Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008720.1 Hibiscus syriacus cultivar Beakdansim tig00111775_pilon, whole genome shotgun sequence
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: 154275
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:1600 original size:20 final size:20
Alignment explanation
Indices: 1558--1606 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1548 TGTCCTATGA
* *
1558 TATCGATACTGACCCTTCTG
1 TATCGATACTAACCCTTCAG
1578 TATCGATACTAAACCCTT-AG
1 TATCGATACT-AACCCTTCAG
*
1598 TATCAATAC
1 TATCGATAC
1607 CCTATTGGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.33
Consensus pattern (20 bp):
TATCGATACTAACCCTTCAG
Found at i:4396 original size:24 final size:25
Alignment explanation
Indices: 4359--4410 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
4349 AGAATTAATA
*
4359 TTAAATATTAAAATATA-AAATATT
1 TTAAATACTAAAATATATAAATATT
* * *
4383 TTAAATACTCAAATTTATTAATATT
1 TTAAATACTAAAATATATAAATATT
4408 TTA
1 TTA
4411 CTAAATTAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
TTAAATACTAAAATATATAAATATT
Found at i:5833 original size:14 final size:13
Alignment explanation
Indices: 5814--5848 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
5804 AAAATACTTT
5814 AAAATTGTTTATGA
1 AAAATTGTTTAT-A
*
5828 AAAATTATTTATA
1 AAAATTGTTTATA
5841 AAAATTGT
1 AAAATTGT
5849 GAAATGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (13 bp):
AAAATTGTTTATA
Found at i:10501 original size:32 final size:32
Alignment explanation
Indices: 10446--10540 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 32
10436 GTGTATTAGT
10446 CACAACAGAGTTAGTATTGCATTCAGATAATG
1 CACAACAGAGTTAGTATTGCATTCAGATAATG
* *
10478 CACAACATAGTTCGTA-TGACATTCAGATAATG
1 CACAACAGAGTTAGTATTG-CATTCAGATAATG
** * ** *
10510 CACAGTAGAGGTAGTAACGCATTTAGATAAT
1 CACAACAGAGTTAGTATTGCATTCAGATAAT
10541 ATGTAGCAGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 2 0.04
32 49 0.94
33 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (32 bp):
CACAACAGAGTTAGTATTGCATTCAGATAATG
Found at i:11304 original size:19 final size:18
Alignment explanation
Indices: 11246--11311 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
11236 CCAAATCCTT
**
11246 TTTTCAAAATCATTTTTG
1 TTTTCAAAATCATTTTAA
* *
11264 CTTTCAAAATCCAATTTAA
1 TTTTCAAAAT-CATTTTAA
*
11283 TTTTCAAAAGTCATTTTCA
1 TTTTCAAAA-TCATTTTAA
*
11302 TTTTTAAAAT
1 TTTTCAAAAT
11312 TTTAAATTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 10 0.26
19 27 0.71
20 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.48
Consensus pattern (18 bp):
TTTTCAAAATCATTTTAA
Found at i:19810 original size:16 final size:17
Alignment explanation
Indices: 19789--19820 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19779 AATGAATAAT
19789 CTACCTATT-TAGTATC
1 CTACCTATTCTAGTATC
19805 CTACCTATTCTAGTAT
1 CTACCTATTCTAGTAT
19821 TTCTATATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (17 bp):
CTACCTATTCTAGTATC
Found at i:21625 original size:6 final size:6
Alignment explanation
Indices: 21614--21651 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
21604 AAGTATTTGC
* *
21614 GGCAGT GGCAGT GGCAGT GGCAGT AGCAGT AGCAGT GG
1 GGCAGT GGCAGT GGCAGT GGCAGT GGCAGT GGCAGT GG
21652 TGTCTTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.21, C:0.16, G:0.47, T:0.16
Consensus pattern (6 bp):
GGCAGT
Found at i:24575 original size:19 final size:19
Alignment explanation
Indices: 24539--24576 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
24529 CCTAAAGTTG
24539 AAAGACAGTTAAATTCATT
1 AAAGACAGTTAAATTCATT
*
24558 AAAG-CAGTTTAATATCATT
1 AAAGACAGTTAAAT-TCATT
24577 TAACAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (19 bp):
AAAGACAGTTAAATTCATT
Found at i:26435 original size:11 final size:11
Alignment explanation
Indices: 26419--26449 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
26409 GGATGGCAAC
26419 GGGCCGGGTTG
1 GGGCCGGGTTG
26430 GGGCCGGGTTG
1 GGGCCGGGTTG
26441 GGGCCGGGT
1 GGGCCGGGT
26450 ATTGTCCCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.19, G:0.65, T:0.16
Consensus pattern (11 bp):
GGGCCGGGTTG
Found at i:27460 original size:21 final size:22
Alignment explanation
Indices: 27416--27460 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
27406 TTATAAAAGG
*
27416 ATTTTATATTATATTTTTTAAT
1 ATTTTATATTATATTTTGTAAT
* *
27438 ATTTTCTATTA-ATTTTGTCAT
1 ATTTTATATTATATTTTGTAAT
27459 AT
1 AT
27461 AATTTGATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTTATATTATATTTTGTAAT
Found at i:34116 original size:14 final size:14
Alignment explanation
Indices: 34097--34164 Score: 84
Period size: 14 Copynumber: 4.8 Consensus size: 14
34087 AATCGAGAAA
34097 AAAGAGAAAAAAAC
1 AAAGAGAAAAAAAC
*
34111 AAAGAGAAAATAA-
1 AAAGAGAAAAAAAC
34124 AAAGAGAAAAAAAC
1 AAAGAGAAAAAAAC
*
34138 AAAAAGAACAAAAATC
1 AAAGAGAA-AAAAA-C
*
34154 AAAAAGAAAAA
1 AAAGAGAAAAA
34165 GGGACAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.25
14 19 0.40
15 8 0.17
16 9 0.19
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAGAGAAAAAAAC
Found at i:34136 original size:16 final size:15
Alignment explanation
Indices: 34117--34164 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
34107 AAACAAAGAG
34117 AAAATAAAAAGAGAAA
1 AAAATAAAAAGA-AAA
* *
34133 AAAACAAAAAGAACA
1 AAAATAAAAAGAAAA
34148 AAAATCAAAAAGAAAA
1 AAAAT-AAAAAGAAAA
34164 A
1 A
34165 GGGACAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 6 0.22
16 21 0.78
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.04
Consensus pattern (15 bp):
AAAATAAAAAGAAAA
Found at i:34798 original size:22 final size:22
Alignment explanation
Indices: 34770--34824 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
34760 GCTACCCCAT
34770 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
34792 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
34814 CAAACCTTTGA
1 CAAACCTTTGA
34825 CCAAACACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:35733 original size:36 final size:36
Alignment explanation
Indices: 35606--35726 Score: 136
Period size: 36 Copynumber: 3.3 Consensus size: 36
35596 CAGATGATTA
*
35606 TCTCACTTGAGATTGCTTTTCTTAAAAC-AGACTTTG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAGA-TTTG
* * * *
35642 TCTCACTTGAGATTGTTTTACTCGAAAAGAAGATTTA
1 TCTCACTTGAGATTGTTTTTCT-TAAAACAAGATTTG
* **
35679 TTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTG
*
35715 TCTCGCTTGAGA
1 TCTCACTTGAGA
35727 CCGTTTTCAC
Statistics
Matches: 67, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
36 39 0.58
37 25 0.37
38 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (36 bp):
TCTCACTTGAGATTGTTTTTCTTAAAACAAGATTTG
Found at i:35794 original size:36 final size:36
Alignment explanation
Indices: 35743--35812 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
35733 TCACTAGAAG
* *
35743 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACGA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACGA
* *
35779 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAAC
35813 ATAAACTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.16, T:0.40
Consensus pattern (36 bp):
ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACGA
Found at i:36340 original size:106 final size:106
Alignment explanation
Indices: 36136--36346 Score: 289
Period size: 106 Copynumber: 2.0 Consensus size: 106
36126 CGTGCCACTC
* * ** *
36136 GAGACAACACAAGTTCAACTCCACAACGAAGGGACGGCTGGTTGTCAATAAACCATTTCCTAATT
1 GAGACAACACAAGTTCAACTCCACAACGAAGGGACGGCTGGTTGTCAACAAACAAACTCCCAATT
* * *
36201 TCAGAGCAAATTTCAACTTCACAGCGAAAGATATTGGACTT
66 CCAGAACAAATTTCAACTTAACAGCGAAAGATATTGGACTT
* *
36242 GAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAAACTCCCAGTT
1 GAGACAACACAAGTTCAACTCCACAACGAAGGGACGGCTGGTTGTCAACAAACAAACTCCCAATT
* * *
36307 CCAGAACCAATTTCAACTTAAC-GACGGAGGATATTGGACT
66 CCAGAACAAATTTCAACTTAACAG-CGAAAGATATTGGACT
36347 CGGAAGGGGT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
105 1 0.01
106 90 0.99
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (106 bp):
GAGACAACACAAGTTCAACTCCACAACGAAGGGACGGCTGGTTGTCAACAAACAAACTCCCAATT
CCAGAACAAATTTCAACTTAACAGCGAAAGATATTGGACTT
Found at i:36529 original size:106 final size:106
Alignment explanation
Indices: 36396--36826 Score: 574
Period size: 106 Copynumber: 4.0 Consensus size: 106
36386 ATATCGTGCC
* *
36396 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * * *
36461 AATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AGTTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
*
36502 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACCAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * * *
36567 AGTTCCTGAGTCAATTTCAATTTCACAGCGAATGATATTAG
66 AGTTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
* * * * * * * * **
36608 ACTCGAGATAGCACAAGCTCAACTTCACAGCGAAGGGGCGACTGGCTATCAGCAAACAATTTTTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* *
36673 AGTCTCATTCAGAGTCAATTTCAATTTCACAGCGAAGGATATTAG
66 AGT-TC---CAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
* *
