * * **
140614 AAACTAAGAAAAATCCCCCCAAAAACATTTATGGAATAAAAAACTCCGTATTTCGGAAATAGAAG
65 AAACCAAGAAAAATCTCCCCGAAAACATTTA-CGAGTAAAAAACTCTATATTTCGGAAATAGAAG
*
140679 AATTTCAAGAAAAAAATGAAACATTCATAAAAATGAATGAATTTTTGAAAATGATTTAATATGAA
129 AATTTCAAGAAAAAAATGAAACATTCATAAAAATGAATGAATTTTTAAAAATGATTTAATATGAA
* *
140744 TTAAATAACAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCCTGAAAACATTT
194 TTAAATAACAATATTTAATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCCTGAAAACATTT
* * * *
140809 ACAGAGTAAAAAACTCTGTATTTCAGAAAATGAGAAATTTCGAAGAAAAACTAAAAAATGAATGA
259 ACAGAGTAAAAAACTCAGTATTTCAGAAAAAGAAAAATTTCGAAGAAAAAATAAAAAATGAATGA
140874 AAATGAA
324 AAATGAA
* * * * *
140881 TGAATTTTTGAAAACTGATTTACTATGAATTAAATGATAATATTTGATAAATTTTAAAATTTAAA
1 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
** * * *
140946 AACCAAGAAAAATCTCCTTGAAAACATTTACAGAGTAGAAAACTCTATATTTTGGAAACTAG-GG
66 AACCAAGAAAAATCTCCCCGAAAACATTTAC-GAGTAAAAAACTCTATATTTCGGAAA-TAGAAG
* * * *
141010 AATTGT-AAGAGAAAATTGAAACATTCATGAAAATGATTGAATTTTTTAAAAATGATTTAATATG
129 AATT-TCAAGAAAAAAATGAAACATTCATAAAAATGAATGAA-TTTTTAAAAATGATTTAATATG
* * *
141074 AATTAAATAATAATATTTAATAAATTTTAAAAATT-AAAACTAAGAAAAAT-TTCCTGAAAACAT
192 AATTAAATAACAATATTTAATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCCTGAAAACAT
* * * *
141137 TTACAGAGTAGAAAACTCAGTATTTC-GAAAACAGAAAAATTT-TAAGGAAAAAAATGAAACACT
257 TTACAGAGTAAAAAACTCAGTATTTCAGAAAA-AGAAAAATTTCGAA-G-AAAAAAT-AAAAAAT
*
141200 -CATGAAAATGAA
318 GAATGAAAATGAA
*
141212 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
1 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
* * **
141277 AACCAAGAAACATCTCCCCGAAAATATTTACGAAGTAAAAAACTCTATATTTCAAAAATAGAGAG
66 AACCAAGAAAAATCTCCCCGAAAACATTTACG-AGTAAAAAACTCTATATTTCGGAAATAGA-AG
* * * * * * *
141342 AA-TTCTAA-AAGAAAATCAATA-ACTCAT-AAAATAAAAAGAATTTTTAAAACTGATTTAATGG
129 AATTTC-AAGAAAAAAATGAA-ACATTCATAAAAAT-GAATGAATTTTTAAAAATGATTTAAT-A
* * *
141403 TG-ATTAAATGATAATATTTAAAAAATTTT
190 TGAATTAAATAACAATATTTAATAAATTTT
141432 TATGCTTGAA
Statistics
Matches: 466, Mismatches: 68, Indels: 35
0.82 0.12 0.06
Matches are distributed among these distances:
329 7 0.02
330 107 0.23
331 284 0.61
332 68 0.15
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (330 bp):
TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
AACCAAGAAAAATCTCCCCGAAAACATTTACGAGTAAAAAACTCTATATTTCGGAAATAGAAGAA
TTTCAAGAAAAAAATGAAACATTCATAAAAATGAATGAATTTTTAAAAATGATTTAATATGAATT
AAATAACAATATTTAATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCCTGAAAACATTTAC
AGAGTAAAAAACTCAGTATTTCAGAAAAAGAAAAATTTCGAAGAAAAAATAAAAAATGAATGAAA
ATGAA
Found at i:144348 original size:29 final size:27
Alignment explanation
Indices: 144292--144366 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 27
144282 AATAATTAAA
144292 TTTAAAGAAAATAAATTATCAAATACT
1 TTTAAAGAAAATAAATTATCAAATACT
* *
144319 TTTAAAGAAATTGTAATTACTCAAATACT
1 TTTAAAGAAAAT-AAATTA-TCAAATACT
*
144348 TTTAATAAAATAATAAATT
1 TTTAA-AGAA-AATAAATT
144367 TTATTCTCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 11 0.28
28 5 0.13
29 14 0.36
30 7 0.18
31 2 0.05
ACGTcount: A:0.52, C:0.07, G:0.04, T:0.37
Consensus pattern (27 bp):
TTTAAAGAAAATAAATTATCAAATACT
Found at i:149015 original size:20 final size:20
Alignment explanation
Indices: 148990--149118 Score: 107
Period size: 20 Copynumber: 5.9 Consensus size: 20
148980 GAAAAAAGAC
148990 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
*
149010 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
149030 TA-CATTTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
149050 AAAATGTATCGATACATCTGGGTAAAAAAA
1 AGAATGTATCGATACAT-T--G-------A
149080 CAGAATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
149101 AGAATGTATCGATACATT
1 AGAATGTATCGATACATT
149119 TGGGTAAAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
19 1 0.01
20 65 0.73
21 3 0.03
23 1 0.01
28 1 0.01
30 2 0.02
31 16 0.18
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:149109 original size:91 final size:91
Alignment explanation
Indices: 148945--149118 Score: 296
Period size: 91 Copynumber: 1.9 Consensus size: 91
148935 TAACTAGATG
*
148945 TATCAATATATTGAAAAATATATCGATACATCTAGGAAAAAAGACAGAATGTATCGATACATTGA
1 TATCAATACATTGAAAAATATATCGATACATCTAGGAAAAAAGACAGAATGTATCGATACATTGA
149010 AGAATGTATCGATACATTCATACATT
66 AGAATGTATCGATACATTCATACATT
* * *
149036 TATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAA-ACAGAATGTATCGATACATTG
1 TATCAATACATTGAAAAATATATCGATACATCTAGG-AAAAAAGACAGAATGTATCGATACATTG
149100 AAGAATGTATCGATACATT
65 AAGAATGTATCGATACATT
149119 TGGGTAAAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
91 72 0.92
92 6 0.08
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (91 bp):
TATCAATACATTGAAAAATATATCGATACATCTAGGAAAAAAGACAGAATGTATCGATACATTGA
AGAATGTATCGATACATTCATACATT
Found at i:150041 original size:32 final size:32
Alignment explanation
Indices: 149940--150495 Score: 156
Period size: 28 Copynumber: 19.2 Consensus size: 32
149930 AAAGTGGTGA
* *
149940 TTTGAAAAGAGTTGCCACCGACTTGCGTGAGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* * ** *
149972 TTTGAAAAAAAGGTGCCACTAACTTGTGTGGGT
1 TTTG-AAAAGAGTTGCCACCGACTTGTGTGGGC
* *
150005 TTTGAAAAGAGTTACCACCGACTCGTGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* ** *
150037 TTTG-AAAGGGTATGCCATTGAC-T-TGTGGGT
1 TTTGAAAAGAGT-TGCCACCGACTTGTGTGGGC
* * ** *
150067 TTTGAAATG-G-TGTCACTAAC-T-TGTGAGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* **
150095 TTTGAAATGA-TT-CCACTAAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* *
150123 TTTG-AAAG-GATGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
** *
150151 TTTGAAAAGA--TGCCACTAAC-T-TGTGGGT
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* **
150179 TTTG-AAATAG-TGCCACTAAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* * **
150207 ATTG-AAAG-GATGCCATTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* **
150235 TTTG-AAATAG-TGCCACTAAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* **
150263 TTTGAAATGA--TGCCACTAAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* *
150291 TTTG-AAATAG-TGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* *
150319 TTTG-AAAG-GATGCCACTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* * *
150347 TTTG-AAAG-GATGCTACTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* *
150375 TTGGAAAAGA-TT-CCACTGAC-T-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* * *
150403 TTTGAAAAGCG-TGCCACCAAC-T-TGTGGAC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* * *
150432 TTTG-AAAG-GATGCCACTGAC-T-TGTAGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
* *
150460 TTTG-AAAG-GGTGCCACTGA-TT-TGTGGGC
1 TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
150488 TTTGAAAA
1 TTTGAAAA
150496 TGATGCCATG
Statistics
Matches: 438, Mismatches: 64, Indels: 47
0.80 0.12 0.09
Matches are distributed among these distances:
27 14 0.03
28 309 0.71
29 34 0.08
30 11 0.03
31 9 0.02
32 36 0.08
33 25 0.06
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.31
Consensus pattern (32 bp):
TTTGAAAAGAGTTGCCACCGACTTGTGTGGGC
Found at i:150098 original size:28 final size:28
Alignment explanation
Indices: 150030--150542 Score: 518
Period size: 28 Copynumber: 18.2 Consensus size: 28
150020 CACCGACTCG
* *
150030 TGTGGGCTTTGAAAGGGTATGCCATTGACT
1 TGTGGGCTTTGAAATGG--TGCCACTGACT
* * *
150060 TGTGGGTTTTGAAATGGTGTCACTAACT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
* * * *
150088 TGTGAGCTTTGAAATGATTCCACTAACT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
150116 TGTGGGCTTTGAAA-GGATGCCACTGACT
1 TGTGGGCTTTGAAATGG-TGCCACTGACT
* * *
150144 TGTGGGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
* * *
150172 TGTGGGTTTTGAAATAGTGCCACTAACT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
* *
150200 TGTGGGCATTGAAA-GGATGCCATTGACT
1 TGTGGGCTTTGAAATGG-TGCCACTGACT
* *
150228 TGTGGGCTTTGAAATAGTGCCACTAACT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
* *
150256 TGTGGGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
*
150284 TGTGGGCTTTGAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
150312 TGTGGGCTTTGAAA-GGATGCCACTGACT
1 TGTGGGCTTTGAAATGG-TGCCACTGACT
*
150340 TGTGGGCTTTGAAA-GGATGCTACTGACT
1 TGTGGGCTTTGAAATGG-TGCCACTGACT
* * * *
150368 TGTGGGCTTGGAAAAGATTCCACTGACT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
* **
150396 TGTGGGCTTTGAAAAGCGTGCCACCAACT
1 TGTGGGCTTTGAAATG-GTGCCACTGACT
*
150425 TGTGGACTTTGAAA-GGATGCCACTGACT
1 TGTGGGCTTTGAAATGG-TGCCACTGACT
* * *
150453 TGTAGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAATGGTGCCACTGACT
* *
150481 TGTGGGCTTTGAAAATGATGCCA-TGGAGT
1 TGTGGGCTTTG-AAATGGTGCCACT-GACT
* * * *
150510 TGTGGACTTT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAATGG-TGCCACTGACT
150538 TGTGG
1 TGTGG
150543 ACTTAAAAGG
Statistics
Matches: 411, Mismatches: 59, Indels: 28
0.83 0.12 0.06
Matches are distributed among these distances:
27 8 0.02
28 341 0.83
29 47 0.11
30 15 0.04
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAATGGTGCCACTGACT
Found at i:150127 original size:56 final size:56
Alignment explanation
Indices: 150030--150587 Score: 599
