Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold96
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: 1013983
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 2 of 8
Found at i:150052 original size:21 final size:22
Alignment explanation
Indices: 150026--150083 Score: 84
Period size: 21 Copynumber: 2.7 Consensus size: 22
150016 GTTGGGACCC
*
150026 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGTACAAA
*
150047 TGTATCGATACA-TTCTACAAA
1 TGTATCGATACATTTGTACAAA
150068 TGTATCGATACATTTG
1 TGTATCGATACATTTG
150084 GATTTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 26 0.81
22 2 0.06
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.38
Consensus pattern (22 bp):
TGTATCGATACATTTGTACAAA
Found at i:158763 original size:9 final size:9
Alignment explanation
Indices: 158746--158829 Score: 64
Period size: 9 Copynumber: 8.9 Consensus size: 9
158736 GCGTCCTCCG
158746 CAAAAAAAA
1 CAAAAAAAA
*
158755 AAGAAAAAAA
1 CA-AAAAAAA
158765 CGAAAAAAAA
1 C-AAAAAAAA
158775 CAAACAAACAA
1 CAAA-AAA-AA
*
158786 -AAAAATAA
1 CAAAAAAAA
*
158794 CAAAATAAA
1 CAAAAAAAA
*
158803 TAAAAAAATA
1 CAAAAAAA-A
158813 -AAAAAAAA
1 CAAAAAAAA
158821 CAACAAAAA
1 CAA-AAAAA
158830 GGGTCTGGAT
Statistics
Matches: 60, Mismatches: 7, Indels: 15
0.73 0.09 0.18
Matches are distributed among these distances:
8 3 0.05
9 27 0.45
10 27 0.45
11 3 0.05
ACGTcount: A:0.83, C:0.10, G:0.02, T:0.05
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:160261 original size:34 final size:34
Alignment explanation
Indices: 160217--160708 Score: 361
Period size: 34 Copynumber: 15.3 Consensus size: 34
160207 TACTTTTTCC
* * * *
160217 AAAGCCCACAACTCTGTGGCACATTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
160251 AAAGTCCACAACTCTGTGGTACC--TTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
160283 AAAGCCCATAACTCTGTGGCA-C-----CCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
160311 -CAG-CTCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGTC-CACAACTCCGTGGCACCTTTTTCCTTTT
* *
160344 AAAGCCCACAACTCTGTGGCA-C-----CCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
160372 -AAGTCCACAACTCCGTGGCACATTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
160405 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
160440 -AAGTCCACAACTCCGTGGCA-C----T-CTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
160467 -AAGTCCACAACTCCGTGGCATCCTTGTTCCTATT
1 AAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* * ** *
160501 AAAGCCCATAACTTTGTGG-AAC-----CCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
160529 -AAGTCCACAACTTCGTCGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
160562 AAAGGCCACAACTCAGGTGGCACTCTTTTTCCTTTT
1 AAAGTCCACAACTC-CGTGGCAC-CTTTTTCCTTTT
* *
160598 -AAGTCCACAACTCCGTCGCACCTTTTTCTTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
160631 AAAGCCCACAACTCGGTGGCACTCTTTTTCCTTTT
1 AAAGTCCACAACTCCGTGGCAC-CTTTTTCCTTTT
* *
160666 -AAGTCCACAACTCCGTGGCATCTTTCTCCTTTT
1 AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
160699 -AAGCCCACAA
1 AAAGTCCACAA
160709 GTCAGTGGTA
Statistics
Matches: 369, Mismatches: 53, Indels: 73
0.75 0.11 0.15
Matches are distributed among these distances:
26 1 0.00
27 72 0.20
28 19 0.05
29 1 0.00
31 1 0.00
32 28 0.08
33 49 0.13
34 133 0.36
35 54 0.15
36 11 0.03
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.35
Consensus pattern (34 bp):
AAAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:160323 original size:27 final size:27
Alignment explanation
Indices: 160292--160491 Score: 91
Period size: 27 Copynumber: 6.6 Consensus size: 27
160282 TAAAGCCCAT
* *
160292 AACTCTGTGGCACCCTTTTCAGCTCAC
1 AACTCCGTGGCACCCTTTTAAGCTCAC
*
160319 AACTCCGTGGCACCTTTTTCTTTTTAAAGCCCAC
1 AACTCCGTGGCACC-----C-TTTT-AAGCTCAC
*
160353 AACTCTGTGGCACCCTTTTAAG-TCCAC
1 AACTCCGTGGCACCCTTTTAAGCT-CAC
* *
160380 AACTCCGTGGCACATTTTTCTTTTTAAAGCCCAC
1 AACTCCGTGGCAC------CCTTTT-AAGCTCAC
160414 AACTCCGTGGCACTCTTTTTCCTTTTAAG-TCCAC
1 AACTCCGTGGCA--C-----CCTTTTAAGCT-CAC
*
160448 AACTCCGTGGCACTCTTTTAAG-TCCAC
1 AACTCCGTGGCACCCTTTTAAGCT-CAC
*
160475 AACTCCGTGGCATCCTT
1 AACTCCGTGGCACCCTT
160492 GTTCCTATTA
Statistics
Matches: 141, Mismatches: 13, Indels: 38
0.73 0.07 0.20
Matches are distributed among these distances:
27 59 0.42
28 4 0.03
29 1 0.01
32 2 0.01
33 9 0.06
34 55 0.39
35 10 0.07
36 1 0.01
ACGTcount: A:0.20, C:0.33, G:0.14, T:0.33
Consensus pattern (27 bp):
AACTCCGTGGCACCCTTTTAAGCTCAC
Found at i:160349 original size:61 final size:61
Alignment explanation
Indices: 160247--160466 Score: 275
Period size: 61 Copynumber: 3.5 Consensus size: 61
160237 ACATTTTTCT
* * *
160247 TTTTAAAGTCCACAACTCTGTGGTACC--TTTCTTTTTAAAGCCCATAACTCTGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCC
*
160307 TTTTCAG-CTCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCC
1 TTTTAAGTC-CACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCC
* *
160368 TTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCA--C----
160433 TCC
60 -CC
160436 TTTTAAGTCCACAACTCCGTGGCACTCTTTT
1 TTTTAAGTCCACAACTCCGTGGCAC-CTTTT
160467 AAGTCCACAA
Statistics
Matches: 140, Mismatches: 8, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
58 1 0.01
59 17 0.12
60 4 0.03
61 85 0.61
62 1 0.01
63 1 0.01
68 27 0.19
69 4 0.03
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (61 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACCC
Found at i:160538 original size:157 final size:155
Alignment explanation
Indices: 160222--160623 Score: 533
Period size: 157 Copynumber: 2.6 Consensus size: 155
160212 TTTCCAAAGC
* * * * *
160222 CCACAACTCTGTGGCACATTTTTCTTTTTAAAGTCCACAACTCTGTGGTAC-CTTTCTT--TTTA
1 CCACAACTCCGTGGCACATTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTT-TTCCTTTT
* * * * * * *
160284 AAGCCCATAACTCTGTGGCACCCTTTTCAGCTCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
65 AAGTCCACAACTCCGTGGCA-CCTTTTAAGCTCACAACTCCGTGGCACCTTGTTCCTATTAAAGC
*
160349 CCACAACTCTGTGGCACCCTTTTAAGT
129 CCACAACTCTGTGGAACCCTTTTAAGT
160376 CCACAACTCCGTGGCACATTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
1 CCACAACTCCGTGGCACATTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
160441 AGTCCACAACTCCGTGGCACTCTTTTAAG-TCCACAACTCCGTGGCATCCTTGTTCCTATTAAAG
66 AGTCCACAACTCCGTGGCAC-CTTTTAAGCT-CACAACTCCGTGGCA-CCTTGTTCCTATTAAAG
* *
160505 CCCATAACTTTGTGGAACCCTTTTAAGT
128 CCCACAACTCTGTGGAACCCTTTTAAGT
* * * * *
160533 CCACAACTTCGTCGCACCTTTTTCTTTTTAAAGGCCACAACTCAGGTGGCACTCTTTTTCCTTTT
1 CCACAACTCCGTGGCACATTTTTCTTTTTAAAGCCCACAACTC-CGTGGCACTCTTTTTCCTTTT
*
160598 AAGTCCACAACTCCGTCGCACCTTTT
65 AAGTCCACAACTCCGTGGCACCTTTT
160624 TCTTTTTAAA
Statistics
Matches: 220, Mismatches: 21, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
154 49 0.22
155 6 0.03
156 42 0.19
157 83 0.38
158 40 0.18
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (155 bp):
CCACAACTCCGTGGCACATTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTA
AGTCCACAACTCCGTGGCACCTTTTAAGCTCACAACTCCGTGGCACCTTGTTCCTATTAAAGCCC
ACAACTCTGTGGAACCCTTTTAAGT
Found at i:160590 original size:62 final size:61
Alignment explanation
Indices: 160401--160708 Score: 269
Period size: 61 Copynumber: 4.8 Consensus size: 61
160391 ACATTTTTCT
* * * *
160401 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT-AAGTCCACAACTCCGTGGCACTC
1 TTTT-AAGTCCACAACTCCGTCGCAC-CTTTTTCCTTTTAAAGCCCACAACTCGGTGGCACTC
* * * * ** * *
160463 TTTTAAGTCCACAACTCCGTGGCATCCTTGTTCCTATTAAAGCCCATAACTTTGTGGAACCC
1 TTTTAAGTCCACAACTCCGTCGCA-CCTTTTTCCTTTTAAAGCCCACAACTCGGTGGCACTC
* * *
160525 TTTTAAGTCCACAACTTCGTCGCACCTTTTTCTTTTTAAAGGCCACAACTCAGGTGGCACTCTTT
1 TTTTAAGTCCACAACTCCGTCGCACCTTTTTCCTTTTAAAGCCCACAACTC-GGTGGCA--C---
160590 TTCC
60 -T-C
*
160594 TTTTAAGTCCACAACTCCGTCGCACCTTTTTCTTTTTAAAGCCCACAACTCGGTGGCACTCTTTT
1 TTTTAAGTCCACAACTCCGTCGCACCTTTTTCCTTTTAAAGCCCACAACTCGGTGGCA--C----
160659 TCC
60 T-C
* * *
160662 TTTTAAGTCCACAACTCCGTGGCATCTTTCTCCTTTT-AAGCCCACAA
1 TTTTAAGTCCACAACTCCGTCGCACCTTTTTCCTTTTAAAGCCCACAA
160709 GTCAGTGGTA
Statistics
Matches: 210, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
61 50 0.24
62 49 0.23
64 1 0.00
67 10 0.05
68 50 0.24
69 50 0.24
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (61 bp):
TTTTAAGTCCACAACTCCGTCGCACCTTTTTCCTTTTAAAGCCCACAACTCGGTGGCACTC
Found at i:160634 original size:69 final size:69
Alignment explanation
Indices: 160523--160725 Score: 306
Period size: 69 Copynumber: 3.0 Consensus size: 69
160513 TTTGTGGAAC
* *
160523 CCTTTTAAGTCCACAACTTCGTCGCACCTTTTTCTTTTTAAAGGCCACAACTCAGGTGGCACTCT
1 CCTTTTAAGTCCACAACTCCGTCGCACCTTTTTCTTTTTAAAGCCCACAACTCAGGTGGCACTCT
160588 TTTT
66 TTTT
160592 CCTTTTAAGTCCACAACTCCGTCGCACCTTTTTCTTTTTAAAGCCCACAACTC-GGTGGCACTCT
1 CCTTTTAAGTCCACAACTCCGTCGCACCTTTTTCTTTTTAAAGCCCACAACTCAGGTGGCACTCT
160656 TTTT
66 TTTT
* * * * * *
160660 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCTTTT-AAGCCCACAAGTCA-GTGGTA-TCT
1 CCTTTTAAGTCCACAACTCCGTCGCACCTTTTTCTTTTTAAAGCCCACAACTCAGGTGGCACTCT
160722 TTTT
66 TTTT
160726 AAAAGCACAC
Statistics
Matches: 125, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
66 7 0.06
67 17 0.14
68 50 0.40
69 51 0.41
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (69 bp):
CCTTTTAAGTCCACAACTCCGTCGCACCTTTTTCTTTTTAAAGCCCACAACTCAGGTGGCACTCT
TTTT
Found at i:160900 original size:49 final size:49
Alignment explanation
Indices: 160774--161058 Score: 255
Period size: 49 Copynumber: 5.9 Consensus size: 49
160764 CACAAGTTGG
* * *
160774 TGGTATCTTC-T-TCTAAGTCTAATATCGCTGGCCTTGAATCAACATAT
1 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* ** ** *
160821 TGG------CACCTTTAAGTCCAACGTCGCCAGCCTTGAATCAGCACAT
1 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
160864 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
** * * *
160913 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 T-G-GTATCT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * *
160965 TGGCACCTTCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * * *
161014 TGGCGCCT-TCGTCATCTTTAAGACCAATGTCGTTGGCCTTGAATC
1 T-G-G--TATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
161059 CCAAGAATTA
Statistics
Matches: 190, Mismatches: 33, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
43 31 0.16
47 3 0.02
49 74 0.39
50 5 0.03
51 5 0.03
52 71 0.37
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (49 bp):
TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
Found at i:160946 original size:52 final size:51
Alignment explanation
Indices: 160827--161058 Score: 283
Period size: 49 Copynumber: 4.6 Consensus size: 51
160817 ATATTGGCAC
* ** ** *
160827 CTTTAAGTCCAACGTCGCCAGCCTTGAATCAGCACATT-G-GTATCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
* *
160876 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTT-TCAT
*
160928 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
* * * *
160977 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTT-TTCAT
* *
161029 CTTTAAGACCAATGTCGTTGGCCTTGAATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATC
161059 CCAAGAATTA
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 77 0.49
50 2 0.01
51 3 0.02
52 75 0.48
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
Found at i:161002 original size:101 final size:101
Alignment explanation
Indices: 160827--161058 Score: 383
Period size: 101 Copynumber: 2.3 Consensus size: 101
160817 ATATTGGCAC
* ** * *
160827 CTTTAAGTCCAACGTCGCCAGCCTTGAATCAGCACATTGGTATCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
*
160892 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
66 GCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
*
160928 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATTTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
160993 GCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
66 GCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
* *
161029 CTTTAAGACCAATGTCGTTGGCCTTGAATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATC
161059 CCAAGAATTA
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (101 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
GCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
Found at i:162072 original size:9 final size:9
Alignment explanation
Indices: 162060--162084 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
162050 TTTTTAAATT
162060 TTTATTTAA
1 TTTATTTAA
162069 TTTATTTAA
1 TTTATTTAA
162078 TTTATTT
1 TTTATTT
162085 TTTTCCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTATTTAA
Found at i:162419 original size:12 final size:12
Alignment explanation
Indices: 162402--162447 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
162392 GCAAGCAAGC
162402 AAAAAAAGAGAG
1 AAAAAAAGAGAG
*
162414 AAAAAAAAAAGAAAG
1 ---AAAAAAAGAGAG
162429 AAAAAAAGAGAG
1 AAAAAAAGAGAG
162441 AAAAAAA
1 AAAAAAA
162448 ACCAAACCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 18 0.62
15 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAGAG
Found at i:163677 original size:20 final size:20
Alignment explanation
Indices: 163644--163719 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
163634 TTTTTACCCA
*
163644 GATGTATTGATACATTTTTC
1 GATGTATCGATACATTTTTC
* * *
163664 GATATATCGATACATGTAT-
1 GATGTATCGATACATTTTTC
* *
163683 GAATGTATCGATATATTCTTC
1 G-ATGTATCGATACATTTTTC
*
163704 AATGTATCGATACATT
1 GATGTATCGATACATT
163720 ATATCTTTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (20 bp):
GATGTATCGATACATTTTTC
Found at i:167209 original size:141 final size:142
Alignment explanation
Indices: 166961--167381 Score: 564
Period size: 139 Copynumber: 3.0 Consensus size: 142
166951 ACAAGGTACG
* *
166961 AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATTTTAATTTTTCAAGATTTTTA
1 AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
** * * ** *
167026 ATATTCCCATGGTTCTTTGTAGGGGTATAGAAATTTTTAAAACTTTTTTTATCTTTTCGATTCTC
66 ATATTCCCATGGTTCTCCGTAAGGGTATAGAAATTTTCAAAACTTTTCATATCTTTTCGGTTCTC
167091 TATTAAGGTATA
131 TATTAAGGTATA
* *
167103 AAATAAATTTTCTTAAAAATTAAAAATTAAAT-AAAATTATTATCTTATTTTTTTAAGATTTCTA
1 AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
* * * *
167167 ATATTCCCATAGTTCTCCGTAAGGGTATAAAAATTTTCAAAAC--TTCGTATTTTTTCGGTTCTC
66 ATATTCCCATGGTTCTCCGTAAGGGTATAGAAATTTTCAAAACTTTTCATATCTTTTCGGTTCTC
* * *
167230 CATTAACGTACA
131 TATTAAGGTATA
* * *
167242 AAATGAATTTTCTT-AAAATTAAAAATTAAATAAAAATTATTTTCTTAATCTTTCAAGATTTCTA
1 AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
