Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold793
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: 691781
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 5
Found at i:170597 original size:51 final size:50
Alignment explanation
Indices: 170537--170707 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 50
170527 TTATTTCTGA
* * *
170537 GGGGATACTCCAACCCTGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCC-GATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
170588 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
* *
170641 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCATAATC
1 GGGGATACTCCAA-CCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
170693 GAGGATACTCCAACC
1 GGGGATACTCCAACC
170708 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 18, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
51 33 0.34
52 22 0.22
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:170699 original size:105 final size:104
Alignment explanation
Indices: 170373--170707 Score: 263
Period size: 105 Copynumber: 3.2 Consensus size: 104
170363 AATTCTCCAC
* * * * ** *
170373 AATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTT-T-CTATAATCGGGGATAC
1 AATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGATAC
* *
170436 TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCAC
66 TCCAA-TCCGATTTTATTTCC-AAAAATACCAATTT-TTCAT
* * * ** * * * * * *
170478 AATCGGGGACACTCCAACCCC-G-TTAATCATCGGGGATACTCCAA---CCCCGTTATTTCTGAG
1 AATCGAGGATACTCCAACCCCGGTTTTATTTTC---AAAACACCAATTTCTCCTTTA-ATC---G
* * * * *
170538 GGGATACTCCAACCCTGACTTTATTTTC-AAAATATCGATTTTTCAT
59 GGGATACTCCAATCC-GATTTTATTTCCAAAAATACCAATTTTTCAT
* *
170584 AATCGGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATCGGGGATAC
1 AATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGATAC
170649 TCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCAT
66 TCCAA-TCCGATTTTATTTCCAAAAATACCAATTTTTCAT
170689 AATCGAGGATACTCCAACC
1 AATCGAGGATACTCCAACC
170708 TCGTTATTTC
Statistics
Matches: 171, Mismatches: 42, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
103 5 0.03
104 23 0.13
105 62 0.36
106 31 0.18
107 13 0.08
108 14 0.08
109 23 0.13
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (104 bp):
AATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTCCTTTAATCGGGGATAC
TCCAATCCGATTTTATTTCCAAAAATACCAATTTTTCAT
Found at i:170726 original size:28 final size:28
Alignment explanation
Indices: 170690--170771 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
170680 ATTTTTCATA
*
170690 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
170718 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
170746 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
170772 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:183182 original size:15 final size:13
Alignment explanation
Indices: 183161--183224 Score: 83
Period size: 14 Copynumber: 4.7 Consensus size: 13
183151 ACCTTCTCTT
*
183161 CAAAAAAAAAAGAG
1 CAAAAAAAAAA-AA
183175 CAAAAAAAAAAAA
1 CAAAAAAAAAAAA
183188 CAAAAAAAAAAAAA
1 C-AAAAAAAAAAAA
*
183202 CAAAAAAACAAAA
1 CAAAAAAAAAAAA
183215 CAAAGAAAAA
1 CAAA-AAAAA
183225 GAGAGAAAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
13 17 0.38
14 28 0.62
ACGTcount: A:0.86, C:0.09, G:0.05, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAA
Found at i:183191 original size:27 final size:27
Alignment explanation
Indices: 183161--183240 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
183151 ACCTTCTCTT
183161 CAAAAAAAAAAGAGCAAAAAAAAAAAA
1 CAAAAAAAAAAGAGCAAAAAAAAAAAA
* * *
183188 CAAAAAAAAAAAAACAAAAAAACAAAA
1 CAAAAAAAAAAGAGCAAAAAAAAAAAA
* *
183215 CAAAGAAAAAGAGAG-AAAAGAAAAAA
1 CAAA-AAAAAAAGAGCAAAAAAAAAAA
183241 CCTACTTAAG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 37 0.84
28 7 0.16
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (27 bp):
CAAAAAAAAAAGAGCAAAAAAAAAAAA
Found at i:183240 original size:1 final size:1
Alignment explanation
Indices: 183162--183224 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
183152 CCTTCTCTTC
* ** * * * * *
183162 AAAAAAAAAAGAGCAAAAAAAAAAAACAAAAAAAAAAAAACAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
183225 GAGAGAAAAG
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:184213 original size:55 final size:55
Alignment explanation
Indices: 184145--184707 Score: 834
Period size: 55 Copynumber: 10.2 Consensus size: 55
184135 TTTCCTTCCC
*
184145 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
*
184200 CAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
* *
184255 CAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
* *
184310 CAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGTATTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
*
184365 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCC
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCT
*
184420 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTT-CAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGC-ACTTTCCAGTCCT
*
184475 CAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCCAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCT
* * *
184531 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCTAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
*
184586 CAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTGGGTGGCACCTTT-CAGTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCT
* * ** *
184641 CAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTTACTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
*
184696 CAATGAGCAGGA
1 CAAAGAGCAGGA
184708 TACAATTTAT
Statistics
Matches: 475, Mismatches: 22, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
54 10 0.02
55 407 0.86
56 58 0.12
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (55 bp):
CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCT
Found at i:185330 original size:21 final size:21
Alignment explanation
Indices: 185304--185381 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
185294 AAAAAAATTA
*
185304 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTGG
185325 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
185346 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
185367 AATGTATCGATACAT
1 AATGTATCGATACAT
185382 CCTACAAATG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:185392 original size:42 final size:42
Alignment explanation
Indices: 185303--185401 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
185293 AAAAAAAATT
* **
185303 AAATGTATCGATACATTTGTAGAATGTATCGATACATTTGTG
1 AAATGTATCGATACATTTGTAGAATGTATCGATACATCTGAC
* *
185345 GAATGTATCGATACATTTGTGGAATGTATCGATACATCCT-AC
1 AAATGTATCGATACATTTGTAGAATGTATCGATACAT-CTGAC
185387 AAATGTATCGATACA
1 AAATGTATCGATACA
185402 GGGTCCCAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (42 bp):
AAATGTATCGATACATTTGTAGAATGTATCGATACATCTGAC
Found at i:185461 original size:19 final size:19
Alignment explanation
Indices: 185437--185504 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
185427 AATTCAACAA
185437 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
185456 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
185471 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
185488 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
185505 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:185476 original size:13 final size:13
Alignment explanation
Indices: 185458--185482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
185448 ACATAAGTTT
185458 TGTATCGATACAA
1 TGTATCGATACAA
185471 TGTATCGATACA
1 TGTATCGATACA
185483 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:185480 original size:32 final size:32
Alignment explanation
Indices: 185439--185501 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
185429 TTCAACAATT
*
185439 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
185471 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
185502 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:185562 original size:13 final size:13
Alignment explanation
Indices: 185544--185569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185534 CATTTTTCTG
185544 TGTATCGATACAT
1 TGTATCGATACAT
185557 TGTATCGATACAT
1 TGTATCGATACAT
185570 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:185566 original size:33 final size:33
Alignment explanation
Indices: 185524--185590 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
185514 GCCAAGGAAA
***
185524 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
185557 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
185590 T
1 T
185591 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:188104 original size:28 final size:27
Alignment explanation
Indices: 188037--188107 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
188027 CTTCACAATC
* *
188037 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
188064 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
188092 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
188108 TGACTTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.24, C:0.34, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:188152 original size:51 final size:50
Alignment explanation
Indices: 188092--188262 Score: 180
Period size: 51 Copynumber: 3.3 Consensus size: 50
188082 TTATTTCTGA
* * *
188092 GGGGATACTCCAACCCTGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCC-GATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
188143 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAA-CCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
* * *
188196 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAA-CCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
188248 GAGGATACTCCAACC
1 GGGGATACTCCAACC
188263 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 19, Indels: 8
0.78 0.15 0.06
Matches are distributed among these distances:
51 33 0.34
52 21 0.22
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (50 bp):
GGGGATACTCCAACCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:188281 original size:28 final size:28
Alignment explanation
Indices: 188245--188326 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
188235 ATTTTTCACA
*
188245 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
188273 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
188301 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
188327 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:191611 original size:34 final size:34
Alignment explanation
Indices: 191536--191618 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
191526 TATGGCACCC
*
191536 TTTTAAGTCCACAAC-CCAGTGACACCTTTTTAT
1 TTTTAAGTCCACAACTCCAGCGACACCTTTTTAT
* * *
191569 TTTAAAGTCCACAACTCTA-CGACATCCTTTTTCT
1 TTTTAAGTCCACAACTCCAGCGACA-CCTTTTTAT
*
191603 TTTTAAGTCCATAACT
1 TTTTAAGTCCACAACT
191619 TCTTGGCACC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 18 0.43
34 24 0.57
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.39
Consensus pattern (34 bp):
TTTTAAGTCCACAACTCCAGCGACACCTTTTTAT
Found at i:191612 original size:94 final size:92
Alignment explanation
Indices: 191504--191821 Score: 325
Period size: 94 Copynumber: 3.5 Consensus size: 92
191494 TGGCATTCCT
** * * *
191504 TTTTCTTCAAAGTCCATAACTCTATGGCACCC-TTTTAAGTCCACAACCCAGTGACACCTTTTTA
1 TTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTTAAGTCCACAACCCAGTGACACCTTTTTC
191568 TTTTAAAGTCCACAACTCTACGACATCC
66 TTTTAAAGTCCACAACTCT-CGACATCC
* *
191596 TTTTTCTTTTTAAGTCCATAACTTCT-TGGCACCCTTTTTAAAGTCCACAACTCC-GTGGCACC-
1 -TTTTC-TTTTAAGTCCACAAC-TCTGTGGCACCCTTTTT-AAGTCCACAAC-CCAGTGACACCT
* *
191658 -TTTCTTGTAAAGTCCACAACTCTGTGACA-CC
61 TTTTCTTTTAAAGTCCACAACTCT-CGACATCC
* * * ** *
191689 --CT-TTTTAAGTCCACAACTCCGTGGCA-CCTTTTTAAGTCTACAACTGAATGACACCTTTTTC
1 TTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTTAAGTCCACAACCCAGTGACACCTTTTTC
*
191750 TTTTAAAGTCCACAACT-TCGTGGCATCC
66 TTTTAAAGTCCACAACTCTC--GACATCC
*
191778 TTTTCTTTTAAGTCCACAACTTTGTGGCACCCTTTTTAAGTCCA
1 TTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTTAAGTCCA
191822 TAACTCTGTG
Statistics
Matches: 187, Mismatches: 22, Indels: 32
0.78 0.09 0.13
Matches are distributed among these distances:
86 16 0.09
87 10 0.05
88 42 0.22
89 2 0.01
90 1 0.01
91 1 0.01
92 22 0.12
93 20 0.11
94 46 0.25
95 7 0.04
96 18 0.10
97 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.36
Consensus pattern (92 bp):
TTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTTAAGTCCACAACCCAGTGACACCTTTTTC
TTTTAAAGTCCACAACTCTCGACATCC
Found at i:191672 original size:31 final size:29
Alignment explanation
Indices: 191602--191985 Score: 283
Period size: 31 Copynumber: 12.9 Consensus size: 29
191592 ATCCTTTTTC
* * * *
191602 TTTTT-AAGTCCATAACTTCTTGGCACCC
1 TTTTTAAAGTCCACAACTCCGTGGCACCT
191630 TTTTTAAAGTCCACAACTCCGTGGCACCT
1 TTTTTAAAGTCCACAACTCCGTGGCACCT
* * *
191659 TTCTTGTAAAGTCCACAACTCTGTGACACCC
1 TT-TT-TAAAGTCCACAACTCCGTGGCACCT
191690 TTTTT-AAGTCCACAACTCCGTGGCACC-
1 TTTTTAAAGTCCACAACTCCGTGGCACCT
* *** *
191717 TTTTT-AAGTCTACAACTGAATGACACCTTTT
1 TTTTTAAAGTCCACAACTCCGTGGCACC---T
*
191748 TCTTTTAAAGTCCACAACTTCGTGGCATCCTT