36718 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAAATTCCT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
* * *
36783 AGTTCCAGAACCAATTTCAACTTCACGGCGGAGGATATTAG
66 AGTTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
36824 ACT
1 ACT
36827 TGGAACAATA
Statistics
Matches: 281, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
106 187 0.67
107 2 0.01
109 2 0.01
110 90 0.32
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCCC
AGTTCCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
Found at i:36584 original size:264 final size:264
Alignment explanation
Indices: 36109--36586 Score: 803
Period size: 264 Copynumber: 1.8 Consensus size: 264
36099 GAAGGGGCCA
* * *
36109 TCCACGATGGAGGATATCGTGCCACTCGAGACAACACAAGTTCAACTCCACAACGAAGGGACGGC
1 TCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTCCACAACGAAGGGACGAC
* * *
36174 TGGTTGTCAATAAACCATTTCCTAATTTCAGAGCAAATTTCAACTTCACAGCGAAAGATATTGGA
66 TGGTTGTCAACAAACAATTTCCCAATTTCAGAGCAAATTTCAACTTCACAGCGAAAGATATTGGA
* *
36239 CTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAAACTCCCA
131 CTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAAACTCCCA
36304 GTTCCAGAACCAATTTCAACTTAACGACGGAGGATATTGGACTCGGAAGGGGTCATCCGTGATTT
196 GTTCCAGAACCAATTTCAACTTAACGACGGAGGATATTGGACTCGGAAGGGGTCATCCGTGATTT
36369 CAAC
261 CAAC
*
36373 TCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGAC
1 TCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTCCACAACGAAGGGACGAC
* *
36438 TGGTTGTCAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTGGA
66 TGGTTGTCAACAAACAATTTCCCAATTTCAGAGCAAATTTCAACTTCACAGCGAAAGATATTGGA
* **
36503 CTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACCAACAATTTCCCA
131 CTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAAACTCCCA
* **
36568 GTTCCTGAGTCAATTTCAA
196 GTTCCAGAACCAATTTCAA
36587 TTTCACAGCG
Statistics
Matches: 197, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
264 197 1.00
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (264 bp):
TCCACGACGGAGGATATCGTGCCACTCAAGACAACACAAGTTCAACTCCACAACGAAGGGACGAC
TGGTTGTCAACAAACAATTTCCCAATTTCAGAGCAAATTTCAACTTCACAGCGAAAGATATTGGA
CTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAAACTCCCA
GTTCCAGAACCAATTTCAACTTAACGACGGAGGATATTGGACTCGGAAGGGGTCATCCGTGATTT
CAAC
Found at i:41200 original size:10 final size:10
Alignment explanation
Indices: 41187--41306 Score: 51
Period size: 10 Copynumber: 10.4 Consensus size: 10
41177 GGTTATATTC
41187 GTTCGGTTAT
1 GTTCGGTTAT
*
41197 GTTCGTTTATGTT
1 GTTCGGTTA---T
41210 CGTTCGGTTAT
1 -GTTCGGTTAT
*
41221 GTTCGTTTATGTT
1 GTTCGGTTA---T
41234 CGTTCGGTTAT
1 -GTTCGGTTAT
*
41245 GTTCGTTTATGTT
1 GTTCGGTTA---T
41258 AGTTCGGTTAT
1 -GTTCGGTTAT
*
41269 GTTCGTTTATGTT
1 GTTCGGTTA---T
41282 CGTTCGGTTAT
1 -GTTCGGTTAT
*
41293 GTTCGTTTAT
1 GTTCGGTTAT
41303 GTTC
1 GTTC
41307 ATTCATTTAT
Statistics
Matches: 85, Mismatches: 9, Indels: 32
0.67 0.07 0.25
Matches are distributed among these distances:
10 45 0.53
11 4 0.05
13 4 0.05
14 32 0.38
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (10 bp):
GTTCGGTTAT
Found at i:41296 original size:14 final size:14
Alignment explanation
Indices: 41172--41299 Score: 126
Period size: 14 Copynumber: 10.3 Consensus size: 14
41162 CGTTCGTGAA
*
41172 CGTTCGGTTATATT
1 CGTTCGGTTATGTT
41186 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
41200 CG-T---TTATGTT
1 CGTTCGGTTATGTT
41210 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
41224 CG-T---TTATGTT
1 CGTTCGGTTATGTT
41234 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
41248 CG-T---TTATGTT
1 CGTTCGGTTATGTT
*
41258 AGTTCGGTTATGTT
1 CGTTCGGTTATGTT
41272 CG-T---TTATGTT
1 CGTTCGGTTATGTT
41282 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
41296 CGTT
1 CGTT
41300 TATGTTCATT
Statistics
Matches: 95, Mismatches: 3, Indels: 32
0.73 0.02 0.25
Matches are distributed among these distances:
10 35 0.37
11 4 0.04
13 4 0.04
14 52 0.55
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.53
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:41319 original size:24 final size:24
Alignment explanation
Indices: 41173--41306 Score: 241
Period size: 24 Copynumber: 5.6 Consensus size: 24
41163 GTTCGTGAAC
* *
41173 GTTCGGTTATATTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
41197 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
41221 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
*
41245 GTTCGTTTATGTTAGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
41269 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
41293 GTTCGTTTATGTTC
1 GTTCGTTTATGTTC
41307 ATTCATTTAT
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 106 1.00
ACGTcount: A:0.10, C:0.12, G:0.25, T:0.54
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:42417 original size:16 final size:16
Alignment explanation
Indices: 42398--42448 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
42388 CCAACGTTTA
*
42398 TGTTCGTTTATGTTTG
1 TGTTCGTTTATGTTCG
*
42414 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
*
42430 TATTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
42446 TGT
1 TGT
42449 ATTTATTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.10, C:0.10, G:0.22, T:0.59
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:42438 original size:26 final size:26
Alignment explanation
Indices: 42394--42444 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
42384 GTCTCCAACG
* *
42394 TTTATGTTCGTTTATGTTTGTGTTCA
1 TTTATGTTCGTTTACGTTTATGTTCA
42420 TTTATGTTCGTATT-CGTTTATGTTC
1 TTTATGTTCGT-TTACGTTTATGTTC
42445 GTGTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.61
Consensus pattern (26 bp):
TTTATGTTCGTTTACGTTTATGTTCA
Found at i:43607 original size:25 final size:26
Alignment explanation
Indices: 43557--43612 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
43547 ACAATACAAA
*
43557 ACTTTCATATCTCAATTTCATCTTTC
1 ACTTTTATATCTCAATTTCATCTTTC
*
43583 ACTTTTATAT-TCACTTTC-TCGTTTC
1 ACTTTTATATCTCAATTTCATC-TTTC
43608 A-TTTT
1 ACTTTT
43613 CATAATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 6 0.22
25 12 0.44
26 9 0.33
ACGTcount: A:0.20, C:0.23, G:0.02, T:0.55
Consensus pattern (26 bp):
ACTTTTATATCTCAATTTCATCTTTC
Found at i:44387 original size:64 final size:65
Alignment explanation
Indices: 44314--44458 Score: 204
Period size: 64 Copynumber: 2.2 Consensus size: 65
44304 ACACCCCATT
*
44314 TCGAATGCATTTAGTGTACCGATGCACACACCATGCATCGATGCACT-CATGGTT-TATTAAAAC
1 TCGAATGCATTTAGTGTACCGATGCACACACCATGCATCGATGCACTCCATGCTTGT-TTAAAAC
44377 A
65 A
* * * *
44378 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCATTCCATGCTTGTTTGAAACA
1 TCGAATGCATTTAGTGTACCGATGCACACACCATGCATCGATGCACTCCATGCTTGTTTAAAACA
* *
44443 TCGAATGTAATTAGTG
1 TCGAATGCATTTAGTG
44459 CACCAATGTA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
64 44 0.62
65 26 0.37
66 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTTAGTGTACCGATGCACACACCATGCATCGATGCACTCCATGCTTGTTTAAAACA
Found at i:49910 original size:23 final size:23
Alignment explanation
Indices: 49884--49930 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
49874 TGATACACCA
49884 TGAAGGTGCACCAATGCACTCCT
1 TGAAGGTGCACCAATGCACTCCT
* * *
49907 TGAATGTGCATCGATGCACTCCT
1 TGAAGGTGCACCAATGCACTCCT
49930 T
1 T
49931 TGAATATGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (23 bp):
TGAAGGTGCACCAATGCACTCCT
Found at i:51266 original size:24 final size:24
Alignment explanation
Indices: 51234--51279 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
51224 TCTTCCATAT
51234 GATGTATAAAAAATCTATGTACAC
1 GATGTATAAAAAATCTATGTACAC
*
51258 GATGTATAAAATATCTATGTAC
1 GATGTATAAAAAATCTATGTAC
51280 CATATCATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (24 bp):
GATGTATAAAAAATCTATGTACAC
Found at i:54371 original size:2 final size:2
Alignment explanation
Indices: 54364--54397 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
54354 ATTGAACTTA
54364 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
54398 TTGAATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:62255 original size:20 final size:19
Alignment explanation
Indices: 62226--62277 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
62216 TGATGCAATC
* *
62226 AGTATTGATACCGAAGGGGG
1 AGTATCGATACCGAA-GGGA
62246 AGTATCGATACCGAAGGGA
1 AGTATCGATACCGAAGGGA
62265 ATGTATCGATACC
1 A-GTATCGATACC
62278 ATTTGAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTATCGATACCGAAGGGA
Found at i:62330 original size:19 final size:19
Alignment explanation
Indices: 62302--62343 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
62292 GCAAAAATGA
62302 TATCGATACCATAGTAGAG
1 TATCGATACCATAGTAGAG
* *
62321 TATCGGTACCATAGTATAG
1 TATCGATACCATAGTAGAG
62340 TATC
1 TATC
62344 TGAGGAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (19 bp):
TATCGATACCATAGTAGAG
Found at i:62824 original size:45 final size:45
Alignment explanation
Indices: 62756--63547 Score: 619
Period size: 46 Copynumber: 16.8 Consensus size: 45
62746 CGAATGAACA