Period size: 56 Copynumber: 9.9 Consensus size: 56
150020 CACCGACTCG
* * *
150030 TGTGGGCTTTGAAAGGGTATGCCATTGACTTGTGGGTTTTGAAATGGTGTCACTAACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTAACT
* * * * *
150088 TGTGAGCTTTGAAATGATTCCACTAACTTGTGGGCTTTGAAA-GGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGG-TGCCACTAACT
* * * *
150144 TGTGGGCTTTGAAAAGATGCCACTAACTTGTGGGTTTTGAAATAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTAACT
* * *
150200 TGTGGGCATTGAAAGGATGCCATTGACTTGTGGGCTTTGAAATAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTAACT
* * * *
150256 TGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAATAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTAACT
* *
150312 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA-GGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGG-TGCCACTAACT
* * * * *
150368 TGTGGGCTTGGAAAAGATTCCACTGACTTGTGGGCTTTGAAAAGCGTGCCACCAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATG-GTGCCACTAACT
* * * * *
150425 TGTGGACTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTAACT
* * * * ** *
150481 TGTGGGCTTTGAAAATGATGCCA-TGGAGTTGTGGACTTT-AAAAGGATGCCACGGAGT
1 TGTGGGCTTTG-AAAGGATGCCACT-GACTTGTGGGCTTTGAAATGG-TGCCACTAACT
* * * *
150538 TGTGGAC-TTAAAAGGATGCCA-TGGAGTTGTGGACTTTGAAA-GGATGCCAC
1 TGTGGGCTTTGAAAGGATGCCACT-GACTTGTGGGCTTTGAAATGG-TGCCAC
150588 GAAGTTAAAA
Statistics
Matches: 437, Mismatches: 54, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
55 38 0.09
56 300 0.69
57 85 0.19
58 14 0.03
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (56 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAATGGTGCCACTAACT
Found at i:150155 original size:84 final size:84
Alignment explanation
Indices: 149979--150587 Score: 622
Period size: 84 Copynumber: 7.1 Consensus size: 84
149969 AGCTTTGAAA
* * * **
149979 AAAAGGTGCCACTAACTTGTGTGGGTTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAA
1 AAAAGGTGCCACTAAC-T-TGTGGGCTTTGAAATGA--TGCCACTAACT--TGTGGGCTTTGAAA
* *
150044 GGGTATGCCATTGACTTGTGGGTTTTG
60 -GG-ATGCCACTGACTTGTGGGCTTTG
* * * *
150071 AAATGGTGTCACTAACTTGTGAGCTTTGAAATGATTCCACTAACTTGTGGGCTTTGAAAGGATGC
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
150136 CACTGACTTGTGGGCTTTG
66 CACTGACTTGTGGGCTTTG
* * *
150155 AAAAGATGCCACTAACTTGTGGGTTTTGAAAT-AGTGCCACTAACTTGTGGGCATTGAAAGGATG
1 AAAAGGTGCCACTAACTTGTGGGCTTTGAAATGA-TGCCACTAACTTGTGGGCTTTGAAAGGATG
*
150219 CCATTGACTTGTGGGCTTTG
65 CCACTGACTTGTGGGCTTTG
*
150239 AAATA-GTGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAA-TAGT
1 AAA-AGGTGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAAGGA-T
150302 GCCACTGACTTGTGGGCTTTG
64 GCCACTGACTTGTGGGCTTTG
* * * * * * *
150323 -AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCTACTGACTTGTGGGCTTGGAAAAGATT
1 AAAAGG-TGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAAGGATG
150387 CCACTGACTTGTGGGCTTTG
65 CCACTGACTTGTGGGCTTTG
* * * * * *
150407 AAAAGCGTGCCACCAACTTGTGGACTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAAGGGTG
1 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAAGGATG
*
150472 CCACTGATTTGTGGGCTTTG
65 CCACTGACTTGTGGGCTTTG
* * * * * * ** * * *
150492 AAAATGATGCCA-TGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGAT
1 AAAA-GGTGCCACT-AACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAAGGAT
* *
150555 GCCA-TGGAGTTGTGGACTTTG
64 GCCACT-GACTTGTGGGCTTTG
150576 -AAAGGATGCCAC
1 AAAAGG-TGCCAC
150588 GAAGTTAAAA
Statistics
Matches: 449, Mismatches: 54, Indels: 36
0.83 0.10 0.07
Matches are distributed among these distances:
82 2 0.00
83 14 0.03
84 262 0.58
85 118 0.26
86 16 0.04
88 8 0.02
90 14 0.03
91 1 0.00
92 14 0.03
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (84 bp):
AAAAGGTGCCACTAACTTGTGGGCTTTGAAATGATGCCACTAACTTGTGGGCTTTGAAAGGATGC
CACTGACTTGTGGGCTTTG
Found at i:150556 original size:27 final size:28
Alignment explanation
Indices: 150301--150801 Score: 404
Period size: 28 Copynumber: 18.2 Consensus size: 28
150291 TTTGAAATAG
* * * *
150301 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
* * * *
150329 TGCCACTGACTTGTGGGCTTTGAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
* * * * *
150357 TGCTACTGACTTGTGGGCTTGGAAAA-GA
1 TGCCACGGAGTTGTGGACTT-TAAAAGGA
* * * *
150385 TTCCACTGACTTGTGGGCTTTGAAAAGCG-
1 TGCCACGGAGTTGTGGACTTT-AAAAG-GA
** * *
150414 TGCCACCAACTTGTGGACTTTGAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
* * * *
150442 TGCCACTGACTTGTAGG-CTTTGAAAGGG
1 TGCCACGGAGTTGT-GGACTTTAAAAGGA
* * * *
150470 TGCCACTGATTTGTGGGCTTTGAAAATGA
1 TGCCACGGAGTTGTGGACTTT-AAAAGGA
*
150499 TGCCATGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
150527 TGCCACGGAGTTGTGGAC-TTAAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
* *
150554 TGCCATGGAGTTGTGGACTTTGAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
*
150582 TGCCACGAAG-T-T--A----AAAATGG-
1 TGCCACGGAGTTGTGGACTTTAAAA-GGA
* *
150602 TGCCACGGTGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
*
150630 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
* * *
150658 TGTCACGAAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
* * * *
150685 TACTACGGAGTTGTGGAC-TTGAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
* *
150712 TGCCACGGAGTTGTGAACTTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
150740 TGCCACGGAGTTGTGGACTTTAAAA-GA
1 TGCCACGGAGTTGTGGACTTTAAAAGGA
* *
150767 TGCCACTGAGTTGTGGACTTAAAAAGGAA
1 TGCCACGGAGTTGTGGACTTTAAAAGG-A
150796 TGCCAC
1 TGCCAC
150802 TAAATCGTGG
Statistics
Matches: 403, Mismatches: 48, Indels: 43
0.82 0.10 0.09
Matches are distributed among these distances:
20 11 0.03
21 3 0.01
22 1 0.00
24 2 0.00
26 1 0.00
27 102 0.25
28 232 0.58
29 50 0.12
30 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (28 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGA
Found at i:150568 original size:55 final size:56
Alignment explanation
Indices: 150301--150801 Score: 367
Period size: 55 Copynumber: 9.1 Consensus size: 56
150291 TTTGAAATAG
* * * * * * *
150301 TGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT-GACTTGTGGGCTTTGAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCA-TGGAGTTGTGGACTTTAAAAGGA
* * * * * * * *
150357 TGCTACTGACTTGTGGGCTTGGAAAA-GATTCCACT-GACTTGTGGGCTTTGAAAAGCG-
1 TGCCACGGAGTTGTGGACTT-TAAAAGGATGCCA-TGGAGTTGTGGACTTT-AAAAG-GA
** * * * * *
150414 TGCCACCAACTTGTGGACTTTGAAAGGATGCCACT-GACTTGTAGG-CTTTGAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCA-TGGAGTTGT-GGACTTTAAAAGGA
* * * *
150470 TGCCACTGATTTGTGGGCTTTGAAAATGATGCCATGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTT-AAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGA
*
150527 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCATGGAGTTGTGGACTTTGAAAGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGA
* * * *
150582 TGCCACGAAG-T-T--A----AAAATGG-TGCCACGGTGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAA-GGATGCCATGGAGTTGTGGACTTTAAAAGGA
* * * * *
150630 TGCCACGGAGTTGTGGACTTTAAAAGGGTGTCACGAAGTTGTGGAC-TTAAAAGGG
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGA
* * * * * * *
150685 TACTACGGAGTTGTGGAC-TTGAAAGGGTGCCACGGAGTTGTGAACTTTAAAAGGT
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGA
*
150740 TGCCACGGAGTTGTGGACTTTAAAA-GATGCCACT-GAGTTGTGGACTTAAAAAGGAA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCA-TGGAGTTGTGGACTTTAAAAGG-A
150796 TGCCAC
1 TGCCAC
150802 TAAATCGTGG
Statistics
Matches: 371, Mismatches: 51, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
48 37 0.10
49 3 0.01
50 1 0.00
51 1 0.00
52 1 0.00
53 1 0.00
54 24 0.06
55 118 0.32
56 100 0.27
57 82 0.22
58 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (56 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGA
Found at i:150811 original size:29 final size:27
Alignment explanation
Indices: 150752--150815 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
150742 CCACGGAGTT
* * * *
150752 GTGGACTTTAAAAGATGCCACTGAGTT
1 GTGGACTTAAAAAGATGCCACTAAATC
150779 GTGGACTTAAAAAGGAATGCCACTAAATC
1 GTGGACTTAAAAA-G-ATGCCACTAAATC
150808 GTGGACTT
1 GTGGACTT
150816 TGAAGAGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 12 0.39
28 1 0.03
29 18 0.58
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.27
Consensus pattern (27 bp):
GTGGACTTAAAAAGATGCCACTAAATC
Found at i:152238 original size:19 final size:20
Alignment explanation
Indices: 152200--152240 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
152190 TTCCCTTTCC
152200 TTATTTTACTTTTGCATTTT
1 TTATTTTACTTTTGCATTTT
*
152220 TTATTTTTCTTTT-CATTTT
1 TTATTTTACTTTTGCATTTT
152239 TT
1 TT
152241 GTGCTTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (20 bp):
TTATTTTACTTTTGCATTTT
Found at i:159454 original size:13 final size:13
Alignment explanation
Indices: 159436--159461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
159426 AATTTTTTTG
159436 TGTATCGATACAT
1 TGTATCGATACAT
159449 TGTATCGATACAT
1 TGTATCGATACAT
159462 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:159556 original size:20 final size:20
Alignment explanation
Indices: 159510--159583 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
159500 GTCCCAATGA