1 T-TTTTAAAGTCCACAACTCCGTGGCA-CC-T
* ** *
191780 TTCTTTTAAGTCCACAACTTTGTGGCACCC
1 TT-TTTAAAGTCCACAACTCCGTGGCACCT
* * *
191810 TTTTT-AAGTCCATAACTCTGTGGCACCC
1 TTTTTAAAGTCCACAACTCCGTGGCACCT
* * **
191838 TTTTTAAAGTCCACAACTCCATGGTATTTT
1 TTTTTAAAGTCCACAACTCCGTGGCA-CCT
*
191868 TCCTTTTAAAGTCAACAACTCCGTGGCACCTT
1 T--TTTTAAAGTCCACAACTCCGTGGCACC-T
* * *
191900 TCTTTTAAAGTCCATAACTTCGTGGTACCTTT
1 T-TTTTAAAGTCCACAACTCCGTGGCACC--T
* * * *
191932 TTTTTAAAGTTCATAACTCTGTGGTACCT
1 TTTTTAAAGTCCACAACTCCGTGGCACCT
* *
191961 TTTTTAAAGTTCATAACTCCGTGGC
1 TTTTTAAAGTCCACAACTCCGTGGC
191986 CTTCCGAACA
Statistics
Matches: 294, Mismatches: 45, Indels: 33
0.79 0.12 0.09
Matches are distributed among these distances:
27 22 0.07
28 51 0.17
29 65 0.22
30 7 0.02
31 76 0.26
32 56 0.19
33 15 0.05
34 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
TTTTTAAAGTCCACAACTCCGTGGCACCT
Found at i:191689 original size:60 final size:59
Alignment explanation
Indices: 191598--191979 Score: 264
Period size: 60 Copynumber: 6.4 Consensus size: 59
191588 CGACATCCTT
* * *
191598 TTTCTTTTTAAGTCCATAACTTCT-TGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACC
1 TTTC-TTTAAAGTCCACAAC-TCTGTGACACCCTTTTTAAAGTCCACAACTCCGTGGCACC
191658 TTTCTTGTAAAGTCCACAACTCTGTGACACCCTTTTT-AAGTCCACAACTCCGTGGCACC
1 TTTCTT-TAAAGTCCACAACTCTGTGACACCCTTTTTAAAGTCCACAACTCCGTGGCACC
* *** * *
191717 -TT-TTT-AAGTCTACAACTGAATGACACCTTTTTCTTTTAAAGTCCACAACTTCGTGGCATCC
1 TTTCTTTAAAGTCCACAACTCTGTGACACC---CT-TTTTAAAGTCCACAACTCCGTGGCA-CC
* * * * *
191778 TTTTCTTTTAAGTCCACAACTTTGTGGCACCCTTTTT-AAGTCCATAACTCTGTGGCACC
1 -TTTCTTTAAAGTCCACAACTCTGTGACACCCTTTTTAAAGTCCACAACTCCGTGGCACC
* *** *
191837 CTT-TTTAAAGTCCACAACTCCATG-GTATTTTTCC-TTTTAAAGTCAACAACTCCGTGGCACC
1 TTTCTTTAAAGTCCACAACT-C-TGTG-A--CACCCTTTTTAAAGTCCACAACTCCGTGGCACC
* ** * * * * *
191898 TTTCTTTTAAAGTCCATAACT-TCGTGGTACCTTTTTTTTAAAGTTCATAACTCTGTGGTACC
1 TTTC-TTTAAAGTCCACAACTCT-GTGACACC--CTTTTTAAAGTCCACAACTCCGTGGCACC
* *
191960 TTT-TTTAAAGTTCATAACTC
1 TTTCTTTAAAGTCCACAACTC
191980 CGTGGCCTTC
Statistics
Matches: 256, Mismatches: 40, Indels: 51
0.74 0.12 0.15
Matches are distributed among these distances:
55 18 0.07
56 1 0.00
57 17 0.07
58 6 0.02
59 37 0.14
60 83 0.32
61 30 0.12
62 27 0.11
63 17 0.07
64 3 0.01
65 17 0.07
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (59 bp):
TTTCTTTAAAGTCCACAACTCTGTGACACCCTTTTTAAAGTCCACAACTCCGTGGCACC
Found at i:191754 original size:32 final size:32
Alignment explanation
Indices: 191718--191798 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 32
191708 CGTGGCACCT
*
191718 TTTTAAGTCTACAACTGAATGACA-CCTTTTTC
1 TTTTAAGTCCACAACTGAATGACATCC-TTTTC
*** *
191750 TTTTAAAGTCCACAACTTCGTGGCATCCTTTTC
1 TTTT-AAGTCCACAACTGAATGACATCCTTTTC
191783 TTTTAAGTCCACAACT
1 TTTTAAGTCCACAACT
191799 TTGTGGCACC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 16 0.38
33 24 0.57
34 2 0.05
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.40
Consensus pattern (32 bp):
TTTTAAGTCCACAACTGAATGACATCCTTTTC
Found at i:191809 original size:120 final size:119
Alignment explanation
Indices: 191631--191979 Score: 389
Period size: 120 Copynumber: 2.9 Consensus size: 119
191621 TTGGCACCCT
* * *
191631 TTTTAAAGTCCACAACTCCGTGGCACCTTTCTTGTAAAGTCCACAACTCTGTGACACCCTTTTTA
1 TTTTAAAGTCCACAACTCCGTGGCACCTTTCTT-TTAAGTCCACAACTTTGTGGCACCCTTTTTA
* *
191696 AGTCCACAACTCCGTGGCA-CCTTTTT-AAGTCTACAACTGAATGACACCTTTTT-C
65 AGTCCACAACTCCGTGGCACCCTTTTTAAAGTCCACAACTCAATGACA--TTTTTCC
*
191750 TTTTAAAGTCCACAACTTCGTGGCATCCTTTTCTTTTAAGTCCACAACTTTGTGGCACCCTTTTT
1 TTTTAAAGTCCACAACTCCGTGGCA-CC-TTTCTTTTAAGTCCACAACTTTGTGGCACCCTTTTT
* * * **
191815 AAGTCCATAACTCTGTGGCACCCTTTTTAAAGTCCACAACTCCATGGTATTTTTCC
64 AAGTCCACAACTCCGTGGCACCCTTTTTAAAGTCCACAACTCAATGACATTTTTCC
* * * * *
191871 TTTTAAAGTCAACAACTCCGTGGCACCTTTCTTTTAAAGTCCATAACTTCGTGGTACCTTTTTTT
1 TTTTAAAGTCCACAACTCCGTGGCACCTTTCTTTT-AAGTCCACAACTTTGTGGCACC--CTTTT
* * * * * * *
191936 TAAAGTTCATAACTCTGTGGTACCTTTTTTAAAGTTCATAACTC
63 T-AAGTCCACAACTCCGTGGCACCCTTTTTAAAGTCCACAACTC
191980 CGTGGCCTTC
Statistics
Matches: 199, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
119 32 0.16
120 73 0.37
121 37 0.19
122 20 0.10
123 37 0.19
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.37
Consensus pattern (119 bp):
TTTTAAAGTCCACAACTCCGTGGCACCTTTCTTTTAAGTCCACAACTTTGTGGCACCCTTTTTAA
GTCCACAACTCCGTGGCACCCTTTTTAAAGTCCACAACTCAATGACATTTTTCC
Found at i:191886 original size:89 final size:89
Alignment explanation
Indices: 191568--191918 Score: 241
Period size: 88 Copynumber: 3.9 Consensus size: 89
191558 CACCTTTTTA
* * * * * * *
191568 TTTTAAAGTCCACAACTCTACGACATCCTTTTTCTTTTTAAGTCCATAACTTCTTGGCACC-CTT
1 TTTTAAAGTCCACAACTCCATGGCAT-C-TTTTC-TTTTAAGTCAACAACTCCGTGGCACCTC-T
* * *
191632 TTTAAAGTCCACAACTCCGTGGCACCTT
62 TTTAAAGTCCATAACTCTGTGGCACCCT
** * ** *
191660 TCTTGTAAAGTCCACAACTCTGTGACA-C-CCT-TTTTAAGTCCACAACTCCGTGGCACCT-TTT
1 T-TT-TAAAGTCCACAACTCCATGGCATCTTTTCTTTTAAGTCAACAACTCCGTGGCACCTCTTT
* * *** * *
191721 T-AAGTCTACAACTGAATGACACCTTTTT
64 TAAAGTCCATAACTCTGTGGCACC---CT
* * * **
191749 CTTTTAAAGTCCACAACTTCGTGGCATCCTTTTCTTTTAAGTCCACAACTTTGTGGCACC-CTTT
1 -TTTTAAAGTCCACAACTCCATGGCAT-CTTTTCTTTTAAGTCAACAACTCCGTGGCACCTCTTT
*
191813 TTAAGTCCATAACTCTGTGGCACCCT
64 TAAAGTCCATAACTCTGTGGCACCCT
*
191839 TTTTAAAGTCCACAACTCCATGGTAT-TTTTCCTTTTAAAGTCAACAACTCCGTGGCACCTTTCT
1 TTTTAAAGTCCACAACTCCATGGCATCTTTT-CTTTT-AAGTCAACAACTCCGTGGCACC--TCT
191903 TTTAAAGTCCATAACT
62 TTTAAAGTCCATAACT
191919 TCGTGGTACC
Statistics
Matches: 208, Mismatches: 33, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
86 17 0.08
87 8 0.04
88 47 0.23
89 46 0.22
90 4 0.02
91 1 0.00
92 47 0.23
93 18 0.09
94 20 0.10
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (89 bp):
TTTTAAAGTCCACAACTCCATGGCATCTTTTCTTTTAAGTCAACAACTCCGTGGCACCTCTTTTA
AAGTCCATAACTCTGTGGCACCCT
Found at i:192745 original size:49 final size:49
Alignment explanation
Indices: 192686--193790 Score: 676
Period size: 49 Copynumber: 22.5 Consensus size: 49
192676 AGGAATGTTA
* ** *
192686 AAGATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
192735 AAGATACCAATGTGCTGATTCAAGGTCGGCGACATTGGACTT-AA-A-G
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
192781 --G-TACCAATATGTTGATTCAAGGCCAGCGATATTGCACTTAAAGATA
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
192827 AAGATGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--G
* * ** ** * * **
192878 AAAAAGGATA-AAAGA-GCCAATAT-GTGGCTAGCAATATT-GAGCTCGAAGATGCG
1 ---AA-GATACCAATATGCTGAT-TCAAGGCCAGCGATATTGGA-CTTAAAGAT--G
* * * * * *
192931 AAGAATGA-CAATGTGCTGATTCATGGCCAACGACATTTAGACTTGAAGA--
1 AAG-AT-ACCAATATGCTGATTCAAGGCCAGCGATA-TTGGACTTAAAGATG
* * * ** * * *
192980 AAAATGCCAATGTGCTGAGGCAAGGCCAAG-GACATTAGG-CTTAGGAATGCTA
1 AAGATACCAATATGCTGATTCAAGGCC-AGCGATATT-GGACTTA--AA-GATG
* * * ** * *
193032 AAGATGCCAATACGCTGATTCTAGGCCAATGATATTGGACTTAAGGATA
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* ** * *
193081 AAGGTGGCAATGTGCTGATTCAAGGACCAGTGATATTGGACTTAAAGATG
1 AAGATACCAATATGCTGATTCAAGG-CCAGCGATATTGGACTTAAAGATG
* * * *
193131 AAGATGCCAATGTGCTAATTCAAGGCCAGCGACATTGGACTTAAAGATG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
193180 ACAAAAGAGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G
1 --AAGATA-CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
193229 --G-TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * *
193275 AAGATGCCAATATGTTGATTCAAGGCCAGCGACATTGGATTTAAAGATGATG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-GATG
* * * * *
193327 AAGGTGCCAATATGCTGATTTAAGGCCTAGTGGTATTGGACTTAAAGATG
1 AAGATACCAATATGCTGATTCAAGGCC-AGCGATATTGGACTTAAAGATG
* * * *
193377 AAGATGCCAATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
193426 ACAAAGGAGCCAATATGCTGATTTAAGGCCAGCAATCTTGGACTT-AA-A-G
1 A-AGA-TA-CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * * *
193475 --G-TGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGATG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * * *
193521 AAGATGCCAATGTGCTGATTCAAAGCCAGCAACATTGGAATTAAAGATG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
193570 ACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 ---AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * * * *
193622 AAGATGCTAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* *
193671 ACAAAGGAGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G
1 A-AGA-TA-CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * ** * * *
193720 --G-TGCCAATGTGCTGATTCAAGGCCAGTAACATTGGTCTTAAAGA-C
1 AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
* * *
193765 AAGGTGCCAATATGATGATTCAAGGC
1 AAGATACCAATATGCTGATTCAAGGC
193791 TAGTAATATT
Statistics
Matches: 833, Mismatches: 159, Indels: 129
0.74 0.14 0.12
Matches are distributed among these distances:
43 126 0.15
44 8 0.01
45 4 0.00
46 3 0.00
47 7 0.01
48 49 0.06
49 267 0.32
50 85 0.10
51 18 0.02
52 212 0.25
53 44 0.05
54 7 0.01
55 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
AAGATACCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
Found at i:192840 original size:92 final size:92
Alignment explanation
Indices: 192683--192874 Score: 276
Period size: 92 Copynumber: 2.1 Consensus size: 92
192673 CTTAGGAATG
* * * *
192683 TTAAAGATGCCAATATGCTGATTCAAGGCCAATGATATCGGACTTAAAGATGAAGATACCAATGT
1 TTAAAGATACCAATATGCTGATTCAAGGCCAACGATATCGCACTTAAAGATAAAGATACCAATGT
* *
192748 GCTGATTCAAGGTCGGCGACATTGGAC
66 GCTGATTCAAGGCCAGCGACATTGGAC
* * * * *
192775 TTAAAGGTACCAATATGTTGATTCAAGGCCAGCGATATTGCACTTAAAGATAAAGATGCCAATGT
1 TTAAAGATACCAATATGCTGATTCAAGGCCAACGATATCGCACTTAAAGATAAAGATACCAATGT
*
192840 GCTGATTCAAGGCCAGCGATATTGGAC
66 GCTGATTCAAGGCCAGCGACATTGGAC
192867 TTAAAGAT
1 TTAAAGAT
192875 GAGAAAAAGG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (92 bp):
TTAAAGATACCAATATGCTGATTCAAGGCCAACGATATCGCACTTAAAGATAAAGATACCAATGT
GCTGATTCAAGGCCAGCGACATTGGAC
Found at i:193309 original size:144 final size:142
Alignment explanation
Indices: 192939--193850 Score: 665
Period size: 144 Copynumber: 6.3 Consensus size: 142
192929 CGAAGAATGA
* * * * * * **
192939 CAATGTGCTGATTCATGGCCAACGACATTTAGACTTGAAGA--AAAATGCCAATGTGCTGAGGCA
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
* * * * **
193002 AGGCCAAG-GACATTAGG-CTT-AGGAATGCTAAAGATGCCAATACGCTGATTCTAGGCCAATGA
65 AGGCC-AGCGACATT-GGACTTAAAG-ATG-AAAAG-TGCCAATATGCTGATTCAAGGCCAGCGA
*
193064 TATTGGACTTAAGGATAAAGGTGG
125 TATTGGAC-T-----TAAAGGTGC
* * * *
193088 CAATGTGCTGATTCAAGGACCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTGCTAATTCA
1 CAATGTGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCA
*
193153 AGGCCAGCGACATTGGACTTAAAGATGACAAAAGAGCCAATATGCTGATTCAAGGCCAGCGATAT
65 AGGCCAGCGACATTGGACTTAAAGATG--AAAAGTGCCAATATGCTGATTCAAGGCCAGCGATAT
193218 TGGACTTAAAGGTGC
128 TGGACTTAAAGGTGC
* * *
193233 CAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGAAGATGCCAATATGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
* * * * *
193298 GGCCAGCGACATTGGATTTAAAGATGATGAAGGTGCCAATATGCTGATTTAAGGCCTAGTGGTAT
66 GGCCAGCGACATTGGACTTAAAGATGA--AAAGTGCCAATATGCTGATTCAAGGCC-AGCGATAT
193363 TGGACTTAAAGATGAAGATGC
128 TGGACTT-AA-A-G--G-TGC
*
193384 CAATGTACTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGA-GCCAATATGCTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AA-GATGCCAATATGCTGAT
* * * * *
193448 TTAAGGCCAGCAATC-TTGGACTT-AA-A-G----GTGCCAATGTGCTGATTCAAGGCCAGCAAC
62 TCAAGGCCAGCGA-CATTGGACTTAAAGATGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGAT
*
193505 ATTGGTCTTAGAGATGAAGATGC
126 ATTGGACTTA-A-A-G--G-TGC
* * * *
193528 CAATGTGCTGATTCAAAGCCAGCAACATTGGAATTAAAGATGACAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGATGCCAATATGCTGATT
* * * * * *
193593 CAAGGCCAGCGATATTGGACTTAAAGATGAAGA-TGCTAATGTGTTGATTCAAGGCCAGCGACAT
63 CAAGGCCAGCGACATTGGACTTAAAGATGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATAT
*
193657 TGGACTTAAAGATGACAAAGGAGC
128 TGGAC-T-----T---AAAGGTGC
* * *
193681 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
** * * * * * **
193740 GGCCAGTAACATTGGTCTTAAAGA--CAAGGTGCCAATATGATGATTCAAGGCTAGTAATATTAG
66 GGCCAGCGACATTGGACTTAAAGATGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATT-G
193803 G-CTT--A--TGC
130 GACTTAAAGGTGC
*
193811 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
193851 AAATGCCACC
Statistics
Matches: 637, Mismatches: 82, Indels: 105
0.77 0.10 0.13
Matches are distributed among these distances:
130 34 0.05
131 2 0.00
132 2 0.00
137 1 0.00
142 3 0.00
143 28 0.04
144 227 0.36
145 64 0.10
146 3 0.00
147 2 0.00
148 1 0.00
149 28 0.04
150 45 0.07
151 111 0.17
152 10 0.02
153 34 0.05
154 34 0.05
155 3 0.00
156 2 0.00
157 1 0.00
158 1 0.00
159 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (142 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGAAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGG
ACTTAAAGGTGC
Found at i:193345 original size:246 final size:245
Alignment explanation
Indices: 193032--193790 Score: 1193
Period size: 246 Copynumber: 3.1 Consensus size: 245
193022 AGGAATGCTA
* * ** * * * *
193032 AAGATGCCAATACGCTGATTCTAGGCCAATGATATTGGACTT-AAG--GATAAAGGTGGCAATGT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGAATTAAAGATGATAAAGGTGCCAATAT