62756 AAATAATAATGCAT-ATGGATGCATTATAGGCATGAAAGGATGCCA-
1 AAATAA-AATGCATGATGGATGCATTA-AGGCATGAAAGGATGCCAT
* * *
62801 AAATAATAATTCATG-TGGGTGCATTATAAGCATGAAAGGATGCCA-
1 AAATAA-AATGCATGATGGATGCATTA-AGGCATGAAAGGATGCCAT
* * *
62846 AAATAATAATGCAT-ATGGGTGCATTATCGGCATGAAAGGATGTCAT
1 AAATAA-AATGCATGATGGATGCATTA-AGGCATGAAAGGATGCCAT
*
62892 AATTAAAATGCATGAACT-GATGCATTAAGGCATGAAAGGATGCCAT
1 AAATAAAATGCATG-A-TGGATGCATTAAGGCATGAAAGGATGCCAT
* * *
62938 AACTAAAATGCATGAACGGATGCATTAAGGCATGAAATGATGCCAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* *
62984 AACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* * *
63030 AATTAAAATGCATGAACGGATGTATTAAGGCATGAAAGGATGCCAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* * * * *
63076 AACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATTCTAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* * *
63122 AATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGTCAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* * * * * *
63168 AACTAAAATGCATGAACGAATGCATTACGGCATGAACGAATG-CATT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCA-T
* * *
63214 ACGTAATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCA
1 A---AAT-AAA--ATG-CATGA-T----GGA---------TGCATTAAGGCATGAAAGGATGCCA
63279 T
45 T
* **
63280 AATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* * * *
63326 AACTAAAATGCATGAACGTATGCATTAAGGCATGAAAGGGTGCCAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* ** *
63372 AATTAAAATGCATGAACAGATGCATTATCGGCATGAAAGGATGCCAT
1 AAATAAAATGCATG-ATGGATGCATTA-AGGCATGAAAGGATGCCAT
* * * * * *
63419 GATTAAAATGCATGAACGGATACATTAAGGCAAGAAATGATGCCAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* * * *
63465 AATTAAAATGCATGAACGGATGCGTTAAGGCATGAAAGGATGTCAT
1 AAATAAAATGCATG-ATGGATGCATTAAGGCATGAAAGGATGCCAT
* * * *
63511 GATTAAAATGGATGAAAGGATGCATTAATGG-ATGAAA
1 AAATAAAATGCATG-ATGGATGCATTAA-GGCATGAAA
63548 AGAGATCTAA
Statistics
Matches: 643, Mismatches: 71, Indels: 65
0.83 0.09 0.08
Matches are distributed among these distances:
45 90 0.14
46 452 0.70
47 52 0.08
48 1 0.00
49 2 0.00
50 3 0.00
52 4 0.01
53 3 0.00
55 1 0.00
59 3 0.00
60 4 0.01
62 3 0.00
63 2 0.00
66 21 0.03
67 2 0.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.23
Consensus pattern (45 bp):
AAATAAAATGCATGATGGATGCATTAAGGCATGAAAGGATGCCAT
Found at i:62926 original size:20 final size:20
Alignment explanation
Indices: 62901--63361 Score: 157
Period size: 20 Copynumber: 20.4 Consensus size: 20
62891 TAATTAAAAT
*
62901 GCATGAACTGATGCATTAAG
1 GCATGAACGGATGCATTAAG
* *
62921 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATG-CAT---T--AAG
62947 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGCATTAAG
** *
62967 GCATGAAATGATGCCATAACTAAAAT
1 GCATGAACGGATG-CAT---T--AAG
62993 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGCATTAAG
* *
63013 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAACGGATG-C---ATT--AAG
*
63039 GCATGAACGGATGTATTAAG
1 GCATGAACGGATGCATTAAG
* *
63059 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATG-CAT---T--AAG
*
63085 GCATGAACGAATGCATTAAG
1 GCATGAACGGATGCATTAAG
* * *
63105 GCATGAAAGGATTCTATAATTAAAAT
1 GCATGAACGGATGC----ATT--AAG
63131 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGCATTAAG
* *
63151 GCATGAAAGGATGTCATAACTAAAAT
1 GCATGAACGGATG-CAT---T--AAG
* *
63177 GCATGAACGAATGCATTACG
1 GCATGAACGGATGCATTAAG
* *
63197 GCATGAACGAATGCATTACG
1 GCATGAACGGATGCATTAAG
** * *
63217 TAATGAAAGGATGTCATAACTAAAAT
1 GCATGAACGGATG-CAT---T--AAG
63243 GCATGAACGGATGCATTAAG
1 GCATGAACGGATGCATTAAG
* *
63263 GCATGAAAGGATGCCATAATTAAAAT
1 GCATGAACGGATG-C---ATT--AAG
*
63289 GCATGAACAGATGCATTAAG
1 GCATGAACGGATGCATTAAG
* *
63309 GCATGAAAGGATGCCATAACTAAAAT
1 GCATGAACGGATG-CAT---T--AAG
*
63335 GCATGAACGTATGCATTAAG
1 GCATGAACGGATGCATTAAG
63355 GCATGAA
1 GCATGAA
63362 AGGGTGCCAT
Statistics
Matches: 331, Mismatches: 56, Indels: 108
0.67 0.11 0.22
Matches are distributed among these distances:
20 145 0.44
21 19 0.06
22 15 0.05
24 15 0.05
25 19 0.06
26 118 0.36
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (20 bp):
GCATGAACGGATGCATTAAG
Found at i:63201 original size:158 final size:158
Alignment explanation
Indices: 63039--63361 Score: 529
Period size: 158 Copynumber: 2.0 Consensus size: 158
63029 TAATTAAAAT
* * *
63039 GCATGAACGGATGTATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
1 GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
* * * *
63104 GGCATGAAAGGATTCTATAATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGTCATA
66 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
*
63169 ACTAAAATGCATGAACGAATGCATTACG
131 ACTAAAATGCATGAACGAATGCATTAAG
* * * *
63197 GCATGAACGAATGCATTACGTAATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
63262 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
66 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
*
63327 ACTAAAATGCATGAACGTATGCATTAAG
131 ACTAAAATGCATGAACGAATGCATTAAG
63355 GCATGAA
1 GCATGAA
63362 AGGGTGCCAT
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 152 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (158 bp):
GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGAATGCATTAA
GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
ACTAAAATGCATGAACGAATGCATTAAG
Found at i:63212 original size:66 final size:66
Alignment explanation
Indices: 63131--63269 Score: 224
Period size: 66 Copynumber: 2.1 Consensus size: 66
63121 TAATTAAAAT
* * *
63131 GCATGAACGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAACGAATGCATTAC
1 GCATGAACGAATGCATTAAGGAATGAAAGGATGTCATAACTAAAATGCATGAACGAATGCATTAA
63196 G
66 G
* * *
63197 GCATGAACGAATGCATTACGTAATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTAAGGAATGAAAGGATGTCATAACTAAAATGCATGAACGAATGCATTAA
63262 G
66 G
63263 GCATGAA
1 GCATGAA
63270 AGGATGCCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (66 bp):
GCATGAACGAATGCATTAAGGAATGAAAGGATGTCATAACTAAAATGCATGAACGAATGCATTAA
G
Found at i:63243 original size:204 final size:205
Alignment explanation
Indices: 62993--63408 Score: 658
Period size: 204 Copynumber: 2.0 Consensus size: 205
62983 TAACTAAAAT
* * * *
62993 GCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACGGATGTATTAA
1 GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
* *
63058 GGCATGAAAGGATGCCATAACTAAAATGCATGAAC-GAATGCATTAAGGCATGAAAGGATTCTAT
66 GGCATGAAAGGATGCCATAACTAAAATGCATGAACAG-ATGCATTAAGGCATGAAAGGATGCCAT
* *
63122 AATTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGTCATAACTAAAATGCATGAAC-G
130 AACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACAG
63186 AATGCATTA-CG
195 -ATGCATTATCG
* * *
63197 GCATGAACGAATGCATTACGTAATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
*
63262 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
66 GGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
* * *
63327 ACTAAAATGCATGAACGTATGCATTAAGGCATGAAAGGGTGCCATAATTAAAATGCATGAACAGA
131 ACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACAGA
63392 TGCATTATCG
196 TGCATTATCG
63402 GCATGAA
1 GCATGAA
63409 AGGATGCCAT
Statistics
Matches: 194, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
204 183 0.94
205 11 0.06
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (205 bp):
GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
GGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
ACTAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATGCCATAACTAAAATGCATGAACAGA
TGCATTATCG
Found at i:63255 original size:26 final size:24
Alignment explanation
Indices: 63219--63535 Score: 126
Period size: 26 Copynumber: 13.6 Consensus size: 24
63209 GCATTACGTA
63219 ATGAAAGGATGTCATAACTAAAATGC
1 ATGAAAGGATG-CATAA-TAAAATGC
* *
63245 ATGAACGGATGCAT--T--AAGGC
1 ATGAAAGGATGCATAATAAAATGC
63265 ATGAAAGGATGCCATAATTAAAATGC
1 ATGAAAGGATG-CATAA-TAAAATGC
*
63291 ATGAACA-GATGCAT--T--AAGGC
1 ATGAA-AGGATGCATAATAAAATGC
63311 ATGAAAGGATGCCATAACTAAAATGC
1 ATGAAAGGATG-CATAA-TAAAATGC
* * *
63337 ATGAACGTATGCAT--T--AAGGC
1 ATGAAAGGATGCATAATAAAATGC
*
63357 ATGAAAGGGTGCCATAATTAAAATGC
1 ATGAAAGGATG-CATAA-TAAAATGC
***
63383 ATGAACA-GATGCAT--T-ATCGGC
1 ATGAA-AGGATGCATAATAAAATGC
*
63404 ATGAAAGGATGCCATGATTAAAATGC
1 ATGAAAGGATG-CAT-AATAAAATGC
* * *
63430 ATGAACGGATACAT--T--AAGGC
1 ATGAAAGGATGCATAATAAAATGC
* *
63450 AAGAAATGATGCCATAATTAAAATGC
1 ATGAAAGGATG-CATAA-TAAAATGC
* * *
63476 ATGAACGGATGCGT--T--AAGGC
1 ATGAAAGGATGCATAATAAAATGC
* *
63496 ATGAAAGGATGTCATGATTAAAATGG
1 ATGAAAGGATG-CAT-AATAAAATGC
63522 ATGAAAGGATGCAT
1 ATGAAAGGATGCAT
63536 TAATGGATGA
Statistics
Matches: 215, Mismatches: 37, Indels: 79
0.65 0.11 0.24
Matches are distributed among these distances:
19 1 0.00
20 65 0.30
21 26 0.12
22 9 0.04
24 5 0.02
25 21 0.10
26 86 0.40
27 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (24 bp):
ATGAAAGGATGCATAATAAAATGC
Found at i:63287 original size:112 final size:112
Alignment explanation
Indices: 63085--63315 Score: 367
Period size: 112 Copynumber: 2.1 Consensus size: 112
63075 TAACTAAAAT
* *