* * * * *
167306 ATATTCCTATGGTTATCCGT-AGGATAATAGAAATCTTCAAAACTTTTCATATCTTTTCGGTTCC
66 ATATTCCCATGGTTCTCCGTAAGGGT-ATAGAAATTTTCAAAACTTTTCATATCTTTTCGGTTCT
167370 CTATTAAGGTAT
130 CTATTAAGGTAT
167382 GAAACGAGAT
Statistics
Matches: 241, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
138 21 0.09
139 98 0.41
141 90 0.37
142 32 0.13
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (142 bp):
AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
ATATTCCCATGGTTCTCCGTAAGGGTATAGAAATTTTCAAAACTTTTCATATCTTTTCGGTTCTC
TATTAAGGTATA
Found at i:169695 original size:16 final size:16
Alignment explanation
Indices: 169674--169705 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
169664 CTACTCGATT
*
169674 TGAACTCTTTTCAACA
1 TGAACTCTTTACAACA
169690 TGAACTCTTTACAACA
1 TGAACTCTTTACAACA
169706 CTTATCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TGAACTCTTTACAACA
Found at i:170204 original size:20 final size:21
Alignment explanation
Indices: 170176--170225 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
170166 AAGCTCAACT
* *
170176 TATCAATACAAAT-ACCTATG
1 TATCGATACAAATCAACTATG
* *
170196 TATCGATACAATTCAAGTATG
1 TATCGATACAAATCAACTATG
170217 TATCGATAC
1 TATCGATAC
170226 TTAGTGAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (21 bp):
TATCGATACAAATCAACTATG
Found at i:170465 original size:21 final size:21
Alignment explanation
Indices: 170441--170481 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
170431 ACTTTGGATT
170441 ATTT-TTACTTGAAAACATATG
1 ATTTATTACTTGAAAA-ATATG
*
170462 ATTTATTGCTTGAAAAATAT
1 ATTTATTACTTGAAAAATAT
170482 TTATACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (21 bp):
ATTTATTACTTGAAAAATATG
Found at i:172735 original size:15 final size:15
Alignment explanation
Indices: 172717--172745 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
172707 AAGTGCAAAT
172717 AAAAAGA-GAGGAAA
1 AAAAAGATGAGGAAA
172731 AAAAAGATGAGGAAA
1 AAAAAGATGAGGAAA
172746 GGAGGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (15 bp):
AAAAAGATGAGGAAA
Found at i:173608 original size:110 final size:110
Alignment explanation
Indices: 173299--173616 Score: 313
Period size: 112 Copynumber: 2.9 Consensus size: 110
173289 CAATTATGTT
* * * *
173299 TGATTTTCAAAGAAATTCAT-GTTTTATGCAACTTGATCCATTTGTGCCTACGAAAGTAGGGCAT
1 TGATTTCCAAAGAAATTCATAGTTTTA--CATCTTGATCCATTCGTGCCTAAGAAA-TAGGGCAT
* * *
173363 GTATCCTATCAGTTTTGAAATTTTTGAGACAACAACATTAAATTTGTC
63 GTATCCTATCAGTTTTGAAATTTTTGAGCCAACAACATCAAATTTATC
* * * * * *
173411 TGATTTCCAAAAAAATTCATA-TGTTAGACTACCTGATCCATTCGTGTCTAGGAAA-ATGGGCAT
1 TGATTTCCAAAGAAATTCATAGTTTTACA-T-CTTGATCCATTCGTGCCTAAGAAATA-GGGCAT
* * *
173474 GCATCCTAGCAGTTTTGAAATTTTTGAGCCCAACAACATCAAATTTATT
63 GTATCCTATCAGTTTTGAAATTTTTGAG-CCAACAACATCAAATTTATC
*** * *
173523 TGATTT-TTGAGAAATTCATAGTTTTACATTTTGATCCATTCGTGCCTAAGAAATAGGGTATGTA
1 TGATTTCCAAAGAAATTCATAGTTTTACATCTTGATCCATTCGTGCCTAAGAAATAGGGCATGTA
* * *
173587 CCCTTTTAGTTTTGAAATTTTT-AGGCCAAC
66 TCCTATCAGTTTTGAAATTTTTGA-GCCAAC
173617 CAAAGTTTCC
Statistics
Matches: 167, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
109 6 0.04
110 48 0.29
111 44 0.26
112 69 0.41
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (110 bp):
TGATTTCCAAAGAAATTCATAGTTTTACATCTTGATCCATTCGTGCCTAAGAAATAGGGCATGTA
TCCTATCAGTTTTGAAATTTTTGAGCCAACAACATCAAATTTATC
Found at i:174598 original size:89 final size:87
Alignment explanation
Indices: 174447--174878 Score: 449
Period size: 88 Copynumber: 4.9 Consensus size: 87
174437 AAGGAACGGA
* * * * *
174447 TGCAG-CCTACACATTCCCAATAATATCCCCTTCA-CTCAGCCACTAGATGGAATTGATGCATCA
1 TGCAGACC-ACACATTCCCAATCATATCTCCTTCATC-CAACCACTAGATAGTATTGATGCATCA
174510 CAAAGCCTGATTTTCATCGGGTAAGG
64 CAAAGCCTGATTTTCAT-GGG-AAGG
* *
174536 TGCAGACCACACATTCCCAATCATATCTCCTACATCCAACCACTAGATGGTATTGATGCATCACA
1 TGCAGACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATAGTATTGATGCATCACA
* * *
174601 AAACCTGATTTTCTTGGGGAGGG
66 AAGCCTGATTTTCAT-GGGAAGG
* * * * *
174624 TGCAGACCACACATTCCTAATAATATCCCCTTCA-CTCAACCACTAGATAGTATTGAAGCATCAT
1 TGCAGACCACACATTCCCAATCATATCTCCTTCATC-CAACCACTAGATAGTATTGATGCATCAC
* *
174688 AAAGCCTAATTTCCATGGCGCAAGG
65 AAAGCCTGATTTTCATGG-G-AAGG
** * * **
174713 TATAGACCACACATTCCCAATCATATCTCCTTTATCTAACTTCTAGATAGTATTGATGCATCACA
1 TGCAGACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATAGTATTGATGCATCACA
* * *
174778 AAACCTGATTTTCCTAT-AGAGGG
66 AAGCCTGATTTT-C-ATGGGAAGG
* * * * * *
174801 TGAATACCACATATTCCTAATCATATCTCCTTCATCCAACCATTAAATAGTATTGATGCATCACA
1 TGCAGACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATAGTATTGATGCATCACA
*
174866 AAGCTTGATTTTC
66 AAGCCTGATTTTC
174879 TTCAAGCAAG
Statistics
Matches: 285, Mismatches: 50, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
87 4 0.01
88 138 0.48
89 136 0.48
90 5 0.02
91 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.29
Consensus pattern (87 bp):
TGCAGACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATAGTATTGATGCATCACA
AAGCCTGATTTTCATGGGAAGG
Found at i:174768 original size:177 final size:177
Alignment explanation
Indices: 174447--174869 Score: 546
Period size: 177 Copynumber: 2.4 Consensus size: 177
174437 AAGGAACGGA
* * * *
174447 TGCAG-CCTACACATTCCCAATAATATCCCCTTCACTCAGCCACTAGATGGAATTGATGCATCAC
1 TGCAGACC-ACACATTCCTAATAATATCCCCTTCACTCAACCACTAGATAGTATTGATGCATCAC
* * * *
174511 AAAGCCTGATTTTCATCGGGTAAGGTGCAGACCACACATTCCCAATCATATCTCCTACATCCAAC
65 AAAGCCTAATTTCCATCGGGCAAGGTACAGACCACACATTCCCAATCATATCTCCTACATCCAAC
* * * *
174576 CACTAGATGGTATTGATGCATCACAAAACCTGATTTTCTTGGGGAGGG
130 CACTAGATAGTATTGATGCATCACAAAACCTGATTTTCCTAGAGAGGG
* *
174624 TGCAGACCACACATTCCTAATAATATCCCCTTCACTCAACCACTAGATAGTATTGAAGCATCATA
1 TGCAGACCACACATTCCTAATAATATCCCCTTCACTCAACCACTAGATAGTATTGATGCATCACA
* ** *
174689 AAGCCTAATTTCCAT-GGCGCAAGGTATAGACCACACATTCCCAATCATATCTCCTTTATCTAAC
66 AAGCCTAATTTCCATCGG-GCAAGGTACAGACCACACATTCCCAATCATATCTCCTACATCCAAC
** *
174753 TTCTAGATAGTATTGATGCATCACAAAACCTGATTTTCCTATAGAGGG
130 CACTAGATAGTATTGATGCATCACAAAACCTGATTTTCCTAGAGAGGG
* * * * * * *
174801 TGAATACCACATATTCCTAATCATATCTCCTTCA-TCCAACCATTAAATAGTATTGATGCATCAC
1 TGCAGACCACACATTCCTAATAATATCCCCTTCACT-CAACCACTAGATAGTATTGATGCATCAC
174865 AAAGC
65 AAAGC
174870 TTGATTTTCT
Statistics
Matches: 213, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
176 3 0.01
177 208 0.98
178 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (177 bp):
TGCAGACCACACATTCCTAATAATATCCCCTTCACTCAACCACTAGATAGTATTGATGCATCACA
AAGCCTAATTTCCATCGGGCAAGGTACAGACCACACATTCCCAATCATATCTCCTACATCCAACC
ACTAGATAGTATTGATGCATCACAAAACCTGATTTTCCTAGAGAGGG
Found at i:175411 original size:35 final size:35
Alignment explanation
Indices: 175360--175665 Score: 222
Period size: 35 Copynumber: 8.7 Consensus size: 35
175350 TGACTATATT
* *
175360 TGGTTAAACTCTTTTCATCATCATTTGGTTGTATC
1 TGGTCAAACTCTTTTCATCATCGTTTGGTTGTATC
* * *
175395 TAGTCAAACTCTTTTCATTATCGTTTGATTGTATC
1 TGGTCAAACTCTTTTCATCATCGTTTGGTTGTATC
* *
175430 TGGTCAAGCTCTTTTCATCATCGTTTGACTT-TATC
1 TGGTCAAACTCTTTTCATCATCGTTTG-GTTGTATC
* * * *
175465 TGGTCAAGCTTTTTTCATCATTGTTTGGCTGTATC
1 TGGTCAAACTCTTTTCATCATCGTTTGGTTGTATC
* *** * *
175500 TGGTCACACTGC-TTTCATCATCGTTTAACTATATT
1 TGGTCAAACT-CTTTTCATCATCGTTTGGTTGTATC
* * * * *** *
175535 TGGTGAAACTCTTTTCCTTATTGTTTAACTATATC
1 TGGTCAAACTCTTTTCATCATCGTTTGGTTGTATC
** * * **
175570 TGGTCAAACTCTTTTTGTAATCATTTGACTGTATC
1 TGGTCAAACTCTTTTCATCATCGTTTGGTTGTATC
** * *
175605 TGGTCAAACT-TTTTCTATCATCGTTTGACTATATT
1 TGGTCAAACTCTTTTC-ATCATCGTTTGGTTGTATC
* * *
175640 TAGTCAAACTCTTTCCTTCATCGTTT
1 TGGTCAAACTCTTTTCATCATCGTTT
175666 AACTATATTT
Statistics
Matches: 221, Mismatches: 44, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
34 6 0.03
35 209 0.95
36 6 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (35 bp):
TGGTCAAACTCTTTTCATCATCGTTTGGTTGTATC
Found at i:175465 original size:70 final size:70
Alignment explanation
Indices: 175347--175689 Score: 305
Period size: 70 Copynumber: 4.9 Consensus size: 70
175337 CCTATTTATA
* * * * *
175347 GTTTGACTATATTTGGTTAAACTCTTTTCATCATCATTTG-GTTGTATCTAGTCAAACTCTTTTC
1 GTTTGACTATATCTGGTCAAACTCTTTTCATCATCGTTTGACTT-TATCTGGTCAAACTCTTTTC
*
175411 ATTATC
65 ATCATC
* * * * *
175417 GTTTGATTGTATCTGGTCAAGCTCTTTTCATCATCGTTTGACTTTATCTGGTCAAGCTTTTTTCA
1 GTTTGACTATATCTGGTCAAACTCTTTTCATCATCGTTTGACTTTATCTGGTCAAACTCTTTTCA
*
175482 TCATT
66 TCATC
* * * * * * *
175487 GTTTGGCTGTATCTGGTCACACTGC-TTTCATCATCGTTTAACTATATTTGGTGAAACTCTTTTC
1 GTTTGACTATATCTGGTCAAACT-CTTTTCATCATCGTTTGACTTTATCTGGTCAAACTCTTTTC
* * *
175551 CTTATT
65 ATCATC
* ** * * *
175557 GTTTAACTATATCTGGTCAAACTCTTTTTGTAATCATTTGACTGTATCTGGTCAAACT-TTTTCT
1 GTTTGACTATATCTGGTCAAACTCTTTTCATCATCGTTTGACTTTATCTGGTCAAACTCTTTTC-
175621 ATCATC
65 ATCATC
* * * * * * * * *
175627 GTTTGACTATATTTAGTCAAACTCTTTCCTTCATCGTTTAACTATATTTGGTCATATTCTTTT
1 GTTTGACTATATCTGGTCAAACTCTTTTCATCATCGTTTGACTTTATCTGGTCAAACTCTTTT
175690 TACTCACATT
Statistics
Matches: 216, Mismatches: 52, Indels: 9
0.78 0.19 0.03
Matches are distributed among these distances:
69 6 0.03
70 203 0.94
71 7 0.03
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (70 bp):
GTTTGACTATATCTGGTCAAACTCTTTTCATCATCGTTTGACTTTATCTGGTCAAACTCTTTTCA
TCATC
Found at i:175547 original size:105 final size:104
Alignment explanation
Indices: 175347--175680 Score: 355
Period size: 105 Copynumber: 3.2 Consensus size: 104
175337 CCTATTTATA
* * * * * *
175347 GTTTGACTATATTTGGTTAAACTCTTTTCATCATCATTTGGTTGTATCTAGTCAAACTCTTTTCA
1 GTTTAACTATATCTGGTCAAACTTTTTTCATCATCATTTGGCTGTATCTGGTCAAACTC-TTTCA
* * * * *
175412 TTATCGTTTGATTGTATCTGGTCAAGCTCTTTTCATCATC
65 TCATCGTTTGACTATATTTGGTCAAACTCTTTTCATCATC
* * * ** *
175452 GTTTGACTTTATCTGGTCAAGCTTTTTTCATCATTGTTTGGCTGTATCTGGTCACACTGCTTTCA
1 GTTTAACTATATCTGGTCAAACTTTTTTCATCATCATTTGGCTGTATCTGGTCAAACT-CTTTCA
* * * * *
175517 TCATCGTTTAACTATATTTGGTGAAACTCTTTTCCTTATT
65 TCATCGTTTGACTATATTTGGTCAAACTCTTTTCATCATC
* * * *
175557 GTTTAACTATATCTGGTCAAACTCTTTTT-GTAATCATTTGACTGTATCTGGTCAAACTTTTTCT
1 GTTTAACTATATCTGGTCAAACT-TTTTTCATCATCATTTGGCTGTATCTGGTCAAACTCTTTC-
* * *
175621 ATCATCGTTTGACTATATTTAGTCAAACTCTTTCCTTCATC
64 ATCATCGTTTGACTATATTTGGTCAAACTCTTTTCATCATC
*
175662 GTTTAACTATATTTGGTCA
1 GTTTAACTATATCTGGTCA
175681 TATTCTTTTT
Statistics
Matches: 188, Mismatches: 38, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
104 4 0.02
105 178 0.95
106 6 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (104 bp):
GTTTAACTATATCTGGTCAAACTTTTTTCATCATCATTTGGCTGTATCTGGTCAAACTCTTTCAT
CATCGTTTGACTATATTTGGTCAAACTCTTTTCATCATC
Found at i:175904 original size:43 final size:43
Alignment explanation
Indices: 175856--175990 Score: 134
Period size: 43 Copynumber: 3.1 Consensus size: 43
175846 TCATTTTTTG
*
175856 TCCTTTGTTGACTTATCAGTTCAATCCTAGTCAACCTTTTGTA
1 TCCTTTGTTGACTTATCAGTTCAATCCTGGTCAACCTTTTGTA
* * * * * *
175899 TCCTTTGTTTACCTGT-TGACTT-AGTCCTGGGTAAATCTTTT-TA
1 TCCTTTGTTGA-CT-TATCAGTTCAATCCT-GGTCAACCTTTTGTA
*
175942 TCCTTTGTTGACTTATC-GATTCAATCTTGGTCAACCTTTTGTA
1 TCCTTTGTTGACTTATCAG-TTCAATCCTGGTCAACCTTTTGTA
175985 TCCTTT
1 TCCTTT
175991 ATTCTTTGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
41 1 0.01
42 15 0.21
43 39 0.55
44 15 0.21
45 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.47
Consensus pattern (43 bp):
TCCTTTGTTGACTTATCAGTTCAATCCTGGTCAACCTTTTGTA
Found at i:177566 original size:165 final size:164
Alignment explanation
Indices: 177368--177692 Score: 381
Period size: 163 Copynumber: 2.0 Consensus size: 164
177358 ATTTTTCGAG
* * * * * *
177368 GGGGATTTTCTTGGTTTATAAATTTGAAAATTCATCAAATATTATTATTTAACTCATGGTAATTC
1 GGGGATTTTCTCGGTTCATAAATTTGAAAATTCATAAAATATCATCATTTAACTCAT--TAAATC
* * *
177433 AG-TTTCAAAGAATTCCTTTTA-TTTCATTATTTTTTCATTTTTTTC-TTGAAAT-TCTCTTATT
64 AGTTTTCAAA-AATT-CTTTTATTTTCATTAGTTTTTCATTTTTTCCTTTGAAATGCCT-TTATT
* * *
177494 TTCAAAAAACCGAGTTTTATATTCCATAAAGGTTTTTGCA
126 TGC-AAAAACCGAATTTTATATCCCATAAAGGTTTTTGCA
* ** * *
177534 GGGGTTTTTCTCGGTTCA-AAATTTTTAAATTCATAAAATATCATCATTTAATTTATTAAATCAG
1 GGGGATTTTCTCGGTTCATAAATTTGAAAATTCATAAAATATCATCATTTAACTCATTAAATCAG
*
177598 TTTTGAAAAATTCTTTTATTTTCATTAGTTTTTCATTTTTTCCTTTGAAATGCCTTTATTTGCAA
66 TTTTCAAAAATTCTTTTATTTTCATTAGTTTTTCATTTTTTCCTTTGAAATGCCTTTATTTGCAA
* *
177663 AAACCGAATTTTCTATCCCATAAATGTTTT
131 AAACCGAATTTTATATCCCATAAAGGTTTT
177693 CGGAAAGATT
Statistics
Matches: 135, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
162 6 0.04
163 61 0.45
164 20 0.15
165 33 0.24
166 15 0.11
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.48
Consensus pattern (164 bp):
GGGGATTTTCTCGGTTCATAAATTTGAAAATTCATAAAATATCATCATTTAACTCATTAAATCAG
TTTTCAAAAATTCTTTTATTTTCATTAGTTTTTCATTTTTTCCTTTGAAATGCCTTTATTTGCAA
AAACCGAATTTTATATCCCATAAAGGTTTTTGCA
Found at i:179747 original size:19 final size:20
Alignment explanation
Indices: 179707--179754 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
179697 CAGTTTTATA
**
179707 TATCGATACAATTGTGCATG
1 TATCGATACAATAATGCATG
179727 TATCGATACAATAAT-CATG
1 TATCGATACAATAATGCATG
179746 TATCGATAC
1 TATCGATAC
179755 TATGTATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
TATCGATACAATAATGCATG
Found at i:179761 original size:13 final size:13
Alignment explanation
Indices: 179743--179767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179733 TACAATAATC
179743 ATGTATCGATACT
1 ATGTATCGATACT
179756 ATGTATCGATAC
1 ATGTATCGATAC
179768 AAAGCATAAT
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):
ATGTATCGATACT
Found at i:179785 original size:33 final size:32
Alignment explanation
Indices: 179724--179787 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
179714 ACAATTGTGC
*
179724 ATGTATCGATACAATAATCATGTATCGATACT
1 ATGTATCGATACAATAATAATGTATCGATACT
179756 ATGTATCGATACAA-AGCATAATGTATCGATAC
1 ATGTATCGATACAATA--ATAATGTATCGATAC
179788 ATCTCGATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 14 0.48
33 14 0.48
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (32 bp):
ATGTATCGATACAATAATAATGTATCGATACT
Found at i:184467 original size:142 final size:141
Alignment explanation
Indices: 184153--184679 Score: 671
Period size: 142 Copynumber: 3.8 Consensus size: 141
184143 ATTTTACCAC
* *
184153 TAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCCTAGGGTTATCCGTAGGGGTA
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTATCCGTAGGGGTA
* * * * *
184218 TAGAAATTTTTAAAAATTTTCGTATCTTTTCAGTTCTCCATTAAGGTATGAAATGAA-TTTTTT-