***
159510 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
159531 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
*
159551 CATGTATCGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
159571 TATGTATCGATAC
1 CATGTATCGATAC
159584 TTTTAAGGGT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 15 0.33
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:161586 original size:21 final size:20
Alignment explanation
Indices: 161557--161599 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
161547 GACTAGTATG
* *
161557 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
161578 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
161598 GG
1 GG
161600 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:162049 original size:13 final size:13
Alignment explanation
Indices: 162031--162068 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
162021 ATAATCCCCC
162031 TGTATCGATACAG
1 TGTATCGATACAG
*
162044 TGTATCGATACAT
1 TGTATCGATACAG
162057 TGTATCGATACA
1 TGTATCGATACA
162069 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:164169 original size:15 final size:15
Alignment explanation
Indices: 164149--164179 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
164139 ATTTCGTTTG
*
164149 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
164164 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
164179 G
1 G
164180 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:166010 original size:21 final size:21
Alignment explanation
Indices: 165981--166025 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
165971 AAGTTTTTAT
*
165981 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
166001 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
166023 TTT
1 TTT
166026 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:168273 original size:13 final size:13
Alignment explanation
Indices: 168255--168280 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
168245 AATTTTTTTG
168255 TGTATCGATACAT
1 TGTATCGATACAT
168268 TGTATCGATACAT
1 TGTATCGATACAT
168281 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171709 original size:52 final size:52
Alignment explanation
Indices: 171620--171748 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
171610 CGAAATATGG
*
171620 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
* *
171672 ACATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
171724 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
171749 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGC
Found at i:171761 original size:52 final size:51
Alignment explanation
Indices: 171620--171768 Score: 219
Period size: 52 Copynumber: 2.9 Consensus size: 51
171610 CGAAATATGG
171620 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* * *
171672 ACATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
171724 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
171769 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:171775 original size:13 final size:13
Alignment explanation
Indices: 171757--171781 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171747 CAAAGATCAG
171757 TGTATCGATACAA
1 TGTATCGATACAA
171770 TGTATCGATACA
1 TGTATCGATACA
171782 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:171862 original size:13 final size:13
Alignment explanation
Indices: 171844--171868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
171834 CAAAAAAATA
171844 TGTATCGATACAT
1 TGTATCGATACAT
171857 TGTATCGATACA
1 TGTATCGATACA
171869 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:172911 original size:30 final size:31
Alignment explanation
Indices: 172842--172920 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 31
172832 ATATATTGAA
* *
172842 AAATGTATCGATACATTTGGAAAAAAAAGAT
1 AAATGTATCGATACATTAGGAAAAAAAACAT
*
172873 AGAATGTATCGATACATCTAGG-TAAAAAACAT
1 A-AATGTATCGATACAT-TAGGAAAAAAAACAT
*
172905 -AATGTATCCATACATT
1 AAATGTATCGATACATT
172921 TAAGAATGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 14 0.33
31 1 0.02
32 23 0.55
33 3 0.07
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (31 bp):
AAATGTATCGATACATTAGGAAAAAAAACAT
Found at i:172930 original size:20 final size:19
Alignment explanation
Indices: 172905--172981 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 19
172895 TAAAAAACAT
*
172905 AATGTATCCATACATTTAA
1 AATGTATCGATACATTTAA
* *
172924 GAATGTATCAATACATTCATA
1 -AATGTATCGATACATTTA-A
* * *
172945 CATGTATCGATAAATTGAAA
1 AATGTATCGATACATT-TAA
172965 AATGTATCGATACATTT
1 AATGTATCGATACATTT
172982 GGGTAAAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATTTAA
Found at i:172969 original size:40 final size:39
Alignment explanation
Indices: 172902--172980 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
172892 AGGTAAAAAA
* * *
172902 CATAATGTATCCATACATTTAAGAATGTATCAATACATT
1 CATAATGTATCCATAAATTGAAAAATGTATCAATACATT
* *
172941 CATACATGTATCGATAAATTGAAAAATGTATCGATACATT
1 CATA-ATGTATCCATAAATTGAAAAATGTATCAATACATT
172981 TGGGTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (39 bp):
CATAATGTATCCATAAATTGAAAAATGTATCAATACATT
Found at i:174847 original size:20 final size:21
Alignment explanation
Indices: 174807--174851 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
174797 TTCTACAATT
* *
174807 TGTATCGATGCAATAAGTGAA
1 TGTATCGATACAATAAATGAA
174828 TGTATCGATAC-ATAAATGAA
1 TGTATCGATACAATAAATGAA
174848 TGTA
1 TGTA
174852 GAGATACCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (21 bp):
TGTATCGATACAATAAATGAA
Found at i:174857 original size:20 final size:20
Alignment explanation
Indices: 174819--174858 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
174809 TATCGATGCA
* **
174819 ATAAGTGAATGTATCGATAC
1 ATAAATGAATGTAGAGATAC
174839 ATAAATGAATGTAGAGATAC
1 ATAAATGAATGTAGAGATAC
174859 CTGTTTGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.28
Consensus pattern (20 bp):
ATAAATGAATGTAGAGATAC
Found at i:176838 original size:97 final size:96
Alignment explanation
Indices: 176662--176891 Score: 257
Period size: 97 Copynumber: 2.4 Consensus size: 96
176652 ATACTCTAAC
** *
176662 CCTATTCTTCCGAGAGGATACTTTAACCCTGTTTTTAAACTTGTCAAGATTTAAATCTTATTTTT
1 CCTATTCTTCCGAGAGGATACTCCAACCCTGTTTTTAAACTTGTCAAGATTTAAATCTTATTTTC
* * *
176727 GTCTGAATTATTATCATCGAGGG-CACTCCAA
66 GCCAGAATTATTATCATCG-GGGACACTCAAA
* ** *
176758 CCTATTCTTCCAAGAGGATACTCCAACTTTTTTTTTTAAACTTGTCAAGATTTAAATCTTATTTT
1 CCTATTCTTCCGAGAGGATACTCCAAC-CCTGTTTTTAAACTTGTCAAGATTTAAATCTTATTTT
* * * *
176823 CGCCA-AGATTGTTATCGTTGGGGATACTCAAA
65 CGCCAGA-ATTATTATCATCGGGGACACTCAAA
* * *
176855 CCTCATTCCTCCGAGAAGATACTCCAACCCCGTTTTT
1 CCT-ATTCTTCCGAGAGGATACTCCAACCCTGTTTTT
176892 TAACCAAAAT
Statistics
Matches: 109, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
96 28 0.26
97 60 0.55
98 21 0.19
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (96 bp):
CCTATTCTTCCGAGAGGATACTCCAACCCTGTTTTTAAACTTGTCAAGATTTAAATCTTATTTTC
GCCAGAATTATTATCATCGGGGACACTCAAA
Found at i:179454 original size:13 final size:13
Alignment explanation
Indices: 179436--179460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179426 ATATTATATA
179436 GTATCGATACATT
1 GTATCGATACATT
179449 GTATCGATACAT
1 GTATCGATACAT
179461 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:179473 original size:20 final size:21
Alignment explanation
Indices: 179448--179500 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
179438 ATCGATACAT
**
179448 TGTATCGATACATGACCA-AA
1 TGTATCGATACATGAAAAGAA
*
179468 TGTATCGATACTTGAAAAGAA
1 TGTATCGATACATGAAAAGAA
179489 TGTATCGATACA
1 TGTATCGATACA
179501 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAGAA
Found at i:186251 original size:21 final size:20
Alignment explanation
Indices: 186207--186258 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
186197 CCCCTAGGCA
* *
186207 GCACCCACCAGGTCGCGACTG
1 GCACCC-CCAGGTCGCAACGG
186228 GCACCCCCAGGTCGCAACCGG
1 GCACCCCCAGGTCGCAA-CGG
186249 GCAGCCCCCA
1 GCA-CCCCCA
186259 CCCTAGCAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 10 0.37
21 11 0.41
22 6 0.22
ACGTcount: A:0.19, C:0.48, G:0.27, T:0.06
Consensus pattern (20 bp):
GCACCCCCAGGTCGCAACGG
Found at i:189122 original size:29 final size:29
Alignment explanation
Indices: 189075--189153 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
189065 TTATTTTATT
*
189075 TAAATAAATTTATATATTTTTA-TAATACA
1 TAAATAAATTT-TAAATTTTTATTAATACA
* **
189104 TAAATAAATTCTTAAA-TTTTATTTATATT
1 TAAATAAATT-TTAAATTTTTATTAATACA
*
189133 TAAATAAATTTTTAATTTTTA
1 TAAATAAATTTTAAATTTTTA
189154 ATTTATATAC
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 9 0.21
29 32 0.76
30 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (29 bp):
TAAATAAATTTTAAATTTTTATTAATACA
Found at i:189345 original size:51 final size:51
Alignment explanation
Indices: 189269--189368 Score: 191
Period size: 51 Copynumber: 2.0 Consensus size: 51
189259 CTATAATAGC
189269 GAAAGAGTCGAGGGATAATTTAGTAATTTAGAAGAAACCCTCTCAATTTGT
1 GAAAGAGTCGAGGGATAATTTAGTAATTTAGAAGAAACCCTCTCAATTTGT
*
189320 GAAAGAGTCGAGGGATATTTTAGTAATTTAGAAGAAACCCTCTCAATTT
1 GAAAGAGTCGAGGGATAATTTAGTAATTTAGAAGAAACCCTCTCAATTT
189369 CAATTGCGTG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (51 bp):