63085 GCATGAACGAATGCATTAAGGCATGAAAGGATTCTATAATTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTAAGGAATGAAAGGATTCTATAACTAAAATGCATGAACGGATGCATTAA
* *
63150 GGCATGAAAGGATGTCATAACTAAAATGCATGAAC-GAATGCATTACG
66 GGCATGAAAGGATGCCATAACTAAAATGCATGAACAG-ATGCATTAAG
* *
63197 GCATGAACGAATGCATTACGTAATGAAAGGATGTC-ATAACTAAAATGCATGAACGGATGCATTA
1 GCATGAACGAATGCATTAAGGAATGAAAGGAT-TCTATAACTAAAATGCATGAACGGATGCATTA
*
63261 AGGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAG
65 AGGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCATTAAG
63309 GCATGAA
1 GCATGAA
63316 AGGATGCCAT
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
112 107 0.97
113 3 0.03
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.23
Consensus pattern (112 bp):
GCATGAACGAATGCATTAAGGAATGAAAGGATTCTATAACTAAAATGCATGAACGGATGCATTAA
GGCATGAAAGGATGCCATAACTAAAATGCATGAACAGATGCATTAAG
Found at i:63342 original size:250 final size:251
Alignment explanation
Indices: 62947--63450 Score: 821
Period size: 250 Copynumber: 2.0 Consensus size: 251
62937 TAACTAAAAT
* * *
62947 GCATGAACGGATGCATTAAGGCATGAAATGATGCCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
* *
63012 GGCATGAAAGGATGCCATAATTAAAATGCATGAACGGATGTATTAAGGCATGAAAGGATGCCATA
66 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
* * *
63077 ACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATTCTATAATTAAAATGCATGAACGGA
131 ACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACAGA
* * *
63142 TGCATTA-AGGCATGAAAGGATGTCATAACTAAAATGCATGAACGAATGCATTACG
196 TGCATTATAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATACATTAAG
* * *
63197 GCATGAACGAATGCATTACGTAATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
63262 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
66 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
* *
63327 ACTAAAATGCATGAACGTATGCATTAAGGCATGAAAGGGTGCCATAATTAAAATGCATGAACAGA
131 ACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACAGA
* * * *
63392 TGCATTATCGGCATGAAAGGATGCCATGATTAAAATGCATGAACGGATACATTAAG
196 TGCATTATAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATACATTAAG
63448 GCA
1 GCA
63451 AGAAATGATG
Statistics
Matches: 233, Mismatches: 20, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
250 189 0.81
251 44 0.19
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (251 bp):
GCATGAACGAATGCATTAAGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATGCATTAA
GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
ACTAAAATGCATGAACGAATGCATTAAGGCATGAAAGGATGCCATAATTAAAATGCATGAACAGA
TGCATTATAGGCATGAAAGGATGCCATAACTAAAATGCATGAACGAATACATTAAG
Found at i:63447 original size:185 final size:184
Alignment explanation
Indices: 63197--63547 Score: 517
Period size: 185 Copynumber: 1.9 Consensus size: 184
63187 ATGCATTACG
* * *
63197 GCATGAACGAATGCATTACGTAATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTACGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
*
63262 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
66 GGCAAGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
* *
63327 ACTAAAATGCATGAACGTATGCATTAA-GGCATGAAAGGGTGCCATAATTAAAAT
131 ACTAAAATGCATGAAAGGATGCATTAATGG-ATGAAAGGGTGCCATAATTAAAAT
* * *
63381 GCATGAAC-AGATGCATTATCGGCATGAAAGGATGCCATGATTAAAATGCATGAACGGATACATT
1 GCATGAACGA-ATGCATTA-CGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATT
* * * *
63445 AAGGCAAGAAATGATGCCATAATTAAAATGCATGAACGGATGCGTTAAGGCATGAAAGGATGTCA
64 AAGGCAAGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCA
* * *
63510 TGATTAAAATGGATGAAAGGATGCATTAATGGATGAAA
129 TAACTAAAATGCATGAAAGGATGCATTAATGGATGAAA
63548 AGAGATCTAA
Statistics
Matches: 148, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
183 1 0.01
184 16 0.11
185 129 0.87
186 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.23
Consensus pattern (184 bp):
GCATGAACGAATGCATTACGGAATGAAAGGATGCCATAACTAAAATGCATGAACGGATACATTAA
GGCAAGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
ACTAAAATGCATGAAAGGATGCATTAATGGATGAAAGGGTGCCATAATTAAAAT
Found at i:63465 original size:139 final size:138
Alignment explanation
Indices: 63197--63547 Score: 490
Period size: 139 Copynumber: 2.5 Consensus size: 138
63187 ATGCATTACG
* ** * *
63197 GCATGAACGAATGCATTACGTAATGAAAGGATGTCATAACTAAAATGCATGAACGGATGCATTAA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGTCATAATTAAAATGCATGAACAGATGCATTAA
* *
63262 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATGCATTAAGGCATGAAAGGATGCCATA
66 GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATACATTAAGGCAAGAAAGGATGCCATA
63327 ACTAAAAT
131 ACTAAAAT
* * *
63335 GCATGAACGTATGCATTAAGGCATGAAAGGGTGCCATAATTAAAATGCATGAACAGATGCATTAT
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGTCATAATTAAAATGCATGAACAGATGCATTA-
* * * *
63400 CGGCATGAAAGGATGCCATGATTAAAATGCATGAACGGATACATTAAGGCAAGAAATGATGCCAT
65 AGGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATACATTAAGGCAAGAAAGGATGCCAT
*
63465 AATTAAAAT
130 AACTAAAAT
* * * *
63474 GCATGAACGGATGCGTTAAGGCATGAAAGGATGTCATGATTAAAATGGATGAA-AGGATGCATTA
1 GCATGAACGAATGCATTAAGGCATGAAAGGATGTCATAATTAAAATGCATGAACA-GATGCATTA
63538 ATGG-ATGAAA
65 A-GGCATGAAA
63548 AGAGATCTAA
Statistics
Matches: 188, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
138 63 0.34
139 125 0.66
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.23
Consensus pattern (138 bp):
GCATGAACGAATGCATTAAGGCATGAAAGGATGTCATAATTAAAATGCATGAACAGATGCATTAA
GGCATGAAAGGATGCCATAATTAAAATGCATGAACAGATACATTAAGGCAAGAAAGGATGCCATA
ACTAAAAT
Found at i:68475 original size:23 final size:23
Alignment explanation
Indices: 68449--68517 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
68439 CACCACAGCT
68449 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
68472 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * * *
68495 CGTAGAATTACACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
68518 TAATAATGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:68702 original size:103 final size:103
Alignment explanation
Indices: 68535--68748 Score: 392
Period size: 103 Copynumber: 2.1 Consensus size: 103
68525 GTCCATAAGG
* *
68535 ACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
68600 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
*
68638 ACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACT
1 ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
*
68703 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGG
66 TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
68741 ACCACATA
1 ACCACATA
68749 GACCCTCGAC
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
ACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACT
TCACACATGTTCCAAAGAATACATATATGTCCCGAAGA
Found at i:69538 original size:19 final size:20
Alignment explanation
Indices: 69501--69538 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69491 TCTTTTTTTA
*
69501 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
69521 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
69539 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:70672 original size:6 final size:6
Alignment explanation
Indices: 70472--71257 Score: 752
Period size: 6 Copynumber: 127.3 Consensus size: 6
70462 ATGAATCTGA
70472 AACATG AAACATG AAACAT- AACAT- -ACATG AAACATG AAACATG AAC-TG
1 AACATG -AACATG -AACATG AACATG AACATG -AACATG -AACATG AACATG
70520 AAACATG AAACATG AAACATG AAACATG AAACATG AAACATG AAACATG
1 -AACATG -AACATG -AACATG -AACATG -AACATG -AACATG -AACATG
70569 AAACATG AAACATG AAACATG AAACATG AAACATG AAACATG AAACATG
1 -AACATG -AACATG -AACATG -AACATG -AACATG -AACATG -AACATG
70618 AAACATG AAACATG AAACATG AAACATG AAACATG AAACATG AAACATG
1 -AACATG -AACATG -AACATG -AACATG -AACATG -AACATG -AACATG
70667 AACATG AAACATG AAACATG AAACATG AAACATG AACATG AACATG AAACATG
1 AACATG -AACATG -AACATG -AACATG -AACATG AACATG AACATG -AACATG
70720 AAC-TG AACATG AAACATG AACATG AAACATG AAACATG AAACATG AACATG
1 AACATG AACATG -AACATG AACATG -AACATG -AACATG -AACATG AACATG
70771 AAACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
1 -AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* *
70820 AACATG AACATG AACATG AACATG AACATG AACATG AATATG AATATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* *
70868 AATATG AATATG -ACATG AACATG AACATG AACATG AACATG AAC-TG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
70914 AACATG -ACATG AACATG AACATG -ACATG AACATG AACATG AACATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* *
70960 AACATG AACATG AACATG AATATG AACATG AACATG AACATG AATATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* * * * * *
71008 AACATG AACATG AATATG AATATG AATATG AATATG AATATG AATATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* * * * * * * *
71056 AATATG AATATG AATATG AATATG AATATG AATATG AATAT- AATATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* * * * * * * *
71103 AATATG AA-TTG AATATG -ATATG AATATG CA-ATG AATATG AATATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* * * * * * * *