*
193094 GCTGATTCAAGGACCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTGCTAATTCAAGGCCA
66 GCTGATTCAAGG-CCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
*
193159 GCGACATTGGACTTAAAGATGACAAAAGAGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
130 GCGACATTGGACTTAAAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
193224 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATG
195 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATG
* * *
193275 AAGATGCCAATATGTTGATTCAAGGCCAGCGACATTGGATTTAAAGATGATGAAGGTGCCAATAT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGAATTAAAGATGATAAAGGTGCCAATAT
* * *
193340 GCTGATTTAAGGCCTAGTGGTATTGGACTTAAAGATGAAGATGCCAATGTACTGATTCAAGGCCA
66 GCTGATTCAAGGCC-AGTGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
* * *
193405 GCGACATTGGACTTAAAGATGACAAAGGAGCCAATATGCTGATTTAAGGCCAGCAATCTTGGACT
130 GCGACATTGGACTTAAAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
*
193470 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAGAGATG
195 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATG
* * * *
193521 AAGATGCCAATGTGCTGATTCAAAGCCAGCAACATTGGAATTAAAGATGACAAAGGTGCCAATAT
1 AAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGAATTAAAGATGATAAAGGTGCCAATAT
* * *
193586 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCTAATGTGTTGATTCAAGGCCAG
66 GCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAG
193651 CGACATTGGACTTAAAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
131 CGACATTGGACTTAAAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* *
193716 AAAGGTGCCAATGTGCTGATTCAAGGCCAGTAACATTGGTCTTAAAGA-C
196 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATG
* *
193765 AAGGTGCCAATATGATGATTCAAGGC
1 AAGATGCCAATATGCTGATTCAAGGC
193791 TAGTAATATT
Statistics
Matches: 470, Mismatches: 42, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
243 35 0.07
244 25 0.05
245 156 0.33
246 254 0.54
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (245 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCGACATTGGAATTAAAGATGATAAAGGTGCCAATAT
GCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAG
CGACATTGGACTTAAAGATGACAAAGGAGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATG
Found at i:193352 original size:101 final size:100
Alignment explanation
Indices: 193226--193790 Score: 578
Period size: 101 Copynumber: 5.8 Consensus size: 100
193216 ATTGGACTTA
* *
193226 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGTCTTAAAGATGAAGATGCCAATATGTT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGATGCCAATATGCT
*
193291 GATTCAAGGCCAGCGACATTGGATTTAAAGATGATG
66 GATTCAAGGCCAGCGACATTGGACTT-AAGATGATG
* * **** * *
193327 AAGGTGCCAATATGCTGATTTAAGGCCTAGTGGTATTGGACTTAAAGATGAAGATGCCAATGTAC
1 AAGGTGCCAATGTGCTGATTCAAGGCC-AGCAACATTGGACTTAAAGATGAAGATGCCAATATGC
**
193392 TGATTCAAGGCCAGCGACATTGGACTTAAAGATGACA
65 TGATTCAAGGCCAGCGACATTGGACTT-AAGATGATG
* * * *
193429 AAGGAGCCAATATGCTGATTTAAGGCCAGCAATC-TTGGACTT-AA-A-G--G-TGCCAATGTGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAA-CATTGGACTTAAAGATGAAGATGCCAATATGC
* *
193487 TGATTCAAGGCCAGCAACATTGGTCTT-AGA-GATG
65 TGATTCAAGGCCAGCGACATTGGACTTAAGATGATG
* * * *
193521 AAGATGCCAATGTGCTGATTCAAAGCCAGCAACATTGGAATTAAAGATGACAAAGGTGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG---AAGATGCCAATAT
*
193586 GCTGATTCAAGGCCAGCGATATTGGACTTAA-A-GATG
63 GCTGATTCAAGGCCAGCGACATTGGACTTAAGATGATG
* * * *
193622 AAGATGCTAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGA-GCCAATA
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG---AA-GATGCCAATA
*
193686 TGCTGATTCAAGGCCAGCGATATTGGAC-T----T-A--
62 TGCTGATTCAAGGCCAGCGACATTGGACTTAAGATGATG
* * * * *
193717 AAGGTGCCAATGTGCTGATTCAAGGCCAGTAACATTGGTCTTAAAGA-CAAGGTGCCAATATGAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGATGCCAATATGCT
193781 GATTCAAGGC
66 GATTCAAGGC
193791 TAGTAATATT
Statistics
Matches: 400, Mismatches: 48, Indels: 42
0.82 0.10 0.09
Matches are distributed among these distances:
90 1 0.00
91 23 0.06
92 36 0.09
93 5 0.01
94 1 0.00
95 77 0.19
96 1 0.00
97 1 0.00
98 1 0.00
99 1 0.00
100 4 0.01
101 158 0.40
102 91 0.23
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (100 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGATGCCAATATGCT
GATTCAAGGCCAGCGACATTGGACTTAAGATGATG
Found at i:193832 original size:87 final size:89
Alignment explanation
Indices: 193625--193850 Score: 278
Period size: 87 Copynumber: 2.5 Consensus size: 89
193615 AAAGATGAAG
* * * *
193625 ATGCTAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGAGCCAATATGCT
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAAGGAGCCAATATGAT
*
193690 GATTCAAGGCCAGCGATATTGGACTTAA
63 GATTCAAGGCCAGCAATATTGGACTT-A
** *
193718 AGGTGCCAATGTGCTGATTCAAGGCCAGTAACATTGGTCTTAAAGAC-AAGGTGCCAATATGATG
1 A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGAGCCAATATGATG
* *
193782 ATTCAAGGCTAGTAATATTAGG-CTT-
64 ATTCAAGGCCAGCAATATT-GGACTTA
193807 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
193851 AAATGCCACC
Statistics
Matches: 118, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
87 41 0.35
89 1 0.01
91 34 0.29
92 5 0.04
93 2 0.02
94 2 0.02
95 33 0.28
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (89 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGAGCCAATATGATGAT
TCAAGGCCAGCAATATTGGACTTA
Found at i:193985 original size:35 final size:34
Alignment explanation
Indices: 193946--194266 Score: 250
Period size: 34 Copynumber: 9.5 Consensus size: 34
193936 ACTTAAAAAT
**
193946 GTGCCACACAGTTGTGGACTTAAAAGGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAGA
* *
193981 GTGCCACGGAGTTGTGGGATTTAAAAAGAAAAA-A
1 GTGCCACGGAGTTGT-GGACTTAAAAGGAAAAAGA
**
194015 GTGCCACGGAGTCATGGACTT---A-G-AAAAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
** ** * *
194044 GATGCCACTAAGTTGTGGACTT-GCAGAAAAAAGG
1 G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
* ** *
194078 GATGCCACTGAGTTGTGGACTTTGAAGGAAAGAGA
1 G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
*
194113 -TGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
* * * *
194147 GTGCCATGGAGTTGTGGGCTTTAAAAAGAAAAA-T
1 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGA
*
194181 GTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGA
1 GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGA
* *
194217 GTGCCACGGAGTTATGGGCTTTACAAA-GAAAAAG-
1 GTGCCACGGAGTTGTGGAC-TTA-AAAGGAAAAAGA
*
194251 GTCCCACGGAGTTGTG
1 GTGCCACGGAGTTGTG
194267 AGCTTTGGAA
Statistics
Matches: 237, Mismatches: 36, Indels: 27
0.79 0.12 0.09
Matches are distributed among these distances:
28 4 0.02
29 3 0.01
30 17 0.07
32 1 0.00
33 22 0.09
34 85 0.36
35 73 0.31
36 32 0.14
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (34 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
Found at i:193996 original size:98 final size:97
Alignment explanation
Indices: 193884--194140 Score: 258
Period size: 97 Copynumber: 2.6 Consensus size: 97
193874 TCTTGAAGGT
* * *
193884 TGCCACTGACTTGTGGGCTTTTGAAAAGGAGAAAGATGCCACAGAGTTGTGGACTTAAAAA-TG-
1 TGCCACTGAGTTGTGGGC-TTTGAAAAGGA-AAAGATGCCACGGAGTTGTGGACTTAAAAAGAGA
*
193947 TGCCAC-ACAGTTGTGGACTTAAAAGGGAAAAAGAG-
64 TGCCACTA-AGTTGTGGACTT-AAA-GAAAAAAGAGA
* * * * **
193982 TGCCACGGAGTTGTGGGATTT-AAAAAGAAAAAAGTGCCACGGAGTCATGGACTTAGAAAAGAGA
1 TGCCACTGAGTTGTGGGCTTTGAAAAGGAAAAGA-TGCCACGGAGTTGTGGACTTA-AAAAGAGA
** *
194046 TGCCACTAAGTTGTGGACTTGCAGAAAAAAGGGA
64 TGCCACTAAGTTGTGGACTTAAAGAAAAAAGAGA
*
194080 TGCCACTGAGTTGTGGACTTTG--AAGGAAAGAGATGCCACGGAGTTGTGGACTTTAAAAAGA
1 TGCCACTGAGTTGTGGGCTTTGAAAAGGAAA-AGATGCCACGGAGTTGTGGAC-TTAAAAAGA
194141 AAAAGAGTGC
Statistics
Matches: 130, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
95 4 0.03
96 24 0.18
97 43 0.33
98 40 0.31
99 18 0.14
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (97 bp):
TGCCACTGAGTTGTGGGCTTTGAAAAGGAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAGATG
CCACTAAGTTGTGGACTTAAAGAAAAAAGAGA
Found at i:194279 original size:70 final size:70
Alignment explanation
Indices: 193973--194266 Score: 254
Period size: 70 Copynumber: 4.3 Consensus size: 70
193963 ACTTAAAAGG
* * *
193973 GAAAAAGAGTGCCACGGAGTTGTGGGA-TTTAAAAAG-AAAAA-AGTGCCACGGAGTCATGGAC-
1 GAAAAAG-GTCCCACGGAGTTGT-GGACTTTAAAAAGAAAAAAGAGTGCCACGGAGTTATGGGCT
194034 TT----A
64 TTAAAAA
* * ** ** * * * *
194037 GAAAAGAGATGCCACTAAGTTGTGGAC-TT--GCAGAAAAAAGGGATGCCACTGAGTTGTGGACT
1 GAAAA-AGGTCCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGAG-TGCCACGGAGTTATGGGCT
* *
194099 TT-GAAG
64 TTAAAAA
* * * * *
194105 GAAAGAGATGCCACGGAGTTGTGGACTTTAAAAAG-AAAAAGAGTGCCATGGAGTTGTGGGCTTT
1 GAAAAAGGTCCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGAGTGCCACGGAGTTATGGGCTTT
194169 AAAAA
66 AAAAA
* *
194174 GAAAAATGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGAGTGCCACGGAGTTATGGGCTTT
1 GAAAAAGGTCCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGAGTGCCACGGAGTTATGGGCTTT
*
194239 ACAAA
66 AAAAA
194244 GAAAAAGGTCCCACGGAGTTGTG
1 GAAAAAGGTCCCACGGAGTTGTG
194267 AGCTTTGGAA
Statistics
Matches: 187, Mismatches: 29, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
61 2 0.01
62 5 0.03
63 6 0.03
64 32 0.17
65 4 0.02
67 19 0.10
68 24 0.13
69 41 0.22
70 54 0.29
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.21
Consensus pattern (70 bp):
GAAAAAGGTCCCACGGAGTTGTGGACTTTAAAAAGAAAAAAGAGTGCCACGGAGTTATGGGCTTT
AAAAA
Found at i:194297 original size:31 final size:31
Alignment explanation
Indices: 194254--194385 Score: 137
Period size: 31 Copynumber: 4.3 Consensus size: 31
194244 GAAAAAGGTC
* *
194254 CCACGGAGTTGT-GAGCTTTGGA-AAGAGATTG
1 CCACTGAGTTGTGGA-CTTTGGAGAAAAGA-TG
194285 CCACTGAGTTGTGGACTTTGGAGAAAAGATG
1 CCACTGAGTTGTGGACTTTGGAGAAAAGATG
* * *
194316 CCACTGAGTCGTGGACTTTGAAGAAAATATG
1 CCACTGAGTTGTGGACTTTGGAGAAAAGATG
* * *
194347 CCGCTGAGTCGTGGGCTTTGG-GACAAA-ATG
1 CCACTGAGTTGTGGACTTTGGAGA-AAAGATG
194377 CCACTGAGT
1 CCACTGAGT
194386 CGTGCTCAAC
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
30 13 0.15
31 69 0.78
32 7 0.08
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (31 bp):
CCACTGAGTTGTGGACTTTGGAGAAAAGATG
Found at i:194384 original size:30 final size:30
Alignment explanation
Indices: 194269--194389 Score: 138
Period size: 31 Copynumber: 3.9 Consensus size: 30
194259 GAGTTGTGAG
*
194269 CTTT-GGAAAGAGATTGCCACTGAGTTGTGGA
1 CTTTGGGAAA-AGA-TGCCACTGAGTCGTGGA
194300 CTTTGGAGAAAAGATGCCACTGAGTCGTGGA
1 CTTTGG-GAAAAGATGCCACTGAGTCGTGGA
* * * *
194331 CTTTGAAGAAAATATGCCGCTGAGTCGTGGG
1 CTTTG-GGAAAAGATGCCACTGAGTCGTGGA
194362 CTTTGGGACAAA-ATGCCACTGAGTCGTG
1 CTTTGGGA-AAAGATGCCACTGAGTCGTG
194390 CTCAACTAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
30 17 0.22
31 54 0.68
32 4 0.05
33 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (30 bp):
CTTTGGGAAAAGATGCCACTGAGTCGTGGA
Found at i:200004 original size:20 final size:21
Alignment explanation
Indices: 199979--200033 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
199969 GTATCGATAC
*
199979 AATGTATCGATACATGATCA-
1 AATGTATCGATACATGATAAG
* *
199999 AATGTATCGATACTTGTTAAG
1 AATGTATCGATACATGATAAG
200020 AATGTATCGATACA
1 AATGTATCGATACA
200034 GGTCATTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (21 bp):
AATGTATCGATACATGATAAG
Found at i:200006 original size:33 final size:33
Alignment explanation
Indices: 199946--200011 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
199936 TACACCTTCA
*
199946 AATGTATCGATACATATTGCATAGTATCGATAC
1 AATGTATCGATACATATTGCAAAGTATCGATAC
199979 AATGTATCGATACATGA-T-CAAATGTATCGATAC
1 AATGTATCGATACAT-ATTGCAAA-GTATCGATAC
200012 TTGTTAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 3 0.10
33 26 0.87
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (33 bp):
AATGTATCGATACATATTGCAAAGTATCGATAC
Found at i:200118 original size:20 final size:20
Alignment explanation
Indices: 200075--200126 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
200065 CTTAACTGTT
*
200075 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
200094 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
200114 TGTATCGATACAT
1 TGTATCGATACAT
200127 TGGCTTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:206056 original size:8 final size:8
Alignment explanation
Indices: 206043--206068 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
206033 ATTTGATTAA
206043 ATTTTGTG
1 ATTTTGTG
206051 ATTTTGTG
1 ATTTTGTG
206059 ATTTTGTG
1 ATTTTGTG
206067 AT
1 AT
206069 GAATGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:208763 original size:21 final size:20
Alignment explanation
Indices: 208712--208771 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
208702 GCACAATATC
208712 GATAAAATGTATCGATACAT
1 GATAAAATGTATCGATACAT
*
208732 GATAAAATGTATCGATACTT
1 GATAAAATGTATCGATACAT
*
208752 GTTAAGAATGTATCGATACA
1 GATAA-AATGTATCGATACA
208772 AGTCATTGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.32
Consensus pattern (20 bp):
GATAAAATGTATCGATACAT
Found at i:208838 original size:13 final size:13
Alignment explanation
Indices: 208820--208845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
208810 TACACACAAG
208820 ATGTATCGATACA
1 ATGTATCGATACA
208833 ATGTATCGATACA