66 TAGAAATCTTCAAAACTTTTTGTATCTTTTCAGTTCTCCATTAAGGTACGAAAT-AATTTTTTTA
184281 ---A--AAAAAT
130 AAAATTAAAAAT
* * ** *
184288 TAAATAAAAATTATTATCTTAAATTTTCAAGATTTCTAATATTCCCATGGTTCCCCATAGGGGTA
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTATCCGTAGGGGTA
* * * * * *
184353 TAAAAATCTTCAAAACTTTTTGTATCTTTTTATTTCTTCATTAAGGTGCGAAATTATTTTTCTTA
66 TAGAAATCTTCAAAACTTTTTGTATCTTTTCAGTTCTCCATTAAGGTACGAAATAATTTTT-TTA
184418 AAAATTAAAAAT
130 AAAATTAAAAAT
* * *
184430 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTTTCTGTAAGGG-A
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTATCCGTAGGGGTA
* * * *
184494 TAGAAATCTTTAAAACTTTTTTTTATCTTTTCGGTTCTCCATTAAGGTACAAAATAAATTTTTTT
66 TAGAAATCTTCAAAAC-TTTTTGTATCTTTTCAGTTCTCCATTAAGGTACGAAAT-AATTTTTTT
184559 AAAAATTAAAAAT
129 AAAAATTAAAAAT
*
184572 TAAATAAAAATTATTATCTTAATCTTTCAAGATTT-TCAATATTCCTATGGTTATCCGTAGGGGT
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCT-AATATTCCTATGGTTATCCGTAGGGGT
*
184636 ATAGAAATCTTCAAAAAC-TTTTGTAACTTTTC-GATTCTCCATTA
65 ATAGAAATCTTC-AAAACTTTTTGTATCTTTTCAG-TTCTCCATTA
184680 TAGTACAAAA
Statistics
Matches: 336, Mismatches: 42, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
134 1 0.00
135 106 0.32
136 2 0.01
140 1 0.00
141 17 0.05
142 187 0.56
143 17 0.05
144 5 0.01
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.43
Consensus pattern (141 bp):
TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTTATCCGTAGGGGTA
TAGAAATCTTCAAAACTTTTTGTATCTTTTCAGTTCTCCATTAAGGTACGAAATAATTTTTTTAA
AAATTAAAAAT
Found at i:184779 original size:25 final size:26
Alignment explanation
Indices: 184751--184809 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
184741 TCCATAGTTC
184751 TCTTTTTATATACAAGGATAAAATT-
1 TCTTTTTATATACAAGGATAAAATTA
184776 TCTTTTTATATACAAGGATAAAATTA
1 TCTTTTTATATACAAGGATAAAATTA
184802 TCATTTTT
1 TC-TTTTT
184810 TTTTCATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.47
Consensus pattern (26 bp):
TCTTTTTATATACAAGGATAAAATTA
Found at i:185130 original size:155 final size:155
Alignment explanation
Indices: 184844--185198 Score: 362
Period size: 155 Copynumber: 2.3 Consensus size: 155
184834 GTTATCGGGT
* *
184844 ACTTCTAAGTTGAAAGTATCCTATAAGGGCATTTTCATAATTTTTTCAAAACCAAGTCTTAAGTT
1 ACTTCTAAGTCGAAAGTATCCTATAAGGGCATTTTCATAATTTTTTCAAAACCAAGTCCTAAGTT
* * * * * *
184909 GTCACTAGGTTCGCTTTTATGTTGAAGATGGGTATTTAGGATAAGTTTATCCTATCTGTAATCTT
66 GTCACTAGGGTCGCTTTTATGTTAAAGATGGGTATTTAGGATAAGTTCATCCCAACTATAATCTT
* *
184974 TTTAAGTCGTTTAAAGGTATCAAGC
131 TTTAAATCCTTTAAAGGTATCAAGC
* * ** * *
184999 ACTTCTAAGTCGAAGGTATCCTATAAGGGTATTTTTGTAATTTTTT-AAAATCGAGTCCTAAGTT
1 ACTTCTAAGTCGAAAGTATCCTATAAGGGCATTTTCATAATTTTTTCAAAACCAAGTCCTAAGTT
* * * *
185063 GTTA-TCGGGTCTGTTTTTAT-TCCTAAAG-TGGGTATTTAGGATAGGTTCATCCCAACTATAAT
66 GTCACTAGGGTC-GCTTTTATGT--TAAAGATGGGTATTTAGGATAAGTTCATCCCAACTATAAT
** * *
185125 CCTTTTTAAATCCTTTAGGGGTATTAGGC
128 -CTTTTTAAATCCTTTAAAGGTATCAAGC
* * * *
185154 ACTTCTACGTTGAAAGTATCTCCTAGAA--GCATTTTTATAATTTTT
1 ACTTCTAAGTCGAAAGTA--TCCTATAAGGGCATTTTCATAATTTTT
185199 AGAATTGAGT
Statistics
Matches: 164, Mismatches: 30, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
153 6 0.04
154 54 0.33
155 97 0.59
157 7 0.04
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (155 bp):
ACTTCTAAGTCGAAAGTATCCTATAAGGGCATTTTCATAATTTTTTCAAAACCAAGTCCTAAGTT
GTCACTAGGGTCGCTTTTATGTTAAAGATGGGTATTTAGGATAAGTTCATCCCAACTATAATCTT
TTTAAATCCTTTAAAGGTATCAAGC
Found at i:188372 original size:14 final size:14
Alignment explanation
Indices: 188355--188397 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
188345 TAAAGATTAA
188355 ATTTTAAAAAATAT
1 ATTTTAAAAAATAT
* *
188369 ATTTTTAAAAATAA
1 ATTTTAAAAAATAT
*
188383 ATTATAAAAAATAT
1 ATTTTAAAAAATAT
188397 A
1 A
188398 ATATGAGAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTTAAAAAATAT
Found at i:189356 original size:397 final size:396
Alignment explanation
Indices: 188428--189579 Score: 1704
Period size: 393 Copynumber: 2.9 Consensus size: 396
188418 GTTTGAACTG
* * *
188428 AAGTAAGTTTGGACAAAATTCAAAACTTATATTTCGGGCCAAATTGGGCTTG-GATAAGCATGTT
1 AAGTAAATTTGGACAAAATTCGAAACTTATATTTCGGGCCAAGTTGGGCTTGAG-TAAGCATGTT
* *
188492 TGATGTTACTAGGTTTGGTCCCAATCCAACCATGAGTACCTTTGGTTACTATTATGTTTTTAGA-
65 TGATGTTATTAGGTTTGGTCTCAATCCAACCATGAGTACCTTTGGTTACTATTATGTTTTTAGAT
188556 -T----TTGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACC
130 TTAAAGTTGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACC
*
188616 TATTAATGTGGGTGAAAAAAATTAAATTTTTTAAGAAATTATTTTGTCTAAAAATAATAAGTTAA
195 --TT-A-GTGGGTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCTAAAAATAATAAGTTAA
*
188681 AAAAATTAAAAAAAGTAGTATGTTTCAAGTGAGTTGTTATTTTTTAAATTCAAAAAATATT-AAA
256 AAAAATTAAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTAAATT-AAAAAATATTAAAA
* * * * *
188745 AATTTTATGTAG-T-TTTTTTAAGATCAAAATATTTGAGAAGGTTTAAATAGGTTTGAACTGTCT
320 AAATTTATGTAGTTATTTTTTAAGATCAAAATACTTGAGAAGATCTAAATAGGCTTGAACTGTCT
*
188808 ATTTACAAATAT
385 ATGTACAAATAT
* *
188820 AAGTAAATTTGGACAAAAATTCGATACTTATATTTCGAGCCAAGTTGGGCTTGAGTAAGCATGTT
1 AAGTAAATTTGGAC-AAAATTCGAAACTTATATTTCGGGCCAAGTTGGGCTTGAGTAAGCATGTT
* * *
188885 TGATATTATTAGGTTTGGTCTCAATCCAATCATGAGTACCTTTGATTACTATTATGTTTTTAGAT
65 TGATGTTATTAGGTTTGGTCTCAATCCAACCATGAGTACCTTTGGTTACTATTATGTTTTTAGAT
188950 TTAAAGTTGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACC
130 TTAAAGTTGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACC
189015 -TA-TGGGTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCTAAAATATAATAAGTTAAAAA
195 TTAGTGGGTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCTAAAA-ATAATAAGTTAAAAA
189078 AATTAAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTAAATTAAAAGAATATTAAAAAAA
259 AATTAAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTAAATTAAAA-AATATTAAAAAAA
* * *
189143 TTTATATAGTTATTTTTTAAAATCAAAATACTTGGGAAGATCTAAATAGGCTTGAACTGTCTATG
323 TTTATGTAGTTATTTTTTAAGATCAAAATACTTGAGAAGATCTAAATAGGCTTGAACTGTCTATG
*
189208 TATAAATAT
388 TACAAATAT
* * *
189217 AAGTAAATTTGAACAAAATTCGAAATTTATATTTTGGGCCAAGTTGGGCTTGAGTAAGCATGTTT
1 AAGTAAATTTGGACAAAATTCGAAACTTATATTTCGGGCCAAGTTGGGCTTGAGTAAGCATGTTT
* * **
189282 GATGTTATTAAGTTTGGTCTCAATCCAACCATGAGTGCCCCCTGGTTACTATTAT-TTTTATAGA
66 GATGTTATTAGGTTTGGTCTCAATCCAACCATGAGT-ACCTTTGGTTACTATTATGTTTT-TAGA
*
189346 TTTAAAGTTGAATATTAAAATTGTTGGCTATAATTATATT-AAAAAGAACTAAAAATTATCACAC
129 TTTAAAGTTGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACAC
* * *
189410 CTATTTATGTGGGTGAAAAATATTAAATTTTTTCAAAAATTATTTTATCTAAAAAATAATAAGTT
194 C---TTA-GTGGGTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCT-AAAAATAATAAGTT
*
189475 -AAAAAATAAAAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTTTAAATTAAAATAATAT
254 AAAAAAAT-TAAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTA--TTTTTTAAATTAAAA-AATAT
*
189539 TAAAAAAATTTATGTAGTTACTTTTTAAGATCAAAATACTT
315 TAAAAAAATTTATGTAGTTATTTTTTAAGATCAAAATACTT
189580 AACATTCTTA
Statistics
Matches: 692, Mismatches: 43, Indels: 38
0.90 0.06 0.05
Matches are distributed among these distances:
392 13 0.02
393 151 0.22
394 68 0.10
395 15 0.02
396 111 0.16
397 124 0.18
399 59 0.09
400 2 0.00
401 7 0.01
402 80 0.12
403 4 0.01
404 58 0.08
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.38
Consensus pattern (396 bp):
AAGTAAATTTGGACAAAATTCGAAACTTATATTTCGGGCCAAGTTGGGCTTGAGTAAGCATGTTT
GATGTTATTAGGTTTGGTCTCAATCCAACCATGAGTACCTTTGGTTACTATTATGTTTTTAGATT
TAAAGTTGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACCT
TAGTGGGTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCTAAAAATAATAAGTTAAAAAAA
TTAAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTAAATTAAAAAATATTAAAAAAATTT
ATGTAGTTATTTTTTAAGATCAAAATACTTGAGAAGATCTAAATAGGCTTGAACTGTCTATGTAC
AAATAT
Found at i:190023 original size:23 final size:23
Alignment explanation
Indices: 189971--190032 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
189961 TTAGTATATA
*
189971 TATATATATATATAA-ATTTAAATT
1 TATATAT-TAT-TAATATATAAATT
189995 TGATATATTATTAATATATAAATT
1 T-ATATATTATTAATATATAAATT
*
190019 TATATGTTATTAAT
1 TATATATTATTAAT
190033 GAATATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 15 0.44
24 13 0.38
25 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
TATATATTATTAATATATAAATT
Found at i:190506 original size:9 final size:9
Alignment explanation
Indices: 190492--190522 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
190482 TTGATATAAA
190492 AAAAAAATT
1 AAAAAAATT
190501 AAAAAAATT
1 AAAAAAATT
190510 AAAAAAATT
1 AAAAAAATT
190519 AAAA
1 AAAA
190523 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAATT
Found at i:191222 original size:16 final size:18
Alignment explanation
Indices: 191203--191268 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 18
191193 ACCTGAATTT
191203 ATATAAAATAAT-TA-AA
1 ATATAAAATAATATATAA
*
191219 ATATAATATAATATATAA
1 ATATAAAATAATATATAA
* *
191237 ATATTTTAAAATTTATATAAAA
1 ATA---TAAAA-TAATATATAA
191259 ATATAAAATA
1 ATATAAAATA
191269 CTTTAAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 11 0.28
17 2 0.05
18 6 0.15
19 5 0.13
21 4 0.10
22 11 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAAAATAATATATAA
Found at i:191234 original size:28 final size:30
Alignment explanation
Indices: 191202--191281 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 30
191192 TACCTGAATT
*
191202 TATATAAAATA-ATTAAAATATAATAT-AA
1 TATATAAAATACTTTAAAATATAATATAAA
* *
191230 TATAT-AAATATTTTAAAAT-TTATATAAA
1 TATATAAAATACTTTAAAATATAATATAAA
*
191258 AATATAAAATACTTTAAAA-ATAAT
1 TATATAAAATACTTTAAAATATAAT
191282 TATCTATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 10 0.23
28 18 0.42
29 15 0.35
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
TATATAAAATACTTTAAAATATAATATAAA
Found at i:191278 original size:30 final size:32
Alignment explanation
Indices: 191219--191278 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
191209 AATAATTAAA
*
191219 ATATAATATAATATATAAATATTTTAAAATTT
1 ATATAATATAATATATAAATATTTAAAAATTT
191251 ATATAA-A-AATATA-AAATACTTTAAAAAT
1 ATATAATATAATATATAAATA-TTTAAAAAT
191279 AATTATCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 14 0.54
31 1 0.04
32 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (32 bp):
ATATAATATAATATATAAATATTTAAAAATTT
Found at i:192717 original size:14 final size:15
Alignment explanation
Indices: 192694--192735 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
192684 ATAAAAAGTG
*
192694 TAATTTTATTAAA-A
1 TAATTCTATTAAAGA
192708 TAATTCTATTAAATGA
1 TAATTCTATTAAA-GA
192724 TAATATCTATTA
1 TAAT-TCTATTA
192736 TTGTTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 12 0.50
16 5 0.21
17 7 0.29
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (15 bp):
TAATTCTATTAAAGA
Found at i:193553 original size:14 final size:14
Alignment explanation
Indices: 193515--193553 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
193505 TAAGTATTCC
193515 TCTTTTTTTCTCTT
1 TCTTTTTTTCTCTT
*
193529 TCTATTATTTTCTTTT
1 TCT-TT-TTTTCTCTT
193545 TCTTTTTTT
1 TCTTTTTTT
193554 TTCTACTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 7 0.32
15 4 0.18
16 11 0.50
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTTTTCTCTT
Found at i:198100 original size:33 final size:33
Alignment explanation
Indices: 198052--198122 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
198042 AGTTGTTAGG
* * *
198052 TACAATGTATCGATACATTTTACTATGTATCGA
1 TACAATGTATCGATACAATGTACCATGTATCGA
* * *
198085 TACATTGTATTGATACAATGTCCCATGTATCGA
1 TACAATGTATCGATACAATGTACCATGTATCGA
198118 TACAA
1 TACAA
198123 ACAGTGATAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (33 bp):
TACAATGTATCGATACAATGTACCATGTATCGA
Found at i:201852 original size:82 final size:82
Alignment explanation
Indices: 201750--201913 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 82
201740 GGAAATGGGC
*
201750 ACAAAGGCAAACACTAAACATAATATCCGGTCGACTAGCGGTAAGATATAACAATGAACTTATCA
1 ACAAAGGCAAACACTAAACATAATATCCGGTCGACTAGCGGTAAGATATAACAATGAACCTATCA
*
201815 TAGACCTATAGAGTTTA
66 TAAACCTATAGAGTTTA
* *
201832 ACAAAGGTAAACACTAAACATAATATCCGGTCTACTAGCGGTAAGATATAACAATGAACCTATCA
1 ACAAAGGCAAACACTAAACATAATATCCGGTCGACTAGCGGTAAGATATAACAATGAACCTATCA
201897 TAAACCTATAGAGTTTA
66 TAAACCTATAGAGTTTA
201914 GTATCGATAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (82 bp):
ACAAAGGCAAACACTAAACATAATATCCGGTCGACTAGCGGTAAGATATAACAATGAACCTATCA
TAAACCTATAGAGTTTA
Found at i:204899 original size:13 final size:13
Alignment explanation
Indices: 204883--204923 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
204873 CCTTTTCTAG
204883 TTCAACAATTTTT
1 TTCAACAATTTTT
*
204896 TTCAAGAATTTCATT
1 TTCAACAATTT--TT
204911 TTCAACAATTTTT
1 TTCAACAATTTTT
204924 GATTTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 12 0.50
15 12 0.50
ACGTcount: A:0.32, C:0.15, G:0.02, T:0.51
Consensus pattern (13 bp):
TTCAACAATTTTT
Found at i:206969 original size:20 final size:20
Alignment explanation
Indices: 206944--206981 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
206934 GCTGTTGGGC
206944 ACAATGTATCGATACATTTT
1 ACAATGTATCGATACATTTT
206964 ACAATGTATCGATACATT
1 ACAATGTATCGATACATT
206982 GTATTGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
ACAATGTATCGATACATTTT
Found at i:206984 original size:13 final size:13
Alignment explanation
Indices: 206963--206996 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
206953 CGATACATTT
206963 TACAATGTATCGA
1 TACAATGTATCGA
* *
206976 TACATTGTATTGA
1 TACAATGTATCGA
206989 TACAATGT
1 TACAATGT
206997 CCCATGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:206991 original size:33 final size:33
Alignment explanation
Indices: 206948--207010 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
206938 TTGGGCACAA
* *
206948 TGTATCGATACATTTTACAATGTATCGATACAT
1 TGTATCGATACAATGTACAATGTATCGATACAT
* * *
206981 TGTATTGATACAATGTCCCATGTATCGATA
1 TGTATCGATACAATGTACAATGTATCGATA
207011 TAAATAGTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATGTACAATGTATCGATACAT
Found at i:213503 original size:20 final size:20
Alignment explanation
Indices: 213477--213531 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
213467 TGCCAGTTTC
213477 ATGTATCGATACAATTCAAT
1 ATGTATCGATACAATTCAAT
*
213497 TTGTATCGATACAATTCAAT
1 ATGTATCGATACAATTCAAT
213517 ATGTATCGATACAAT
1 ATGTATCGATACAAT
213532 CTATCGATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCAAT
Found at i:214750 original size:78 final size:78
Alignment explanation