GAAAGAGTCGAGGGATAATTTAGTAATTTAGAAGAAACCCTCTCAATTTGT
Found at i:193019 original size:2 final size:2
Alignment explanation
Indices: 193012--193046 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
193002 CTTTTGCTGC
193012 AT AT AT AT 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 AT AT AT AT A
193047 GAGAGAGAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:193051 original size:2 final size:2
Alignment explanation
Indices: 193046--193075 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
193036 ATATATATAT
193046 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
193076 GATGGATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:193378 original size:2 final size:2
Alignment explanation
Indices: 193371--193430 Score: 97
Period size: 2 Copynumber: 30.5 Consensus size: 2
193361 AAACGAAGAA
193371 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
193412 AT AT CAT AT -T AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT A
193431 AGCCTTTGGT
Statistics
Matches: 55, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.04
2 51 0.93
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:194619 original size:16 final size:16
Alignment explanation
Indices: 194598--194665 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
194588 TAAACCTGAT
*
194598 TGACCCGAATCCGAAA
1 TGACCCGAACCCGAAA
*
194614 TGACCCGAACCCGAAG
1 TGACCCGAACCCGAAA
* *
194630 TGATCTGAACCC-ATAA
1 TGACCCGAACCCGA-AA
** *
194646 TGACCTAAACCCAAAA
1 TGACCCGAACCCGAAA
194662 TGAC
1 TGAC
194666 TTAAATCCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
15 1 0.02
16 41 0.95
17 1 0.02
ACGTcount: A:0.38, C:0.31, G:0.16, T:0.15
Consensus pattern (16 bp):
TGACCCGAACCCGAAA
Found at i:194680 original size:17 final size:16
Alignment explanation
Indices: 194637--194687 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
194627 AAGTGATCTG
*
194637 AACCCATAATGACCTA
1 AACCCAAAATGACCTA
*
194653 AACCCAAAATGACTTA
1 AACCCAAAATGACCTA
* *
194669 AATCCGAAAATGAACTA
1 AA-CCCAAAATGACCTA
194686 AA
1 AA
194688 AATTTTAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.51, C:0.24, G:0.08, T:0.18
Consensus pattern (16 bp):
AACCCAAAATGACCTA
Found at i:195733 original size:19 final size:20
Alignment explanation
Indices: 195690--195740 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
195680 TACAAGCCAA
*
195690 TGTATCGATACATTTTATGG
1 TGTATCGATACATCTTATGG
195710 TGTATCGATACATACTT-T-G
1 TGTATCGATACAT-CTTATGG
195729 TGTATCGATACA
1 TGTATCGATACA
195741 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.45
20 14 0.48
21 2 0.07
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATCTTATGG
Found at i:197814 original size:21 final size:20
Alignment explanation
Indices: 197785--197827 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
197775 GGCTAGTGTG
* *
197785 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
197806 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
197826 GG
1 GG
197828 TGGGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:198305 original size:13 final size:13
Alignment explanation
Indices: 198267--198305 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
198257 ATAATCCCCC
*
198267 TGTATCGATACAC
1 TGTATCGATACAA
198280 TGTATCGATACAA
1 TGTATCGATACAA
198293 TGTATCGATACAA
1 TGTATCGATACAA
198306 AGAATACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:198401 original size:36 final size:36
Alignment explanation
Indices: 198354--198425 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
198344 CGATACATAG
198354 AAACATGTATCGATACATTTTGGAAATTTTCAATTT
1 AAACATGTATCGATACATTTTGGAAATTTTCAATTT
198390 AAACATGTATCGATACATTTTGGAAATTTTCAATTT
1 AAACATGTATCGATACATTTTGGAAATTTTCAATTT
198426 TTGGCCCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (36 bp):
AAACATGTATCGATACATTTTGGAAATTTTCAATTT
Found at i:200435 original size:15 final size:15
Alignment explanation
Indices: 200415--200445 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
200405 ATTTCGTTTG
*
200415 GAGCTTCTTCAATTT
1 GAGCTTCCTCAATTT
200430 GAGCTTCCTCAATTT
1 GAGCTTCCTCAATTT
200445 G
1 G
200446 GATATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.16, T:0.42
Consensus pattern (15 bp):
GAGCTTCCTCAATTT
Found at i:204549 original size:13 final size:13
Alignment explanation
Indices: 204531--204555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
204521 CATTTTATGG
204531 TGTATCGATACAA
1 TGTATCGATACAA
204544 TGTATCGATACA
1 TGTATCGATACA
204556 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:204571 original size:32 final size:33
Alignment explanation
Indices: 204508--204574 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
204498 CGTTACAAGC
* *
204508 CAATGTATTGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATCTTATGGTGTATCGATA
204541 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGTATCGATACAT-CTTATGGTGTATCGATA
204573 CA
1 CA
204575 TGTTTGGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 13 0.42
33 16 0.52
34 2 0.06
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (33 bp):
CAATGTATCGATACATCTTATGGTGTATCGATA
Found at i:205639 original size:12 final size:12
Alignment explanation
Indices: 205624--205662 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
205614 AAAATTTTAA
205624 ACTATATTTTTT
1 ACTATATTTTTT
205636 ACTATATTTTTT
1 ACTATATTTTTT
*
205648 AAATATACTTTTTT
1 -ACTATA-TTTTTT
205662 A
1 A
205663 ACTCAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 12 0.50
13 6 0.25
14 6 0.25
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
ACTATATTTTTT
Found at i:205646 original size:13 final size:13
Alignment explanation
Indices: 205618--205674 Score: 64
Period size: 13 Copynumber: 4.4 Consensus size: 13
205608 ATTTAAAAAA
*
205618 TTTTAAACTATAT
1 TTTTTAACTATAT
205631 TTTTT-ACTATAT
1 TTTTTAACTATAT
*
205643 TTTTTAAATATACT
1 TTTTTAACTATA-T
205657 TTTTTAACTCA-AT
1 TTTTTAACT-ATAT
205670 TTTTT
1 TTTTT
205675 TAATAATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
12 12 0.32
13 15 0.39
14 10 0.26
15 1 0.03
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTTAACTATAT
Found at i:205659 original size:14 final size:13
Alignment explanation
Indices: 205618--205663 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
205608 ATTTAAAAAA
205618 TTTTAAACTATATT
1 TTTTAAA-TATATT
*
205632 TTTT-ACTATATT
1 TTTTAAATATATT
205644 TTTTAAATATACTT
1 TTTTAAATATA-TT
205658 TTTTAA
1 TTTTAA
205664 CTCAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 10 0.36
13 6 0.21
14 12 0.43
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTTAAATATATT
Found at i:205671 original size:27 final size:25
Alignment explanation
Indices: 205618--205679 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
205608 ATTTAAAAAA
205618 TTTTAAACTATATTTTTTACTATATT
1 TTTTAAA-TATATTTTTTACTATATT
205644 TTTTAAATATACTTTTTTAACTCA-ATT
1 TTTTAAATATA-TTTTTT-ACT-ATATT
*
205671 TTTTTAATA
1 TTTTAAATA
205680 ATAATACTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 4 0.12
26 13 0.41
27 14 0.44
28 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTAAATATATTTTTTACTATATT
Found at i:206222 original size:17 final size:18
Alignment explanation
Indices: 206200--206240 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
206190 TGAAAATTTA
206200 TAAAAAAATC-AATTTTC
1 TAAAAAAATCAAATTTTC
*
206217 TAAAAATATCAGAATTTTC
1 TAAAAAAATCA-AATTTTC
206236 -AAAAA
1 TAAAAA
206241 TAAAAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 9 0.43
18 5 0.24
19 7 0.33
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAAAAAATCAAATTTTC
Found at i:206829 original size:15 final size:15
Alignment explanation
Indices: 206803--206862 Score: 59
Period size: 16 Copynumber: 3.9 Consensus size: 15
206793 CATGAGTGTT
206803 AAATTC-AAATGATC
1 AAATTCGAAATGATC
*
206817 CAATTCGAAATGACTC
1 AAATTCGAAATGA-TC
*
206833 AAATTAGAAATGAATC
1 AAATTCGAAATG-ATC
* *
206849 GAATCCGAAATGAT
1 AAATTCGAAATGAT
206863 TTGAATTAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 23 0.62
17 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (15 bp):
AAATTCGAAATGATC
Found at i:207867 original size:20 final size:20
Alignment explanation
Indices: 207842--207895 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
207832 GTTTGGGACA
207842 ATGTATCGATACAAT-T-CTTC
1 ATGTATCGATACAATGTGC--C
207862 ATGTATCGATACAATGTGCC
1 ATGTATCGATACAATGTGCC
207882 ATGTATCGATACAA
1 ATGTATCGATACAA
207896 ATAGTGGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACAATGTGCC
Found at i:207968 original size:19 final size:18
Alignment explanation
Indices: 207923--207980 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 18
207913 ACTGTCAGTT
207923 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
207942 TGCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
207961 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
207980 T
1 T
207981 ATGGATACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 16 0.43
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:208836 original size:13 final size:13
Alignment explanation
Indices: 208818--208842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
208808 ATGTTGCACA