1 ATGTATCGATACA
208846 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:208862 original size:33 final size:32
Alignment explanation
Indices: 208802--208865 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
208792 CTTAACTGTT
*
208802 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
208834 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
208866 TTGGCTTGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:212649 original size:13 final size:13
Alignment explanation
Indices: 212631--212655 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
212621 AAAGATCAAT
212631 TGTATCGATACAA
1 TGTATCGATACAA
212644 TGTATCGATACA
1 TGTATCGATACA
212656 TTGAGTAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:212753 original size:87 final size:87
Alignment explanation
Indices: 212651--212824 Score: 312
Period size: 87 Copynumber: 2.0 Consensus size: 87
212641 CAATGTATCG
212651 ATACATTGAGTAATGTATCGATACATTTCCTTGGCAATAGCTTCGTAGCGATACATTGTATCGAT
1 ATACATTGAGTAATGTATCGATACATTTCCTTGGCAATAGCTTCGTAGCGATACATTGTATCGAT
*
212716 ACAAAACTTATGTATCGATACA
66 ACAAAACTTATGCATCGATACA
* * *
212738 ATACATTGAGTAATGTATCGATACATTTCCTTTGCAGTAGCTTCGTAGTGATACATTGTATCGAT
1 ATACATTGAGTAATGTATCGATACATTTCCTTGGCAATAGCTTCGTAGCGATACATTGTATCGAT
212803 ACAAAACTTATGCATCGATACA
66 ACAAAACTTATGCATCGATACA
212825 TTGTATCGAT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (87 bp):
ATACATTGAGTAATGTATCGATACATTTCCTTGGCAATAGCTTCGTAGCGATACATTGTATCGAT
ACAAAACTTATGCATCGATACA
Found at i:216177 original size:76 final size:78
Alignment explanation
Indices: 216076--216264 Score: 213
Period size: 79 Copynumber: 2.4 Consensus size: 78
216066 TTGAAGTGTT
* * ** * * *
216076 CCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TT-AGAA-AAAATC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTGAGAATAAAACC
*
216138 GAGATTGGAGTATC
65 GAGATTGGAGTACC
* * *
216152 CCCTCGAAAATGACGGGGTTGGAGTATCCTCAATTATGAGAAATCAATATTTTGAGAATAAAGCC
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TTTGAGAATAAAACC
* *
216217 GGGGTTGGAGTACC
65 GAGATTGGAGTACC
*
216231 CCCTCGAAAGTAACGGGGTTGGAGTATCCCCAAT
1 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAAT
216265 GAAATAACGA
Statistics
Matches: 93, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
75 1 0.01
76 40 0.43
77 2 0.02
78 4 0.04
79 46 0.49
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (78 bp):
CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTGAGAATAAAACCG
AGATTGGAGTACC
Found at i:216249 original size:28 final size:28
Alignment explanation
Indices: 216216--216287 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
216206 AGAATAAAGC
*
216216 CGGGGTTGGAGTA-CCCC-CTCGAAAGTAA
1 CGGGGTTGGAGTATCCCCAAT-GAAA-TAA
216244 CGGGGTTGGAGTATCCCCAATGAAATAA
1 CGGGGTTGGAGTATCCCCAATGAAATAA
*
216272 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
216288 TCGATTGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 31 0.77
29 8 0.20
30 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCAATGAAATAA
Found at i:216337 original size:52 final size:51
Alignment explanation
Indices: 216275--216493 Score: 235
Period size: 52 Copynumber: 4.2 Consensus size: 51
216265 GAAATAACGA
* * * * *
216275 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGT-GTTTTAGAAATAAAACCGG
* * *
216327 AGTTGGAGTATCCCCGATTAAAG-GGAAAATTGGTGTTTT-GAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT---GTGAAAAATTAGTGTTTTAG-AAATAAAACCGG
*
216380 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTAGAAATAAAACCGG
* * * * **
216432 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTAGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
216483 GGTTGGAGTAT
1 GGTTGGAGTAT
216494 TCCCTCGGAA
Statistics
Matches: 144, Mismatches: 16, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
50 1 0.01
51 35 0.24
52 63 0.44
53 34 0.24
54 10 0.07
55 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
Found at i:216535 original size:27 final size:28
Alignment explanation
Indices: 216480--216555 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
216470 GAAATAAAGT
216480 CGGGGTTGGAGTATTCCCTCG--GAAATAA
1 CGGGGTTGGAGTA-TCCC-CGATGAAATAA
*
216508 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
216535 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
216556 TATAGAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
26 2 0.04
27 29 0.64
28 14 0.31
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:218990 original size:13 final size:13
Alignment explanation
Indices: 218972--218997 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
218962 ACAAAGATCC
218972 ATGTATCGATACA
1 ATGTATCGATACA
218985 ATGTATCGATACA
1 ATGTATCGATACA
218998 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:218993 original size:33 final size:33
Alignment explanation
Indices: 218951--219017 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
218941 AAAATTTCCA
***
218951 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
218984 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
219017 A
1 A
219018 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:219152 original size:21 final size:21
Alignment explanation
Indices: 219128--219184 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
219118 CATTTGTAGG
219128 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
219149 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
219170 ATGTATCGATACATT
1 ATGTATCGATACATT
219185 TGGATAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:220267 original size:34 final size:34
Alignment explanation
Indices: 220211--220369 Score: 108
Period size: 34 Copynumber: 4.9 Consensus size: 34
220201 GCATTCCTTC
**
220211 TCAAAGTCCACGACT-TAGTGGCATTCCTTTTTC-T
1 TCAAAGTCCATAACTCTA-TGGCA-TCCTTTTTCTT
220245 TCAAAGTCCATAACTCTATGGCA-CC-----CTT
1 TCAAAGTCCATAACTCTATGGCATCCTTTTTCTT
*
220273 T-TAAGTCCATAACTC-AGTGGCAT-CTTTTTCTT
1 TCAAAGTCCATAACTCTA-TGGCATCCTTTTTCTT
* * * *
220305 TTAAAGTCCACAACTCTACGACATCCTTTTTCTT
1 TCAAAGTCCATAACTCTATGGCATCCTTTTTCTT
** *
220339 TTTAAGTCCATAACTTCT-TGGCACCCTTTTT
1 TCAAAGTCCATAAC-TCTATGGCATCCTTTTT
220370 AAAGTCCACA
Statistics
Matches: 100, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
26 1 0.01
27 20 0.20
28 2 0.02
32 6 0.06
33 16 0.16
34 50 0.50
35 5 0.05
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (34 bp):
TCAAAGTCCATAACTCTATGGCATCCTTTTTCTT
Found at i:220407 original size:31 final size:30
Alignment explanation
Indices: 220240--220965 Score: 365
Period size: 31 Copynumber: 24.0 Consensus size: 30
220230 GGCATTCCTT
* * **
220240 TTTCTTCAAAGTCCATAACTCTATGGCACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
* * * *
220270 ---CTTTTAAGTCCATAACTCAGTGGCATCTT
1 TTTCTTTAAAGTCCACAACTCCGTGGCA-C-C
*** *
220299 TTTCTTTTAAAGTCCACAACTCTACGACATCC
1 TTTC-TTTAAAGTCCACAACTCCGTGGCA-CC
* * * *
220331 TTTTTCTTTTTAAGTCCATAACTTCTTGGCACC
1 --TTTC-TTTAAAGTCCACAACTCCGTGGCACC
*
220364 CTT-TTTAAAGTCCACAACTCCGTGGCACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
* *
220393 TTTCTTGTAAAGTCCACAACTCTGTGACACC
1 TTTCTT-TAAAGTCCACAACTCCGTGGCACC
* *
220424 CTT-TTT-AAGTCCACAAATCCGTGGCACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
* ** *
220452 -TT-TTT-AAGTCTACAACTTAGTGACACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
*
220479 TTTTCCTTTTAAAGTCCACAACTTCGTGGCATCC
1 -TTT-C-TTTAAAGTCCACAACTCCGTGGCA-CC
* **
220513 TTTTCTTTTAAGTCCACAACTTTGTGGCACC
1 -TTTCTTTAAAGTCCACAACTCCGTGGCACC
* * * *
220544 CTT-TTT-AAGTCCATACCTCTGTGGCACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
* * *
220572 CTT-TTTAAAGTCCACAACTCCGTGGTACT
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
* * *
220601 TTTCCTTTTAAAGTCAATAACTCCATGGCACC
1 TTT-C-TTTAAAGTCCACAACTCCGTGGCACC
* * *
220633 TTTCTTTTAAAGTCCATAACTTCGTGGTACC
1 TTTC-TTTAAAGTCCACAACTCCGTGGCACC
* * * * **
220664 TTTTTTTTAATGTTCATAACTCCGTGTTACC
1 -TTTCTTTAAAGTCCACAACTCCGTGGCACC
* * * *
220695 CTT-TTTAAAGTTCACAATTTCGTGGCACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
* **
220724 CTT-TTT-AAGTCCACAACTTAGTGGCACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
* * **
220752 ATTTTCTTTTAAAGTCCATAACTTCGTGGCATTT
1 --TTTC-TTTAAAGTCCACAACTCCGTGGCA-CC
* * * *
220786 TGTTTTTTTAAGTACACAACTCCGAGGCACGC
1 T-TTCTTTAAAGTCCACAACTCCGTGGCAC-C
* *
220818 -TT-TTT-ACGTCCACAACTTCGTGGCACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
** * **
220845 CCT-TTTAAAGTCCATAACTTTGTGGCACC
1 TTTCTTTAAAGTCCACAACTCCGTGGCACC
* * *
220874 TCTCTTTTAAAGTCCATAACTCTGTGGCACC
1 TTTC-TTTAAAGTCCACAACTCCGTGGCACC
* * * *
220905 TTTTTTTTAAAGCCCACAACTCCATGGTACC
1 -TTTCTTTAAAGTCCACAACTCCGTGGCACC
* * *
220936 TTTCTCTTCAACTCCACAACTCCATGGCAC
1 TTTCT-TTAAAGTCCACAACTCCGTGGCAC
220966 ATTTTTTTTC
Statistics
Matches: 550, Mismatches: 110, Indels: 71
0.75 0.15 0.10
Matches are distributed among these distances:
27 44 0.08
28 85 0.15
29 99 0.18
30 16 0.03
31 140 0.25
32 78 0.14
33 60 0.11
34 28 0.05
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.37
Consensus pattern (30 bp):
TTTCTTTAAAGTCCACAACTCCGTGGCACC
Found at i:220424 original size:60 final size:60
Alignment explanation
Indices: 220333--220965 Score: 385
Period size: 60 Copynumber: 10.5 Consensus size: 60
220323 CGACATCCTT
* * *
220333 TTTCTTTTTAAGTCCATAACT-TCTTGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACC
1 TTTC-TTTAAAGTCCACAACTCTCGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACC
* *
220393 TTTCTTGTAAAGTCCACAACTCT-GTGACACCCTTTTT-AAGTCCACAAATCCGTGGCACC
1 TTTCTT-TAAAGTCCACAACTCTCGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACC
* * * * *
220452 -TT-TTT-AAGTCTACAACT-TAGTGACACCTTTTCCTTTTAAAGTCCACAACTTCGTGGCATCC
1 TTTCTTTAAAGTCCACAACTCTCGTGGCACC----CTTTTTAAAGTCCACAACTCCGTGGCA-CC
* * * * *
220513 TTTTCTTTTAAGTCCACAACT-TTGTGGCACCCTTTTT-AAGTCCATACCTCTGTGGCACC
1 -TTTCTTTAAAGTCCACAACTCTCGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACC
* * * * *
220572 CTT-TTTAAAGTCCACAACTC-CGTGGTACTTTTCC-TTTTAAAGTCAATAACTCCATGGCACC
1 TTTCTTTAAAGTCCACAACTCTCGTGGCAC----CCTTTTTAAAGTCCACAACTCCGTGGCACC
* * * * * * **
220633 TTTCTTTTAAAGTCCATAACT-TCGTGGTACCTTTTTTTTAATGTTCATAACTCCGTGTTACC
1 TTTC-TTTAAAGTCCACAACTCTCGTGGCACC--CTTTTTAAAGTCCACAACTCCGTGGCACC
* * * **
220695 CTT-TTTAAAGTTCACAA-TTTCGTGGCACCCTTTTT-AAGTCCACAACTTAGTGGCACC
1 TTTCTTTAAAGTCCACAACTCTCGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACC
* *** * * *
220752 ATTTTCTTTTAAAGTCCATAACT-TCGTGGCATTTTGTTTTTTTAAGTACACAACTCCGAGGCAC
1 --TTTC-TTTAAAGTCCACAACTCTCGTGGCA---CCCTTTTTAAAGTCCACAACTCCGTGGCAC
220816 GC
60 -C
* * * **
220818 -TT-TTT-ACGTCCACAACT-TCGTGGCACCCCTTTTAAAGTCCATAACTTTGTGGCACC
1 TTTCTTTAAAGTCCACAACTCTCGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACC
* * * * * *
220874 TCTCTTTTAAAGTCCATAACTCT-GTGGCACCTTTTTTTTAAAGCCCACAACTCCATGGTACC
1 TTTC-TTTAAAGTCCACAACTCTCGTGGCACC--CTTTTTAAAGTCCACAACTCCGTGGCACC
* * *
220936 TTTCTCTTCAACTCCACAACTC-CATGGCAC
1 TTTCT-TTAAAGTCCACAACTCTCGTGGCAC
220966 ATTTTTTTTC
Statistics
Matches: 444, Mismatches: 84, Indels: 88
0.72 0.14 0.14
Matches are distributed among these distances:
54 1 0.00
55 19 0.04
56 2 0.00
57 59 0.13
58 9 0.02
59 37 0.08
60 123 0.28
61 55 0.12
62 67 0.15
63 27 0.06
64 8 0.02
65 36 0.08
66 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (60 bp):
TTTCTTTAAAGTCCACAACTCTCGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACC
Found at i:220494 original size:33 final size:33
Alignment explanation
Indices: 220453--220548 Score: 124
Period size: 32 Copynumber: 2.9 Consensus size: 33
220443 CGTGGCACCT
* *
220453 TTTTAAGTCTACAACTTAGTGACA-CCTTTTCC
1 TTTTAAGTCCACAACTTAGTGGCACCCTTTTCC
* *
220485 TTTTAAAGTCCACAACTTCGTGGCATCCTTTT-C
1 TTTT-AAGTCCACAACTTAGTGGCACCCTTTTCC
*
220518 TTTTAAGTCCACAACTTTGTGGCACCCTTTT
1 TTTTAAGTCCACAACTTAGTGGCACCCTTTT
220549 TAAGTCCATA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 29 0.51
33 22 0.39
34 6 0.11
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (33 bp):
TTTTAAGTCCACAACTTAGTGGCACCCTTTTCC
Found at i:220515 original size:148 final size:149
Alignment explanation
Indices: 220302--220739 Score: 392
Period size: 151 Copynumber: 2.9 Consensus size: 149
220292 GCATCTTTTT
* * * *
220302 CTTTTAAAGTCCACAACTCTACGACATCCTTTTTCTTTTTAAGTCCATAACTTCTTGGCACCC-T
1 CTTTTAAAGTCCACAACTCTACGACATCCTTTTCCTTTTAAAGTCCACAACTTCGTGGCACCCTT
*
220366 T-TTTAAAGTCCACAACTCCGTGGCACCTTTCTTGTAAAGTCCACAACTCTGTGACACCCTTTTT
66 TCTTTAAAGTCCACAACTCCGTGGCACCCTT-TT-T-AAGTCCACAACTCTGTGACACCCTTTTT
220430 -AAGTCCACAAATCCGTGGCAC
128 AAAGTCCACAAATCCGTGGCAC
* * * *
220451 CTTTTTAAGTCTACAACT-TAGTGACA-CCTTTTCCTTTTAAAGTCCACAACTTCGTGGCATCCT
1 CTTTTAAAGTCCACAACTCTA-CGACATCCTTTTCCTTTTAAAGTCCACAACTTCGTGGCA-CCC
* ** * * *
220514 TTTCTTTTAAGTCCACAACTTTGTGGCACCCTTTTTAAGTCCATACCTCTGTGGCACCCTTTTTA
64 TTTCTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCTGTGACACCCTTTTTA
* *
220579 AAGTCCACAACTCCGTGGTACTTTTC
129 AAGTCCACAAATCCGTGG--C---AC
* * * * * * * *
220605 CTTTTAAAGTCAATAACTCCATGGCA-CC-TTT-CTTTTAAAGTCCATAACTTCGTGGTACCTTT
1 CTTTTAAAGTCCACAACTCTACGACATCCTTTTCCTTTTAAAGTCCACAACTTCGTGGCACCCTT
* * * * ** * * *
220667 TTTTTAATGTTCATAACTCCGTGTTACCCTTTTTAAAGTTCACAA-TTTCGTGGCACCCTTTTT-
66 TCTTTAAAGTCCACAACTCCGTGGCACCCTTTTT-AAGTCCACAACTCT-GTGACACCCTTTTTA