Indices: 214618--214911 Score: 337
Period size: 78 Copynumber: 3.8 Consensus size: 78
214608 ACGGGGCTGA
*
214618 AGTATCCCCGATTATGAAAAATTGGTATTCT-AGAAATAAAATCGGGGTTGGAGTATCCCCTCGA
1 AGTATCCCCGATTATGAAAAATTGGTATTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCTCG-
214682 AAATAACAGGGTTGG
64 AAATAACAGGGTTGG
* * *
214697 ACTATCCCTGATTAT-AAAAATTGGTATTTTGAAAATGAAATCGGGGTTGGAGTATCCCCTCGAA
1 AGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
*
214761 ATAACAGGGTTAG
66 ATAACAGGGTTGG
* * * * *** * ** *
214774 AGTATCCCCGATTGTGAAAAATCGATGATTTAG-AAATAAGGCCGGGGCTAAAGTATCCCCTTGG
1 AGTATCCCCGATTATGAAAAATTGGT-ATTTTGAAAATAAAATCGGGGTTGGAGTATCCCC-TCG
214838 AAATAAC-GAGGTTGG
64 AAATAACAG-GGTTGG
* * *
214853 -GTATCCCCTATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCC
1 AGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
214912 GATTGTGAAA
Statistics
Matches: 176, Mismatches: 33, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
77 30 0.17
78 113 0.64
79 33 0.19
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (78 bp):
AGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
ATAACAGGGTTGG
Found at i:214902 original size:156 final size:156
Alignment explanation
Indices: 214618--214911 Score: 389
Period size: 156 Copynumber: 1.9 Consensus size: 156
214608 ACGGGGCTGA
* * * * **
214618 AGTATCCCCGATTATGAAAAATTGGTATTCTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
1 AGTATCCCCGATTATGAAAAATCGATATTCTAGAAATAAAACCGGGGCTAAAGTATCCCCTCGAA
* *
214683 AATAACAGGGTTGGACTATCCCTGATTATAAAAATTGGTATTTTGAAAATGAAATCGGGGTTGGA
66 AATAACAGGGTTGGACTATCCCTGATTATAAAAATTGGTATTTTGAAAATAAAATCGGAGTTGGA
214748 GTATCCCCTCGAAATAACAGGGTTAG
131 GTATCCCCTCGAAATAACAGGGTTAG
* ** * *
214774 AGTATCCCCGATTGTGAAAAATCGATGATT-TAGAAATAAGGCCGGGGCTAAAGTATCCCCTTGG
1 AGTATCCCCGATTATGAAAAATCGAT-ATTCTAGAAATAAAACCGGGGCTAAAGTATCCCCTCGA
* *
214838 AAATAAC-GAGGTTGG-GTATCCCCT-ATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGT
65 AAATAACAG-GGTTGGACTAT-CCCTGATTAT-AAAAATTGGTATTTTGAAAATAAAATCGGAGT
214900 TGGAGTATCCCC
127 TGGAGTATCCCC
214912 GATTGTGAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
155 9 0.08
156 107 0.90
157 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (156 bp):
AGTATCCCCGATTATGAAAAATCGATATTCTAGAAATAAAACCGGGGCTAAAGTATCCCCTCGAA
AATAACAGGGTTGGACTATCCCTGATTATAAAAATTGGTATTTTGAAAATAAAATCGGAGTTGGA
GTATCCCCTCGAAATAACAGGGTTAG
Found at i:214910 original size:51 final size:51
Alignment explanation
Indices: 214848--214963 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
214838 AAATAACGAG
*
214848 GTTGG-GTATCCCCTATTATGAAAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCTATTATGAAAAATTGGTATTTTAG-AAATAAAATCGGA
* * *
214898 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCTATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
214949 GTTGGAGTATCCCCT
1 GTTGGAGTATCCCCT
214964 CGGAAATAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
50 5 0.08
51 53 0.90
52 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCTATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:216123 original size:49 final size:49
Alignment explanation
Indices: 215997--216281 Score: 255
Period size: 49 Copynumber: 5.9 Consensus size: 49
215987 CACAAGTTGG
* * *
215997 TGGTATCTTC-T-TCTAAGTCTAATATCGCTGGCCTTGAATCAACATAT
1 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* ** ** *
216044 TGG------CACCTTTAAGTCCAACGTCGCCAGCCTTGAATCAGCACAT
1 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
216087 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
** * * *
216136 TGGCGCCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 T-G-GTATCT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * *
216188 TGGCACCTTCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
1 TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
* * * *
216237 TGGCGCCT-TCGTCATCTTTAAGACCAATGTCGTTGGCCTTGAATC
1 T-G-G--TATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
216282 CCAAGAATTA
Statistics
Matches: 190, Mismatches: 33, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
41 1 0.01
43 31 0.16
47 3 0.02
49 74 0.39
50 5 0.03
51 5 0.03
52 71 0.37
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (49 bp):
TGGTATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
Found at i:216169 original size:52 final size:51
Alignment explanation
Indices: 216050--216281 Score: 283
Period size: 49 Copynumber: 4.6 Consensus size: 51
216040 ATATTGGCAC
* ** ** *
216050 CTTTAAGTCCAACGTCGCCAGCCTTGAATCAGCACATT-G-GTATCTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
* *
216099 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTT-TCAT
*
216151 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--TTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
* * * *
216200 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTT-TTCAT
* *
216252 CTTTAAGACCAATGTCGTTGGCCTTGAATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATC
216282 CCAAGAATTA
Statistics
Matches: 157, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 77 0.49
50 2 0.01
51 3 0.02
52 75 0.48
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCGCCTTTTCAT
Found at i:216225 original size:101 final size:101
Alignment explanation
Indices: 216050--216281 Score: 383
Period size: 101 Copynumber: 2.3 Consensus size: 101
216040 ATATTGGCAC
* ** * *
216050 CTTTAAGTCCAACGTCGCCAGCCTTGAATCAGCACATTGGTATCTTCATCTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
*
216115 GCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAT
66 GCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
*
216151 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATTTTTAAGTCCAATATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
216216 GCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
66 GCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
* *
216252 CTTTAAGACCAATGTCGTTGGCCTTGAATC
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATC
216282 CCAAGAATTA
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 122 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (101 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATC
GCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCAT
Found at i:217239 original size:12 final size:12
Alignment explanation
Indices: 217222--217267 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
217212 GCAAGCAAGC
217222 AAAAAAAAAGAG
1 AAAAAAAAAGAG
217234 AAAAAAAAA-AG
1 AAAAAAAAAGAG
217245 AAAGAAAAAAAGAG
1 -AA-AAAAAAAGAG
217259 AGAAAAAAA
1 A-AAAAAAA
217268 CCAAACCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.07
12 11 0.37
13 14 0.47
14 3 0.10
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:218494 original size:20 final size:20
Alignment explanation
Indices: 218461--218536 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
218451 TTTTTACCCA
*
218461 GATGTATTGATACATTTTTC
1 GATGTATCGATACATTTTTC
* * *
218481 GATATATCGATACATGTAT-
1 GATGTATCGATACATTTTTC
* *
218500 GAATGTATCGATATATTCTTC
1 G-ATGTATCGATACATTTTTC
*
218521 AATGTATCGATACATT
1 GATGTATCGATACATT
218537 ATATCTTTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.02
20 42 0.98
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (20 bp):
GATGTATCGATACATTTTTC
Found at i:222014 original size:141 final size:142
Alignment explanation
Indices: 221766--222186 Score: 564
Period size: 139 Copynumber: 3.0 Consensus size: 142
221756 ACAAGGTACG
* *
221766 AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATTTTAATTTTTCAAGATTTTTA
1 AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
** * * ** *
221831 ATATTCCCATGGTTCTTTGTAGGGGTATAGAAATTTTTAAAACTTTTTTTATCTTTTCGATTCTC
66 ATATTCCCATGGTTCTCCGTAAGGGTATAGAAATTTTCAAAACTTTTCATATCTTTTCGGTTCTC
221896 TATTAAGGTATA
131 TATTAAGGTATA
* *
221908 AAATAAATTTTCTTAAAAATTAAAAATTAAAT-AAAATTATTATCTTATTTTTTTAAGATTTCTA
1 AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
* * * *
221972 ATATTCCCATAGTTCTCCGTAAGGGTATAAAAATTTTCAAAAC--TTCGTATTTTTTCGGTTCTC
66 ATATTCCCATGGTTCTCCGTAAGGGTATAGAAATTTTCAAAACTTTTCATATCTTTTCGGTTCTC
* * *
222035 CATTAACGTACA
131 TATTAAGGTATA
* * *
222047 AAATGAATTTTCTT-AAAATTAAAAATTAAATAAAAATTATTTTCTTAATCTTTCAAGATTTCTA
1 AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
* * * * *
222111 ATATTCCTATGGTTATCCGT-AGGATAATAGAAATCTTCAAAACTTTTCATATCTTTTCGGTTCC
66 ATATTCCCATGGTTCTCCGTAAGGGT-ATAGAAATTTTCAAAACTTTTCATATCTTTTCGGTTCT
222175 CTATTAAGGTAT
130 CTATTAAGGTAT
222187 GAACCGAGAT
Statistics
Matches: 241, Mismatches: 34, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
138 21 0.09
139 98 0.41
141 90 0.37
142 32 0.13
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (142 bp):
AAATAAATTTTCTTAAAAATTAAAAATTAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTA
ATATTCCCATGGTTCTCCGTAAGGGTATAGAAATTTTCAAAACTTTTCATATCTTTTCGGTTCTC
TATTAAGGTATA
Found at i:224493 original size:16 final size:16
Alignment explanation
Indices: 224472--224503 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
224462 CTACTCGATT
*
224472 TGAACTCTTTTCAACA
1 TGAACTCTTTACAACA
224488 TGAACTCTTTACAACA
1 TGAACTCTTTACAACA
224504 CTTATCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TGAACTCTTTACAACA
Found at i:225002 original size:20 final size:21
Alignment explanation
Indices: 224974--225023 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
224964 AAGCTCAACT
* *
224974 TATCAATACAAAT-ACCTATG
1 TATCGATACAAATCAACTATG
* *
224994 TATCGATACAATTCAAGTATG
1 TATCGATACAAATCAACTATG
225015 TATCGATAC
1 TATCGATAC
225024 TTAGTGAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (21 bp):
TATCGATACAAATCAACTATG
Found at i:225263 original size:21 final size:21
Alignment explanation
Indices: 225239--225279 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
225229 ACTTTGGATT
225239 ATTT-TTACTTGAAAACATATG
1 ATTTATTACTTGAAAA-ATATG
*
225260 ATTTATTGCTTGAAAAATAT
1 ATTTATTACTTGAAAAATAT
225280 TTATACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.44
Consensus pattern (21 bp):
ATTTATTACTTGAAAAATATG
Found at i:227532 original size:15 final size:15
Alignment explanation
Indices: 227514--227542 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
227504 AAGTGCAAAT
227514 AAAAAGA-GAGGAAA
1 AAAAAGATGAGGAAA
227528 AAAAAGATGAGGAAA
1 AAAAAGATGAGGAAA
227543 GGAGGAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (15 bp):
AAAAAGATGAGGAAA
Found at i:228405 original size:110 final size:110
Alignment explanation
Indices: 228096--228413 Score: 313
Period size: 112 Copynumber: 2.9 Consensus size: 110
228086 CAATTATGTT
* * * *
228096 TGATTTTCAAAGAAATTCAT-GTTTTATGCAACTTGATCCATTTGTGCCTACGAAAATAGGGCAT
1 TGATTTCCAAAGAAATTCATAGTTTTA--CATCTTGATCCATTCGTGCCTAAG-AAATAGGGCAT
* * *
228160 GTATCCTATCAGTTTTGAAATTTTTGAGACAACAACATTAAATTTGTC
63 GTATCCTATCAGTTTTGAAATTTTTGAGCCAACAACATCAAATTTATC
* * * * * *
228208 TGATTTCCAAAAAAATTCATA-TGTTAGACTACCTGATCCATTCGTGTCTAGGAAA-ATGGGCAT
1 TGATTTCCAAAGAAATTCATAGTTTTACA-T-CTTGATCCATTCGTGCCTAAGAAATA-GGGCAT
* * *
228271 GCATCCTAGCAGTTTTGAAATTTTTGAGCCCAACAACATCAAATTTATT
63 GTATCCTATCAGTTTTGAAATTTTTGAG-CCAACAACATCAAATTTATC
*** * *
228320 TGATTT-TTGAGAAATTCATAGTTTTACATTTTGATCCATTCGTGCCTAAGAAATAGGGTATGTA
1 TGATTTCCAAAGAAATTCATAGTTTTACATCTTGATCCATTCGTGCCTAAGAAATAGGGCATGTA
* * *
228384 CCCTTTTAGTTTTGAAATTTTT-AGGCCAAC
66 TCCTATCAGTTTTGAAATTTTTGA-GCCAAC
228414 CAAAGTTTCC
Statistics
Matches: 167, Mismatches: 31, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
109 6 0.04
110 48 0.29
111 47 0.28
112 66 0.40
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (110 bp):
TGATTTCCAAAGAAATTCATAGTTTTACATCTTGATCCATTCGTGCCTAAGAAATAGGGCATGTA
TCCTATCAGTTTTGAAATTTTTGAGCCAACAACATCAAATTTATC
Found at i:229395 original size:89 final size:87
Alignment explanation
Indices: 229244--229675 Score: 449
Period size: 88 Copynumber: 4.9 Consensus size: 87
229234 AAGGAACGGA
* * * * *
229244 TGCAG-CCTACACATTCCCAATAATATCCCCTTCA-CTCAGCCACTAGATGGAATTGATGCATCA
1 TGCAGACC-ACACATTCCCAATCATATCTCCTTCATC-CAACCACTAGATAGTATTGATGCATCA
229307 CAAAGCCTGATTTTCATCGGGTAAGG
64 CAAAGCCTGATTTTCAT-GGG-AAGG
* *
229333 TGCAGACCACACATTCCCAATCATATCTCCTACATCCAACCACTAGATGGTATTGATGCATCACA
1 TGCAGACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATAGTATTGATGCATCACA
* * *
229398 AAACCTGATTTTCTTGGGGAGGG
66 AAGCCTGATTTTCAT-GGGAAGG
* * * * *
229421 TGCAGACCACACATTCCTAATAATATCCCCTTCA-CTCAACCACTAGATAGTATTGAAGCATCAT
1 TGCAGACCACACATTCCCAATCATATCTCCTTCATC-CAACCACTAGATAGTATTGATGCATCAC
* *
229485 AAAGCCTAATTTCCATGGCGCAAGG
65 AAAGCCTGATTTTCATGG-G-AAGG
** * * **
229510 TATAGACCACACATTCCCAATCATATCTCCTTTATCTAACTTCTAGATAGTATTGATGCATCACA
1 TGCAGACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATAGTATTGATGCATCACA
* *
229575 AAACCTGATTTTCCTAT-GGAGGG
66 AAGCCTGATTTT-C-ATGGGAAGG
* * * * * * *
229598 TGAATACCACATATTCCTAATCATATCTCCTTCATCCAACCATTAAATCGTATTGATGCATCACA
1 TGCAGACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATAGTATTGATGCATCACA
*
229663 AAGCTTGATTTTC
66 AAGCCTGATTTTC
229676 TTCAAGCAAG
Statistics
Matches: 285, Mismatches: 50, Indels: 18
0.81 0.14 0.05
Matches are distributed among these distances:
87 4 0.01
88 137 0.48
89 136 0.48
90 6 0.02
91 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (87 bp):
TGCAGACCACACATTCCCAATCATATCTCCTTCATCCAACCACTAGATAGTATTGATGCATCACA
AAGCCTGATTTTCATGGGAAGG
Found at i:229565 original size:177 final size:177
Alignment explanation
Indices: 229244--229666 Score: 546
Period size: 177 Copynumber: 2.4 Consensus size: 177
229234 AAGGAACGGA
* * * *
229244 TGCAG-CCTACACATTCCCAATAATATCCCCTTCACTCAGCCACTAGATGGAATTGATGCATCAC
1 TGCAGACC-ACACATTCCTAATAATATCCCCTTCACTCAACCACTAGATAGTATTGATGCATCAC
* * * *
229308 AAAGCCTGATTTTCATCGGGTAAGGTGCAGACCACACATTCCCAATCATATCTCCTACATCCAAC
65 AAAGCCTAATTTCCATCGGGCAAGGTACAGACCACACATTCCCAATCATATCTCCTACATCCAAC
* * *
229373 CACTAGATGGTATTGATGCATCACAAAACCTGATTTTCTTGGGGAGGG
130 CACTAGATAGTATTGATGCATCACAAAACCTGATTTTCCTAGGGAGGG
* *
229421 TGCAGACCACACATTCCTAATAATATCCCCTTCACTCAACCACTAGATAGTATTGAAGCATCATA
1 TGCAGACCACACATTCCTAATAATATCCCCTTCACTCAACCACTAGATAGTATTGATGCATCACA
* ** *
229486 AAGCCTAATTTCCAT-GGCGCAAGGTATAGACCACACATTCCCAATCATATCTCCTTTATCTAAC
66 AAGCCTAATTTCCATCGG-GCAAGGTACAGACCACACATTCCCAATCATATCTCCTACATCCAAC
** *
229550 TTCTAGATAGTATTGATGCATCACAAAACCTGATTTTCCTATGGAGGG
130 CACTAGATAGTATTGATGCATCACAAAACCTGATTTTCCTAGGGAGGG
* * * * * * * *
229598 TGAATACCACATATTCCTAATCATATCTCCTTCA-TCCAACCATTAAATCGTATTGATGCATCAC