208818 GTATCGATACATT
1 GTATCGATACATT
208831 GTATCGATACAT
1 GTATCGATACAT
208843 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:208855 original size:20 final size:21
Alignment explanation
Indices: 208830--208882 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
208820 ATCGATACAT
*
208830 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
208850 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
208871 TGTATCGATACA
1 TGTATCGATACA
208883 GGTTATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:208946 original size:19 final size:20
Alignment explanation
Indices: 208922--208975 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
208912 CCCTTAACTG
208922 TTTGTATCGATACA-CACAA
1 TTTGTATCGATACATCACAA
*
208941 TTTGTATCGATACATCCCAA
1 TTTGTATCGATACATCACAA
**
208961 AATGTATCGATACAT
1 TTTGTATCGATACAT
208976 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 14 0.45
20 17 0.55
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (20 bp):
TTTGTATCGATACATCACAA
Found at i:210564 original size:3 final size:3
Alignment explanation
Indices: 210548--210587 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
210538 AACCATCAAG
* *
210548 GAT GAT GAA AAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
210588 GTGACTCAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:210797 original size:24 final size:25
Alignment explanation
Indices: 210762--210808 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
210752 TTTGATTGTC
*
210762 CAAACTTAAAGAAGAAAGGCATGAG
1 CAAACTTAAAGAAGAAAGCCATGAG
210787 CAAAC-TAAAGAAGAAAGCCATG
1 CAAACTTAAAGAAGAAAGCCATG
210809 GTAGCCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.53, C:0.15, G:0.21, T:0.11
Consensus pattern (25 bp):
CAAACTTAAAGAAGAAAGCCATGAG
Found at i:211034 original size:16 final size:15
Alignment explanation
Indices: 211013--211045 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
211003 AGAAGATAAT
211013 AAATTGAAAATTATTG
1 AAATTGAAAATT-TTG
211029 AAATTGAAAATTTTG
1 AAATTGAAAATTTTG
211044 AA
1 AA
211046 CAAAAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (15 bp):
AAATTGAAAATTTTG
Found at i:214926 original size:8 final size:8
Alignment explanation
Indices: 214913--214938 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
214903 ATTTGATTAA
214913 ATTTTGTG
1 ATTTTGTG
214921 ATTTTGTG
1 ATTTTGTG
214929 ATTTTGTG
1 ATTTTGTG
214937 AT
1 AT
214939 GATTGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:215159 original size:13 final size:13
Alignment explanation
Indices: 215140--215178 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
215130 ATAGCATTCT
215140 CTGTATCGATACA
1 CTGTATCGATACA
*
215153 TTGTATCGATACA
1 CTGTATCGATACA
215166 CTGTATCGATACA
1 CTGTATCGATACA
215179 AAGGGTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:217432 original size:13 final size:13
Alignment explanation
Indices: 217414--217438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
217404 ATGTTGCACA
217414 GTATCGATACATT
1 GTATCGATACATT
217427 GTATCGATACAT
1 GTATCGATACAT
217439 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:217582 original size:33 final size:32
Alignment explanation
Indices: 217523--217586 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
217513 TAACTGTTTG
**
217523 TATCGATACACACAATTTGTATCGATACATTA
1 TATCGATACACACAAAATGTATCGATACATTA
*
217555 TATCGATACATCCCAAAATGTATCGATACATT
1 TATCGATACA-CACAAAATGTATCGATACATT
217587 GGCTTGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (32 bp):
TATCGATACACACAAAATGTATCGATACATTA
Found at i:221432 original size:16 final size:16
Alignment explanation
Indices: 221413--221464 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
221403 AATTCATGTT
*
221413 ATTTCGGGTTCAAGTC
1 ATTTCGGGTTCAGGTC
*
221429 ATTTCGGGTTTAGGTC
1 ATTTCGGGTTCAGGTC
**
221445 ATTTCGAATTCAGGTC
1 ATTTCGGGTTCAGGTC
221461 ATTT
1 ATTT
221465 TGATTTTGGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.19, C:0.15, G:0.23, T:0.42
Consensus pattern (16 bp):
ATTTCGGGTTCAGGTC
Found at i:221840 original size:26 final size:27
Alignment explanation
Indices: 221810--221862 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
221800 ATATTTAGTT
*
221810 AAAATATTATTGAA-ATATA-AAAAATA
1 AAAATATT-TTAAATATATAGAAAAATA
*
221836 AAAATCTTTTAAATATATAGAAAAATA
1 AAAATATTTTAAATATATAGAAAAATA
221863 GAAGTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 7 0.30
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAATATTTTAAATATATAGAAAAATA
Found at i:228392 original size:78 final size:79
Alignment explanation
Indices: 228166--228609 Score: 420
Period size: 79 Copynumber: 5.7 Consensus size: 79
228156 TGGAGGATAC
* * *
228166 TATTTCCAAAATATTAAAATTCTCATC-TCGGGGATACTTCAACCCCATTATTTTCGAGGGGATA
1 TATTTCCAAAATATTAAATTTTTCATCTTC-GGGATACTCCAACCCCATTATTTTCGAGGGGATA
228230 CT-TCAACCCTGTTTT
65 CTCT-AACCCTGTTTT
* * * * * * * * *
228245 TATTTCCAAAATATTAAAATTTTCATCTTGGGGATATTCCAACCCTATCAATTCCGAGGAGATAT
1 TATTTCCAAAATATTAAATTTTTCATCTTCGGGATACTCCAACCCCATTATTTTCGAGGGGATAC
*
228310 TCTAACCCTGCTTT
66 TCTAACCCTGTTTT
** * * *
228324 TATTTCCAAAATGCTAAATTTTTCATC-TCGGGATACTCCAATCCCATTAATTCCGAGGGGATAC
1 TATTTCCAAAATATTAAATTTTTCATCTTCGGGATACTCCAACCCCATTATTTTCGAGGGGATAC
**
228388 TCTAACCCCATTTT
66 TCTAACCCTGTTTT
* * * * *
228402 TATTTCCAAAATATTAAATTTTTC-TC--AGGGGTACTCTAACCCCATTATTTTTGAAGGGATAC
1 TATTTCCAAAATATTAAATTTTTCATCTTCGGGATACTCCAACCCCATTATTTTCGAGGGGATAC
* *
228464 TCTAGCCATGTTTT
66 TCTAACCCTGTTTT
** * * * * *
228478 TATTTCCAAAA-ATATCGATTTTTCATCTTGGGGATACTCTAATCCCGTTATTTTTGAGGGGATA
1 TATTTCCAAAATAT-TAAATTTTTCATCTTCGGGATACTCCAACCCCATTATTTTCGAGGGGATA
**
228542 C-CTTAACCCCATTTT
65 CTC-TAACCCTGTTTT
** * * *
228557 TATTTAAAAAATATTAAATTTTTCATCTTCAGGATACTCTAACCCTA-TATTTT
1 TATTTCCAAAATATTAAATTTTTCATCTTCGGGATACTCCAACCCCATTATTTT
228610 AAAGGAACAC
Statistics
Matches: 299, Mismatches: 58, Indels: 17
0.80 0.16 0.05
Matches are distributed among these distances:
75 2 0.01
76 57 0.19
77 4 0.01
78 70 0.23
79 162 0.54
80 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (79 bp):
TATTTCCAAAATATTAAATTTTTCATCTTCGGGATACTCCAACCCCATTATTTTCGAGGGGATAC
TCTAACCCTGTTTT
Found at i:229942 original size:10 final size:11
Alignment explanation
Indices: 229918--229969 Score: 54
Period size: 12 Copynumber: 4.7 Consensus size: 11
229908 TAGCTAGTTT
229918 TCTATTTTCTTC
1 TCTATTTTC-TC
229930 TCTATTTTC-C
1 TCTATTTTCTC
*
229940 TCT-TTTTCTT
1 TCTATTTTCTC
*
229950 TCTTTTTTCTC
1 TCTATTTTCTC
229961 TCTAATTTT
1 TCT-ATTTT
229970 TCCTACCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 5 0.15
10 7 0.21
11 9 0.26
12 13 0.38
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (11 bp):
TCTATTTTCTC
Found at i:229947 original size:21 final size:21
Alignment explanation
Indices: 229922--229963 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
229912 TAGTTTTCTA
229922 TTTTCTTCTCTATTTTC-CTCT
1 TTTTCTT-TCTATTTTCTCTCT
*
229943 TTTTCTTTCTTTTTTCTCTCT
1 TTTTCTTTCTATTTTCTCTCT
229964 AATTTTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTCTTTCTATTTTCTCTCT
Found at i:231162 original size:167 final size:163
Alignment explanation
Indices: 230325--231330 Score: 899
Period size: 167 Copynumber: 6.1 Consensus size: 163
230315 TGAAATAATT
* * * * * *
230325 TGAATTTTTCAAAAA-TGATTTAATTTGAATTTAATAACAATATTAGATGAATTTTAAAAATTAA
1 TGAATTTTT-AAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAA
** * * * ** **
230389 AAACCAAGAAAAATCT-CTCCAAAAAATTTTATAGAATAGAAAACTCTGTATTTTGAAAATAGGA
65 AAACCAAGAAAAATCTCCTTGAAAACA-TTTACAGAGTAGAAAACTCCATATTTCAAAAATAGGA
* * * *
230453 GAATTGCGAGAAAAAAATGAAAAATTTATAAAAATGAA
129 -AATTTC-A-AGAAAAATGAAAAATTCATGAAAATGAA
* * * * * *
230491 TGAATTTCT---GACAGATTTAATACAAGTTAAATAATAATAATATTTGATGAATTTTAAAAATT
1 TGAATTTTTAAAAACTGATTTAATATAAATT--A-AATAATAATATTTGATAAATTTTAAAAATT
* * ** * * *
230553 AAAAACCAAAAAAAATCCTAC-TGAAAACATTTATGGAGGAGAAAACTCTATATTTCGAAAACTA
63 AAAAACCAAGAAAAAT-CTCCTTGAAAACATTTACAGAGTAGAAAACTCCATATTTC-AAAAATA
* *
230617 AG-AATTTCAAGAAAAAATG---AA--C--GAACATGAA
126 GGAAATTTCAAG-AAAAATGAAAAATTCATGAAAATGAA
* * * *
230648 TGAATTTTTAAAAACTTATTTATTACAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
1 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
* * * * *
230713 AACCAAGAAAAATCCCCTCT-AAAACATTTACGGAGTAGAAAACTCCGTATTTTAGAAATAGAGA
66 AACCAAGAAAAATCTCCT-TGAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATAG-GA
* *
230777 AA-TT-AAAAAAAATGAAAAACTCATGAAAATGAA
129 AATTTCAAGAAAAATGAAAAATTCATGAAAATGAA
* * *
230810 TGAATTTTTTAAAACTGACTTAATATGAATTAAATAATAATATTTGATAAA-TTTAAAAATTAAA
1 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
* * * * *** *
230874 AACTAAGAAAAATC-CCTTTGAAAACATTTACAGAGTATAAAACTTCGTATTTTGGAAACAGGAA
66 AACCAAGAAAAATCTCC-TTGAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATAGG-A
*
230938 AATTTCAAAGAAAAATGAAAAACTT-ATGAAAATAAA
129 AATTTC-AAGAAAAATGAAAAA-TTCATGAAAATGAA
* *
230974 TGAATTTTTAAAAATTGATTTAATATGAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
1 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
* * **
231039 AACCAAGAAAAATCTCCTTGAAAATATTTATAGAGTAGAAAACTATATATTTCAAAAACTAGGAA
66 AACCAAGAAAAATCTCCTTGAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAA-TAGGAA