220730 AAGTCCACAA
129 AAGTCCACAA
220740 CTTAGTGGCA
Statistics
Matches: 239, Mismatches: 37, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
148 56 0.23
149 40 0.17
150 4 0.02
151 68 0.28
152 45 0.19
153 3 0.01
154 22 0.09
155 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (149 bp):
CTTTTAAAGTCCACAACTCTACGACATCCTTTTCCTTTTAAAGTCCACAACTTCGTGGCACCCTT
TCTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAAGTCCACAACTCTGTGACACCCTTTTTAAA
GTCCACAAATCCGTGGCAC
Found at i:220544 original size:120 final size:116
Alignment explanation
Indices: 220336--220910 Score: 521
Period size: 120 Copynumber: 4.8 Consensus size: 116
220326 CATCCTTTTT
* * * *
220336 CTTTTT-AAGTCCATAACTTCTTGGCACCCTTTTTAAAGTCCACAACTCCGTGGCACCTTTCTTG
1 CTTTTTAAAGTCCACAACTTCGTGGCACCC-TTTTAAAGTCCACAACTTCGTGGCACCTTTCTTT
* * * * *
220400 TAAAGTCCACAACTCTGTGACACCCTTTTTAAGTCCACAAATCCGTGGCA-C
65 TAAAGTCCATAACTTTGTGGCACCTTTTTTAAGTCCACAACTCCGTGGCACC
* * *
220451 CTTTTT-AAGTCTACAACTTAGTGACACCTTTTCCTTTTAAAGTCCACAACTTCGTGGCATCCTT
1 CTTTTTAAAGTCCACAACTTCGTGGCA-C----CCTTTTAAAGTCCACAACTTCGTGGCA-CC-T
* * * * *
220515 TTCTTTT-AAGTCCACAACTTTGTGGCACCCTTTTTAAGTCCATACCTCTGTGGCACC
59 TTCTTTTAAAGTCCATAACTTTGTGGCACCTTTTTTAAGTCCACAACTCCGTGGCACC
* * * * * *
220572 CTTTTTAAAGTCCACAACTCCGTGGTACTTTTCCTTTTAAAGTCAATAACTCCATGGCACCTTTC
1 CTTTTTAAAGTCCACAACTTCGTGGCAC----CCTTTTAAAGTCCACAACTTCGTGGCACCTTTC
* * * * **
220637 TTTTAAAGTCCATAACTTCGTGGTACCTTTTTTTTAATGTTCATAACTCCGTGTTACC
62 TTTTAAAGTCCATAACTTTGTGGCACC--TTTTTTAA-GTCCACAACTCCGTGGCACC
* * * *
220695 CTTTTTAAAGTTCACAATTTCGTGGCACCCTTTTTAAGTCCACAACTTAGTGGCACCATTTTCTT
1 CTTTTTAAAGTCCACAACTTCGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCACC--TTTCTT
* ** * * *
220760 TTAAAGTCCATAACTTCGTGGCATTTTGTTTTTTTAAGTACACAACTCCGAGGCACG
64 TTAAAGTCCATAACTTTGTGGCA----CCTTTTTTAAGTCCACAACTCCGTGGCACC
* * * *
220817 CTTTTT-ACGTCCACAACTTCGTGGCACCCCTTTTAAAGTCCATAACTTTGTGGCACCTCTCTTT
1 CTTTTTAAAGTCCACAACTTCGTGGCA-CCCTTTTAAAGTCCACAACTTCGTGGCACCTTTCTTT
*
220881 TAAAGTCCATAACTCTGTGGCACCTTTTTT
65 TAAAGTCCATAACTTTGTGGCACCTTTTTT
220911 TTAAAGCCCA
Statistics
Matches: 379, Mismatches: 61, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
115 21 0.06
116 7 0.02
119 55 0.15
120 93 0.25
121 87 0.23
122 69 0.18
123 47 0.12
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (116 bp):
CTTTTTAAAGTCCACAACTTCGTGGCACCCTTTTAAAGTCCACAACTTCGTGGCACCTTTCTTTT
AAAGTCCATAACTTTGTGGCACCTTTTTTAAGTCCACAACTCCGTGGCACC
Found at i:220777 original size:273 final size:269
Alignment explanation
Indices: 220204--220958 Score: 766
Period size: 273 Copynumber: 2.8 Consensus size: 269
220194 CTTAGTAGCA
* * * ** * *
220204 TTCCTTCTCAAAGTCCACGACTTAGTGGCATTCCTTTTTCTTCAAAGTCCATAACTCTATGGCAC
1 TTCCTT-TTAAAGTCCACAACTTCGTGGCA-TCC-TTTTCTTTTAAGTCCACAACTCTGTGGCAC
* ** *** *
220269 CC-TTTTAAGTCCATAACTCAGTGGCATCTTTTTCTTTTAAAGTCCACAACTCTACGACATCCTT
63 CCTTTTTAAGTCCATAACTCTGTGGCA-C--CCT-TTTTAAAGTCCACAACTC--CGTGGTAC-T
* * * * *
220333 TTTCTTTTTAAGTCCATAACTTCTTGGCACC-CTTTTTAAAGTCCACAACTCCGTGGCACCTTTC
121 TTTCTTTTAAAGTCCATAACTCCATGGCACCTTTTTTTAAAGTCCACAACTCCGTGGTACCTTTC
*
220397 TTGTAAAGTCCACAACTCTGTGACACCCTTTTTAAGTCCACAAATCCGTGGCACCTTTTTAAGTC
186 TTGTAAAGTCCACAACTCCGTGACACCCTTTTTAAGTCCACAAATCCGTGGCACCTTTTTAAGTC
*
220462 TACAACTTAGTGACACCTT
251 CACAACTTAGTGACACCTT
*
220481 TTCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTCTTTTAAGTCCACAACTTTGTGGCACCCT
1 TTCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTCTTTTAAGTCCACAACTCTGTGGCACCCT
*
220546 TTTTAAGTCCATACCTCTGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGTACTTTTCCTTTTA
66 TTTTAAGTCCATAACTCTGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGTACTTTT-CTTTTA
* * * * * *
220611 AAGTCAATAACTCCATGGCACCTTTCTTTTAAAGTCCATAACTTCGTGGTACCTTTTTTTTAATG
130 AAGTCCATAACTCCATGGCACCTTT-TTTTAAAGTCCACAACTCCGTGGTACCTTTCTTGTAAAG
* * ** * * *
220676 TTCATAACTCCGTGTTACCCTTTTTAAAGTTCACAATTTCGTGGCACCCTTTTTAAGTCCACAAC
194 TCCACAACTCCGTGACACCCTTTTT-AAGTCCACAAATCCGTGGCA-CCTTTTTAAGTCCACAAC
*
220741 TTAGTGGCACCATT
257 TTAGTGACACC-TT
* * * * * * *
220755 TT-CTTTTAAAGTCCATAACTTCGTGGCAT-TTTGTTTTTTTAAGTACACAACTCCGAGGCACGC
1 TTCCTTTTAAAGTCCACAACTTCGTGGCATCCTT-TTCTTTTAAGTCCACAACTCTGTGGCACCC
* * * * ** * * *
220818 TTTTTACGTCCACAACT-TCGTGGCACCCCTTTTAAAGTCCATAACTTTGTGGCACCTCTCTTTT
65 TTTTTAAGTCCATAACTCT-GTGGCACCCTTTTTAAAGTCCACAACTCCGTGGTACTTTTCTTTT
** * * *
220882 AAAGTCCATAACTCTGTGGCACCTTTTTTTTAAAGCCCACAACTCCATGGTACCTTTCTCT-TCA
129 AAAGTCCATAACTCCATGGCACC-TTTTTTTAAAGTCCACAACTCCGTGGTACCTTTCT-TGTAA
*
220946 ACTCCACAACTCC
192 AGTCCACAACTCC
220959 ATGGCACATT
Statistics
Matches: 399, Mismatches: 68, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
268 4 0.01
269 28 0.07
270 1 0.00
271 71 0.18
272 84 0.21
273 128 0.32
274 32 0.08
275 25 0.06
276 20 0.05
277 6 0.02
ACGTcount: A:0.23, C:0.28, G:0.12, T:0.37
Consensus pattern (269 bp):
TTCCTTTTAAAGTCCACAACTTCGTGGCATCCTTTTCTTTTAAGTCCACAACTCTGTGGCACCCT
TTTTAAGTCCATAACTCTGTGGCACCCTTTTTAAAGTCCACAACTCCGTGGTACTTTTCTTTTAA
AGTCCATAACTCCATGGCACCTTTTTTTAAAGTCCACAACTCCGTGGTACCTTTCTTGTAAAGTC
CACAACTCCGTGACACCCTTTTTAAGTCCACAAATCCGTGGCACCTTTTTAAGTCCACAACTTAG
TGACACCTT
Found at i:220977 original size:31 final size:31
Alignment explanation
Indices: 220898--220977 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
220888 CATAACTCTG
*
220898 TGGCACCTTTTTTTTAAAGCCCACAACTCCA
1 TGGCACCTTTTTTTTCAAGCCCACAACTCCA
* * *
220929 TGGTACCTTTCTCTTCAA-CTCCACAACTCCA
1 TGGCACCTTTTTTTTCAAGC-CCACAACTCCA
*
220960 TGGCACATTTTTTTTCAA
1 TGGCACCTTTTTTTTCAA
220978 AGTCTACAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 1 0.03
31 39 0.98
ACGTcount: A:0.24, C:0.31, G:0.09, T:0.36
Consensus pattern (31 bp):
TGGCACCTTTTTTTTCAAGCCCACAACTCCA
Found at i:221139 original size:33 final size:32
Alignment explanation
Indices: 221003--221460 Score: 482
Period size: 33 Copynumber: 14.2 Consensus size: 32
220993 GGCACCTCTC
* * *
221003 AAAGCCCACATAAGTCGGTGGCAACCCCTTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCT
*
221035 ACAA-CCCACACAAGTCAGTGGC-ACCCCTTCT
1 A-AAGCCCACACAAGTCAGTGGCAACCCTTTCT
** * * *
221066 AAAGCTGACATAAGTCAGTGGTAACCCCTTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCT
* *
221098 AAAGCCCACATAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTT-TCT
* * *
221131 AAAACCCACACAAGTTAGTGGCAACCCCTTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCT
* *
221163 AAAG-CCATACAAGTCAATGGCAACCCTTTC-
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCT
*
221193 AAAGCCCACACAAATCAGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTT-TCT
*
221226 AAAGCCCACACAAGTCAGTGGCAACCCCTTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCT
*
221258 AAAGCCCACACAAGTC-GATGGCAACCTTTTTCT
1 AAAGCCCACACAAGTCAG-TGGCAACC-CTTTCT
* *
221291 AAAGCCCACACAAGTCGGTGTCAACCCTTCTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTT-TCT
*
221324 AAAGCCCACATAAGTC-GATGGCAACCTCTTTCT
1 AAAGCCCACACAAGTCAG-TGGCAACC-CTTTCT
** * *
221357 AAAGCCCACATGAGTCAATGGCAACCCCTTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCT
* * *
221389 AAAGCCCACATAAGTCGGTGGTAACCTCTTTCT
1 AAAGCCCACACAAGTCAGTGGCAACC-CTTTCT
* * *
221422 AAAGCCCACATAAGTCGGTGGCATCTCC-TTCT
1 AAAGCCCACACAAGTCAGTGGCAAC-CCTTTCT
221454 -AAGCCCA
1 AAAGCCCA
221461 ATGTCGTTGG
Statistics
Matches: 368, Mismatches: 42, Indels: 33
0.83 0.09 0.07
Matches are distributed among these distances:
30 6 0.02
31 75 0.20
32 119 0.32
33 163 0.44
34 5 0.01
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (32 bp):
AAAGCCCACACAAGTCAGTGGCAACCCTTTCT
Found at i:221165 original size:65 final size:64
Alignment explanation
Indices: 221003--221460 Score: 482
Period size: 65 Copynumber: 7.1 Consensus size: 64
220993 GGCACCTCTC
* * * *
221003 AAAGCCCACATAAGTCGGTGGCAACCCCTTCTACAA-CCCACACAAGTCAGTGGC-ACCCCTTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCTA-AAGCCCACACAAGTCAGTGGCAACCCTTTCT
** * * * * *
221066 AAAGCTGACATAAGTCAGTGGTAACCCCTTCTAAAGCCCACATAAGTCGGTGGCAACCCTTCTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCTAAAGCCCACACAAGTCAGTGGCAACCCTT-TCT
* * * * *
221131 AAAACCCACACAAGTTAGTGGCAACCCCTTCTAAAG-CCATACAAGTCAATGGCAACCCTTTC-
1 AAAGCCCACACAAGTCAGTGGCAACCCTTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTCT
* *
221193 AAAGCCCACACAAATCAGTGGCAACCCTTCTCTAAAGCCCACACAAGTCAGTGGCAACCCCTTCT
1 AAAGCCCACACAAGTCAGTGGCAACCCTT-TCTAAAGCCCACACAAGTCAGTGGCAACCCTTTCT
* * *
221258 AAAGCCCACACAAGTC-GATGGCAACCTTTTTCTAAAGCCCACACAAGTCGGTGTCAACCCTTCT
1 AAAGCCCACACAAGTCAG-TGGCAACC-CTTTCTAAAGCCCACACAAGTCAGTGGCAACCCTT-T
221322 CT
63 CT
* ** * *
221324 AAAGCCCACATAAGTC-GATGGCAACCTCTTTCTAAAGCCCACATGAGTCAATGGCAACCCCTTC
1 AAAGCCCACACAAGTCAG-TGGCAACC-CTTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTC
221388 T
64 T
* * * * * *
221389 AAAGCCCACATAAGTCGGTGGTAACCTCTTTCTAAAGCCCACATAAGTCGGTGGCATCTCC-TTC
1 AAAGCCCACACAAGTCAGTGGCAACC-CTTTCTAAAGCCCACACAAGTCAGTGGCAAC-CCTTTC
221453 T
64 T
221454 -AAGCCCA
1 AAAGCCCA
221461 ATGTCGTTGG
Statistics
Matches: 342, Mismatches: 42, Indels: 21
0.84 0.10 0.05
Matches are distributed among these distances:
62 27 0.08
63 54 0.16
64 56 0.16
65 143 0.42
66 62 0.18
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.21
Consensus pattern (64 bp):
AAAGCCCACACAAGTCAGTGGCAACCCTTTCTAAAGCCCACACAAGTCAGTGGCAACCCTTTCT
Found at i:221613 original size:52 final size:52
Alignment explanation
Indices: 221526--221851 Score: 269
Period size: 52 Copynumber: 6.2 Consensus size: 52
221516 TTCAATATTA
* * * * *
221526 TTGGCCTTGAATCAACATATTGGCACTT-TTATCATTTTTAGGCCCAATGTCG
1 TTGGCCTTGAATCAGCACATTGGCA-TTCTTATCATTTTTAAGTCTAATGTCG
* * *
221578 TTGGCCTTGAATCAGCACATTGGCATTCTTCTCATTTTCAAGCCTAATGTCG
1 TTGGCCTTGAATCAGCACATTGGCATTCTTATCATTTTTAAGTCTAATGTCG
* ** *** * * * *
221630 CTAACCTTGAATCAATGCGTTGGCACTCTTCTCATCTTTAAGTCTAATGTCG
1 TTGGCCTTGAATCAGCACATTGGCATTCTTATCATTTTTAAGTCTAATGTCG
* * ** * * * *
221682 TTGGCCTTGAATCAGTACATTAGCATTCTCCTCACTTTTAAGTCCAATATTG
1 TTGGCCTTGAATCAGCACATTGGCATTCTTATCATTTTTAAGTCTAATGTCG
* * * * *
221734 CTGGCCTTGAATCAGCATATTAGCACCTT-TTATCATCTTTAAGTCTAATGTTG
1 TTGGCCTTGAATCAGCACATTGGCA--TTCTTATCATTTTTAAGTCTAATGTCG
* * ** * *
221787 TTGGCCTTGAATCAGCATATTGGCACTCTTATCATCGTTAAGTCTAGTGTCA
1 TTGGCCTTGAATCAGCACATTGGCATTCTTATCATTTTTAAGTCTAATGTCG
*
221839 TAGGCCTTGAATC
1 TTGGCCTTGAATC
221852 TACATACTGG
Statistics
Matches: 222, Mismatches: 48, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
51 3 0.01
52 176 0.79
53 41 0.18
54 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (52 bp):
TTGGCCTTGAATCAGCACATTGGCATTCTTATCATTTTTAAGTCTAATGTCG
Found at i:222396 original size:20 final size:21
Alignment explanation
Indices: 222357--222400 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
222347 TTCTACAATT
222357 TGTATTGATATAACAAGTGAA
1 TGTATTGATATAACAAGTGAA
* *
222378 TGTATTGATA-CATAAGTGAA
1 TGTATTGATATAACAAGTGAA
222398 TGT
1 TGT
222401 GTCGATACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (21 bp):
TGTATTGATATAACAAGTGAA
Found at i:222407 original size:20 final size:20
Alignment explanation
Indices: 222371--222409 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
222361 TTGATATAAC
*
222371 AAGTGAATGTATTGATACAT
1 AAGTGAATGTATCGATACAT
*
222391 AAGTGAATGTGTCGATACA
1 AAGTGAATGTATCGATACA
222410 CGTTTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (20 bp):
AAGTGAATGTATCGATACAT
Found at i:235673 original size:20 final size:20
Alignment explanation
Indices: 235644--235721 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
235634 ACAAGGTTCA
*
235644 GTATCAATACATTCACTTAT
1 GTATCGATACATTCACTTAT
235664 GTATCGATACATTCACTTAT
1 GTATCGATACATTCACTTAT
235684 GTATCGATACATTCACTTAT
1 GTATCGATACATTCACTTAT
*
235704 GTATCGATACATTAACTT
1 GTATCGATACATTCACTT
235722 GTTGTATTGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (20 bp):
GTATCGATACATTCACTTAT
Found at i:236730 original size:12 final size:13
Alignment explanation
Indices: 236703--236731 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
236693 CCTAATTTAA
236703 TTTAATTATAATT
1 TTTAATTATAATT
236716 TTTAATTAT-ATT
1 TTTAATTATAATT
236728 TTTA
1 TTTA
236732 TTCCTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAATTATAATT
Found at i:236903 original size:28 final size:28
Alignment explanation
Indices: 236870--236925 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
236860 ACTTATTTTA
236870 TAAG-TTATATTT-AATTATAATTGAATTT
1 TAAGTTTAT-TTTAAATT-TAATTGAATTT
*
236898 TAAGTTTATTTTAAATTTAATTTAATTT
1 TAAGTTTATTTTAAATTTAATTGAATTT
236926 CATGCTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (28 bp):
TAAGTTTATTTTAAATTTAATTGAATTT
Found at i:238462 original size:19 final size:17
Alignment explanation
Indices: 238429--238473 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
238419 TTTCTTATTT
238429 ATTTATTTATTTATTTTA
1 ATTT-TTTATTTATTTTA
*
238447 ATTATTTTATTTTATTTTT
1 ATT-TTTTA-TTTATTTTA
238466 ATTTTTTA
1 ATTTTTTA
238474 GGTAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTTTTATTTATTTTA
Found at i:240148 original size:19 final size:20
Alignment explanation
Indices: 240110--240148 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