1 TGCAGACCACACATTCCTAATAATATCCCCTTCACT-CAACCACTAGATAGTATTGATGCATCAC
229662 AAAGC
65 AAAGC
229667 TTGATTTTCT
Statistics
Matches: 213, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
176 3 0.01
177 208 0.98
178 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (177 bp):
TGCAGACCACACATTCCTAATAATATCCCCTTCACTCAACCACTAGATAGTATTGATGCATCACA
AAGCCTAATTTCCATCGGGCAAGGTACAGACCACACATTCCCAATCATATCTCCTACATCCAACC
ACTAGATAGTATTGATGCATCACAAAACCTGATTTTCCTAGGGAGGG
Found at i:230201 original size:35 final size:35
Alignment explanation
Indices: 230144--230486 Score: 303
Period size: 35 Copynumber: 9.8 Consensus size: 35
230134 CCTATTTATA
* * *
230144 GTTTGACTATATTTGGTTAAACTCTTTTCATCATC
1 GTTTGACTGTATCTGGTCAAACTCTTTTCATCATC
** * *
230179 GTTTGGTTGTATCTAGTCAAACTCTTTTCATTATC
1 GTTTGACTGTATCTGGTCAAACTCTTTTCATCATC
* *
230214 GTTTGATTGTATCTGGTCAAGCTCTTTTCATCATC
1 GTTTGACTGTATCTGGTCAAACTCTTTTCATCATC
* * * *
230249 GTTTGACTTTATCTGGTCAAGCTTTTTTCATCATT
1 GTTTGACTGTATCTGGTCAAACTCTTTTCATCATC
* **
230284 GTTTGGCTGTATCTGGTCACGCTAC-TTTCATCATC
1 GTTTGACTGTATCTGGTCAAACT-CTTTTCATCATC
* * * * * * *
230319 GTTTAACTATATTTGGTGAAACTCTTTTCCTTATT
1 GTTTGACTGTATCTGGTCAAACTCTTTTCATCATC
* * ** *
230354 GTTTAACTATATCTGGTCAAACTCTTTTTGTAATC
1 GTTTGACTGTATCTGGTCAAACTCTTTTCATCATC
*
230389 ATTTGACTGTATCTGGTCAAACT-TTTTCTATCATC
1 GTTTGACTGTATCTGGTCAAACTCTTTTC-ATCATC
* * * * *
230424 GTTTGACTATATTTAGTCAAACTCTTTCCTTCATC
1 GTTTGACTGTATCTGGTCAAACTCTTTTCATCATC
* * * * *
230459 GTTTAACTATATTTGGTCATATTCTTTT
1 GTTTGACTGTATCTGGTCAAACTCTTTT
230487 TACTCACATT
Statistics
Matches: 251, Mismatches: 53, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
34 5 0.02
35 242 0.96
36 4 0.02
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (35 bp):
GTTTGACTGTATCTGGTCAAACTCTTTTCATCATC
Found at i:230344 original size:105 final size:104
Alignment explanation
Indices: 230144--230477 Score: 346
Period size: 105 Copynumber: 3.2 Consensus size: 104
230134 CCTATTTATA
* * * * * *
230144 GTTTGACTATATTTGGTTAAACTCTTTTCATCATCGTTTGGTTGTATCTAGTCAAACTCTTTTCA
1 GTTTAACTATATCTGGTCAAACTTTTTTCATCATCGTTTGGCTGTATCTGGTCAAACTC-TTTCA
* * * * *
230209 TTATCGTTTGATTGTATCTGGTCAAGCTCTTTTCATCATC
65 TCATCGTTTGACTATATTTGGTCAAACTCTTTTCATCATC
* * * * **
230249 GTTTGACTTTATCTGGTCAAGCTTTTTTCATCATTGTTTGGCTGTATCTGGTCACGCTACTTTCA
1 GTTTAACTATATCTGGTCAAACTTTTTTCATCATCGTTTGGCTGTATCTGGTCAAACT-CTTTCA
* * * * *
230314 TCATCGTTTAACTATATTTGGTGAAACTCTTTTCCTTATT
65 TCATCGTTTGACTATATTTGGTCAAACTCTTTTCATCATC
* * * * *
230354 GTTTAACTATATCTGGTCAAACTCTTTTT-GTAATCATTTGACTGTATCTGGTCAAACTTTTTCT
1 GTTTAACTATATCTGGTCAAACT-TTTTTCATCATCGTTTGGCTGTATCTGGTCAAACTCTTTC-
* * *
230418 ATCATCGTTTGACTATATTTAGTCAAACTCTTTCCTTCATC
64 ATCATCGTTTGACTATATTTGGTCAAACTCTTTTCATCATC
*
230459 GTTTAACTATATTTGGTCA
1 GTTTAACTATATCTGGTCA
230478 TATTCTTTTT
Statistics
Matches: 187, Mismatches: 39, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
104 4 0.02
105 177 0.95
106 6 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (104 bp):
GTTTAACTATATCTGGTCAAACTTTTTTCATCATCGTTTGGCTGTATCTGGTCAAACTCTTTCAT
CATCGTTTGACTATATTTGGTCAAACTCTTTTCATCATC
Found at i:230701 original size:43 final size:43
Alignment explanation
Indices: 230653--230787 Score: 134
Period size: 43 Copynumber: 3.1 Consensus size: 43
230643 TCATTTTTTG
*
230653 TCCTTTGTTGACTTATCAGTTCAATCCTAGTCAACCTTTTGTA
1 TCCTTTGTTGACTTATCAGTTCAATCCTGGTCAACCTTTTGTA
* * * * * *
230696 TCCTTTGTTTACCTGT-TGACTT-AGTCCTGGGTAAATCTTTT-TA
1 TCCTTTGTTGA-CT-TATCAGTTCAATCCT-GGTCAACCTTTTGTA
*
230739 TCCTTTGTTGACTTATC-GATTCAATCTTGGTCAACCTTTTGTA
1 TCCTTTGTTGACTTATCAG-TTCAATCCTGGTCAACCTTTTGTA
230782 TCCTTT
1 TCCTTT
230788 ATTCTTTGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
41 1 0.01
42 15 0.21
43 39 0.55
44 15 0.21
45 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.13, T:0.47
Consensus pattern (43 bp):
TCCTTTGTTGACTTATCAGTTCAATCCTGGTCAACCTTTTGTA
Found at i:230833 original size:93 final size:86
Alignment explanation
Indices: 230791--231011 Score: 114
Period size: 85 Copynumber: 2.6 Consensus size: 86
230781 ATCCTTTATT
* * **
230791 CTTTGTTTACCTGTCGGCTCAGT-CTCGGGTAAATCCTTTTATCCTTTATTGACTCGTCGATTCA
1 CTTTGTTTACCTGTCGACTCAGTCCT-GGGTAAATCCTTTTATCCTTTGTTGACTTATCGATTCA
* * **
230855 ATCCT-GATTAATCACTT-TATC
65 ATCCTAG-TCAACCTTTTGTATC
* * * * * * * * *
230876 CTTTTTTTACTTGTC-AGCTTAGTCTTAGGTAAATCTTTTTATCCTTTCTTGACTTATTGGTTCA
1 CTTTGTTTACCTGTCGA-CTCAGTCCTGGGTAAATCCTTTTATCCTTTGTTGACTTATCGATTCA
* *
230940 ATCC-CGTCAA-CTTTTGTTTC
65 ATCCTAGTCAACCTTTTGTATC
* ** * * ** * *
230960 C-TTGTTTACCTATCGGTTTAGTCTTGGGTAACCCCTTTAATACTTTGTTGAC
1 CTTTGTTTACCTGTCGACTCAGTCCTGGGTAAATCCTTTTATCCTTTGTTGAC
231012 CTAAATGCTT
Statistics
Matches: 103, Mismatches: 28, Indels: 12
0.72 0.20 0.08
Matches are distributed among these distances:
83 41 0.40
84 7 0.07
85 54 0.52
86 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (86 bp):
CTTTGTTTACCTGTCGACTCAGTCCTGGGTAAATCCTTTTATCCTTTGTTGACTTATCGATTCAA
TCCTAGTCAACCTTTTGTATC
Found at i:230940 original size:85 final size:85
Alignment explanation
Indices: 230784--230943 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 85
230774 CTTTTGTATC
* * * *
230784 CTTTATTCTTTGTTTACCTGTCGGCTCAGTCTCGGGTAAATCCTTTTATCCTTTATTGACTCGTC
1 CTTTATCCTTTGTTTACCTGTCAGCTCAGTCTCAGGTAAATCCTTTTATCCTTTATTGACTCATC
230849 GATTCAATCCTGATTAATCA
66 GATTCAATCCTGATTAATCA
* * * * * * * *
230869 CTTTATCCTTTTTTTACTTGTCAGCTTAGTCTTAGGTAAATCTTTTTATCCTTTCTTGACTTATT
1 CTTTATCCTTTGTTTACCTGTCAGCTCAGTCTCAGGTAAATCCTTTTATCCTTTATTGACTCATC
*
230934 GGTTCAATCC
66 GATTCAATCC
230944 CGTCAACTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.47
Consensus pattern (85 bp):
CTTTATCCTTTGTTTACCTGTCAGCTCAGTCTCAGGTAAATCCTTTTATCCTTTATTGACTCATC
GATTCAATCCTGATTAATCA
Found at i:233014 original size:11 final size:11
Alignment explanation
Indices: 233000--233037 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
232990 AAAGAGAGAG
233000 AAAAAAAAAGA
1 AAAAAAAAAGA
*
233011 AAAAAGAAAGA
1 AAAAAAAAAGA
233022 AAAAAAGAAAGA
1 AAAAAA-AAAGA
233034 AAAA
1 AAAA
233038 GGCCAAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:233015 original size:12 final size:12
Alignment explanation
Indices: 232989--233037 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
232979 AGTGAGCAAC
*
232989 AAAAGAGAGAGAA
1 AAAAGAAAGA-AA
233002 AAAA-AAAG-AA
1 AAAAGAAAGAAA
233012 AAAAGAAAGAAA
1 AAAAGAAAGAAA
233024 AAAAGAAAGAAA
1 AAAAGAAAGAAA
233036 AA
1 AA
233038 GGCCAAACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
10 6 0.18
11 4 0.12
12 19 0.58
13 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAGAAAGAAA
Found at i:233015 original size:23 final size:23
Alignment explanation
Indices: 232989--233037 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
232979 AGTGAGCAAC
*
232989 AAAAGAGAGAGAAAAAA-AAAGAA
1 AAAAGAAAGA-AAAAAAGAAAGAA
233012 AAAAGAAAGAAAAAAAGAAAGAA
1 AAAAGAAAGAAAAAAAGAAAGAA
233035 AAA
1 AAA
233038 GGCCAAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (23 bp):
AAAAGAAAGAAAAAAAGAAAGAA
Found at i:234453 original size:19 final size:19
Alignment explanation
Indices: 234429--234492 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
234419 TACAATTGTG
234429 CATGTATCGATACAATAAT
1 CATGTATCGATACAATAAT
234448 CATGTATCGATAC-----T
1 CATGTATCGATACAATAAT
234462 -ATGTATCGATACAATAAT
1 CATGTATCGATACAATAAT
234480 CATGTATCGATAC
1 CATGTATCGATAC
234493 TATGTATCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 12 0.31
14 1 0.03
18 1 0.03
19 25 0.64
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (19 bp):
CATGTATCGATACAATAAT
Found at i:234467 original size:13 final size:13
Alignment explanation
Indices: 234449--234505 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
234439 TACAATAATC
234449 ATGTATCGATACT
1 ATGTATCGATACT
234462 ATGTATCGATACAATAAT
1 ATGTATCGATAC-----T
234480 CATGTATCGATACT
1 -ATGTATCGATACT
234494 ATGTATCGATAC
1 ATGTATCGATAC
234506 AAAGCATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 24 0.63
14 1 0.03
18 1 0.03
19 12 0.32
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACT
Found at i:234471 original size:32 final size:32
Alignment explanation
Indices: 234430--234525 Score: 158
Period size: 32 Copynumber: 3.0 Consensus size: 32
234420 ACAATTGTGC
234430 ATGTATCGATACAATAATCATGTATCGATACT
1 ATGTATCGATACAATAATCATGTATCGATACT
234462 ATGTATCGATACAATAATCATGTATCGATACT
1 ATGTATCGATACAATAATCATGTATCGATACT
*
234494 ATGTATCGATACAA-AGCATAATGTATCGATAC
1 ATGTATCGATACAATA--ATCATGTATCGATAC
234526 ATCTCGATAT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
31 1 0.02
32 46 0.75
33 14 0.23
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (32 bp):
ATGTATCGATACAATAATCATGTATCGATACT
Found at i:239205 original size:142 final size:141
Alignment explanation
Indices: 238891--239417 Score: 653
Period size: 142 Copynumber: 3.8 Consensus size: 141
238881 ATTTTACCAC
* * *
238891 TAAATAAAAATTATTATCTTAATTTTTTAAGATTTCTAATATTCCTAGGGTTATCCGTAGGGGTA
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCCATGGTTATCCGTAGGGGTA
* * * * *
238956 TAGAAATTTTTAAAAATTTTCGTATCTTTTCAGTTCTCCATTAAGGTATGAAATGAA--TTTTT-
66 TAGAAATCTTCAAAACTTTTTGTATCTTTTCAGTTCTCCATTAAGGTACGAAAT-AATTTTTTTA
239018 ----TTAAAAAT
130 AAAATTAAAAAT
* ** *
239026 TAAATAAAAATTATTATCTTAAATTTTCAAGATTTCTAATATTCCCATGGTTCCCCATAGGGGTA
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCCATGGTTATCCGTAGGGGTA
* * * * * *
239091 TAAAAATCTTCAAAACTTTTTGTATCTTTTTATTTCTTCATTAAGGTGCGAAATTATTTTTCTTA
66 TAGAAATCTTCAAAACTTTTTGTATCTTTTCAGTTCTCCATTAAGGTACGAAATAATTTTT-TTA
239156 AAAATTAAAAAT
130 AAAATTAAAAAT
* * *
239168 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCCATGGTTCTCTGTAAGGG-A
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCCATGGTTATCCGTAGGGGTA
* * * *
239232 TAGAAATCTTTAAAACTTTTTTTTATCTTTTCGGTTCTCCATTAAGGTACAAAATAAATTTTTTT
66 TAGAAATCTTCAAAAC-TTTTTGTATCTTTTCAGTTCTCCATTAAGGTACGAAAT-AATTTTTTT
239297 AAAAATTAAAAAT
129 AAAAATTAAAAAT
* * *
239310 TAAATAAAAATTATTATCTTAATCTTTCAAGATTT-TCAATATTCCTATGATTATCCGTAGGGGT
1 TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCT-AATATTCCCATGGTTATCCGTAGGGGT
*
239374 ATAGAAATCTTCAAAAAC-TTTTGTAACTTTTC-GATTCTCCATTA
65 ATAGAAATCTTC-AAAACTTTTTGTATCTTTTCAG-TTCTCCATTA
239418 TAGCACAAAA
Statistics
Matches: 336, Mismatches: 42, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
134 1 0.00
135 102 0.30
136 3 0.01
137 2 0.01
141 17 0.05
142 189 0.56
143 17 0.05
144 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.09, T:0.43
Consensus pattern (141 bp):
TAAATAAAAATTATTATCTTAATTTTTCAAGATTTCTAATATTCCCATGGTTATCCGTAGGGGTA
TAGAAATCTTCAAAACTTTTTGTATCTTTTCAGTTCTCCATTAAGGTACGAAATAATTTTTTTAA
AAATTAAAAAT
Found at i:239517 original size:25 final size:26
Alignment explanation
Indices: 239489--239547 Score: 102
Period size: 25 Copynumber: 2.3 Consensus size: 26
239479 TCCATAGTTC
239489 TCTTTTTATATACAAGGATAAAATT-
1 TCTTTTTATATACAAGGATAAAATTA
239514 TCTTTTTATATACAAGGATAAAATTA
1 TCTTTTTATATACAAGGATAAAATTA
239540 TCATTTTT
1 TC-TTTTT
239548 TTTTTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 25 0.78
26 2 0.06
27 5 0.16
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.47
Consensus pattern (26 bp):
TCTTTTTATATACAAGGATAAAATTA
Found at i:239933 original size:155 final size:153
Alignment explanation
Indices: 239564--239936 Score: 385
Period size: 154 Copynumber: 2.4 Consensus size: 153
239554 ATTTTTTGAG
* * * *
239564 TCCTTTAGGGTTATCGGGTACTTCTAAGTTGAAAGTATCCTATAAGGGCATTTTCATAATTTTTT
1 TCCTTTAGGGGTATCAGGCACTTCTAAGTTGAAAGTATCCTATAA-GGCATTTTTATAATTTTTT
* * * *
239629 CAAACCAAGTCTTAAGTTGTCACTAGGTTCGCTTTTATGTTGAAGATGGGTATTTAGGATAAGTT
65 AAAACCAAGTCCTAAGTTGTCACTAGGGTCGCTTTTATGTTAAAGATGGGTATTTAGGATAAGTT
* * * * *
239694 TATCCTATCTGTAATCTTTTTAAG
130 CATCCCAACTATAATCTTTTTAAA
* ** * * * * *
239718 TCGTTTAAAGGTATCAAGCACTTCTAAGTCGAAGGTATCCTATAAGGGTATTTTTGTAATTTTTT
1 TCCTTTAGGGGTATCAGGCACTTCTAAGTTGAAAGTATCCTATAA-GGCATTTTTATAATTTTTT
* * * * * *
239783 AAAATCGAGTCCTAAGTTGTTA-TCGGGTCTGTTTTTAT-TCCTAAAG-TGGGTATTTAGGATAG
65 AAAACCAAGTCCTAAGTTGTCACTAGGGTC-GCTTTTATGT--TAAAGATGGGTATTTAGGATAA
239845 GTTCATCCCAACTATAATCCTTTTTAAA
127 GTTCATCCCAACTATAAT-CTTTTTAAA
* *
239873 TCCTTTAGGGGTATTAGGCACTTCTACGTTGAAAGTATCTCCTATAA-GCATTTTTATAATTTTT
1 TCCTTTAGGGGTATCAGGCACTTCTAAGTTGAAAGTA--TCCTATAAGGCATTTTTATAATTTTT
239937 AGAATTGAGT
Statistics
Matches: 176, Mismatches: 37, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
153 6 0.03
154 106 0.60
155 56 0.32
157 8 0.05
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (153 bp):
TCCTTTAGGGGTATCAGGCACTTCTAAGTTGAAAGTATCCTATAAGGCATTTTTATAATTTTTTA
AAACCAAGTCCTAAGTTGTCACTAGGGTCGCTTTTATGTTAAAGATGGGTATTTAGGATAAGTTC
ATCCCAACTATAATCTTTTTAAA
Found at i:243080 original size:14 final size:14
Alignment explanation
Indices: 243063--243105 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
243053 TAAAGATTAA
243063 ATTTTAAAAAATAT
1 ATTTTAAAAAATAT
* *
243077 ATTTTTAAAAATAA
1 ATTTTAAAAAATAT
*
243091 ATTATAAAAAATAT
1 ATTTTAAAAAATAT
243105 A
1 A
243106 ATATGAGAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTTTAAAAAATAT
Found at i:244116 original size:395 final size:393
Alignment explanation
Indices: 243143--244287 Score: 1632
Period size: 394 Copynumber: 2.9 Consensus size: 393
243133 CTGAAATAAG
* * *
243143 TTTGGACAAAATTCAAAACTTATATTTCGGGCCAAATTGGGCTTGGATAAGCATGTTTGATGTTA
1 TTTGGACAAAATTCGAAACTTATATTTCGGGCCAAGTTGGGCTTAG-TAAGCATGTTTGATGTTA
* * *
243208 CTAGGTTTGGTC-CTAATCCAACCATGAGTACCTTTGGTTACTATTATGTTTTTAGA--T----T
65 TTAGGTTTGGTCTC-AATCCAACCATGAGT-CCCTTCGTTACTATTATGTTTTTAGATTTAAAGT
243266 TGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACCTATTAAT
128 TGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACC--TT-A-
*
243331 GTGGGTGAAAAAAATTAAATTTTTTAAGAAATTATTTTGTCTAAAAATAATAAGTTAAAAAAATT
189 GTGGGTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCTAAAAATAATAAGTT-AAAAAATT
* *
243396 AAAAAAAGTAGTATGTTTCAAGTGAGTTGTTATTTTTTAAATTCAAAAAATATTAAAAAATTTTA
253 AAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTAAATT-AAAAAATATTAAAAAAATTTA
* * * * *
243461 TGTAG-T-TTTTTTAAGATCAAAATATTTGAGAAGGTTTAAATAGGTTTGAACTGTCTATTTACA
317 TGTAGTTATTTTTTAAGATCAAAATACTTGAGAAGATCTAAATAGGCTTGAACTGTCTATGTACA
243524 AATATAAGTAAA
382 AATATAAGTAAA
* * *
243536 TTTGGACAAAAATTCGATACTTATATTTCGAGCCAAGTTGGGCTTGAGTAAGCATGTTTGATATT