231104 ATTTCAAGGAACAAATTGAAAAATTCATGAAAATGAA
130 ATTTCAA-GAA-AAA-TGAAAAATTCATGAAAATGAA
* * *
231141 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTAATGAATTTTAAAAATTAAT
1 TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
** * *
231206 AATTAAGAAAAATCCTCC-CGAAAATATTTAC-GAAGTAGAAAACTCCATATTTCAAAAATAGGG
66 AACCAAGAAAAAT-CTCCTTGAAAACATTTACAG-AGTAGAAAACTCCATATTTCAAAAATA-GG
* * * * *
231269 AGAA-TTCTAAAAGAAAATCAATAACTCAT-AAAATAAAA
128 A-AATTTC-AAGA-AAAATGAAAAATTCATGAAAAT-GAA
* *
231307 AGAATTTTTCAAAACTGATTTAAT
1 TGAATTTTTAAAAACTGATTTAAT
231331 GGTGATTAAA
Statistics
Matches: 702, Mismatches: 95, Indels: 86
0.80 0.11 0.10
Matches are distributed among these distances:
155 7 0.01
156 9 0.01
157 91 0.13
158 6 0.01
160 19 0.03
161 68 0.10
162 55 0.08
163 12 0.02
164 82 0.12
165 79 0.11
166 119 0.17
167 145 0.21
168 10 0.01
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (163 bp):
TGAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTGATAAATTTTAAAAATTAAA
AACCAAGAAAAATCTCCTTGAAAACATTTACAGAGTAGAAAACTCCATATTTCAAAAATAGGAAA
TTTCAAGAAAAATGAAAAATTCATGAAAATGAA
Found at i:232088 original size:167 final size:163
Alignment explanation
Indices: 231488--232181 Score: 748
Period size: 167 Copynumber: 4.3 Consensus size: 163
231478 AAAATCCCAC
* * * *
231488 TGAAAACATTTACAGAGGAGAAAACTTTGTATTTCGAAAACTAAG-AATTTCAAGAAAAAATG--
1 TGAAAACATTTACAGAGTAGAAAACTATATATTTCGAAAACTAGGAAATTTCAAG-AAAAATGAA
* * * *
231550 --A--ACGAACATGAATGAATTTTTAAAAACTTATTTAATACAAATTAAATAATAATATTTGATG
65 AAATTATGAAAATAAATGAATTTTTAAAAACTTATTTAATATAAATTAAATAATAATATTTGATG
*
231611 AATTTTAAAAATTAAAAACCAAGAAAAATCCCCT
130 AATTTTAAAAATTAAAAACCAAGAAAAATCTCCT
* * * * *
231645 CT-AAAACATTTACGGAGTAGAAAACTCCGTAT-TTTAG-AAA-TAGAGAAA-TTAAAAAAAAAT
1 -TGAAAACATTTACAGAGTAGAAAACT--ATATATTTCGAAAACTAG-GAAATTTCAAGAAAAAT
* * * * *
231705 GAAAAATGAATGAAAATGAATGAATTTTTTAAAACTGACTTT-A-ATGAATTAAATAATAATATT
62 GAAAAAT-TATGAAAATAAATGAATTTTTAAAAACTTA-TTTAATATAAATTAAATAATAATATT
*
231768 TGATGAA-TTTAAAAATTAAAAACTAAGAAAAAT-TCCTT
125 TGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCC-T
* * *
231806 TGAAAACATTTACAGAGTAGAAAACTTTGTATTT-TAGAAAC-AGGAAAATTTCAAAGAAAAATG
1 TGAAAACATTTACAGAGTAGAAAACTATATATTTCGA-AAACTAGG-AAATTTC-AAGAAAAATG
* *
231869 AAAAACTTATGAAAATAAATGAATTTTTATAAA-TTGATTTAATATGAATTAAATAATAATATTT
63 AAAAA-TTATGAAAATAAATGAATTTTTAAAAACTT-ATTTAATATAAATTAAATAATAATATTT
*
231933 GATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCT
126 GATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCCT
* *
231971 TGAAAATATTTATAGAGTAGAAAACTATATATTTCGAAAACTAGGAAATTTCAAGGAACAAATTG
1 TGAAAACATTTACAGAGTAGAAAACTATATATTTCGAAAACTAGGAAATTTCAA-GAA-AAA-TG
232036 AAAAATTCATGAAAATAAATGAATTTTTAAAAACTTATTTAATATAAATTAAATAATAATATTTG
63 AAAAATT-ATGAAAATAAATGAATTTTTAAAAACTTATTTAATATAAATTAAATAATAATATTTG
* *
232101 ATGAATTTTAAAAATTAATAATCAAGAAAAATCCTCC-
127 ATGAATTTTAAAAATTAAAAACCAAGAAAAAT-CTCCT
* * ** *
232138 CGAAAATATTTAC-GAAGTAGAAAACTCCATATTTC-AAAAATAGG
1 TGAAAACATTTACAG-AGTAGAAAACTATATATTTCGAAAACTAGG
232182 GAGAATTCTA
Statistics
Matches: 456, Mismatches: 44, Indels: 64
0.81 0.08 0.11
Matches are distributed among these distances:
156 9 0.02
157 30 0.07
158 7 0.02
159 4 0.01
160 8 0.02
161 57 0.12
162 31 0.07
163 64 0.14
164 32 0.07
165 70 0.15
166 21 0.05
167 117 0.26
168 6 0.01
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (163 bp):
TGAAAACATTTACAGAGTAGAAAACTATATATTTCGAAAACTAGGAAATTTCAAGAAAAATGAAA
AATTATGAAAATAAATGAATTTTTAAAAACTTATTTAATATAAATTAAATAATAATATTTGATGA
ATTTTAAAAATTAAAAACCAAGAAAAATCTCCT
Found at i:232333 original size:914 final size:914
Alignment explanation
Indices: 230559--232390 Score: 3452
Period size: 914 Copynumber: 2.0 Consensus size: 914
230549 AATTAAAAAC
* **
230559 CAAAAAAAATCCTACTGAAAACATTTATGGAGGAGAAAACTCTATATTTCGAAAACTAAGAATTT
1 CAAAAAAAATCCCACTGAAAACATTTACAGAGGAGAAAACTCTATATTTCGAAAACTAAGAATTT
*
230624 CAAGAAAAAATGAACGAACATGAATGAATTTTTAAAAACTTATTTATTACAAATTAAATAATAAT
66 CAAGAAAAAATGAACGAACATGAATGAATTTTTAAAAACTTATTTAATACAAATTAAATAATAAT
230689 ATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCTAAAACATTTACGGAGTAGAAA
131 ATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCTAAAACATTTACGGAGTAGAAA
*
230754 ACTCCGTATTTTAGAAATAGAGAAATTAAAAAAAATGAAAAACTCATGAAAATGAATGAATTTTT
196 ACTCCGTATTTTAGAAATAGAGAAATTAAAAAAAATGAAAAACTAATGAAAATGAATGAATTTTT
230819 TAAAACTGACTTAATATGAATTAAATAATAATATTTGATAAATTTAAAAATTAAAAACTAAGAAA
261 TAAAACTGACTTAATATGAATTAAATAATAATATTTGATAAATTTAAAAATTAAAAACTAAGAAA
* *
230884 AATCCCTTTGAAAACATTTACAGAGTATAAAACTTCGTATTTTGGAAACAGGAAAATTTCAAAGA
326 AATCCCTTTGAAAACATTTACAGAGTAGAAAACTTCGTATTTTAGAAACAGGAAAATTTCAAAGA
230949 AAAATGAAAAACTTATGAAAATAAATGAATTTTTAAAAATTGATTTAATATGAATTAAATAATAA
391 AAAATGAAAAACTTATGAAAATAAATGAATTTTTAAAAATTGATTTAATATGAATTAAATAATAA
231014 TATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTTGAAAATATTTATAGAGTAGAA
456 TATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTTGAAAATATTTATAGAGTAGAA
*
231079 AACTATATATTTCAAAAACTAGGAAATTTCAAGGAACAAATTGAAAAATTCATGAAAATGAATGA
521 AACTATATATTTCAAAAACTAGGAAATTTCAAGGAACAAATTGAAAAATTCATGAAAATAAATGA
231144 ATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTAATGAATTTTAAAAATTAATAAT
586 ATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTAATGAATTTTAAAAATTAATAAT
*
231209 TAAGAAAAATCCTCCCGAAAATATTTACGAAGTAGAAAACTCCATATTTCAAAAATAGGGAGAAT
651 CAAGAAAAATCCTCCCGAAAATATTTACGAAGTAGAAAACTCCATATTTCAAAAATAGGGAGAAT
231274 TCTAAAAGAAAATCAATAACTCATAAAATAAAAAGAATTTTTCAAAACTGATTTAATGGTGATTA
716 TCTAAAAGAAAATCAATAACTCATAAAATAAAAAGAATTTTTCAAAACTGATTTAATGGTGATTA
231339 AATGATAATATTTAAAGGATTTTGATACTTGAAATTCAAGAAAATTCCCTAAAATTTTTACGAGT
781 AATGATAATATTTAAAGGATTTTGATACTTGAAATTCAAGAAAATTCCCTAAAATTTTTACGAGT
231404 AAAGAAAAATTCGTATTCTATTACGAGAAAAAATTCAAGAATTTCTTCCTAATTCATGTAAAATG
846 AAAGAAAAATTCGTATTCTATTACGAGAAAAAATTCAAGAATTTCTTCCTAATTCATGTAAAATG
231469 AATT
911 AATT
* *
231473 CAAAAAAAATCCCACTGAAAACATTTACAGAGGAGAAAACTTTGTATTTCGAAAACTAAGAATTT
1 CAAAAAAAATCCCACTGAAAACATTTACAGAGGAGAAAACTCTATATTTCGAAAACTAAGAATTT
231538 CAAGAAAAAATGAACGAACATGAATGAATTTTTAAAAACTTATTTAATACAAATTAAATAATAAT
66 CAAGAAAAAATGAACGAACATGAATGAATTTTTAAAAACTTATTTAATACAAATTAAATAATAAT
231603 ATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCTAAAACATTTACGGAGTAGAAA
131 ATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCTAAAACATTTACGGAGTAGAAA
231668 ACTCCGTATTTTAGAAATAGAGAAATTAAAAAAAAATGAAAAA-TGAATGAAAATGAATGAATTT
196 ACTCCGTATTTTAGAAATAGAGAAATT-AAAAAAAATGAAAAACT-AATGAAAATGAATGAATTT
* *
231732 TTTAAAACTGACTTTA-ATGAATTAAATAATAATATTTGATGAATTTAAAAATTAAAAACTAAGA
259 TTTAAAACTGACTTAATATGAATTAAATAATAATATTTGATAAATTTAAAAATTAAAAACTAAGA
* *
231796 AAAATTCCTTTGAAAACATTTACAGAGTAGAAAACTTTGTATTTTAGAAACAGGAAAATTTCAAA
324 AAAATCCCTTTGAAAACATTTACAGAGTAGAAAACTTCGTATTTTAGAAACAGGAAAATTTCAAA
*
231861 GAAAAATGAAAAACTTATGAAAATAAATGAATTTTTATAAATTGATTTAATATGAATTAAATAAT
389 GAAAAATGAAAAACTTATGAAAATAAATGAATTTTTAAAAATTGATTTAATATGAATTAAATAAT
231926 AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTTGAAAATATTTATAGAGTAG
454 AATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTTGAAAATATTTATAGAGTAG
*
231991 AAAACTATATATTTCGAAAACTAGGAAATTTCAAGGAACAAATTGAAAAATTCATGAAAATAAAT
519 AAAACTATATATTTCAAAAACTAGGAAATTTCAAGGAACAAATTGAAAAATTCATGAAAATAAAT
* *
232056 GAATTTTTAAAAACTTATTTAATATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAATA
584 GAATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTAATGAATTTTAAAAATTAATA
232121 ATCAAGAAAAATCCTCCCGAAAATATTTACGAAGTAGAAAACTCCATATTTCAAAAATAGGGAGA
649 ATCAAGAAAAATCCTCCCGAAAATATTTACGAAGTAGAAAACTCCATATTTCAAAAATAGGGAGA
232186 ATTCTAAAAGAAAATCAATAACTCATAAAATAAAAAGAATTTTTCAAAACTGATTTAATGGTGAT
714 ATTCTAAAAGAAAATCAATAACTCATAAAATAAAAAGAATTTTTCAAAACTGATTTAATGGTGAT
232251 TAAATGATAATATTTAAAGGATTTTGATACTTGAAATTCAAGAAAATTCCCTAAAATTTTTACGA
779 TAAATGATAATATTTAAAGGATTTTGATACTTGAAATTCAAGAAAATTCCCTAAAATTTTTACGA
*
232316 GTAAAGAAAAGTTCGTATTCTATTACGAGAAAAAATTCAAGAATTTCTTCCTAATTCATGTAAAA
844 GTAAAGAAAAATTCGTATTCTATTACGAGAAAAAATTCAAGAATTTCTTCCTAATTCATGTAAAA
232381 TGAATT
909 TGAATT
232387 CAAA
1 CAAA
232391 GAACAAATAT
Statistics
Matches: 896, Mismatches: 20, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
914 848 0.95
915 48 0.05
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (914 bp):
CAAAAAAAATCCCACTGAAAACATTTACAGAGGAGAAAACTCTATATTTCGAAAACTAAGAATTT
CAAGAAAAAATGAACGAACATGAATGAATTTTTAAAAACTTATTTAATACAAATTAAATAATAAT
ATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCTAAAACATTTACGGAGTAGAAA
ACTCCGTATTTTAGAAATAGAGAAATTAAAAAAAATGAAAAACTAATGAAAATGAATGAATTTTT
TAAAACTGACTTAATATGAATTAAATAATAATATTTGATAAATTTAAAAATTAAAAACTAAGAAA
AATCCCTTTGAAAACATTTACAGAGTAGAAAACTTCGTATTTTAGAAACAGGAAAATTTCAAAGA
AAAATGAAAAACTTATGAAAATAAATGAATTTTTAAAAATTGATTTAATATGAATTAAATAATAA
TATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAATCTCCTTGAAAATATTTATAGAGTAGAA
AACTATATATTTCAAAAACTAGGAAATTTCAAGGAACAAATTGAAAAATTCATGAAAATAAATGA
ATTTTTAAAAACTGATTTAATATAAATTAAATAATAATATTTAATGAATTTTAAAAATTAATAAT
CAAGAAAAATCCTCCCGAAAATATTTACGAAGTAGAAAACTCCATATTTCAAAAATAGGGAGAAT