71148 AATATG AATATG AATATG AATATG AATATG AATATG AATATG AATATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* * * * * * * *
71196 AATATG AATATG AATATG AATATG AATATG AATATG AATATG AATATG
1 AACATG AACATG AACATG AACATG AACATG AACATG AACATG AACATG
* *
71244 AATATG AATATG AA
1 AACATG AACATG AA
71258 AAGTGAAAGT
Statistics
Matches: 749, Mismatches: 11, Indels: 39
0.94 0.01 0.05
Matches are distributed among these distances:
4 4 0.01
5 49 0.07
6 465 0.62
7 231 0.31
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (6 bp):
AACATG
Found at i:71303 original size:22 final size:22
Alignment explanation
Indices: 71249--71308 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
71239 ATATGAATAT
* *
71249 GAATATGAAAAGTGAAAGTATT
1 GAATATGAAATGTGAAAGTATG
* *
71271 GAACATGAAATGTGAAATTATG
1 GAATATGAAATGTGAAAGTATG
* *
71293 GATTATGAAATTTGAA
1 GAATATGAAATGTGAA
71309 TATGTGATCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.30
Consensus pattern (22 bp):
GAATATGAAATGTGAAAGTATG
Found at i:73876 original size:14 final size:13
Alignment explanation
Indices: 73849--73878 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
73839 AGAATCCTTT
73849 AAAGAAAATAAAG
1 AAAGAAAATAAAG
73862 AAAGAAAAGTAAAG
1 AAAGAAAA-TAAAG
73876 AAA
1 AAA
73879 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (13 bp):
AAAGAAAATAAAG
Found at i:81412 original size:19 final size:20
Alignment explanation
Indices: 81379--81418 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
81369 ACCGGTTTTC
81379 AACCGGTTCTGACCGGTCTG
1 AACCGGTTCTGACCGGTCTG
81399 AACCGGTT-TGACCGGTCTG
1 AACCGGTTCTGACCGGTCTG
81418 A
1 A
81419 CCCGACCCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (20 bp):
AACCGGTTCTGACCGGTCTG
Found at i:81419 original size:9 final size:9
Alignment explanation
Indices: 81380--81420 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
81370 CCGGTTTTCA
81380 ACCGGTTCTG
1 ACCGG-TCTG
81390 ACCGGTCTG
1 ACCGGTCTG
*
81399 AACCGGTTTG
1 -ACCGGTCTG
81409 ACCGGTCTG
1 ACCGGTCTG
81418 ACC
1 ACC
81421 CGACCCGACC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:81438 original size:17 final size:17
Alignment explanation
Indices: 81416--81476 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 17
81406 TTGACCGGTC
81416 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
81433 TGACCCGACCCGACCCGACCGT
1 T-----GACCCGACCCGACCGT
*
81455 TGACCCGACTCGACCGT
1 TGACCCGACCCGACCGT
81472 TGACC
1 TGACC
81477 GTTGACCGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 21 0.55
22 17 0.45
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:81443 original size:22 final size:22
Alignment explanation
Indices: 81417--81483 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
81407 TGACCGGTCT
81417 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
81439 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
* *
81461 GACTCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
81484 GTTGACTTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 30 0.73
24 11 0.27
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:88688 original size:9 final size:9
Alignment explanation
Indices: 88674--88723 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
88664 CGGGTTTTCA
88674 ACCGGTTTG
1 ACCGGTTTG
*
88683 ACCGGTTTCA
1 ACCGGTTT-G
*
88693 ACCGGTTCG
1 ACCGGTTTG
88702 AACCGGTTTG
1 -ACCGGTTTG
*
88712 ACCGGTCTG
1 ACCGGTTTG
88721 ACC
1 ACC
88724 CGACCCGACC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 19 0.56
10 15 0.44
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:88693 original size:19 final size:19
Alignment explanation
Indices: 88669--88723 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
88659 TTAACCGGGT
88669 TTTCAACCGGTTTGACCGG
1 TTTCAACCGGTTTGACCGG
*
88688 TTTCAACCGGTTCGAACCGG
1 TTTCAACCGGTTTG-ACCGG
* *
88708 TTT-GACCGGTCTGACC
1 TTTCAACCGGTTTGACC
88724 CGACCCGACC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 3 0.10
19 20 0.65
20 8 0.26
ACGTcount: A:0.16, C:0.29, G:0.25, T:0.29
Consensus pattern (19 bp):
TTTCAACCGGTTTGACCGG
Found at i:88698 original size:10 final size:10
Alignment explanation
Indices: 88656--88710 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
88646 TCTGGAAACT
88656 GGTTT-AACC
1 GGTTTCAACC
88665 GGGTTTTCAACC
1 -GG-TTTCAACC
*
88677 GGTTT-GACC
1 GGTTTCAACC
88686 GGTTTCAACC
1 GGTTTCAACC
88696 GG-TTCGAACC
1 GGTTTC-AACC
88706 GGTTT
1 GGTTT
88711 GACCGGTCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
9 11 0.29
10 16 0.42
11 7 0.18
12 4 0.11
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (10 bp):
GGTTTCAACC
Found at i:88744 original size:17 final size:17
Alignment explanation
Indices: 88719--88779 Score: 77
Period size: 17 Copynumber: 3.3 Consensus size: 17
88709 TTGACCGGTC
88719 TGACCCGACCCGACCGTT
1 TGACCCGACCCGACCG-T
88737 GACTCGACCCGACCCGACCGT
1 ---T-GACCCGACCCGACCGT
88758 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
88775 TGACC
1 TGACC
88780 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
17 21 0.54
18 1 0.03
21 2 0.05
22 15 0.38
ACGTcount: A:0.18, C:0.46, G:0.23, T:0.13
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:88746 original size:22 final size:22
Alignment explanation
Indices: 88720--88786 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
88710 TGACCGGTCT
*
88720 GACCCGACCCGACCGTTGACTC
1 GACCCGACCCGACCGTTGACCC
88742 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
*
88764 GACCCGACCGTTGACCGTTGACC
1 GACCCGACC--CGACCGTTGACC
88787 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
22 30 0.73
24 11 0.27
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.13
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:88779 original size:7 final size:7
Alignment explanation
Indices: 88769--88799 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
88759 GACCCGACCC
88769 GACCGTT
1 GACCGTT
88776 GACCGTT
1 GACCGTT
88783 GACCGTT
1 GACCGTT
88790 GACCGTT
1 GACCGTT
88797 GAC
1 GAC
88800 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:92215 original size:18 final size:18
Alignment explanation
Indices: 92171--92216 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
92161 GATTTGGTTG
* *
92171 AAACTATTAGGATTACTG
1 AAACTATTAGGAATACTA
*
92189 AAA-TATTAGGAATCCTA
1 AAACTATTAGGAATACTA
92206 AAACTATTAGG
1 AAACTATTAGG
92217 GTTGCTGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.30
Consensus pattern (18 bp):
AAACTATTAGGAATACTA
Found at i:95085 original size:47 final size:44
Alignment explanation
Indices: 94992--95108 Score: 164
Period size: 47 Copynumber: 2.6 Consensus size: 44
94982 GTAAGTATGC
94992 AAATAAGCTTACGAGCTTAT-GAATAATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGATA
* * *
95035 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--T-AATGGCAAGTATATTGATA
*
95082 AAATAAGCTTACGAGCTTATGGTATAA
1 AAATAAGCTTACGAGCTTATGGAATAA
95109 GTGGTAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
43 20 0.30
44 5 0.08
45 1 0.02
46 1 0.02
47 39 0.59
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGATA
Found at i:104604 original size:168 final size:169
Alignment explanation
Indices: 104295--104608 Score: 468
Period size: 168 Copynumber: 1.9 Consensus size: 169
104285 CGAGGACGAG
* * * *
104295 GAAGCTAAATATGGTGGCGGTGAGGCGAACGGAGTTCCGAGGCGGCCAGAATCATCCAAAATTCG
1 GAAGCTAAATATGGTGGCGGTGAGGCGAACGGAGGTCCAAGGCGGCCAGAATCATCCAAAATCCA
* *
104360 AGGCATCGGGGTGGGTTTTCGACGAAACTTCAAGGGCTCGATTCCGGCGAACGGCGACGGATATG
66 AGGCATCGAGATGGGTTTTCGACGAAACTTCAAGGGCTCGATTCCGGCGAACGGCGACGGATATG
104425 CACGAATTGTTTTGGGAGTTTTGAGATGACTGTGATGAA
131 CACGAATTGTTTTGGGAGTTTTGAGATGACTGTGATGAA
* * * * *
104464 GAAGCTAACTATGGTTGCGGTGAGGCGAACGGAGGTCCAAGGCGGTCGGAATCGTCCAAAATCCA
1 GAAGCTAAATATGGTGGCGGTGAGGCGAACGGAGGTCCAAGGCGGCCAGAATCATCCAAAATCCA
* * * * * *
104529 AGGCATC-AGATGGGTTTTTGACTAAACTTCAAGGGCTCGATTCCGGCGAACGTCGACTGCTATT
66 AGGCATCGAGATGGGTTTTCGACGAAACTTCAAGGGCTCGATTCCGGCGAACGGCGACGGATATG
104593 CACGAATTGTTTTGGG
131 CACGAATTGTTTTGGG
104609 GGCTTTGATC
Statistics
Matches: 128, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
168 65 0.51
169 63 0.49
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.23
Consensus pattern (169 bp):
GAAGCTAAATATGGTGGCGGTGAGGCGAACGGAGGTCCAAGGCGGCCAGAATCATCCAAAATCCA
AGGCATCGAGATGGGTTTTCGACGAAACTTCAAGGGCTCGATTCCGGCGAACGGCGACGGATATG
CACGAATTGTTTTGGGAGTTTTGAGATGACTGTGATGAA
Found at i:105699 original size:169 final size:169
Alignment explanation
Indices: 105385--105699 Score: 413
Period size: 169 Copynumber: 1.9 Consensus size: 169
105375 TCAAAGCCCC
* * * * * *
105385 AAAACAATTCGTGGATAGTCGTCGCTGTTTGCAGGAATCGAGCTCTTGAAGTTTCACCGAAAATC
1 AAAACAATTCGTGCATAGTCGTCGCCGTTCGCAGGAATCGAGCCCTTAAAGTTTCACCGAAAACC
* * * *
105450 CACCCCGACGCCTTGGATTTTGGACGATTCTGGTCGCCTCGAACATCCGTTCGCCTCATCGCAAC
66 CACCCCGACACCTCGGATTTTAGACGATTCTGGTCGCCTCGAACATCCGTTCGCCTCACCGCAAC
*
105515 CATAGTTATCTTCCTCTTCACCGTCATCTCAAAACTCCT
131 CATAGTTAGCTTCCTCTTCACCGTCATCTCAAAACTCCT
* *
105554 AAAACAATTCGTGCATA-TCTGTCGCCGTTCGCCGGAATCGAGCCCTTAAAGTTTCGCCGAAAAC