240100 TACACGCTCC
240110 AATGTATCGATACAATTCAT
1 AATGTATCGATACAATTCAT
240130 AATGTATCGATAC-ATTCAT
1 AATGTATCGATACAATTCAT
240149 TTGAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACAATTCAT
Found at i:240260 original size:22 final size:22
Alignment explanation
Indices: 240229--240288 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
240219 ATGAATAGTG
**
240229 ATGAACAGTGATTTATCGATAC
1 ATGAACAGTGATGAATCGATAC
*
240251 ATGAATAGTGATGAATCGATAC
1 ATGAACAGTGATGAATCGATAC
*
240273 ATTAACAGTGATGAAT
1 ATGAACAGTGATGAAT
240289 AGTGATGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (22 bp):
ATGAACAGTGATGAATCGATAC
Found at i:240350 original size:13 final size:13
Alignment explanation
Indices: 240332--240356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
240322 TGCCAATGCT
240332 ATGTATCGATACA
1 ATGTATCGATACA
240345 ATGTATCGATAC
1 ATGTATCGATAC
240357 TTAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:240369 original size:20 final size:20
Alignment explanation
Indices: 240344--240396 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
240334 GTATCGATAC
*
240344 AATGTATCGATACTTAGCAA
1 AATGTATCGATACTAAGCAA
240364 AATGTATCGATACTAAGCAA
1 AATGTATCGATACTAAGCAA
240384 AATGTATCGATAC
1 AATGTATCGATAC
240397 ATCTGGGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (20 bp):
AATGTATCGATACTAAGCAA
Found at i:240918 original size:197 final size:196
Alignment explanation
Indices: 240581--240976 Score: 747
Period size: 197 Copynumber: 2.0 Consensus size: 196
240571 AATCATTTTG
*
240581 TCACATGGTTTTAGAGAAATATAAGTTATGAAACCTTATTTTGTGATATTCAAATTTTCTTTATA
1 TCACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTCTTTATA
240646 AAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACAATCTCCCCCTT
66 AAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACAATCTCCCCCTT
240711 TTTGATATAACAAAACTCAAAAATAAATTTGGTTGACTGTACTCACTTCACATGTTATAAGGAAT
131 TTTGATATAACAAAACTCAAAAATAAATTTGGTTGACTGTACTCACTTCACATGTTATAAGGAAT
240776 T
196 T
240777 TCACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTCTTTATA
1 TCACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTCTTTAT-
* *
240842 AAAAAAGAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACAATCTCTCCCT
65 AAAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACAATCTCCCCCT
*
240907 TTTTGATATAACAAAACTCAAAAATAAATTTGGTTGACTTTACTCACTTCACATGTTATAAGGAA
130 TTTTGATATAACAAAACTCAAAAATAAATTTGGTTGACTGTACTCACTTCACATGTTATAAGGAA
240972 TT
195 TT
240974 TCA
1 TCA
240977 AAGATGCATG
Statistics
Matches: 195, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
196 63 0.32
197 132 0.68
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (196 bp):
TCACATGGTTTTAGAGAAATATAAGTTATGAAAACTTATTTTGTGATATTCAAATTTTCTTTATA
AAAAACAAATATATTTTTTAGTTGATTTGTTATATCAAAACCAAAATCCTAACAATCTCCCCCTT
TTTGATATAACAAAACTCAAAAATAAATTTGGTTGACTGTACTCACTTCACATGTTATAAGGAAT
T
Found at i:242857 original size:23 final size:24
Alignment explanation
Indices: 242812--242858 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
242802 CAAAGAATTG
*
242812 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
242836 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
242859 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:246700 original size:13 final size:13
Alignment explanation
Indices: 246682--246707 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
246672 CATTTTTTGG
246682 TGTATCGATACAT
1 TGTATCGATACAT
246695 TGTATCGATACAT
1 TGTATCGATACAT
246708 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:246704 original size:33 final size:32
Alignment explanation
Indices: 246662--246723 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
246652 TACAAGCTAA
**
246662 TGTATCGATACATTTTTTGGTGTATCGATACAT
1 TGTATCGATACATACTTT-GTGTATCGATACAT
246695 TGTATCGATACATACTTTGTGTATCGATA
1 TGTATCGATACATACTTTGTGTATCGATA
246724 TAAGTTTGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:249976 original size:10 final size:10
Alignment explanation
Indices: 249961--250055 Score: 59
Period size: 10 Copynumber: 9.1 Consensus size: 10
249951 ATAGTGATAC
*
249961 ATGAACAGTT
1 ATGAACAGTG
249971 ATGAACAGTG
1 ATGAACAGTG
*
249981 ATGAACAATG
1 ATGAACAGTG
* *
249991 ATGTATC-GATAC
1 ATG-AACAG-T-G
250003 ATGAACAGTG
1 ATGAACAGTG
*
250013 ATGAATC-GATAC
1 ATGAA-CAG-T-G
*
250025 ATTAACAGTG
1 ATGAACAGTG
*
250035 ATGAATAGTG
1 ATGAACAGTG
250045 ATGAACAGTG
1 ATGAACAGTG
250055 A
1 A
250056 AAAATGAGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
10 45 0.70
11 10 0.16
12 9 0.14
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:250009 original size:22 final size:22
Alignment explanation
Indices: 249956--250040 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 22
249946 CATGAATAGT
*
249956 GATACATGAACAGTTATGAA-C
1 GATACATGAACAGTGATGAATC
* * *
249977 -AGT-GATGAACAATGATGTATC
1 GA-TACATGAACAGTGATGAATC
249998 GATACATGAACAGTGATGAATC
1 GATACATGAACAGTGATGAATC
*
250020 GATACATTAACAGTGATGAAT
1 GATACATGAACAGTGATGAAT
250041 AGTGATGAAC
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 13 0.25
21 3 0.06
22 36 0.69
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (22 bp):
GATACATGAACAGTGATGAATC
Found at i:250639 original size:3 final size:3
Alignment explanation
Indices: 250633--250685 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
250623 TTTGCTACTT
250633 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
250681 TTA TT
1 TTA TT
250686 TTCTGTTTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:251318 original size:2 final size:2
Alignment explanation
Indices: 251311--251351 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
251301 TAAGCCTACC
* *
251311 TA TA TA TA TT TA TA TT TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
251352 CACACACCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:251598 original size:24 final size:23
Alignment explanation
Indices: 251554--251598 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
251544 GAAAAATATA
*
251554 AAAAATGAGTAAAAAAGAATGAT
1 AAAAATGAGAAAAAAAGAATGAT
* *
251577 AAAAATGTGAAAATAAATAATG
1 AAAAATGAGAAAA-AAAGAATG
251599 TGGCCTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 11 0.61
24 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (23 bp):
AAAAATGAGAAAAAAAGAATGAT
Found at i:252367 original size:20 final size:20
Alignment explanation
Indices: 252336--252391 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
252326 GTCAAAACCC
*
252336 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
252356 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
252376 TGCATTGTATCGATAC
1 TGAAATGTATCGATAC
252392 GTTGCATCGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:252422 original size:20 final size:21
Alignment explanation
Indices: 252397--252443 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
252387 GATACGTTGC
**
252397 ATCGATACATGACCA-AATGT
1 ATCGATACATGAAAAGAATGT
*
252417 ATCGATACTTGAAAAGAATGT
1 ATCGATACATGAAAAGAATGT
252438 ATCGAT
1 ATCGAT
252444 GCAAGTGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
ATCGATACATGAAAAGAATGT
Found at i:252502 original size:13 final size:13
Alignment explanation
Indices: 252486--252511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
252476 ATACACAGTA
252486 TGTATCGATACAT
1 TGTATCGATACAT
252499 TGTATCGATACAT
1 TGTATCGATACAT
252512 CATAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:254131 original size:9 final size:9
Alignment explanation
Indices: 254117--254150 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
254107 AACCATCAAG
254117 GATGATGAA
1 GATGATGAA
254126 GATGATGAA
1 GATGATGAA
*
254135 GATGATGAT
1 GATGATGAA
254144 GATGATG
1 GATGATG
254151 GTGACTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (9 bp):
GATGATGAA
Found at i:254132 original size:3 final size:3
Alignment explanation
Indices: 254117--254150 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
254107 AACCATCAAG
* *
254117 GAT GAT GAA GAT GAT GAA GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
254151 GTGACTCAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:258162 original size:12 final size:13
Alignment explanation
Indices: 258133--258173 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
258123 ATATAGTAAT
*
258133 AATTAAAAATCAAA
1 AATTAAAATTC-AA
258147 AATTAAAATT-AA
1 AATTAAAATTCAA
258159 AATTAAAATTCAA
1 AATTAAAATTCAA
258172 AA
1 AA
258174 AAATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 12 0.48
13 4 0.16
14 9 0.36
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (13 bp):
AATTAAAATTCAA
Found at i:258369 original size:41 final size:41
Alignment explanation
Indices: 258324--258446 Score: 237
Period size: 41 Copynumber: 3.0 Consensus size: 41
258314 GGTGGGAACT
258324 TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
1 TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
258365 TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
1 TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
*
258406 TAAAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
1 TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
258447 ATGGGAGACA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.52, C:0.11, G:0.22, T:0.15
Consensus pattern (41 bp):
TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
Found at i:259809 original size:79 final size:79
Alignment explanation
Indices: 259718--260437 Score: 939
Period size: 79 Copynumber: 9.3 Consensus size: 79
259708 CCTATTAATC
* *
259718 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAACCCTGGTTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
* *
259783 ATTAATTTCTCATA
66 ATCAATTTTTCATA
* * * * * * **
259797 ATCGGGGATACTCCAACCCTGTTGTTTCCGCGAGGATACTCTAATCCTAGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA-
*
259862 T-TTAATTTTTCATA
65 TATCAATTTTTCATA
* * *
259876 ATCGGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTACAACCCCGATTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
*
259941 A-CTAATTTTTCATG
66 ATC-AATTTTTCATA
* *
259955 ATCGGGGATACTCCAACCCCGTAATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
*
260020 ATTAA--TTTC---
66 ATCAATTTTTCATA
* ** * * *
260029 -TC----AT--TCCAACCCCGTTGTTTCCACGGGGATACTCCAACCCCAGTTTTATCTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
260087 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* * * *
260101 ATCGGAGATACTCCAATCCTC-TTATTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAA
1 ATCGGGGATACTCCAA-CCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
260165 TATCAATTTTTCATA
65 TATCAATTTTTCATA
* *
260180 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
260245 ATCAATTTTTCATA
66 ATCAATTTTTCATA
* *
260259 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
*
260324 ACCAATTTTTCATA
66 ATCAATTTTTCATA
* * * * *
260338 ATCGGGGATACTTCAACCCCGTTATTTCCGAAGGGATACTCCAACCTCGATTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
260403 ATCAATTTTTCATA
66 ATCAATTTTTCATA
*
260417 ATCGGGGATACTCTAACCCCG
1 ATCGGGGATACTCCAACCCCG
260438 ATTTTATTTT
Statistics
Matches: 562, Mismatches: 61, Indels: 36
0.85 0.09 0.05
Matches are distributed among these distances:
67 50 0.09
69 6 0.01
73 4 0.01
77 6 0.01
78 4 0.01
79 488 0.87
80 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAAT
ATCAATTTTTCATA
Found at i:260278 original size:304 final size:304
Alignment explanation
Indices: 259729--260435 Score: 884
Period size: 304 Copynumber: 2.3 Consensus size: 304
259719 TCGGGGATAC
* ** * * *
259729 TCCAACCCCGTTATTTCCGAGGGGATACTTCAACCCTGGTTTTATTTCTAAAATATTAATTTCTC
1 TCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATCTCTAAAACATCAATTTCTC
* * * * * * *
259794 ATAATCGGGGATACTCCAACCCTGTTGTTTCCGCGAGGATACTCTAATCCTAGTTTTATTTCTAA
66 ATAATCGGAGATACTCCAACCCTCTTATTTCCGAGAGGATACTCCAACCCGAGTTTTATTTCTAA
* *
259859 AACTTTAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTACAACCCC
131 AACTTCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTACAACCCC
* * *
259924 GATTTTATTTCTAAAATACTAATTTTTCATGATCGGGGATACTCCAACCCCGTAATTTCCGAGGG
196 GATTTTATTTCTAAAACACTAATTTTTCATAATCGGGGATACTCCAACCCCATAATTTCCGAGGG
259989 GATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCAT
261 GATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCAT
* *
260033 TCCAACCCCGTTGTTTCC-ACGGGGATACTCCAACCCCAGTTTTATCTCTAAAACATCAATTTTT
1 TCCAACCCCGTTATTTCCGA-GGGGATACTCCAACCCCAGTTTTATCTCTAAAACATCAATTTCT
* * *
260097 CATAATCGGAGATACTCCAATCCTCTTATTTTCGAGGGGATACTCCAACCCCGA-TTTTATTTCT
65 CATAATCGGAGATACTCCAACCCTCTTATTTCCGAGAGGATACTCCAA-CCCGAGTTTTATTTCT
* *
260161 AAAA-TATCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAAC
129 AAAACT-TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTACAAC
* *
260225 CCCGGTTTTATTTCTAAAACA-TCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTCCG
193 CCCGATTTTATTTCTAAAACACT-AATTTTTCATAATCGGGGATACTCCAACCCCATAATTTCCG
* * **
260289 AGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGAT
257 AGGGGATACTCCAACCCCGATTTTATTTCTAAAATATTAA--TTTC----TC----AT
* * * *
260347 ACTTCAACCCCGTTATTTCCGAAGGGATACTCCAACCTC-GATTTTATTTCTAAAACATCAATTT
1 --TCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAG-TTTTATCTCTAAAACATCAATTT
* * *
260411 TTCATAATCGGGGATACTCTAACCC