1 TTTGGAC-AAAATTCGAAACTTATATTTCGGGCCAAGTTGGGCTT-AGTAAGCATGTTTGATGTT
* * *
243601 ATTAGGTTTGGTCTCAATCCAATCATGAGTACCTTTGATTACTATTATGTTTTTAGATTTAAAGT
64 ATTAGGTTTGGTCTCAATCCAACCATGAGTCCCTTCG-TTACTATTATGTTTTTAGATTTAAAGT
243666 TGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACC-TA-TGG
128 TGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACCTTAGTGG
243729 GTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCTAAAATATAATAAGTTAAAAAATTAAAA
193 GTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCTAAAA-ATAATAAGTTAAAAAATTAAAA
*
243794 AAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTAAATTAAAAGAATATTAAAAAAATTTATATA
257 AAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTAAATTAAAA-AATATTAAAAAAATTTATGTA
* * *
243859 GTTATTTTTTAAAATCAAAATACTTGGGAAGATCTAAATAGGCTTGAACTGTCTATGTATAAATA
321 GTTATTTTTTAAGATCAAAATACTTGAGAAGATCTAAATAGGCTTGAACTGTCTATGTACAAATA
243924 TAAGTAAA
386 TAAGTAAA
* * * *
243932 TTTGAACAAAATTCGAAATTTATATTTTGGGCCAAGTTGGGCTTAAGTAAACATGTTTGATGTTA
1 TTTGGACAAAATTCGAAACTTATATTTCGGGCCAAGTTGGGCTT-AGTAAGCATGTTTGATGTTA
* *
243997 TTAAGTTTGGTCTCAATCCAACCATGAGTGCCCCCTCGTTACTATTAT-TTTTATAGATTTAAAG
65 TTAGGTTTGGTCTCAATCCAACCATGAGT--CCCTTCGTTACTATTATGTTTT-TAGATTTAAAG
*
244061 TTGAATATTAAAATTGTTGGCTATAATTATATT-AAAAAGAACTAAAAATTATCACACCTATTTA
127 TTGAACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACC---TTA
* * *
244125 TGTGGGTGAAAAATATTAAATTTTTTCAAAAATTATTTTATCTAAAAAATAATAAGTTAAAAAAT
189 -GTGGGTGAAAAAAATTAAATTTTTTCAGAAATTATTTTGTCT-AAAAATAATAAGTTAAAAAAT
*
244190 AAAAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTATTTTTTTTAAATTAAAATAATATTAAAAAAA
252 -TAAAAAAAGTAGTTTGTTTCAAGTGAGTTGTTA--TTTTTTAAATTAAAA-AATATTAAAAAAA
*
244255 TTTATGTAGTTACTTTTTAAGATCAAAATACTT
313 TTTATGTAGTTATTTTTTAAGATCAAAATACTT
244288 AACATTCTTA
Statistics
Matches: 680, Mismatches: 45, Indels: 43
0.89 0.06 0.06
Matches are distributed among these distances:
393 15 0.02
394 208 0.31
395 120 0.18
396 122 0.18
397 5 0.01
399 2 0.00
400 59 0.09
401 55 0.08
402 36 0.05
404 58 0.09
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (393 bp):
TTTGGACAAAATTCGAAACTTATATTTCGGGCCAAGTTGGGCTTAGTAAGCATGTTTGATGTTAT
TAGGTTTGGTCTCAATCCAACCATGAGTCCCTTCGTTACTATTATGTTTTTAGATTTAAAGTTGA
ACATTAAAATTGTTGGCTATAATTATATTAAAAAAGAACTAAAAATTATCACACCTTAGTGGGTG
AAAAAAATTAAATTTTTTCAGAAATTATTTTGTCTAAAAATAATAAGTTAAAAAATTAAAAAAAG
TAGTTTGTTTCAAGTGAGTTGTTATTTTTTAAATTAAAAAATATTAAAAAAATTTATGTAGTTAT
TTTTTAAGATCAAAATACTTGAGAAGATCTAAATAGGCTTGAACTGTCTATGTACAAATATAAGT
AAA
Found at i:244731 original size:23 final size:23
Alignment explanation
Indices: 244672--244741 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
244662 CCAATTTTTA
* * *
244672 GTATATATATATATATATATAAAT
1 GTATAAATTTATATAT-TATTAAT
244696 -T-TAAATTTGATATATTATTAAT
1 GTATAAATTT-ATATATTATTAAT
*
244718 GTATAAATTTATATGTTATTAAT
1 GTATAAATTTATATATTATTAAT
244741 G
1 G
244742 AATATATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
22 11 0.28
23 21 0.54
24 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
GTATAAATTTATATATTATTAAT
Found at i:245231 original size:11 final size:9
Alignment explanation
Indices: 245201--245227 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
245191 TGATATAAGA
245201 AAAAAAATT
1 AAAAAAATT
245210 AAAAAAATT
1 AAAAAAATT
245219 AAAAAAATT
1 AAAAAAATT
245228 TTAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAAAATT
Found at i:245931 original size:16 final size:18
Alignment explanation
Indices: 245912--245977 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 18
245902 ACCTGAATTT
245912 ATATAAAATAAT-TA-AA
1 ATATAAAATAATATATAA
*
245928 ATATAATATAATATATAA
1 ATATAAAATAATATATAA
* *
245946 ATATTTTAAAATTTATATAAAA
1 ATA---TAAAA-TAATATATAA
245968 ATATAAAATA
1 ATATAAAATA
245978 CTTTAAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
16 11 0.28
17 2 0.05
18 6 0.15
19 5 0.13
21 4 0.10
22 11 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATAAAATAATATATAA
Found at i:245943 original size:28 final size:30
Alignment explanation
Indices: 245911--245990 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 30
245901 TACCTGAATT
*
245911 TATATAAAATA-ATTAAAATATAATAT-AA
1 TATATAAAATACTTTAAAATATAATATAAA
* *
245939 TATAT-AAATATTTTAAAAT-TTATATAAA
1 TATATAAAATACTTTAAAATATAATATAAA
*
245967 AATATAAAATACTTTAAAA-ATAAT
1 TATATAAAATACTTTAAAATATAAT
245991 TATCTATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
27 10 0.23
28 18 0.42
29 15 0.35
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
TATATAAAATACTTTAAAATATAATATAAA
Found at i:245987 original size:30 final size:32
Alignment explanation
Indices: 245928--245987 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 32
245918 AATAATTAAA
*
245928 ATATAATATAATATATAAATATTTTAAAATTT
1 ATATAATATAATATATAAATATTTAAAAATTT
245960 ATATAA-A-AATATA-AAATACTTTAAAAAT
1 ATATAATATAATATATAAATA-TTTAAAAAT
245988 AATTATCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 5 0.19
30 14 0.54
31 1 0.04
32 6 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (32 bp):
ATATAATATAATATATAAATATTTAAAAATTT
Found at i:247424 original size:14 final size:15
Alignment explanation
Indices: 247401--247442 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
247391 ATAAAAAGTG
*
247401 TAATTTTATTAAA-A
1 TAATTCTATTAAAGA
247415 TAATTCTATTAAATGA
1 TAATTCTATTAAA-GA
247431 TAATATCTATTA
1 TAAT-TCTATTA
247443 TTGTTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 12 0.50
16 5 0.21
17 7 0.29
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (15 bp):
TAATTCTATTAAAGA
Found at i:248259 original size:14 final size:14
Alignment explanation
Indices: 248221--248259 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
248211 TAAGTATTCC
248221 TCTTTTTTTCTCTT
1 TCTTTTTTTCTCTT
*
248235 TCTATTATTTTCTTTT
1 TCT-TT-TTTTCTCTT
248251 TCTTTTTTT
1 TCTTTTTTT
248260 TTCTACTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 7 0.32
15 4 0.18
16 11 0.50
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTTTTTTCTCTT
Found at i:252806 original size:33 final size:33
Alignment explanation
Indices: 252758--252828 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
252748 AGTTGTTAGG
* * *
252758 TACAATGTATCGATACATTTTACTATGTATCGA
1 TACAATGTATCGATACAATGTACCATGTATCGA
* * *
252791 TACATTGTATTGATACAATGTCCCATGTATCGA
1 TACAATGTATCGATACAATGTACCATGTATCGA
252824 TACAA
1 TACAA
252829 ACAGTGATAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (33 bp):
TACAATGTATCGATACAATGTACCATGTATCGA
Found at i:256559 original size:82 final size:82
Alignment explanation
Indices: 256457--256620 Score: 292
Period size: 82 Copynumber: 2.0 Consensus size: 82
256447 GGAAATGGGC
*
256457 ACAAAGGCAAACACTAAACATAATATCCGGTCGACTAGCGGTAAGATATAACAATGAACTTATCA
1 ACAAAGGCAAACACTAAACATAATATCCGGTCGACTAGCGGTAAGATATAACAATGAACCTATCA
*
256522 TAGACCTATAGAGTTTA
66 TAAACCTATAGAGTTTA
* *
256539 ACAAAGGTAAACACTAAACATAATATCCGGTCTACTAGCGGTAAGATATAACAATGAACCTATCA
1 ACAAAGGCAAACACTAAACATAATATCCGGTCGACTAGCGGTAAGATATAACAATGAACCTATCA
256604 TAAACCTATAGAGTTTA
66 TAAACCTATAGAGTTTA
256621 GTATCGATAT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.24
Consensus pattern (82 bp):
ACAAAGGCAAACACTAAACATAATATCCGGTCGACTAGCGGTAAGATATAACAATGAACCTATCA
TAAACCTATAGAGTTTA
Found at i:259613 original size:14 final size:14
Alignment explanation
Indices: 259590--259631 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
259580 CCTTTTCTAG
259590 TTCAACAATTTTTT
1 TTCAACAATTTTTT
* *
259604 TTCAAGAATTTCATT
1 TTCAACAATTT-TTT
259619 TTCAACAATTTTT
1 TTCAACAATTTTT
259632 GATTTACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.52
Consensus pattern (14 bp):
TTCAACAATTTTTT
Found at i:261678 original size:20 final size:20
Alignment explanation
Indices: 261653--261690 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
261643 GCTGTTGGGC
261653 ACAATGTATCGATACATTTT
1 ACAATGTATCGATACATTTT
261673 ACAATGTATCGATACATT
1 ACAATGTATCGATACATT
261691 GTATTGATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
ACAATGTATCGATACATTTT
Found at i:261693 original size:13 final size:13
Alignment explanation
Indices: 261672--261705 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
261662 CGATACATTT
261672 TACAATGTATCGA
1 TACAATGTATCGA
* *
261685 TACATTGTATTGA
1 TACAATGTATCGA
261698 TACAATGT
1 TACAATGT
261706 CCCATGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:261700 original size:33 final size:33
Alignment explanation
Indices: 261657--261719 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
261647 TTGGGCACAA
* *
261657 TGTATCGATACATTTTACAATGTATCGATACAT
1 TGTATCGATACAATGTACAATGTATCGATACAT
* * *
261690 TGTATTGATACAATGTCCCATGTATCGATA
1 TGTATCGATACAATGTACAATGTATCGATA
261720 TAAATAGTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATGTACAATGTATCGATACAT
Found at i:268214 original size:20 final size:20
Alignment explanation
Indices: 268188--268242 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
268178 TGCCAGTTTC
268188 ATGTATCGATACAATTCAAT
1 ATGTATCGATACAATTCAAT
*
268208 TTGTATCGATACAATTCAAT
1 ATGTATCGATACAATTCAAT
268228 ATGTATCGATACAAT
1 ATGTATCGATACAAT
268243 CTATCGATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTCAAT
Found at i:269461 original size:78 final size:79
Alignment explanation
Indices: 269329--269623 Score: 355
Period size: 78 Copynumber: 3.8 Consensus size: 79
269319 ACGGGGCTGA
*
269329 AGTATCCCCGATTATGAAAAATTGGTATTCT-AGAAATAAAATCGGGGTTGGAGTATCCCCTCGA
1 AGTATCCCCGATTATGAAAAATTGGTATTTTGA-AAATAAAATCGGGGTTGGAGTATCCCCTCGA
269393 AAATAACAGGGTTGG
65 AAATAACAGGGTTGG
* * *
269408 ACTATCCCTGATTAT-AAAAATTGGTATTTTGAAAATGAAATCGGGGTTGGAGTATCCCCTCGAA
1 AGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
*
269472 AATAACAGGGTTAG
66 AATAACAGGGTTGG
* * * * *** * ** * *
269486 AGTATCCCCGATTGTGAAAAATCGATGATTTAG-AAATAAGGCCGGGGCTAAAGTATCCCCTTGG
1 AGTATCCCCGATTATGAAAAATTGGT-ATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
*
269550 AAATAACGGGGTTGG
65 AAATAACAGGGTTGG
* * *
269565 -GTATCCCCTATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCC
1 AGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCC
269624 GATTGTGAAA
Statistics
Matches: 177, Mismatches: 35, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
77 4 0.02
78 111 0.63
79 57 0.32
80 5 0.03
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (79 bp):
AGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
AATAACAGGGTTGG
Found at i:269615 original size:157 final size:157
Alignment explanation
Indices: 269329--269623 Score: 398
Period size: 157 Copynumber: 1.9 Consensus size: 157
269319 ACGGGGCTGA
* * * * **
269329 AGTATCCCCGATTATGAAAAATTGGTATTCTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAA
1 AGTATCCCCGATTATGAAAAATCGATATTCTAGAAATAAAACCGGGGCTAAAGTATCCCCTCGAA
* *
269394 AATAACAGGGTTGGACTATCCCTGATTATAAAAATTGGTATTTTGAAAATGAAATCGGGGTTGGA
66 AATAACAGGGTTGGACTATCCCTGATTATAAAAATTGGTATTTTGAAAATAAAATCGGAGTTGGA
269459 GTATCCCCTCGAAAATAACAGGGTTAG
131 GTATCCCCTCGAAAATAACAGGGTTAG
* ** * *
269486 AGTATCCCCGATTGTGAAAAATCGATGATT-TAGAAATAAGGCCGGGGCTAAAGTATCCCCTTGG
1 AGTATCCCCGATTATGAAAAATCGAT-ATTCTAGAAATAAAACCGGGGCTAAAGTATCCCCTCGA
* * *
269550 AAATAACGGGGTTGG-GTATCCCCT-ATTATGAAAAATTGGTGTTTTGAAAATAAAATCGGAGTT
65 AAATAACAGGGTTGGACTAT-CCCTGATTAT-AAAAATTGGTATTTTGAAAATAAAATCGGAGTT
269613 GGAGTATCCCC
128 GGAGTATCCCC
269624 GATTGTGAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
156 8 0.07
157 108 0.91
158 3 0.03
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (157 bp):
AGTATCCCCGATTATGAAAAATCGATATTCTAGAAATAAAACCGGGGCTAAAGTATCCCCTCGAA
AATAACAGGGTTGGACTATCCCTGATTATAAAAATTGGTATTTTGAAAATAAAATCGGAGTTGGA
GTATCCCCTCGAAAATAACAGGGTTAG
Found at i:269622 original size:51 final size:51
Alignment explanation
Indices: 269560--269675 Score: 173
Period size: 51 Copynumber: 2.3 Consensus size: 51
269550 AAATAACGGG
*
269560 GTTGG-GTATCCCCTATTATGAAAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCTATTATGAAAAATTGGTATTTTAG-AAATAAAATCGGA
* * *
269610 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCTATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
269661 GTTGGAGTATCCCCT
1 GTTGGAGTATCCCCT
269676 CGGAAATAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
50 5 0.08
51 53 0.90
52 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCTATTATGAAAAATTGGTATTTTAGAAATAAAATCGGA
Found at i:269636 original size:129 final size:127
Alignment explanation
Indices: 269485--269752 Score: 335
Period size: 129 Copynumber: 2.1 Consensus size: 127
269475 AACAGGGTTA
** *
269485 GAGTATCCCCGATTGTGAAAAATCGATGA-TTTAGAAATAAGGCCGGGGCTAAAGTATCCCCTTG
1 GAGTATCCCCGATTGTGAAAAATCGAT-ATTTTAGAAATAAAACCGGGGCTAAAGTATCCCCTCG
* * *
269549 GAAATAACGGGGTTGG-GTATCCCCTATTATGAAAAATTGGTGTTTTGAAAAT-AAAATCGGAGT
65 GAAATAACGGGGTTGGAGTATCCCC---GATGAAAAATTGATGTTTTGAAAATGAAAATAGGA-T
269612 TG
126 TG
* * * * **
269614 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAACCGGGGCTAAAGTATCCCCTCGG
* *
269679 AAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTGGAAATGAAACTAGGATTG
66 AAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTGAAAATGAAAATAGGATTG
*
269741 AAGTATCCCCGA
1 GAGTATCCCCGA
269753 GATGAAAAAT
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
127 36 0.30
128 8 0.07
129 69 0.57
130 8 0.07
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (127 bp):
GAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAACCGGGGCTAAAGTATCCCCTCGG
AAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTGAAAATGAAAATAGGATTG
Found at i:272007 original size:33 final size:33
Alignment explanation
Indices: 271965--272034 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
271955 TACATTGTAA
271965 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
271998 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
272031 AATG
1 AATG
272035 CCAAATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:272007 original size:53 final size:53
Alignment explanation
Indices: 271945--272100 Score: 155
Period size: 53 Copynumber: 3.0 Consensus size: 53
271935 AAAATGCCTA
* *
271945 AATGTATCGATACATTGTA-AAATGTATCGATACAATGAGC-AATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGATACAATG-CCAAATGTATCGATAC
*
271998 AATGTATCGATACAATGAGCAATGTATCGATACAATGCCAAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATACAATGCCAAATGTATCGATAC
* * * ** *
272051 -ATCTA--GGTA-AACTCAG-AATGTATCGATACAATGTAAAATGTATCCATAC
1 AATGTATCGATACAA-TGAGAAATGTATCGATACAATGCCAAATGTATCGATAC