1 AAAACAATTCGTGCATAGTC-GTCGCCGTTCGCAGGAATCGAGCCCTTAAAGTTTCACCGAAAAC
* *
105618 CCACCCCGACACCTCGGATTTTAGACGATT-TCGGTCGCCTC-AGACCTCCGTTCGCGTCACCGT
65 CCACCCCGACACCTCGGATTTTAGACGATTCT-GGTCGCCTCGA-ACATCCGTTCGCCTCACCG-
* *
105681 C-ATCATATTTAGCTTCCTC
127 CAACCATAGTTAGCTTCCTC
105700 GTTGTCTTCC
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
168 4 0.03
169 120 0.96
170 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (169 bp):
AAAACAATTCGTGCATAGTCGTCGCCGTTCGCAGGAATCGAGCCCTTAAAGTTTCACCGAAAACC
CACCCCGACACCTCGGATTTTAGACGATTCTGGTCGCCTCGAACATCCGTTCGCCTCACCGCAAC
CATAGTTAGCTTCCTCTTCACCGTCATCTCAAAACTCCT
Found at i:110608 original size:12 final size:11
Alignment explanation
Indices: 110566--110620 Score: 65
Period size: 11 Copynumber: 4.7 Consensus size: 11
110556 AAAAATTCAA
*
110566 AAGCTCGATTG
1 AAGCTCGATTC
110577 AAGCTCAGAATTC
1 AAGCTC-G-ATTC
*
110590 AAGCTCGATTT
1 AAGCTCGATTC
110601 AGAGCTCGATTC
1 A-AGCTCGATTC
110613 AAGCTCGA
1 AAGCTCGA
110621 CGGGTTAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 17 0.45
12 12 0.32
13 9 0.24
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (11 bp):
AAGCTCGATTC
Found at i:110616 original size:23 final size:24
Alignment explanation
Indices: 110566--110620 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
110556 AAAAATTCAA
110566 AAGCTCGATTGAAGCTCAGAATTC
1 AAGCTCGATTGAAGCTCAGAATTC
*
110590 AAGCTCGATTTAGAGCTC-G-ATTC
1 AAGCTCGATTGA-AGCTCAGAATTC
110613 AAGCTCGA
1 AAGCTCGA
110621 CGGGTTAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 12 0.41
24 12 0.41
25 5 0.17
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (24 bp):
AAGCTCGATTGAAGCTCAGAATTC
Found at i:112697 original size:7 final size:7
Alignment explanation
Indices: 112674--112725 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
112664 GGCTTAAGGA
112674 TTAGGGT
1 TTAGGGT
**
112681 TTAGTAT
1 TTAGGGT
*
112688 TTATGGT
1 TTAGGGT
112695 TTAGGGT
1 TTAGGGT
**
112702 TTAGTAT
1 TTAGGGT
*
112709 TTATGGT
1 TTAGGGT
112716 TTAGGGT
1 TTAGGGT
112723 TTA
1 TTA
112726 ATGCTTAGAA
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (7 bp):
TTAGGGT
Found at i:112700 original size:21 final size:21
Alignment explanation
Indices: 112674--112725 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
112664 GGCTTAAGGA
112674 TTAGGGTTTAGTATTTATGGT
1 TTAGGGTTTAGTATTTATGGT
112695 TTAGGGTTTAGTATTTATGGT
1 TTAGGGTTTAGTATTTATGGT
112716 TTAGGGTTTA
1 TTAGGGTTTA
112726 ATGCTTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (21 bp):
TTAGGGTTTAGTATTTATGGT
Found at i:112744 original size:28 final size:27
Alignment explanation
Indices: 112713--112789 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 27
112703 TAGTATTTAT
*
112713 GGTTTAGGGTTTAATGCTTAGAAATTAG
1 GGTTTAGGGTTTAATGTTTAG-AATTAG
* * *
112741 GGTTTATGTTTTAGTGTTTATGAATTAG
1 GGTTTAGGGTTTAATGTTTA-GAATTAG
* *
112769 GGATTAGGGATTAATGTTTAG
1 GGTTTAGGGTTTAATGTTTAG
112790 GGTTTAAGAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
27 1 0.03
28 37 0.95
29 1 0.03
ACGTcount: A:0.26, C:0.01, G:0.29, T:0.44
Consensus pattern (27 bp):
GGTTTAGGGTTTAATGTTTAGAATTAG
Found at i:112747 original size:35 final size:37
Alignment explanation
Indices: 112707--112811 Score: 103
Period size: 35 Copynumber: 3.0 Consensus size: 37
112697 AGGGTTTAGT
*
112707 ATTTATGGTTTAGGGTTTAATG-CTTAGAAATTAGGG
1 ATTTATGGTTTAGGGTTTAATGAATTAGAAATTAGGG
* * **
112743 -TTTATGTTTTAGTGTTT-ATGAATTAGGGATTAGGG
1 ATTTATGGTTTAGGGTTTAATGAATTAGAAATTAGGG
* * *
112778 ATTAAT-GTTTAGGGTTTAA-GATTTAGAGATTAGG
1 ATTTATGGTTTAGGGTTTAATGAATTAGAAATTAGG
112812 TATTAGGGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
34 3 0.05
35 48 0.86
36 5 0.09
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.44
Consensus pattern (37 bp):
ATTTATGGTTTAGGGTTTAATGAATTAGAAATTAGGG
Found at i:112811 original size:42 final size:42
Alignment explanation
Indices: 112764--112853 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 42
112754 GTGTTTATGA
112764 ATTAGGGATTAGGGATTAAT-GTTTAGGGTTTAAGATTTAGAG
1 ATTAGGGATTAGGGATT-ATGGTTTAGGGTTTAAGATTTAGAG
* * * *
112806 ATTAGGTATTAGGGATTATGGTTTAGGTTTTTAGTTTTAGAG
1 ATTAGGGATTAGGGATTATGGTTTAGGGTTTAAGATTTAGAG
*
112848 TTTAGG
1 ATTAGG
112854 ATTTATTACA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.05
42 40 0.95
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (42 bp):
ATTAGGGATTAGGGATTATGGTTTAGGGTTTAAGATTTAGAG
Found at i:112831 original size:14 final size:14
Alignment explanation
Indices: 112772--112832 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
112762 GAATTAGGGA
112772 TTAGGGATTAAT-GT
1 TTAGGGATT-ATGGT
* * *
112786 TTAGGGTTTAAGAT
1 TTAGGGATTATGGT
*
112800 TTAGAGATTA-GGT
1 TTAGGGATTATGGT
112813 ATTAGGGATTATGGT
1 -TTAGGGATTATGGT
112828 TTAGG
1 TTAGG
112833 TTTTTAGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
13 3 0.08
14 31 0.84
15 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (14 bp):
TTAGGGATTATGGT
Found at i:117743 original size:25 final size:26
Alignment explanation
Indices: 117715--117763 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
117705 TTAGCATATT
117715 AAAAACAAAACTTGAAAA-TAAAAGA
1 AAAAACAAAACTTGAAAAGTAAAAGA
*
117740 AAAAAGAAAACTTGAAAAGTAAAA
1 AAAAACAAAACTTGAAAAGTAAAA
117764 AGAGAAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.12
Consensus pattern (26 bp):
AAAAACAAAACTTGAAAAGTAAAAGA
Found at i:118853 original size:9 final size:9
Alignment explanation
Indices: 118839--118865 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
118829 ACAATATCTT
118839 TTTTTTTTC
1 TTTTTTTTC
118848 TTTTTTTTC
1 TTTTTTTTC
118857 TTTTTTTTC
1 TTTTTTTTC
118866 AAACTGCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:121487 original size:39 final size:40
Alignment explanation
Indices: 121438--121519 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 40
121428 GATAGGGGTA
* *
121438 GGGTCTACAGTATAGT-AAAAGGTAGAGGGTTGAGGGATG
1 GGGTCCACAGTATAGTAAAAAGGGAGAGGGTTGAGGGATG
*
121477 GGGTCCACAGTATAGTAAAAAGGGAGAGGGTTGAGGGGTG
1 GGGTCCACAGTATAGTAAAAAGGGAGAGGGTTGAGGGATG
121517 GGG
1 GGG
121520 CGACAGAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.38
40 24 0.62
ACGTcount: A:0.29, C:0.06, G:0.45, T:0.20
Consensus pattern (40 bp):
GGGTCCACAGTATAGTAAAAAGGGAGAGGGTTGAGGGATG
Found at i:128026 original size:20 final size:21
Alignment explanation
Indices: 127996--128036 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
127986 AGAAGTTGGG
127996 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
128017 GCCT-ATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
128037 TATACAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:128866 original size:20 final size:20
Alignment explanation
Indices: 128772--129140 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
128762 GATTTTCCAT
* ** *
128772 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
128792 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
128812 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
128832 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
128852 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
128872 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
128892 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
128912 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
128932 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
128952 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
128972 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
128992 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
129012 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
129032 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
129052 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
129072 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
129092 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
129112 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
129132 AATCACAAC
1 AATCGCAAC
129141 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:129853 original size:24 final size:24
Alignment explanation
Indices: 129814--129860 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
129804 AAATTTGGTC
129814 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
129838 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
129861 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:130052 original size:12 final size:12
Alignment explanation
Indices: 130035--130059 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
130025 ATATAATCCT
130035 GAAGAAGAAAAA
1 GAAGAAGAAAAA
130047 GAAGAAGAAAAA
1 GAAGAAGAAAAA
130059 G
1 G
130060 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:132384 original size:19 final size:19
Alignment explanation
Indices: 132362--132687 Score: 405
Period size: 19 Copynumber: 18.4 Consensus size: 19
132352 CGGAAAATAC
*
132362 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
132381 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