TCTAAAAGAAAATCAATAACTCATAAAATAAAAAGAATTTTTCAAAACTGATTTAATGGTGATTA
AATGATAATATTTAAAGGATTTTGATACTTGAAATTCAAGAAAATTCCCTAAAATTTTTACGAGT
AAAGAAAAATTCGTATTCTATTACGAGAAAAAATTCAAGAATTTCTTCCTAATTCATGTAAAATG
AATT
Found at i:233970 original size:10 final size:11
Alignment explanation
Indices: 233955--233989 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
233945 CTTGACCAAT
233955 TAACTTAAA-A
1 TAACTTAAATA
233965 TAACTTAAATA
1 TAACTTAAATA
*
233976 TAAATTAAATA
1 TAACTTAAATA
233987 TAA
1 TAA
233990 TTTTCCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (11 bp):
TAACTTAAATA
Found at i:237981 original size:20 final size:21
Alignment explanation
Indices: 237946--237985 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
237936 CTATAATTTG
*
237946 TATCGATGCAATAAGTGAATA
1 TATCGATACAATAAGTGAATA
237967 TATCGATAC-ATAAGTGAAT
1 TATCGATACAATAAGTGAAT
237986 GTAGAGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (21 bp):
TATCGATACAATAAGTGAATA
Found at i:237994 original size:20 final size:20
Alignment explanation
Indices: 237956--237997 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
237946 TATCGATGCA
**
237956 ATAAGTGAATATATCGATAC
1 ATAAGTGAATATAGAGATAC
*
237976 ATAAGTGAATGTAGAGATAC
1 ATAAGTGAATATAGAGATAC
237996 AT
1 AT
237998 GTTTGAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (20 bp):
ATAAGTGAATATAGAGATAC
Found at i:239788 original size:11 final size:10
Alignment explanation
Indices: 239763--239799 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
239753 CCATTAGATG
239763 ATTTTTCAAA
1 ATTTTTCAAA
239773 ATTTTTCAAA
1 ATTTTTCAAA
239783 ATTTTTCAAA
1 ATTTTTCAAA
239793 CATTTTT
1 -ATTTTT
239800 TCTAAGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (10 bp):
ATTTTTCAAA
Found at i:240423 original size:97 final size:100
Alignment explanation
Indices: 240298--240479 Score: 291
Period size: 99 Copynumber: 1.9 Consensus size: 100
240288 CCAAAATTCT
*
240298 ATCAAGGATACTCCAATCCCATTCTTCTGAG-GAGATACTCTAA-CTC-TATTTTTTAAACTTGT
1 ATCAAGGACACTCCAATCCCATTCTTCTGAGAG-GATACTCTAACCTCGTATTTTTTAAACTTGT
240360 CAAGATTTAAATCTTATTTTCATCTAAATTATTATC
65 CAAGATTTAAATCTTATTTTCATCTAAATTATTATC
* * *
240396 ATCAAGGACACTCCAA-CTCATTCTTCTGAGAGGATACTCTAACCTCGTTTTTTTTTAACTTGTC
1 ATCAAGGACACTCCAATCCCATTCTTCTGAGAGGATACTCTAACCTCGTATTTTTTAAACTTGTC
240460 AAGATTTAAATCTTATTTTC
66 AAGATTTAAATCTTATTTTC
240480 GCCAGGATTG
Statistics
Matches: 77, Mismatches: 4, Indels: 5
0.90 0.05 0.06
Matches are distributed among these distances:
97 23 0.30
98 19 0.25
99 35 0.45
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (100 bp):
ATCAAGGACACTCCAATCCCATTCTTCTGAGAGGATACTCTAACCTCGTATTTTTTAAACTTGTC
AAGATTTAAATCTTATTTTCATCTAAATTATTATC
Found at i:240547 original size:99 final size:99
Alignment explanation
Indices: 240298--240547 Score: 238
Period size: 99 Copynumber: 2.5 Consensus size: 99
240288 CCAAAATTCT
* * * * * * *
240298 ATCAAGGATACTCCAATCCCATTCTTCTGAGGAGATACTCTAA-CTC-TATTTTTTAAACTTGTC
1 ATCAAGGACACTCCAA-CCCATTCCTCCGAGAAGATACTCCAACCCCGTTTTTTTTAAACTTGTC
* *
240361 AAGATTTAAATCTTATTTTCATCTAAATTATTATC
65 AAGATTTAAATCTTATTTTCAGCCAAATTATTATC
* * * * * * *
240396 ATCAAGGACACTCCAACTCATTCTTCTGAGAGGATACTCTAACCTCGTTTTTTTTTAACTTGTCA
1 ATCAAGGACACTCCAACCCATTCCTCCGAGAAGATACTCCAACCCCGTTTTTTTTAAACTTGTCA
* *
240461 AGATTTAAATCTTATTTTC-GCCAGGATTGTTATC
66 AGATTTAAATCTTATTTTCAGCCA-AATTATTATC
* ** *
240495 GTCGGGGACACT-CAGACCCCATTCCTCCGAGAAGATATTCCAACCCCGTTTTT
1 ATCAAGGACACTCCA-A-CCCATTCCTCCGAGAAGATACTCCAACCCCGTTTTT
240548 CAACCAAAAT
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
97 23 0.18
98 22 0.17
99 53 0.42
100 29 0.23
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (99 bp):
ATCAAGGACACTCCAACCCATTCCTCCGAGAAGATACTCCAACCCCGTTTTTTTTAAACTTGTCA
AGATTTAAATCTTATTTTCAGCCAAATTATTATC
Found at i:241462 original size:2 final size:2
Alignment explanation
Indices: 241455--241488 Score: 50
Period size: 2 Copynumber: 16.0 Consensus size: 2
241445 CGACAACTAG
241455 TA TA TA TA TA TA TA TA TA TA TA TCA CTA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA T-A -TA TA TA TA
241489 GTTATTGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 27 0.90
3 2 0.07
4 1 0.03
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:245014 original size:13 final size:13
Alignment explanation
Indices: 244992--245022 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
244982 TCGATATAAT
244992 GATA-AATGTATC
1 GATACAATGTATC
245004 GATACAATGTATC
1 GATACAATGTATC
245017 GATACA
1 GATACA
245023 TTTCCTTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (13 bp):
GATACAATGTATC
Found at i:245865 original size:19 final size:19
Alignment explanation
Indices: 245841--245915 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
245831 AGAACCCTTG
245841 AATGTATCGATACATGTTT
1 AATGTATCGATACATGTTT
***
245860 AATGTATCGATACATGGACA
1 AATGTATCGATACAT-GTTT
245880 AATTGTATCGATACATGTTT
1 AA-TGTATCGATACATGTTT
245900 AATGTATCGATACATG
1 AATGTATCGATACATG
245916 GACAAATTGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 29 0.60
20 6 0.12
21 13 0.27
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACATGTTT
Found at i:245888 original size:21 final size:21
Alignment explanation
Indices: 245862--245936 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
245852 ACATGTTTAA
245862 TGTATCGATACATGGACAAAT
1 TGTATCGATACATGGACAAAT
***
245883 TGTATCGATACAT-GTTTAA-
1 TGTATCGATACATGGACAAAT
245902 TGTATCGATACATGGACAAAT
1 TGTATCGATACATGGACAAAT
245923 TGTATCGATACATG
1 TGTATCGATACATG
245937 AAATTGGCAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 13 0.28
20 6 0.13
21 27 0.59
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATGGACAAAT
Found at i:245898 original size:40 final size:40
Alignment explanation
Indices: 245843--245936 Score: 188
Period size: 40 Copynumber: 2.4 Consensus size: 40
245833 AACCCTTGAA
245843 TGTATCGATACATGTTTAATGTATCGATACATGGACAAAT
1 TGTATCGATACATGTTTAATGTATCGATACATGGACAAAT
245883 TGTATCGATACATGTTTAATGTATCGATACATGGACAAAT
1 TGTATCGATACATGTTTAATGTATCGATACATGGACAAAT
245923 TGTATCGATACATG
1 TGTATCGATACATG
245937 AAATTGGCAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (40 bp):
TGTATCGATACATGTTTAATGTATCGATACATGGACAAAT
Found at i:246002 original size:13 final size:13
Alignment explanation
Indices: 245981--246011 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
245971 CGATACATGG
*
245981 TACAATGTATCGA
1 TACATTGTATCGA
245994 TACATTGTATCGA
1 TACATTGTATCGA
246007 TACAT
1 TACAT
246012 AAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:252204 original size:13 final size:13
Alignment explanation
Indices: 252186--252214 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
252176 ACAACATTCC
252186 TTGTATCGATACA
1 TTGTATCGATACA
252199 TTGTATCGATACA
1 TTGTATCGATACA
252212 TTG
1 TTG
252215 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:254061 original size:19 final size:18
Alignment explanation
Indices: 254043--254077 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
254033 TTTTTTTATA
254043 AAAAAGGGGAGAAGATAT
1 AAAAAGGGGAGAAGATAT
*
254061 AGAAAGGGGAGAAGATA
1 AAAAAGGGGAGAAGATA
254078 ATCGTTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.37, T:0.09
Consensus pattern (18 bp):
AAAAAGGGGAGAAGATAT
Found at i:254695 original size:20 final size:19
Alignment explanation
Indices: 254650--254745 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 19
254640 AAAACCCTTG
254650 AATGTATCGATACACATG-A-
1 AATGTATCGAT--ACATGTAC
254669 AGATGTATCGATACATGCTAC
1 A-ATGTATCGATACATG-TAC
** *
254690 TTTGTATCGATACATGTTC
1 AATGTATCGATACATGTAC
*
254709 AATGTATCGATACATGGAC
1 AATGTATCGATACATGTAC
254728 AAATTGTATCGATACATG
1 -AA-TGTATCGATACATG
254746 AAATTGGCAG
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
18 5 0.08
19 18 0.28
20 27 0.42
21 14 0.22
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (19 bp):
AATGTATCGATACATGTAC
Found at i:254737 original size:21 final size:20
Alignment explanation
Indices: 254672--254745 Score: 80
Period size: 19 Copynumber: 3.7 Consensus size: 20
254662 CACATGAAGA
* *
254672 TGTATCGATACATGCTAC-TT
1 TGTATCGATACATG-GACAAT
**
254692 TGTATCGATACATGTTCAA-
1 TGTATCGATACATGGACAAT
254711 TGTATCGATACATGGACAAAT
1 TGTATCGATACATGGAC-AAT
254732 TGTATCGATACATG
1 TGTATCGATACATG
254746 AAATTGGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.36
20 16 0.34
21 14 0.30
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:254800 original size:20 final size:19
Alignment explanation
Indices: 254775--254827 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
254765 TATCACTATT
254775 TGTATCGATACATG-GTATAA
1 TGTATCGATACATGAG-A-AA
254795 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
254815 TGTATCGATACAT
1 TGTATCGATACAT
254828 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:255923 original size:13 final size:13
Alignment explanation
Indices: 255905--255930 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
255895 ACACCAAAGT
255905 ATGTATCGATACA
1 ATGTATCGATACA
255918 ATGTATCGATACA
1 ATGTATCGATACA
255931 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:255928 original size:33 final size:33
Alignment explanation