272100 A
1 A
272101 TCTGGGTAAA
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
49 32 0.36
50 6 0.07
52 6 0.07
53 46 0.51
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (53 bp):
AATGTATCGATACAATGAGAAATGTATCGATACAATGCCAAATGTATCGATAC
Found at i:272020 original size:20 final size:19
Alignment explanation
Indices: 271945--272051 Score: 109
Period size: 20 Copynumber: 5.7 Consensus size: 19
271935 AAAATGCCTA
* *
271945 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AC
271965 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
271985 AATGTATCG-----AT-AC
1 AATGTATCGATACAATGAC
271998 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
*
272018 AATGTATCGATACAATGCC
1 AATGTATCGATACAATGAC
272037 AAATGTATCGATACA
1 -AATGTATCGATACA
272052 TCTAGGTAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
13 10 0.13
14 1 0.01
15 2 0.03
18 2 0.03
19 3 0.04
20 57 0.76
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:272033 original size:13 final size:13
Alignment explanation
Indices: 271984--272014 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
271974 ATACAATGAG
271984 CAATGTATCGATA
1 CAATGTATCGATA
271997 CAATGTATCGATA
1 CAATGTATCGATA
272010 CAATG
1 CAATG
272015 AGCAATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:272090 original size:49 final size:48
Alignment explanation
Indices: 271965--272149 Score: 201
Period size: 49 Copynumber: 3.7 Consensus size: 48
271955 TACATTGTAA
* * * *
271965 AATGTATCGATACAATGAGCAATGTATCGATACAATGTATCGATACAA-TGAG
1 AATGTATCGATACAATGA-AAATGTATCGATAC-ATCTA--GGTA-AACTCAG
*
272017 CAATGTATCGATACAATGCCAAATGTATCGATACATCTAGGTAAACTCAG
1 -AATGTATCGATACAATG-AAAATGTATCGATACATCTAGGTAAACTCAG
* * * *
272067 AATGTATCGATACAATGTAAAATGTATCCATACATCTGGGTAAACCCAT
1 AATGTATCGATACAATG-AAAATGTATCGATACATCTAGGTAAACTCAG
272116 AATGTATCGATACAATGAACAATGTATCGATACA
1 AATGTATCGATACAATGAA-AATGTATCGATACA
272150 AATTGTGAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
48 2 0.02
49 75 0.64
50 6 0.05
52 4 0.03
53 30 0.26
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (48 bp):
AATGTATCGATACAATGAAAATGTATCGATACATCTAGGTAAACTCAG
Found at i:273379 original size:13 final size:13
Alignment explanation
Indices: 273361--273390 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
273351 ACTTTTCACT
*
273361 ATGTATCGATACA
1 ATGTATCAATACA
273374 ATGTATCAATACA
1 ATGTATCAATACA
273387 ATGT
1 ATGT
273391 CCTATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:273379 original size:33 final size:33
Alignment explanation
Indices: 273337--273407 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
273327 AGCCATTGGG
* * * *
273337 TACAATGTATCGATAC-TTTTCACTATGTATCGA
1 TACAATGTATCAATACAATGTC-CTATGTATCAA
273370 TACAATGTATCAATACAATGTCCTATGTATCAA
1 TACAATGTATCAATACAATGTCCTATGTATCAA
273403 TACAA
1 TACAA
273408 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (33 bp):
TACAATGTATCAATACAATGTCCTATGTATCAA
Found at i:273514 original size:20 final size:22
Alignment explanation
Indices: 273491--273533 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
273481 CAAAGTAATA
273491 TGTATCGATAC-TTCT-GGGTT
1 TGTATCGATACTTTCTAGGGTT
273511 TGTATCGATACTTTCTAGGGTT
1 TGTATCGATACTTTCTAGGGTT
273533 T
1 T
273534 TGACCTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 4 0.19
22 6 0.29
ACGTcount: A:0.16, C:0.14, G:0.23, T:0.47
Consensus pattern (22 bp):
TGTATCGATACTTTCTAGGGTT
Found at i:276783 original size:14 final size:14
Alignment explanation
Indices: 276764--276794 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
276754 AGGACCAAAA
*
276764 ATAATATCATCTAC
1 ATAATATCATCCAC
276778 ATAATATCATCCAC
1 ATAATATCATCCAC
276792 ATA
1 ATA
276795 TACTTGTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATATCATCCAC
Found at i:285045 original size:52 final size:51
Alignment explanation
Indices: 284845--285204 Score: 225
Period size: 52 Copynumber: 7.0 Consensus size: 51
284835 GATAAGAAAA
* *
284845 ATGATAAA-AGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAG
1 ATGATAAAGA-TGCCAATATGCTGATTCAAGGCCAGCGATATT-AGCTTAAAG
** * * * * *
284897 ATG-CGAAGAATGTCAATGTGCTGATTCATGGCTA-C---ATTAGACTTGAAG
1 ATGATAAAG-ATGCCAATATGCTGATTCAAGGCCAGCGATATTAG-CTTAAAG
* * * * * * *
284945 ATGA-GAAGAATGCCAATGTGCTGAGTCAAGGCCAACGACATTGGGCTT-AGG
1 ATGATAAAG-ATGCCAATATGCTGATTCAAGGCCAGCGATATT-AGCTTAAAG
* *
284996 AATGTTAAAGATGCCAATATGCTGATTCAAGGCTAGCGATATCTAGCTTAAAG
1 -ATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATAT-TAGCTTAAAG
* * * * * *
285049 GTGGA-AAAGGTGCTAATATGCTAATTCAAGGCCAACGACATTAGGCTTAAAG
1 AT-GATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTA-GCTTAAAG
* * * * ** * *
285101 ATGATAAAGGTACCAATGTGCTAATTCAAGGCTTGCGATATTTGACTTAAAT
1 ATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAG-CTTAAAG
* * * *
285153 ATGATAAACATGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAG
1 ATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAG-CTTAAAG
285205 GTGCCAATGT
Statistics
Matches: 239, Mismatches: 52, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
47 1 0.00
48 38 0.16
49 1 0.00
51 10 0.04
52 180 0.75
53 9 0.04
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (51 bp):
ATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGCTTAAAG
Found at i:285171 original size:104 final size:102
Alignment explanation
Indices: 284845--285204 Score: 306
Period size: 104 Copynumber: 3.5 Consensus size: 102
284835 GATAAGAAAA
* *
284845 ATGATAAAAGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGCGA-AGAATG
1 ATGATAAAA-TGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTAAAGAT--GATA-AAGG
* * * *
284909 T-CAATGTGCTGATTCATGGC-T---ACATTAGACTTGAAG
62 TCCAATGTGCTGATTCAAGGCTTGCGATATTTGACTTAAAG
* * * * * *
284945 ATGAGAAGAATGCCAATGTGCTGAGTCAAGGCCAACGACATTGGGCTT-AGGAATGTTAAAGATG
1 ATGATAA-AATGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTAAAG-ATGATAAAGGT-
* * *
285009 CCAATATGCTGATTCAAGGCTAGCGATATCT-AGCTTAAAG
63 CCAATGTGCTGATTCAAGGCTTGCGATATTTGA-CTTAAAG
* * * * *
285049 GTGGA-AAAGGTGCTAATATGCTAATTCAAGGCCAACGACATTAGGCTTAAAGATGATAAAGGTA
1 AT-GATAAA-ATGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTAAAGATGATAAAGGT-
* *
285113 CCAATGTGCTAATTCAAGGCTTGCGATATTTGACTTAAAT
63 CCAATGTGCTGATTCAAGGCTTGCGATATTTGACTTAAAG
* ** * *
285153 ATGATAAACATGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAG
1 ATGATAAA-ATGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTAAAG
285205 GTGCCAATGT
Statistics
Matches: 203, Mismatches: 42, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
98 4 0.02
99 3 0.01
100 60 0.30
101 2 0.01
103 4 0.02
104 125 0.62
105 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.27
Consensus pattern (102 bp):
ATGATAAAATGCCAATATGCTGATTCAAGGCCAACGACATTGGGCTTAAAGATGATAAAGGTCCA
ATGTGCTGATTCAAGGCTTGCGATATTTGACTTAAAG
Found at i:285224 original size:43 final size:44
Alignment explanation
Indices: 285163--285249 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
285153 ATGATAAACA
* *
285163 TGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTA-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGACATTGGACTTAGAAGG
* *
285206 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGCTTAGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGACATTGGACTTAGAAGG
285250 AGATGCCACC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 35 0.90
44 4 0.10
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (44 bp):
TGCCAATATGCTGATTCAAGGCCAGTGACATTGGACTTAGAAGG
Found at i:285291 original size:32 final size:32
Alignment explanation
Indices: 285253--285403 Score: 214
Period size: 32 Copynumber: 4.7 Consensus size: 32
285243 TAGAAGGAGA
*
285253 TGCCACCAACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACCAGCTTGTGTGGGCTTTTGAAAGGGT
285285 TGCCACCAGCTTGTGTGGGC-TTTGAAAAGGGT
1 TGCCACCAGCTTGTGTGGGCTTTTG-AAAGGGT
* *
285317 TACCACCAGCTTGTGTGGGCTTTTGAAGAAGGT
1 TGCCACCAGCTTGTGTGGGCTTTTGAA-AGGGT
* *
285350 TGCCACCAGCTTGTGTGGCCTTTAGAAAGGGT
1 TGCCACCAGCTTGTGTGGGCTTTTGAAAGGGT
* *
285382 TGCCACTAACTTGTGTGGGCTT
1 TGCCACCAGCTTGTGTGGGCTT
285404 AAAAGGGTGC
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
31 4 0.04
32 70 0.66
33 32 0.30
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (32 bp):
TGCCACCAGCTTGTGTGGGCTTTTGAAAGGGT
Found at i:285379 original size:65 final size:64
Alignment explanation
Indices: 285255--285403 Score: 228
Period size: 65 Copynumber: 2.3 Consensus size: 64
285245 GAAGGAGATG
* *
285255 CCACCAACTTGTGTGGGCTTTTGAAAGGGTTGCCACCAGCTTGTGTGGGCTTTGAAAAGGGTTA
1 CCACCAACTTGTGTGGGCTTTTGAAAAGGTTGCCACCAGCTTGTGTGGCCTTTGAAAAGGGTTA
*
285319 CCACCAGCTTGTGTGGGCTTTTGAAGAAGGTTGCCACCAGCTTGTGTGGCCTTT-AGAAAGGGTT
1 CCACCAACTTGTGTGGGCTTTTGAA-AAGGTTGCCACCAGCTTGTGTGGCCTTTGA-AAAGGGTT
*
285383 G
64 A
*
285384 CCACTAACTTGTGTGGGCTT
1 CCACCAACTTGTGTGGGCTT
285404 AAAAGGGTGC
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
64 25 0.32
65 52 0.68
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (64 bp):
CCACCAACTTGTGTGGGCTTTTGAAAAGGTTGCCACCAGCTTGTGTGGCCTTTGAAAAGGGTTA
Found at i:285484 original size:32 final size:32
Alignment explanation
Indices: 285404--286472 Score: 632
Period size: 34 Copynumber: 33.8 Consensus size: 32
285394 GTGTGGGCTT
*
285404 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAG
1 AAAA-GGTGCCACGGAGTTGTGGACTTAAAAAG
285437 AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAG
1 -AAAA-GGTGCCACGGAGTTGTGGACTTAAAAAG
**
285471 AAAAGGTGCCACGGAGTCATGGACTTAAAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
285503 AAAAGGTGCCACAGAGTTATGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
*
285535 AAAAGGTGCCATGGAGTTGTGGACTTAAAAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTT-AAAAAG
* * *
285568 AAAAAGGTGCCACCGAGTCGTGGACTT----TG
1 -AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
285597 -AAGGGTGCCACGGAGTTGTGG-CTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
*
285627 AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 -AAAA-GGTGCCACGGAGTTGTGGACTTAAAAAG
*** ** *
285661 AAAAGCCACCATAGAGTTGTGGA-TT---TA-
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
285688 AAAAGGTGCCATGGAGTTATGGACTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA-AG
* **
285721 AAAAAGGTGCCACGGAATTGTAAACTT-AAAAG
1 -AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
**
285753 ----GGTGCCACGGAGTTGTGGACTTAAAGGGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAA-AAG
* * **
285782 AAAATGGTGCCATGGAGTTGTGGACCTAATAGGG
1 AAAA-GGTGCCACGGAGTTGTGGACTTAA-AAAG
* * *
285816 AAAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAA
1 -AAAAGGTGCCACGGAGTTGTGGACTT-AAA--AAG
* * **
285852 AAAAGGTGCTATGGAGTCATGGACTTAAAAA-
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * *
285883 AAAAGGTACCACAGAGTTGTTGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
285915 AAAAGGTGCCAC-GATGTTGTGGACTT---AA-
1 AAAAGGTGCCACGGA-GTTGTGGACTTAAAAAG
* * *
285943 AAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA-AG
*** *
285976 AAAAAGGTGCCATAAAGTTGTAGACTT-AAAAG
1 -AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
286008 ---A-GTGCCACGGAGTTATGGACTTAAAAGGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAA-AG
* * * *
286037 AAAAGGGTGTCACAGAG-TGTTGGACCTAAAAGGG
1 AAAA-GGTGCCACGGAGTTG-TGGACTTAAAA-AG
* * * *
286071 AAAATGGTGCCATGGAATTATGGACTTAAAAGG
1 AAAA-GGTGCCACGGAGTTGTGGACTTAAAAAG
* **
286104 AAAAAGGGTACCACGGAGTCATGGACTTAAAAAG
1 -AAAA-GGTGCCACGGAGTTGTGGACTTAAAAAG
*
286138 AAAAGGTGCCACAGAGTTGTGGACTT-AAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * * *
286169 AAAAATGTGCCATAGG-GTTATGGAC-T-CAAA-
1 -AAAAGGTGCCA-CGGAGTTGTGGACTTAAAAAG
*
286199 AAAA-GTGCCACGAAGTTGTGGACTTAAAAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTT-AAAAAG
* ** *
286231 AAAAAGGTACCACAAAGTTGTGGACTT----TG
1 -AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
286260 -AAAGGTGTCA-TGATGTTGTGGACTTAAAAGGAA
1 AAAAGGTGCCACGGA-GTTGTGGACTTAAAA--AG
* * * * *
286293 AAAAGATGCCACAGTGTTATGGACTTAAAATG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
286325 AAAAGGTACCACAGAGTTGTGGACTT-AAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
286356 ---A-GTGCCACGAAGTTATGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
286384 AAAAGGTGCCACAGAGTTGTGGACTT--AGAG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * ** **
286414 AAAAGATGCCACTGAGTCATGGACTT-GGAAG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
286445 AAAAAGGATGGCACTGAGTTGTGGACTT
1 -AAAAGG-TGCCACGGAGTTGTGGACTT
286473 GGAAAAGAGA
Statistics
Matches: 807, Mismatches: 154, Indels: 149
0.73 0.14 0.13
Matches are distributed among these distances:
26 4 0.00
27 108 0.13
28 49 0.06
29 12 0.01
30 25 0.03
31 47 0.06
32 201 0.25
33 66 0.08
34 266 0.33
35 29 0.04
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.21
Consensus pattern (32 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
Found at i:285748 original size:93 final size:92
Alignment explanation
Indices: 285402--286410 Score: 388
Period size: 95 Copynumber: 10.7 Consensus size: 92
285392 TTGTGTGGGC
* * *
285402 TTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAA
1 TTAAAA-GGTGCCACGGAGTTATGGACTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTTAA
* *** * *
285467 AAAGAAAAGGTGCCACGGAGTCATGGACT
64 AAGGAAAAGCCACCACAGAGTCGTGGACT
* * *
285496 TAAAAAGAAAAGGTGCCACAGAGTTATGGACTTAAAAGG-AAAAGGTGCCATGGAGTTGTGGACT
1 T-----TAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACT
* *** *
285560 TAAAAAAGAAAAAGGTGCCACCGAGTCGTGGACT
61 T--AAAAGGAAAAGCCACCACAGAGTCGTGGACT
* * *
285594 TTGAAGGGTGCCACGGAGTTGTGG-CTTAAAAGGAAAAAGGGTGCCACGGAGTTGTGGACTTAAA
1 TTAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTTAAA
* *
285658 AGGAAAAGCCACCATAGAGTTGTGGA-T
65 AGGAAAAGCCACCACAGAGTCGTGGACT
* * **
285685 TTAAAAAGGTGCCATGGAGTTATGGACTTAAAAGGGAAAAAGGTGCCACGGAATTGTAAACTTAA
1 TT-AAAAGGTGCCACGGAGTTATGGACTTAAAA-GGAAAAAGGTGCCACGGAGTTGTGGACTTAA
** * *
285750 AAGG----G-TGCCACGGAGTTGTGGACT
64 AAGGAAAAGCCACCACAGAGTCGTGGACT
* * * * * * *
285774 TAAAGGGGAAAATGGTGCCATGGAGTTGTGGACCTAATAGGGAAAAAGGTACCACAGAGTTGTGG
1 T------TAAAA-GGTGCCACGGAGTTATGGACTTAA-AAGGAAAAAGGTGCCACGGAGTTGTGG
*** * ** *
285839 ACTTAAAAGGAAAAAAAGGTGCTATGGAGTCATGGACT
58 ACTTAAAAGG---AAAAGCCACCACAGAGTCGTGGACT
* * * * *
285877 TAAAAAAAAAGGTACCACAGAGTTGTTGACTTAAAAGG-AAAAGGTGCCAC-GATGTTGTGGACT
1 T----TAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGA-GTTGTGGACT