132395 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
132415 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
132429 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
132448 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
132467 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
132481 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
132500 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
132519 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
132533 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
132552 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
132571 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
132590 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
132609 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
132628 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
132642 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
132661 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
132680 AATCGCAA
1 AATCGCAA
132688 CGAGATAATC
Statistics
Matches: 269, Mismatches: 12, Indels: 52
0.81 0.04 0.16
Matches are distributed among these distances:
14 50 0.19
15 3 0.01
16 13 0.05
17 12 0.04
18 4 0.01
19 174 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:132449 original size:33 final size:34
Alignment explanation
Indices: 132362--132687 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
132352 CGGAAAATAC
* *
132362 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
132395 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
132429 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
132467 AATCGCAA--CG--A-GATAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
132500 AATCGCAATGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
132533 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
132571 AATCGCAATACGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
132609 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
132641 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
132680 AATCGCAA
1 AATCGCAA
132688 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 111 0.43
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 91 0.35
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:132623 original size:161 final size:157
Alignment explanation
Indices: 132390--132709 Score: 543
Period size: 161 Copynumber: 2.0 Consensus size: 157
132380 AAATCCCAAC
*
132390 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
* *
132455 ATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
66 ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
132520 ATCGCAACGAGAGAATCGCAATGCGAA
131 ATCGCAACGAGAGAATCGCAATGCGAA
*
132547 ATGAAAATCGCAATGC-GAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAAATGAAAA
1 ATGAAAATCGCAATGCGGAAATGAAAATCGC-A-ACG--A-GAAAATCGCAATGCGAAATGAAAA
132611 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
61 TCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAA
*
132676 TGAAAATCGCAACGAGATAATCGCAATGCGAA
126 TGAAAATCGCAACGAGAGAATCGCAATGCGAA
132708 AT
1 AT
132710 TATAAACGCA
Statistics
Matches: 153, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
156 13 0.08
157 17 0.11
158 3 0.02
160 1 0.01
161 119 0.78
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (157 bp):
ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCA
ATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAA
ATCGCAACGAGAGAATCGCAATGCGAA
Found at i:132725 original size:52 final size:52
Alignment explanation
Indices: 132390--132709 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
132380 AAATCCCAAC
132390 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
132443 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
132495 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
132547 ATGAAAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
132604 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
132656 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
132708 AT
1 AT
132710 TATAAACGCA
Statistics
Matches: 253, Mismatches: 9, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 182 0.72
53 18 0.07
54 3 0.01
55 3 0.01
56 2 0.01
57 45 0.18
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:132825 original size:19 final size:19
Alignment explanation
Indices: 132716--132817 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
132706 AAATTATAAA
132716 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
132735 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
132755 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
132771 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
132788 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
132807 CGCATTGCGAT
1 CGCATTGCGAT
132818 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:132942 original size:14 final size:14
Alignment explanation
Indices: 132923--132959 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
132913 CATCAATTAC
132923 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
132937 ACAAATCATCTTTT
1 ACAAATCAACTTTT
132951 ACAAATCAA
1 ACAAATCAA
132960 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:132987 original size:37 final size:37
Alignment explanation
Indices: 132940--133010 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
132930 AACTTTTACA
*
132940 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
132977 AATCAACTTTTACAAATCAATTAAACAATCAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAA
133011 AACAATCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
Found at i:133018 original size:37 final size:37
Alignment explanation
Indices: 132940--133019 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
132930 AACTTTTACA
* ***
132940 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
132977 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
133014 AATCAA
1 AATCAA
133020 TTAAACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
Found at i:134859 original size:19 final size:19
Alignment explanation
Indices: 134819--134953 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
134809 TAGTTTACTT
* *
134819 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
134839 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
134858 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
134877 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
134891 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
134910 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
134924 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
134943 TCGCAATGCGA
1 TCGCAACGCGA
134954 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:134894 original size:14 final size:14
Alignment explanation
Indices: 134875--134931 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
134865 GCGAAATGAA
*
134875 AATCGCAACGACAG
1 AATCGCAACGAAAG
134889 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
134906 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
134922 AATCGCAACG
1 AATCGCAACG
134932 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:134898 original size:33 final size:33
Alignment explanation
Indices: 134856--134948 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
134846 GCGAAACCAA
*
134856 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
134889 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
134922 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
134949 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:134945 original size:52 final size:54
Alignment explanation
Indices: 134819--134953 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
134809 TAGTTTACTT
*
134819 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
134877 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
134924 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
134954 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:134971 original size:19 final size:19
Alignment explanation
Indices: 134949--135077 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
134939 AAAATCGCAA
134949 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
134968 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
134982 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
135001 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
135015 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
135034 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
135053 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
135073 TGCGA
1 TGCGA
135078 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:134991 original size:33 final size:33
Alignment explanation
Indices: 134949--135040 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
134939 AAAATCGCAA
134949 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
134982 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
135015 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
135041 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:135279 original size:92 final size:93