Indices: 255886--255950 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
255876 TAGCCAAACT
* *
255886 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
255919 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
255951 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:262602 original size:21 final size:20
Alignment explanation
Indices: 262560--262602 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
262550 GGCAGCACCA
* *
262560 CCAGGTCGCGACTGGCACTC
1 CCAGGTCGCAACGGGCACTC
*
262580 CCAGGTCGCAACCGGGCAGTC
1 CCAGGTCGCAA-CGGGCACTC
262601 CC
1 CC
262603 CATACTAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.16, C:0.42, G:0.30, T:0.12
Consensus pattern (20 bp):
CCAGGTCGCAACGGGCACTC
Found at i:264718 original size:13 final size:13
Alignment explanation
Indices: 264700--264725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
264690 ACACCAAAGT
264700 ATGTATCGATACA
1 ATGTATCGATACA
264713 ATGTATCGATACA
1 ATGTATCGATACA
264726 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:264723 original size:33 final size:33
Alignment explanation
Indices: 264681--264745 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
264671 TAGCCAAACT
* *
264681 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
264714 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
264746 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:265822 original size:52 final size:49
Alignment explanation
Indices: 265663--265848 Score: 201
Period size: 49 Copynumber: 3.7 Consensus size: 49
265653 AATGTGTCAG
* * * * *
265663 TGTGCAGATTCAAGGCCTGCAACACTGGATTTAAAGATGAAGGTGCCAA
1 TGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGGTGCTAA
* * * * *
265712 GGTGCTGATTAAAGGCTAGCGACATTGGACTTGAAGATGAAGGTGCTAA
1 TGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGGTGCTAA
*
265761 TGTGCTGATTCAAGGCCAGCAACGTTGGACTTAAAGATGGTAAAGGTGCTAA
1 TGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGAT-G--AAGGTGCTAA
* * * * *
265813 TATGCTGATTTAAGGCCAACGATATTGGACTTAAAG
1 TGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAG
265849 GCGAGAAGAA
Statistics
Matches: 112, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
49 71 0.63
50 1 0.01
52 40 0.36
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.25
Consensus pattern (49 bp):
TGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGGTGCTAA
Found at i:265972 original size:61 final size:61
Alignment explanation
Indices: 265801--265972 Score: 202
Period size: 61 Copynumber: 2.8 Consensus size: 61
265791 TTAAAGATGG
* * * * * ***
265801 TAAAGGTGCTAATATGCTGATTTAAGGCCAACGATATTGGACTTAAAGGCGAGAAGAATGA
1 TAAAAGTGCCAATATGCTGATTCAAGGACAACGATATTGGGCTTAAAGATAAGAAGAATGA
* * * * *
265862 TAAAGGTGCCAATAAGCTGACTCAA-AACCAGCGATATTGGGCTTAAAGATAAGAAGAATGA
1 TAAAAGTGCCAATATGCTGATTCAAGGA-CAACGATATTGGGCTTAAAGATAAGAAGAATGA
*
265923 TAAAAGTGTCAATATGCTGATTCAAGGACAACGATATTGGGCTTAAAGAT
1 TAAAAGTGCCAATATGCTGATTCAAGGACAACGATATTGGGCTTAAAGAT
265973 GCGAAAAATA
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
61 91 0.99
62 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.24
Consensus pattern (61 bp):
TAAAAGTGCCAATATGCTGATTCAAGGACAACGATATTGGGCTTAAAGATAAGAAGAATGA
Found at i:266070 original size:52 final size:51
Alignment explanation
Indices: 265914--266103 Score: 131
Period size: 52 Copynumber: 3.7 Consensus size: 51
265904 TTAAAGATAA
* * * * *
265914 GAAGAATGATAAAAGTGTCAATATGCTGATTCAAGGACAACGATATTGGGCTT
1 GAAG-ATGAGAAAAATGCCAATATGCTGATTCAAGGCCAACGATA-TGGACTT
* * ** * * *
265967 AAAGATGCGAAAAATATCAATGTGCTGATTTACAATTAG-CAAC-AT-TAGACTT
1 GAAGATGAGAAAAATGCCAATATGCTGA-TT-CAA--GGCCAACGATATGGACTT
*
266019 GAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAACGATATCGGACTT
1 GAAGATGAGAAAAATGCCAATATGCTGATTCAAGGCCAACGATAT-GGACTT
* * *
266071 -AA-AAGTG-AAGATGCCAATATGCTGATTCAAGGC
1 GAAGATGAGAAAAATGCCAATATGCTGATTCAAGGC
266104 TAGCAACATT
Statistics
Matches: 110, Mismatches: 19, Indels: 20
0.74 0.13 0.13
Matches are distributed among these distances:
48 1 0.01
49 28 0.25
50 8 0.07
51 5 0.05
52 53 0.48
53 5 0.05
54 5 0.05
55 4 0.04
56 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (51 bp):
GAAGATGAGAAAAATGCCAATATGCTGATTCAAGGCCAACGATATGGACTT
Found at i:266099 original size:49 final size:49
Alignment explanation
Indices: 266032--266273 Score: 202
Period size: 49 Copynumber: 4.8 Consensus size: 49
266022 GATGAGAAAA
* * *
266032 ATGCCAATGTGCTGATTCAAGGCCAACGATATCGGACTTAAA-AGTGAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA-TGAAG
* * *
266081 ATGCCAATATGCTGATTCAAGGCTAGCAACATTGGACTTAAAGATGAAG
1 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
* * ** *
266130 GTGCCAATGA-GCTGATTTAAGGCCAGCGACGTTAGG-CTTAGGAATATTGAAG
1 ATGCCAAT-ATGCTGATTCAAGGCCAGCGATATT-GGACTTA--AAGA-TGAAG
* * * *
266182 ATGCCAATATGCTAATTCAAGGCCAGCAATATTGGGCTTAAAGATAACAAGG
1 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAA-G
* * * * *
266234 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTA
1 ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
266274 GAGGTAGATG
Statistics
Matches: 156, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
49 72 0.46
50 7 0.04
51 8 0.05
52 69 0.44
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (49 bp):
ATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
Found at i:266125 original size:101 final size:101
Alignment explanation
Indices: 266003--266275 Score: 306
Period size: 101 Copynumber: 2.7 Consensus size: 101
265993 GATTTACAAT
* * ** *
266003 TAGCAACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCCAACGA-TATCGG
1 TAGCAACATTGGACTTAAAGAT-AGAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACT-TAGG
*
266067 ACTTA-AA-AGTGAAGATGCCAATATGCTGATTCAAGGC
64 -CTTAGAATAGTGAAGATGCCAATATGCTAATTCAAGGC
* * *
266104 TAGCAACATTGGACTTAAAGAT-G-AAGGTGCCAATGAGCTGATTTAAGGCCAGCGACGTTAGGC
1 TAGCAACATTGGACTTAAAGATAGAAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC-TTAGGC
*
266167 TTAGGAATATTGAAGATGCCAATATGCTAATTCAAGGC
65 TTA-GAATAGTGAAGATGCCAATATGCTAATTCAAGGC
* * * *
266205 CAGCAATATTGGGCTTAAAGATA-ACAAGGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1 TAGCAACATTGGACTTAAAGATAGA-AA-GGTGCCAATGTGCTGATTCAAGGCCAACGAC-TTAG
266269 GCTTAGA
63 GCTTAGA
266276 GGTAGATGCC
Statistics
Matches: 145, Mismatches: 18, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
98 31 0.21
99 4 0.03
100 3 0.02
101 67 0.46
103 4 0.03
104 36 0.25
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (101 bp):
TAGCAACATTGGACTTAAAGATAGAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACTTAGGCT
TAGAATAGTGAAGATGCCAATATGCTAATTCAAGGC
Found at i:266189 original size:52 final size:49
Alignment explanation
Indices: 266004--266273 Score: 204
Period size: 52 Copynumber: 5.3 Consensus size: 49
265994 ATTTACAATT
* * * *
266004 AGCAACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCC
1 AGCAACATTGGACTTAAAGAT--G-AAGATGCCAATATGCTGATTCAAGGCC
* * * * *
266056 AACGATATCGGACTTAAA-AGTGAAGATGCCAATATGCTGATTCAAGGCT
1 AGCAACATTGGACTTAAAGA-TGAAGATGCCAATATGCTGATTCAAGGCC
* *
266105 AGCAACATTGGACTTAAAGATGAAGGTGCCAATGA-GCTGATTTAAGGCC
1 AGCAACATTGGACTTAAAGATGAAGATGCCAAT-ATGCTGATTCAAGGCC
* * * *
266154 AGCGACGTTAGG-CTTAGGAATATTGAAGATGCCAATATGCTAATTCAAGGCC
1 AGCAACATT-GGACTTA--AAGA-TGAAGATGCCAATATGCTGATTCAAGGCC
* * * * *
266206 AGCAATATTGGGCTTAAAGATAACAAGGGTGCCAATGTGCTGATTCAAGGCC
1 AGCAACATTGGACTTAAAGAT--GAA-GATGCCAATATGCTGATTCAAGGCC
* * *
266258 AACGACATTGGGCTTA
1 AGCAACATTGGACTTA
266274 GAGGTAGATG
Statistics
Matches: 173, Mismatches: 33, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
49 74 0.43
50 8 0.05
51 9 0.05
52 82 0.47
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (49 bp):
AGCAACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
Found at i:266333 original size:32 final size:32
Alignment explanation
Indices: 266282--266383 Score: 132
Period size: 32 Copynumber: 3.2 Consensus size: 32
266272 TAGAGGTAGA
* *
266282 TGCCACCAACTTATGTGGGCTTTTGAAAGGGT
1 TGCCATCAACTTATGTGGGCTTTAGAAAGGGT
* * * *
266314 TACCATCGACTTGTGTGGGCTTTAAAAAGGGT
1 TGCCATCAACTTATGTGGGCTTTAGAAAGGGT
* *
266346 TGCCATCAACTTATGTGGGCTTTGGGAAGGGT
1 TGCCATCAACTTATGTGGGCTTTAGAAAGGGT
266378 TGCCAT
1 TGCCAT
266384 GGAGTTGTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (32 bp):
TGCCATCAACTTATGTGGGCTTTAGAAAGGGT
Found at i:267949 original size:16 final size:15
Alignment explanation
Indices: 267930--267968 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
267920 ATCTGAATCC
*
267930 TTTTTGTTGTTTGTT
1 TTTTTGTTGTTTCTT
267945 TTTTTGTTTGTTTTCTT
1 TTTTTG-TTG-TTTCTT
267962 TTTTTGT
1 TTTTTGT
267969 CGATGGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 4 0.19
17 11 0.52
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (15 bp):
TTTTTGTTGTTTCTT
Found at i:267951 original size:12 final size:12
Alignment explanation
Indices: 267930--267968 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
267920 ATCTGAATCC
267930 TTTTTGTTGTTTG
1 TTTTT-TTGTTTG
267943 TTTTTTTGTTTG
1 TTTTTTTGTTTG
*
267955 TTTTCTTTTTTTG
1 TTTT-TTTGTTTG
267968 T
1 T
267969 CGATGGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (12 bp):
TTTTTTTGTTTG
Done.