*** * *
285940 T--AA--AAAAGGTGCCACAGAGTTGTGGGCT
61 TAAAAGGAAAAGCCACCACAGAGTCGTGGACT
* *** * * *
285968 TAAAAGGGAAAAAGGTGCCATAAAGTTGTAGACTTAAAA-G----A-GTGCCACGGAGTTATGGA
1 T-------TAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGA
****
286027 CTTAAAAGGGAAAAGGGTGTCACAGAGT-GTTGGACCT
59 CTTAAAA-GGAAAA-GCCACCACAGAGTCG-TGGA-CT
** * * * **
286064 AAAAGGGAAAATGGTGCCATGGAATTATGGACTTAAAAGGAAAAAGGGTACCACGGAGTCATGGA
1 -----TTAAAA-GGTGCCACGGAGTTATGGACTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGA
* *** *
286129 CTTAAAAAGAAAAGGTGCCACAGAGTTGTGGAC-
59 CTTAAAAGGAAAAGCCACCACAGAGTCGTGGACT
* * *
286162 TTAAAAGAAAAATGTGCCATAGG-GTTATGGAC-T-CAA--AAAAA-GTGCCACGAAGTTGTGGA
1 TTAAAAG------GTGCCA-CGGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGA
* ** * *
286221 CTTAAAAAAGAAAAAGGTACCACAAAGTTGTGGACT
59 CTT--AAAAGGAAAAGCCACCACAGAGTCGTGGACT
* * * * * * * *
286257 TTGAAAGGTGTCA-TGATGTTGTGGACTTAAAAGGAAAAAAGATGCCACAGTGTTATGGACTTAA
1 TTAAAAGGTGCCACGGA-GTTATGGACTTAAAAGG-AAAAAGGTGCCACGGAGTTGTGGACTTAA
* ** *
286321 AATGAAAAGGTACCACAGAGTTGTGGAC-
64 AAGGAAAAGCCACCACAGAGTCGTGGACT
* *
286349 TTAAAAGAGTGCCACGAAGTTATGGACTTAAAAGG-AAAAGGTGCCACAGAGTTGTGGACTTA
1 TTAAAAG-GTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTA
286411 GAGAAAAGAT
Statistics
Matches: 720, Mismatches: 119, Indels: 155
0.72 0.12 0.16
Matches are distributed among these distances:
87 1 0.00
88 13 0.02
89 33 0.05
90 4 0.01
91 51 0.07
92 73 0.10
93 107 0.15
94 107 0.15
95 110 0.15
96 29 0.04
97 7 0.01
98 88 0.12
99 10 0.01
100 36 0.05
101 11 0.02
102 24 0.03
103 16 0.02
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (92 bp):
TTAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAA
GGAAAAGCCACCACAGAGTCGTGGACT
Found at i:285765 original size:61 final size:62
Alignment explanation
Indices: 285627--286355 Score: 480
Period size: 61 Copynumber: 11.5 Consensus size: 62
285617 GCTTAAAAGG
* *** *
285627 AAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GG-AAAAGCCACCATAGAGTTGTGGA-TT
1 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGAGTTGTGGACTT
* * * * * **
285686 TAAAAAGGTGCCATGGAGTTATGGACTTAAAAGGGAAAAAGGTGCCACGGAATTGTAAACTT
1 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGAGTTGTGGACTT
* * *
285748 -AAAAGGGTGCCACGGAGTTGTGGACTTAAAGGGGAAAATGGTGCCATGGAGTTGTGGACCTAAT
1 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGAGTTGTGGA-CT--T
* * * * **
285812 AGGGAAAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAAAAAGGTGCTATGGAGTCATGGACT
1 A---AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG-GAAAAAGGTGCCATGGAGTTGTGGACT
285877 T
62 T
* * * *
285878 AAAAAAAAAGGTACCACAGAGTTGTTGACTTAAAA-GG-AAAAGGTGCCA-CGATGTTGTGGACT
1 ---AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGA-GTTGTGGACT
285940 T
62 T
* * ** *
285941 AAAAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGGAAAAAGGTGCCATAAAGTTGTAGACTT
1 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGAGTTGTGGACTT
* * * * ** *
286003 AAAAGA-GTGCCACGGAGTTATGGACTTAAAAGGGAAAAGGGTGTCACAGAG-TGTTGGACCTAA
1 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGAGTTG-TGGA-CT-T
* * * * * **
286066 AAGGGAAAATGGTGCCATGGAATTATGGACTTAAAA-GGAAAAAGGGTACCACGGAGTCATGGAC
1 AA---AAAA-GGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAA-GGTGCCATGGAGTTGTGGAC
286130 TT
61 TT
* * *
286132 AAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAA--GAAAAATGTGCCATAGG-GTTATGGAC
1 ---AA-AAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCAT-GGAGTTGTGGAC
*
286194 TC
61 TT
* * ** * ***
286196 AAAAAAAGTGCCACGAAGTTGTGGACTTAAAAAAGAAAAAGGTACCACAAAGTTGTGGACTT
1 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGAGTTGTGGACTT
** * * * * ** * *
286258 -TGAAAGGTGTCA-TGATGTTGTGGACTTAAAAGGAAAAAAGATGCCACAGTGTTATGGACTT
1 AAAAAAGGTGCCACGGA-GTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGAGTTGTGGACTT
* *
286319 AAAATGAAAAGGTACCACAGAGTTGTGGACTTAAAAG
1 --AA--AAAAGGTGCCACGGAGTTGTGGACTTAAAAG
286356 AGTGCCACGA
Statistics
Matches: 528, Mismatches: 100, Indels: 77
0.75 0.14 0.11
Matches are distributed among these distances:
59 28 0.05
60 61 0.12
61 154 0.29
62 54 0.10
63 22 0.04
64 15 0.03
65 9 0.02
66 80 0.15
67 15 0.03
68 67 0.13
69 23 0.04
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (62 bp):
AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGGTGCCATGGAGTTGTGGACTT
Found at i:285778 original size:26 final size:27
Alignment explanation
Indices: 285721--285777 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
285711 CTTAAAAGGG
*
285721 AAAAAGGTGCCACGGAATTGTAAACTT
1 AAAAGGGTGCCACGGAATTGTAAACTT
* **
285748 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAATTGTAAACTT
285775 AAA
1 AAA
285778 GGGGAAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAATTGTAAACTT
Found at i:285973 original size:221 final size:216
Alignment explanation
Indices: 285404--286410 Score: 663
Period size: 221 Copynumber: 4.6 Consensus size: 216
285394 GTGTGGGCTT
* * * * * *
285404 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAAGGTGCCATGGAGTTATGGACTT-AAAAGAAAAA-GGTACCACAGAGTTGTGGACTT-AAA
** *
285469 AGAAAAGGTGCCACGGAGTCATGGACTTAAAAAGAAAAGGTGCCACAGAGTTATGGACTTAAAAG
63 AGAAAAGGTGCCAC-GAGTTGTGGACTT--AAA-AAAAGGTGCCACAGAGTTGTGGACTTAAAA-
* * * *
285534 GAAAAGGTGCCATGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACCGAGTCGTGGA-CT--T-
123 G----GGTGCCACGAAGTTGTGGACTT---AAAG-AAAAGGTGCCACGGAGTTGTGGACCTAATA
* * * *
285595 -TG--AAGGGTGCCACGGAGTTGTGG-CTTAAAAGGA
180 GGGAAAAAGGTGTCACAGAGTTGTGGACTTAAAAGGA
* * * * ** * *
285628 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGCCACCATAGAGTTGTGGA-TT--TA-A
1 AAAAAGGTGCCATGGAGTTATGGACTTAAAAGAAAAAGGTACCACAGAGTTGTGGACTTAAAAGA
* * * * **
285689 AAAGGTGCCATGGAGTTATGGACTTAAAAGGGAAAAAGGTGCCACGGAATTGTAAACTTAAAAGG
66 AAAGGTGCCA-CGAGTTGTGGACTT--AA---AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* *
285754 GTGCCACGGAGTTGTGGACTTAAAGGGGAAAATGGTGCCATGGAGTTGTGGACCTAATAGGGAAA
125 GTGCCACGAAGTTGTGGACTTAAA---GAAAA-GGTGCCACGGAGTTGTGGACCTAATAGGGAAA
**
285819 AAGGTACCACAGAGTTGTGGACTTAAAAGGAA
186 AAGGTGTCACAGAGTTGTGGACTTAAAAGG-A
* * *
285851 AAAAAGGTGCTATGGAGTCATGGACTTAAAA-AAAAAGGTACCACAGAGTTGTTGACTTAAAAGG
1 AAAAAGGTGCCATGGAGTTATGGACTTAAAAGAAAAAGGTACCACAGAGTTGTGGACTTAAAA-G
*
285915 AAAAGGTGCCACGATGTTGTGGACTT-AAAAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGGAAA
65 AAAAGGTGCCACGA-GTTGTGGACTTAAAAAAAGGTGCCACAGAGTTGTGGACTTAAAA--G---
** * * * * *
285979 AAGGTGCCATAAAGTTGTAGACTT-AA-AAGA-GTGCCACGGAGTTATGGACTTAAAAGGGAAAA
124 --GGTGCCACGAAGTTGTGGACTTAAAGAAAAGGTGCCACGGAGTTGTGGACCTAATAGGGAAAA
* * *
286041 GGGTGTCACAGAG-TGTTGGACCTAAAAGGG
187 AGGTGTCACAGAGTTG-TGGACTTAAAAGGA
* * * **
286071 AAAATGGTGCCATGGAATTATGGACTTAAAAGGAAAAAGGGTACCACGGAGTCATGGACTTAAAA
1 AAAAAGGTGCCATGGAGTTATGGACTTAAAA-GAAAAA-GGTACCACAGAGTTGTGGACTT-AAA
* * * * *
286136 AGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGAAAAATGTGCCATAGGGTTATGGACTCAAAAA
63 AGAAAAGGTGCCAC-GAGTTGTGGACTT--AA-AAAAAGGTGCCACAGAGTTGTGGACT-TAAAA
** * ** *
286201 AAGTGCCACGAAGTTGTGGACTTAAAAAAGAAAAAGGTACCACAAAGTTGTGGA-CT--T--TG-
123 GGGTGCCACGAAGTTGTGGACTT---AAAG-AAAAGGTGCCACGGAGTTGTGGACCTAATAGGGA
*
286260 -AAAGGTGTCA-TGATGTTGTGGACTTAAAAGGA
184 AAAAGGTGTCACAGA-GTTGTGGACTTAAAAGGA
* ** *
286292 AAAAAGATGCCACAGTGTTATGGACTTAAAATG-AAAAGGTACCACAGAGTTGTGGACTTAAAAG
1 AAAAAGGTGCCATGGAGTTATGGACTTAAAA-GAAAAAGGTACCACAGAGTTGTGGACTTAAAAG
*
286356 ---A-GTGCCACGAAGTTATGGACTTAAAAGGAAAAGGTGCCACAGAGTTGTGGACTTA
65 AAAAGGTGCCACG-AGTTGTGGACTT-AAA--AAAAGGTGCCACAGAGTTGTGGACTTA
286411 GAGAAAAGAT
Statistics
Matches: 628, Mismatches: 102, Indels: 117
0.74 0.12 0.14
Matches are distributed among these distances:
211 3 0.00
212 1 0.00
213 9 0.01
214 77 0.12
215 3 0.00
217 28 0.04
218 7 0.01
219 45 0.07
220 36 0.06
221 162 0.26
222 49 0.08
223 85 0.14
224 33 0.05
225 3 0.00
226 3 0.00
227 48 0.08
228 36 0.06
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (216 bp):
AAAAAGGTGCCATGGAGTTATGGACTTAAAAGAAAAAGGTACCACAGAGTTGTGGACTTAAAAGA
AAAGGTGCCACGAGTTGTGGACTTAAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCA
CGAAGTTGTGGACTTAAAGAAAAGGTGCCACGGAGTTGTGGACCTAATAGGGAAAAAGGTGTCAC
AGAGTTGTGGACTTAAAAGGA
Found at i:285984 original size:255 final size:253
Alignment explanation
Indices: 285404--286482 Score: 895
Period size: 255 Copynumber: 4.2 Consensus size: 253
285394 GTGTGGGCTT
285404 AAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAA-GGTGCCACG-AGTTGTGGACTT----A-AAAAA-GGTGCCACGGAGTTGTGGACTTAAAA
* ** * *
285469 -AG-AAAAGGTGCCACG-GAGTCATGGACTTAAAAAGAAAAGGTGCCACAGAGTTATGGACTTAA
58 GAGAAAAAGGTGCCACGAAAGTTGTAGACTT-AAAAG----GGTGCCACGGAGTTATGGACTTAA
** * * * * *
285531 AA-GGAAAAGGTGCCATGGAGTTGTGGACTTAAAAAAGAAAAAGGTGCCACCGAGTCGTGGACTT
118 AAGGGAAAAGGTGCCACAGAGTTGTGGACCTAAAAAGGAAAAAGGTACCACAGAGTTGTGGACTT
* ** *
285595 ----TG---AAGGGTGCCACGGAGTTGTGG-CTTAAAAGGAAAAAGGGTGCCACGGAGTTGTGGA
183 AAAAGGAAAAAGGGTGCCACGGAGTCATGGACTTAAAA--AAAAA-GGTGCCACAGAGTTGTGGA
285652 CTTAAAAGG
245 CTTAAAAGG
*** * * * * *
285661 AAAAGCCACCATAGAGTTGTGGA-TTTAAAAAGGTGCCATGGAGTTATGGACTTAAAAGGGAAAA
1 AAAAGGTGCCA-CGAGTTGTGGACTTAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAGAAAA
* * * *
285725 AGGTGCCACGGAA-TTGTAAACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGGGGAAAATGG
65 AGGTGCCACGAAAGTTGTAGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGAAAA-GG
** * *
285789 TGCCATGGAGTTGTGGACCTAATAGGGAAAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAAA
129 TGCCACAGAGTTGTGGACCTAAAAAGGAAAAAGGTACCACAGAGTTGTGGACTTAAAAGG-AAAA
* * * * *
285854 AAGGTGCTATGGAGTCATGGACTTAAAAAAAAAGGTACCACAGAGTTGTTGACTTAAAAGG
193 AGGGTGCCACGGAGTCATGGACTTAAAAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* * *
285915 AAAAGGTGCCACGATGTTGTGGACTTAAAAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGGAAAA
1 AAAAGGTGCCACGA-GTTGTGGACTTAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAGAAAA
* *
285980 AGGTGCCA-TAAAGTTGTAGACTTAAAAGAGTGCCACGGAGTTATGGACTTAAAAGGGAAAAGGG
65 AGGTGCCACGAAAGTTGTAGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGAAAA-GG
* * * * ** * *
286044 TGTCACAGAG-TGTTGGACCTAAAAGGGAAAATGGTGCCATGGAATTATGGACTTAAAAGGAAAA
129 TGCCACAGAGTTG-TGGACCTAAAAAGGAAAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAA
* *
286108 AGGGTACCACGGAGTCATGGACTTAAAAAGAAAAGGTGCCACAGAGTTGTGGACTTAAAAGA
193 AGGGTGCCACGGAGTCATGGACTTAAAAA-AAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* * * * * * * *
286170 AAAATGTGCCATAGGGTTATGGACTCAAAAAAAGTGCCACGAAGTTGTGGACTTAAAAAAGAAAA
1 AAAAGGTGCCA-CGAGTTGTGGACTTAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAGAAAA
* * * * * * *
286235 AGGTACCAC-AAAGTTGTGGACTTTGAAA-GGTGTCA-TGATGTTGTGGACTTAAAAGGAAAAAA
65 AGGTGCCACGAAAGTTGTAGAC-TTAAAAGGGTGCCACGGA-GTTATGGACTTAAAAGG-GAAAA
* * * * *
286297 GATGCCACAGTGTTATGGA-CTTAAAATG-AAAAGGTACCACAGAGTTGTGGACTTAAAA-G---
127 GGTGCCACAGAGTTGTGGACCTAAAAAGGAAAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAA
* * * *
286356 -A--GTGCCACGAAGTTATGGACTTAAAAGGAAAAGGTGCCACAGAGTTGTGGACTT-AGA-G
192 AAGGGTGCCACGGAGTCATGGACTTAAAA-AAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
* ** * *
286414 AAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAAGGATGGCACTGAGTTGTGGACTTGGAAAA
1 AAAAGGTGCCAC-GAGTTGTGGACTT---A-AAAAAGG-TGCCACGGAGTTGTGGACTT--AAAA
286479 GAGA
58 GAGA
286483 TGCCACTAAG
Statistics
Matches: 673, Mismatches: 114, Indels: 76
0.78 0.13 0.09
Matches are distributed among these distances:
244 19 0.03
245 2 0.00
246 71 0.11
247 7 0.01
248 56 0.08
249 41 0.06
250 11 0.02
251 26 0.04
252 3 0.00
253 26 0.04
254 82 0.12
255 277 0.41
256 40 0.06
257 12 0.02
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (253 bp):
AAAAGGTGCCACGAGTTGTGGACTTAAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGAGAAAAA
GGTGCCACGAAAGTTGTAGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGAAAAGGTG
CCACAGAGTTGTGGACCTAAAAAGGAAAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAAAGG
GTGCCACGGAGTCATGGACTTAAAAAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGG
Found at i:286129 original size:68 final size:66
Alignment explanation
Indices: 285748--286355 Score: 244
Period size: 66 Copynumber: 9.5 Consensus size: 66
285738 TTGTAAACTT
* * * * * ** **
285748 AAAAGGGTGCCACGGAGTTGTGGACTTAAAGGGGAAAATGGTGCCATGGAGTTGTGGACCTAATA
1 AAAA-GGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGGTACCACAGAGTCATGGACCTAA-A
**
285813 GGG
64 AAG
* * * * * * ** *
285816 AAAAAGGTACCACAGAGTTGTGGACTTAAAAGGAAAAAAAGGTGCTATGGAGTCATGGACTTAAA
1 -AAAAGGTGCCACGGAGTTATGGACTTAAAAGG-AAAAAGGGTACCACAGAGTCATGGACCTAAA
285881 AA-
64 AAG
* * * * * ** *
285883 AAAAGGTACCACAGAGTTGTTGACTTAAAAGG-AAAA-GGTGCCAC-GATGTTGTGGA-CT--TA
1 AAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGGTACCACAGA-GTCATGGACCTAAAA
285942 A-
65 AG
* * * * * * ** * *
285943 AAAAGGTGCCACAGAGTTGTGGGCTTAAAAGGGAAAAA-GGTGCCATAAAGTTGTAGA-CTTAAA
1 AAAAGGTGCCACGGAGTTATGGACTTAAAA-GGAAAAAGGGTACCACAGAGTCATGGACCTAAAA
286006 AG
65 AG
* ** **
286008 ---A-GTGCCACGGAGTTATGGACTTAAAAGGGAAAAGGGTGTCACAGAGTGTTGGACCTAAAAG
1 AAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGGTACCACAGAGTCATGGACCTAAAA-
*
286069 GG
65 AG
* * * *
286071 AAAATGGTGCCATGGAATTATGGACTTAAAAGGAAAAAGGGTACCACGGAGTCATGGACTTAAAA
1 AAAA-GGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGGTACCACAGAGTCATGGACCTAAAA
286136 AG
65 AG
* * * * * * * *
286138 AAAAGGTGCCACAGAGTTGTGGACTTAAAA-GAAAAA-TGTGCCATAGGGTTATGGA-CT-CAAA
1 AAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGGTACCACAGAGTCATGGACCTAAAAA
286199 -
66 G
* * * * ** *
286199 AAAA-GTGCCACGAAGTTGTGGACTTAAAAAAGAAAAA-GGTACCACAAAGTTGTGGA-CT---T
1 AAAAGGTGCCACGGAGTTATGGACTT-AAAAGGAAAAAGGGTACCACAGAGTCATGGACCTAAAA
*
286258 TG
65 AG
* * * * * * * * *
286260 -AAAGGTGTCA-TGATGTTGTGGACTTAAAAGGAAAAAAGATGCCACAGTGTTATGGACTTAAAA
1 AAAAGGTGCCACGGA-GTTATGGACTTAAAAGGAAAAAGGGTACCACAGAGTCATGGACCTAAAA
*
286323 TG
65 AG
* * *
286325 AAAAGGTACCACAGAGTTGTGGACTTAAAAG
1 AAAAGGTGCCACGGAGTTATGGACTTAAAAG
286356 AGTGCCACGA
Statistics
Matches: 428, Mismatches: 83, Indels: 59
0.75 0.15 0.10
Matches are distributed among these distances:
60 68 0.16
61 75 0.18
62 54 0.13
63 15 0.04
64 19 0.04
65 8 0.02
66 78 0.18
67 7 0.02
68 76 0.18
69 28 0.07
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (66 bp):
AAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGGGTACCACAGAGTCATGGACCTAAAAA
G
Done.