63 CTCATAATCGGAGATACTCCAACCC
260436 CGATTTTATT
Statistics
Matches: 346, Mismatches: 39, Indels: 24
0.85 0.10 0.06
Matches are distributed among these distances:
303 3 0.01
304 255 0.74
305 3 0.01
306 4 0.01
310 2 0.01
314 2 0.01
315 1 0.00
316 75 0.22
317 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (304 bp):
TCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATCTCTAAAACATCAATTTCTC
ATAATCGGAGATACTCCAACCCTCTTATTTCCGAGAGGATACTCCAACCCGAGTTTTATTTCTAA
AACTTCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTACAACCCC
GATTTTATTTCTAAAACACTAATTTTTCATAATCGGGGATACTCCAACCCCATAATTTCCGAGGG
GATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTCTCAT
Found at i:260446 original size:51 final size:51
Alignment explanation
Indices: 260370--260504 Score: 157
Period size: 52 Copynumber: 2.6 Consensus size: 51
260360 TATTTCCGAA
* *
260370 GGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTT-CATAATCG
1 GGGATACTCTAACCCCGATTTTATTTCTAAAACATC-ATTTTTCCATAATCG
* * *
260421 GGGATACTCTAACCCCGATTTTATTTTTTAGAACATCGTTTTTCCATAATCG
1 GGGATACTCTAACCCCGATTTTA-TTTCTAAAACATCATTTTTCCATAATCG
* * *
260473 AGGATACTCTAGCCCCG-TTGTTATCTCTAAAA
1 GGGATACTCTAACCCCGATT-TTATTTCTAAAA
260505 TACTAATTTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
51 34 0.48
52 37 0.52
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (51 bp):
GGGATACTCTAACCCCGATTTTATTTCTAAAACATCATTTTTCCATAATCG
Found at i:266323 original size:30 final size:30
Alignment explanation
Indices: 266287--266344 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
266277 CCTAAGCCCG
* **
266287 ATGTCGCTGGCCTTGCCTCAGCACATTGGC
1 ATGTCGCTGGCCATGAATCAGCACATTGGC
266317 ATGTCGCTGGCCATGAATCAGCACATTG
1 ATGTCGCTGGCCATGAATCAGCACATTG
266345 TCATTTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (30 bp):
ATGTCGCTGGCCATGAATCAGCACATTGGC
Found at i:266987 original size:21 final size:21
Alignment explanation
Indices: 266963--267004 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
266953 AATTACACTT
266963 TTGTCCAG-ATGTATCGATACA
1 TTGT-CAGAATGTATCGATACA
*
266984 TTGTTAGAATGTATCGATACA
1 TTGTCAGAATGTATCGATACA
267005 AGGTCCCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (21 bp):
TTGTCAGAATGTATCGATACA
Found at i:267080 original size:13 final size:13
Alignment explanation
Indices: 267062--267086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
267052 CATAAAGTGT
267062 TGTATCGATACAA
1 TGTATCGATACAA
267075 TGTATCGATACA
1 TGTATCGATACA
267087 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:267084 original size:33 final size:33
Alignment explanation
Indices: 267042--267108 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
267032 TTCAACGATT
267042 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
267075 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
267108 T
1 T
267109 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:267225 original size:52 final size:51
Alignment explanation
Indices: 267162--267310 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
267152 ATTGATACAT
**
267162 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-ATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
267214 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT-CAATGTATCGATACATGCAGGCAAATTTGCCCAGA
267266 TGTATCGATACACTATTCAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTA-TCAATGTATCGATACATGCAGGCAAATTT
267311 TCATATTTCG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.97
53 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (51 bp):
TGTATCGATACACTATCAATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:276999 original size:61 final size:61
Alignment explanation
Indices: 276907--277546 Score: 744
Period size: 61 Copynumber: 10.9 Consensus size: 61
276897 AAAGGCGCAT
* * *
276907 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGTCTTTTCCTTTCAAAGCCCAT
1 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
* * *
276968 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACACCTTCGCCTTTCAAAGTCCAC
1 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
* * * *
277029 ACAGGTTGGTGGCACTTTTCAATTTTCAAAGAGCAGGACG-----T-CTTTCAAAGCCCAC
1 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
* * * *
277084 ACAAGTTGGTGGCAGCTTTCAGTCCTCAAAGAGCA--A-GACTCCT-C-TT-AAAGCCCAC
1 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
* * * * *
277139 AGAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCAC
1 ACAAGTTGGTGGCACCTTTC-AGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
* *
277200 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAAGAGCAGGACGCCTTCGCCTTTCAAAGTCCAC
1 ACAAGTTGGTGGCACCTTTCAGTCTTC-AAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
* * *
277262 ATAGGTTGGTGGCACTTTTCAGTCTTCAAAGAGCAGGACG------CCTTTCAAAGCCCAC
1 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
* * *
277317 ACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA---CTCCT-C-TT-AAAGCCCAC
1 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
* *
277372 ACAAGTTGGTGGCA-CTTCCTAGTCCTT-AAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCAC
1 ACAAGTTGGTGGCACCTTTC-AGT-CTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
*
277433 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCAC
1 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
*
277494 ACAAGTTGGTGGCA-CTTTCTAGTCCTCAAAGAGCAGGACG-CTCTCTCCTTTCA
1 ACAAGTTGGTGGCACCTTTC-AGTCTTCAAAGAGCAGGACGCCT-TCTCCTTTCA
277547 CCCTTTAGTC
Statistics
Matches: 499, Mismatches: 49, Indels: 62
0.82 0.08 0.10
Matches are distributed among these distances:
52 1 0.00
53 1 0.00
54 7 0.01
55 162 0.32
56 6 0.01
57 4 0.01
58 7 0.01
59 2 0.00
60 14 0.03
61 231 0.46
62 64 0.13
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (61 bp):
ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCAC
Found at i:277315 original size:233 final size:231
Alignment explanation
Indices: 276907--277925 Score: 1232
Period size: 233 Copynumber: 4.4 Consensus size: 231
276897 AAAGGCGCAT
* * * * *
276907 ACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGTCTTTTCCTTTCAAAGCCCATACAA
1 ACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAA
* * *
276972 GTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACACCTTCGCCTTTCAAAGTCCACACAGGTTG
65 GTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTG
* ** * *
277037 GTGGCACTTTTCAATTTTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCAGCTT
130 GTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
*
277102 TCAGTCCTCAAAGAGCAAGACTCCTCTT-AAAGCCCAC
194 TCAGTCCTCAAAGAGCAGGACTCCTCTTCAAAGCCCAC
* * *
277139 AGAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACGCCTTCGCCTTTCAAAGCCCACACAA
1 ACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAA
* * *
277204 GTTGGTGGCACCTTTCAGTCTTCAAAAGAGCAGGACGCCTTCGCCTTTCAAAGTCCACATAGGTT
65 GTTGGTGGCACCTTTCAGTCTTC-AAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTT
*
277269 GGTGGCACTTTTCAGTCTTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
129 GGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
*
277334 TTTAGTCCTCAAAGAGCAGGACTCCTCTT-AAAGCCCAC
193 TTCAGTCCTCAAAGAGCAGGACTCCTCTTCAAAGCCCAC
* *
277372 ACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAA
1 ACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAA
* *
277437 GTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTG
65 GTTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTG
* *
277502 GTGGCACTTTCTAGTCCTCAAAGAGCAGGACG-C--T-----CTCTC-C---TT--T--CACCCT
130 GTGGCACTTTC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-CCT
*
277551 TT-AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCAC
193 TTCAGTCCTCAAAGAGCAGGACTCCTCTTCAAAGCCCAC
* * * *
277588 ACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGGCGCCTTCTCCTTTTAAAGCCCACACAAG
1 ACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAG
* * * * ***
277653 TTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTCAAAGCCCACACAAGTTGG
66 TTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGG
* *
277718 TGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACATAAGTTGGTGGCA
131 TGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA
* * * * *
277783 CTTTTCAGTCCTCAAAGAGTAGGATGCTTTCTTTTTGCAAATCCCAC
190 CCTTTCAGTCCTCAAAGAGCAGGA--C--TCCTCTT-CAAAGCCCAC
* * * * *
277830 ACTAGTTGGTGGCATCTTCCAATCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACAA
1 ACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAA
* *
277895 GTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
65 GTTGGTGGCACCTTTCAGTCTTCAAAGAGCA
277926 TGACACACTT
Statistics
Matches: 693, Mismatches: 59, Indels: 59
0.85 0.07 0.07
Matches are distributed among these distances:
214 20 0.03
215 112 0.16
216 50 0.07
217 5 0.01
218 2 0.00
220 2 0.00
223 1 0.00
224 3 0.00
228 3 0.00
229 1 0.00
231 9 0.01
232 140 0.20
233 221 0.32
234 1 0.00
235 4 0.01
236 19 0.03
238 1 0.00
240 2 0.00
241 2 0.00
242 22 0.03
243 73 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (231 bp):
ACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAG
TTGGTGGCACCTTTCAGTCTTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGG
TGGCACTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
AGTCCTCAAAGAGCAGGACTCCTCTTCAAAGCCCAC
Found at i:277592 original size:94 final size:97
Alignment explanation
Indices: 277447--277637 Score: 275
Period size: 94 Copynumber: 2.0 Consensus size: 97
277437 GTTGGTGGCA
*
277447 CCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCC---TAAAGCCCACACAAGTTGGTGGCACTTT
277512 CTAGTCCTCAAAGAGCAGGACG-CTCTCTCCTTTCAC
63 C-AGTCCTCAAAGAGCAGGACGCCT-TCTCCTTTCAC
*
277548 CCTTT-AGTCCTCAAAGAGCAGGACGCCTT-T-C-AAAGCCCACACAAGTTGGTGGCATTTTCAG
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACTTTCAG
*
277609 TCCTCAAAGAGCAGGGCGCCTTCTCCTTT
66 TCCTCAAAGAGCAGGACGCCTTCTCCTTT
277638 TAAAGCCCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
93 27 0.31
94 29 0.34
98 1 0.01
99 1 0.01
100 23 0.27
101 5 0.06
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (97 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACTTTCAG
TCCTCAAAGAGCAGGACGCCTTCTCCTTTCAC
Found at i:277634 original size:93 final size:98
Alignment explanation
Indices: 277447--277637 Score: 277
Period size: 93 Copynumber: 2.0 Consensus size: 98
277437 GTTGGTGGCA
*
277447 CCTTTCAGTCTTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCC---TAAAGCCCACACAAGTTGGTGGCACTTT
277512 CTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
63 CTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
*
277548 CCTTT-AGTCCTCAAAGAGCAGGACGCCTT-T-C-AAAGCCCACACAAGTTGGTGGCATTTTC-A
1 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACTTTCTA
*
277608 GTCCTCAAAGAGCAGGGCGC-CTTCTCCTTT
66 GTCCTCAAAGAGCAGGACGCTC-TCTCCTTT
277638 TAAAGCCCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
92 1 0.01
93 28 0.33
94 27 0.31
98 1 0.01
99 1 0.01
100 23 0.27
101 5 0.06
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (98 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTAAAGCCCACACAAGTTGGTGGCACTTTCTA
GTCCTCAAAGAGCAGGACGCTCTCTCCTTTCAC
Found at i:277704 original size:61 final size:61
Alignment explanation
Indices: 277553--277925 Score: 484
Period size: 61 Copynumber: 6.2 Consensus size: 61
277543 TTCACCCTTT
277553 AGTCCTCAAAGAGCAGGACG----C-C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACGCTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
277607 AGTCCTCAAAGAGCAGGGCGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCTTTCT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * *
277668 AGTCCTCAAAGAGCAGGATGCTTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTC
1 AGTCCTCAAAGAGCAGGACGCTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* *
277728 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACATAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCTTTCT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
* * * * *
277789 AGTCCTCAAAGAGTAGGATGCTTTCT-TTTTGCAAATCCCACACTAGTTGGTGGCA-TCTTCC
1 AGTCCTCAAAGAGCAGGACGCTTTCTCTTTT-CAAAGCCCACACAAGTTGGTGGCACT-TTTC
* *
277850 AATCCTCAAAGAGCAGGACGCCTTT-TCTTTTCAAAGACCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACG-CTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
277911 AGTCCTCAAAGAGCA
1 AGTCCTCAAAGAGCA
277926 TGACACACTT
Statistics
Matches: 276, Mismatches: 26, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
54 19 0.07
58 1 0.00
59 4 0.01
60 79 0.29
61 164 0.59
62 9 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (61 bp):
AGTCCTCAAAGAGCAGGACGCTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
Found at i:277706 original size:215 final size:215
Alignment explanation
Indices: 277329--277758 Score: 670
Period size: 215 Copynumber: 2.0 Consensus size: 215
277319 AAGTTGGTGG
* *
277329 CACCTTTTAGTCCTCAAAGAGCAGGACTCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAG
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAG
* *
277394 TCCTTAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTT
66 TCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
*
277459 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAA
131 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAA
277524 GAGCAGGACG-CTCTCTCCTTT
195 GAGCAGGACGCCT-TCTCCTTT
* *
277545 CACCCTTTAGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTC-A
1 CACCCTTTAGTCCTCAAAGAGCAGGACGCCTCTT-AAAGCCCACACAAGTTGGTGGCACTTCCTA
* * * *
277608 GTCCTCAAAGAGCAGGGCGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCC
65 GTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
* * *
277673 TCAAAGAGCAGGATGCTTTCT-TTTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
130 TCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAA
277737 AGAGCAGGACGCCTTCTCCTTT
194 AGAGCAGGACGCCTTCTCCTTT
277759 TAAAGCCCAC
Statistics
Matches: 197, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
214 32 0.16
215 110 0.56
216 55 0.28
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (215 bp):
CACCCTTTAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAG
TCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGCAGGACGCCTTCTCCTTT
Found at i:277761 original size:121 final size:121
Alignment explanation
Indices: 277575--277925 Score: 578
Period size: 121 Copynumber: 2.9 Consensus size: 121
277565 GCAGGACGCC
* *
277575 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGGCGCCTTCTCCTTTTA
1 TTTCAAAGCCCACACAAGTTGGTGGCATCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTA
277640 AAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTT
66 AAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTT
*
277696 TTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTA
1 TTTCAAAGCCCACACAAGTTGGTGGCATCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTA
* *
277761 AAGCCCACATAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGATGCTTTCTTT
66 AAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTT
* * * * *
277817 TTGCAAATCCCACACTAGTTGGTGGCATCTTCCAATCCTCAAAGAGCAGGACGCCTT-TTCTTTT
1 TTTCAAAGCCCACACAAGTTGGTGGCATCTT-CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
*
277881 CAAAGACCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
65 -AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCA
277926 TGACACACTT
Statistics
Matches: 214, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
121 149 0.70
122 65 0.30
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (121 bp):
TTTCAAAGCCCACACAAGTTGGTGGCATCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTA
AAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTT
Found at i:277858 original size:182 final size:175
Alignment explanation
Indices: 277548--277925 Score: 494
Period size: 182 Copynumber: 2.1 Consensus size: 175
277538 CTCCTTTCAC
*
277548 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCT
* * *
277613 CAAAGAGCAGGGCGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAA
66 CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAATCCTCAAA
* * *
277678 GAGCAGGATG-CTTTCTTTTTTCAAAGCCCACACAAGTTGGTGGCA
131 GAGCAGGACGCCTTT-TCTTTTCAAAGACCACACAAGTTGGTGGCA
*
277723 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACATAAGTTGGTGGCACTTTT
1 CCTTCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA-TTTT
* * * * *
277788 CAGTCCTCAAAGAGTAGGATG-CTT-TCTTTTTGCAAATCCCACACTAGTTGGTGGCA-TCTTCC
59 CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT--AAAGCCCACACAAGTTGGTGGCACT-TTCC
277850 AATCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACAAGTTGGTGGCA
121 AATCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACAAGTTGGTGGCA
*
277905 CTTTTCAGTCCTCAAAGAGCA
1 C-CTTCAGTCCTCAAAGAGCA
277926 TGACACACTT
Statistics
Matches: 177, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
175 28 0.16
176 1 0.01
177 1 0.01
180 6 0.03
181 26 0.15
182 93 0.53
183 22 0.12
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (175 bp):
CCTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCT
CAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAATCCTCAAA
GAGCAGGACGCCTTTTCTTTTCAAAGACCACACAAGTTGGTGGCA
Found at i:278032 original size:41 final size:41
Alignment explanation
Indices: 277951--278033 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
277941 CCTTCTTTTC
* * * *
277951 TCTTTTGTCCTCAAAGAGCAGGACGCATTTTTTTTTCCTTT
1 TCTTTTGTCCTCAAAGAGCAGGAAGCATTCTGTTTCCCTTT
* *
277992 TCTTTTGTCCTTAGAA-AGCAGGAAGTATTCTGTTTCCCTTT
1 TCTTTTGTCCTCA-AAGAGCAGGAAGCATTCTGTTTCCCTTT
278033 T
1 T
278034 TTCCTTTGTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 33 0.94
42 2 0.06
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (41 bp):
TCTTTTGTCCTCAAAGAGCAGGAAGCATTCTGTTTCCCTTT
Found at i:278607 original size:6 final size:6
Alignment explanation
Indices: 278598--278624 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
278588 TAAAAATCAA
278598 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
278625 AAAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:278819 original size:39 final size:41
Alignment explanation
Indices: 278776--278855 Score: 137
Period size: 39 Copynumber: 2.0 Consensus size: 41
278766 GGTGGGAACT
*
278776 TACAACAATTTGCAGCATGGGAAAGG-AA-AAAAAAATGCA
1 TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
278815 TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
1 TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
278856 ATGGGAGACA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
39 25 0.66
40 2 0.05
41 11 0.29
ACGTcount: A:0.51, C:0.12, G:0.21, T:0.15
Consensus pattern (41 bp):
TACAACAATTGGCAGCATGGGAAAGGAAATAAAAAAATGCA
Found at i:279266 original size:11 final size:11
Alignment explanation
Indices: 279250--279280 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
279240 TTTACATGTT
279250 TATCTTGATGA
1 TATCTTGATGA
279261 TATCTTGATGA
1 TATCTTGATGA
*
279272 TAGCTTGAT
1 TATCTTGAT
279281 TGTGGAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.45
Consensus pattern (11 bp):
TATCTTGATGA
Found at i:280174 original size:28 final size:28
Alignment explanation
Indices: 280105--280177 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
280095 TTTCACAATC
280105 GGGGATACTCCAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCATCA
**
280133 -GGGATACTCCAACCCCGTT-ATTTTCGA
1 GGGGATACTCCAACCCCGTTAATCATC-A
*
280160 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
280178 ATTTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.10
27 20 0.50
28 16 0.40
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTAATCATCA
Found at i:280250 original size:28 final size:28
Alignment explanation
Indices: 280210--280279 Score: 140
Period size: 28 Copynumber: 2.5 Consensus size: 28
280200 TTCTCATAAT
280210 CGGGGATACTCCAACCCCATTGTTTCTG
1 CGGGGATACTCCAACCCCATTGTTTCTG
280238 CGGGGATACTCCAACCCCATTGTTTCTG
1 CGGGGATACTCCAACCCCATTGTTTCTG
280266 CGGGGATACTCCAA
1 CGGGGATACTCCAA
280280 TCTCGGTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCATTGTTTCTG
Found at i:280276 original size:107 final size:106
Alignment explanation
Indices: 280089--280361 Score: 320
Period size: 107 Copynumber: 2.6 Consensus size: 106
280079 GTTAAGTTTC
* ** * *
280089 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTAATCAT-CAGGGATACTCCAACCCCGTTA
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTTTTC-TGCGGGGATACTCCAACCCCATTA
*
280153 TTTTCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAA-T
65 TTTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACT
* * *
280194 ATTAATTTCTCATAATCGGGGATACTCCAACCCCATTGTTTCTGCGGGGATACTCCAACCCCATT
1 -TCAATTTTTCATAATCGGGGATACTCCAACCCCGTT-TTTCTGCGGGGATACTCCAACCCCATT
* * * * *
280259 -GTTTCTGCGGGGATACTCCAATCTCGGTTTTATTTCTAAAACT
64 ATTTTC-GAGGGGATACTCCAACCCCGATTTTATTTCTAAAACT
* *
280302 TCGATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT-TCGCGGGGAAACTCCAACCC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTT-TTTCT-GCGGGGATACTCCAACCC
280362 GAGTTTTATC
Statistics
Matches: 142, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
106 38 0.27
107 103 0.73
108 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (106 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTTTTCTGCGGGGATACTCCAACCCCATTAT
TTTCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACT
Found at i:280323 original size:79 final size:79
Alignment explanation
Indices: 280238--280730 Score: 754
Period size: 79 Copynumber: 6.2 Consensus size: 79
280228 ATTGTTTCTG
* * * * * * *
280238 CGGGGATACTCCAACCCCATTGTTTCTGCGGGGATACTCCAATCTCGGTTTTATTTCTAAAACTT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAT
*
280303 CGATTTTTCATAAT
66 CAATTTTTCATAAT
* * * *
280317 CGGGGATACTCCAACCCCGTTATTTTCGCGGGGAAACTCCAA-CCCGAGTTTTATCTCTAAAACA
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG-GTTTTATTTCTAAAACA
280381 TCAATTTTTCATAAT
65 TCAATTTTTCATAAT
* *
280396 CGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCGTTTTTATTTCTAAAACAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAT
280461 CAATTTTTCATAAT
66 CAATTTTTCATAAT
* *
280475 CGGGGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCAGTTTTATTTCTAAAACAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAT
280540 CAATTTTTCATAAT
66 CAATTTTTCATAAT
* * * *
280554 CGGGGATACTCCAACCCCGTTATTTTCGATGGGATACTCTAACCCCGGTTTTATTTCTAAAACAC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAT
280619 CAATTTTTCATAAT
66 CAATTTTTCATAAT
* * *
280633 CGGGGATACTTCAACCCCTTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAT
280698 CAATTTTTCATAAT
66 CAATTTTTCATAAT
*
280712 CGGGGATACTCTAACCCCG
1 CGGGGATACTCCAACCCCG
280731 ATTTTATTTT
Statistics
Matches: 380, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
78 3 0.01
79 373 0.98
80 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAT
CAATTTTTCATAAT
Found at i:280738 original size:51 final size:51
Alignment explanation
Indices: 280662--280808 Score: 163
Period size: 52 Copynumber: 2.8 Consensus size: 51
280652 TTATTTCCGA
*
280662 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTT-CATAATC
1 GGGGATACTCTAACCCC-GTTTTATTTCTAAAACACCAATTTTTCCATAATC
* *
280713 GGGGATACTCTAACCCCGATTTTATTTTTTAGAACACC-ATTTTTCCATAATC
1 GGGGATACTCTAACCCCG-TTTTA-TTTCTAAAACACCAATTTTTCCATAATC
* * * * * *
280765 GAGGATACCCTAGCCCCGTTGTTATCTCTAAAATACTAATTTTT
1 GGGGATACTCTAACCCCGTT-TTATTTCTAAAACACCAATTTTT
280809 TCTCGTCGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
50 1 0.01
51 37 0.46
52 42 0.52
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (51 bp):
GGGGATACTCTAACCCCGTTTTATTTCTAAAACACCAATTTTTCCATAATC
Found at i:282151 original size:8 final size:8
Alignment explanation
Indices: 282138--282163 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
282128 ATTTGATTAA
282138 ATTTTGTG
1 ATTTTGTG
282146 ATTTTGTG
1 ATTTTGTG
282154 ATTTTGTG
1 ATTTTGTG
282162 AT
1 AT
282164 GAATGGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:282364 original size:13 final size:13
Alignment explanation
Indices: 282346--282370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
282336 AAAATGCAGA
282346 TGTATCGATACAT
1 TGTATCGATACAT
282359 TGTATCGATACA
1 TGTATCGATACA
282371 CCATATCGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:282558 original size:22 final size:21
Alignment explanation
Indices: 282516--282555 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
282506 AAAATTCTTC
282516 TTTTTCACTTCAAAATACATCG
1 TTTTTCAC-TCAAAATACATCG
282538 TTTTTCA-TCAAAAT-CATC
1 TTTTTCACTCAAAATACATC
282556 ATCAAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 7 0.39
22 7 0.39
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.42
Consensus pattern (21 bp):
TTTTTCACTCAAAATACATCG
Found at i:282857 original size:20 final size:21
Alignment explanation
Indices: 282817--282869 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
282807 CCTCCTAGGT
*
282817 AGCACCCACCAAGTCGCAACCG
1 AGCACCC-CCAAGTAGCAACCG
*
282839 -GCACCCCCAGGTAGCAACCG
1 AGCACCCCCAAGTAGCAACCG
282859 AGCAGCCCCCA
1 AGCA-CCCCCA
282870 CACTAGCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 12 0.44
21 9 0.33
22 6 0.22
ACGTcount: A:0.28, C:0.47, G:0.21, T:0.04
Consensus pattern (21 bp):
AGCACCCCCAAGTAGCAACCG
Found at i:284868 original size:20 final size:21
Alignment explanation
Indices: 284843--284893 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
284833 CGATACATTA
**
284843 TATCGATACATGACCA-AATG
1 TATCGATACATGAAAAGAATG
*
284863 TATCGATACTTGAAAAGAATG
1 TATCGATACATGAAAAGAATG
284884 TATCGATACA
1 TATCGATACA
284894 AGTCATTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACATGAAAAGAATG
Found at i:287773 original size:15 final size:15
Alignment explanation
Indices: 287733--287774 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
287723 ATCTATGTAT
*
287733 TAATTATTCAATCCTA
1 TAATTATT-AATCATA
*
287749 -AATAATTAATCATA
1 TAATTATTAATCATA
287763 TAATTATTAATC
1 TAATTATTAATC
287775 TTCGAGTCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (15 bp):
TAATTATTAATCATA
Found at i:288711 original size:19 final size:19
Alignment explanation
Indices: 288668--288723 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
288658 TTGCCAGTTT
288668 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
288688 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
288707 CATGTATCGATACAATG
1 CATGTATCGATACAATG
288724 TATCGATACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
19 20 0.59
20 14 0.41
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Done.