Alignment explanation
Indices: 135121--135499 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
135111 TTGAATGGAT
135121 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
135186 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
135214 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
135278 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
135306 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
135370 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
135398 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
135463 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
135491 AAATTTACT
1 AAATTTACT
135500 AAGCAATCTA
Statistics
Matches: 283, Mismatches: 1, Indels: 4
0.98 0.00 0.01
Matches are distributed among these distances:
92 184 0.65
93 99 0.35
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:135434 original size:185 final size:185
Alignment explanation
Indices: 135121--135499 Score: 733
Period size: 185 Copynumber: 2.0 Consensus size: 185
135111 TTGAATGGAT
135121 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
135186 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
135251 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
135306 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
135370 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
*
135435 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
135491 AAATTTACT
1 AAATTTACT
135500 AAGCAATCTA
Statistics
Matches: 192, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 76 0.40
185 116 0.60
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:137220 original size:14 final size:14
Alignment explanation
Indices: 137201--137286 Score: 68
Period size: 14 Copynumber: 5.7 Consensus size: 14
137191 TTGAAATGAA
137201 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
137215 AATCGCAACGCGAG
1 AATCGCAACGAGAG
137229 -AT-GACAATCGCAGAG
1 AATCG-CAA-CG-AGAG
*
137244 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
137263 AATCGCAACGAGAG
1 AATCGCAACGAGAG
137277 AATCGCAACG
1 AATCGCAACG
137287 CGAAATGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
12 1 0.02
13 5 0.09
14 27 0.47
15 4 0.07
16 5 0.09
17 5 0.09
18 1 0.02
19 10 0.17
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:137238 original size:33 final size:33
Alignment explanation
Indices: 137193--137303 Score: 176
Period size: 33 Copynumber: 3.5 Consensus size: 33
137183 TCTTTTGGTT
137193 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
137226 GAGATGACAATCG---C-AGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
137255 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
137288 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
137304 TGCGATTTTG
Statistics
Matches: 70, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
29 26 0.37
30 1 0.01
32 1 0.01
33 42 0.60
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:137268 original size:19 final size:19
Alignment explanation
Indices: 137244--137308 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
137234 AATCGCAGAG
137244 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
137263 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
137277 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
137296 AATCGCAATGCGA
1 AATCGCAACGCGA
137309 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.45, C:0.22, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:137339 original size:14 final size:14
Alignment explanation
Indices: 137320--137374 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
137310 TTTGGTTTCG
137320 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
137334 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
137353 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
137367 CGTTGCGA
1 CGTTGCGA
137375 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:137537 original size:33 final size:33
Alignment explanation
Indices: 137495--137565 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
137485 AATACTAACT
*
137495 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
137528 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
137561 TGAAA
1 TGAAA
137566 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:137799 original size:22 final size:22
Alignment explanation
Indices: 137747--137801 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
137737 TGGTTGTGAG
**
137747 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
137769 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
137791 GGATTTCTTCG
1 GGATTTCTTCG
137802 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:137971 original size:20 final size:20
Alignment explanation
Indices: 137946--138139 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
137936 CTTTAAATAT
137946 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
137966 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
137988 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
138007 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
138027 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
138047 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
138067 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
138087 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
138107 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
138127 CGCGTTGCGATTT
1 CGCGTTGCGATTT
138140 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:138133 original size:60 final size:60
Alignment explanation
Indices: 137946--138139 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
137936 CTTTAAATAT
**
137946 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
138007 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
138067 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
138127 CGCGTTGCGATTT
1 CGCGTTGCGATTT
138140 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:138156 original size:21 final size:20
Alignment explanation
Indices: 138132--138208 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
138122 ATATTCGCGT
138132 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
138153 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
138173 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
138195 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
138209 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:138219 original size:20 final size:20
Alignment explanation
Indices: 138194--138245 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
138184 AAGAATCGCG
*
138194 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
138214 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
138234 TTGCGATTCTGG
1 TTGCGATTCTGG
138246 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:146015 original size:217 final size:218
Alignment explanation
Indices: 145709--146151 Score: 711
Period size: 217 Copynumber: 2.0 Consensus size: 218
145699 TTCATCTATA
145709 ATCTTATATTGATAATATAATTAATTTAGTAAAATTATCTTAATCGATATATATATATATATATA
1 ATCTTATATTGATAATATAATTAATTTAGTAAAATTATCTTAATCG----A-ATATATATATATA
145774 TCATCTTAAAACTATCTAAAAGGAA-GGGGAAAGAGAAACTCTTCGAAAAAGTTTTCGGAATGTC
61 -CATCTTAAAACTATCTAAAAGGAAGGGGGAAAGAG-AACTCTTCGAAAAAGTTTTCGGAATGTC
*
145838 TATTACGATTTTGACTATCCAATAACTAATTTGATCCCAAGAC-AAAAAA-AACTTTTACACCAA
124 TATTACGA-TTTGACTATCCAATAACTAATTTGATACC-AGACAAAAAAATAACTTTTACACCAA
145901 AAGAT-TTATCAACGTAGCCACAACCACGTCT
187 AAGATGTTATCAACGTAGCCACAACCACGTCT
*
145932 ATCTTATATTGATAAATATAAATTAATTTTGTAAAATTTATCTTAATCG-ATATATATATA-A-A
1 ATCTTATATTGAT-AATAT-AATTAATTTAGTAAAA-TTATCTTAATCGAATATATATATATACA
145994 TCTTAAAACTATCTAAAAGGAAGGGGGAAAGAGAACTCTTCGAAAAAGTTTTCGGAATGTCTATT
63 TCTTAAAACTATCTAAAAGGAAGGGGGAAAGAGAACTCTTCGAAAAAGTTTTCGGAATGTCTATT
146059 ACGATTTGACTATCCAATAACTAATTTGATACCAGACAAAAAAATAACTTTTACACCAAAAGATG
128 ACGATTTGACTATCCAATAACTAATTTGATACCAGACAAAAAAATAACTTTTACACCAAAAGATG
146124 TTATCAACGTAGCCACAACCACGTCT
193 TTATCAACGTAGCCACAACCACGTCT
146150 AT
1 AT
146152 GACCCAAGTT
Statistics
Matches: 211, Mismatches: 2, Indels: 19
0.91 0.01 0.08
Matches are distributed among these distances:
215 4 0.02
216 34 0.16
217 78 0.37
218 38 0.18
219 1 0.00
220 11 0.05
223 13 0.06
224 5 0.02
225 15 0.07
226 12 0.06
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (218 bp):
ATCTTATATTGATAATATAATTAATTTAGTAAAATTATCTTAATCGAATATATATATATACATCT
TAAAACTATCTAAAAGGAAGGGGGAAAGAGAACTCTTCGAAAAAGTTTTCGGAATGTCTATTACG
ATTTGACTATCCAATAACTAATTTGATACCAGACAAAAAAATAACTTTTACACCAAAAGATGTTA
TCAACGTAGCCACAACCACGTCT
Found at i:146748 original size:16 final size:17
Alignment explanation
Indices: 146697--146755 Score: 102
Period size: 17 Copynumber: 3.5 Consensus size: 17
146687 CACACAAATT
*
146697 CTCTCAAATCCCAAACC
1 CTCTCAAAGCCCAAACC
146714 CTCTCAAAGCCCAAACC
1 CTCTCAAAGCCCAAACC
146731 CTCTCAAAGCCC-AACC
1 CTCTCAAAGCCCAAACC
146747 CTCTCAAAG
1 CTCTCAAAG
146756 ATCAAACCTG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
16 13 0.32
17 28 0.68
ACGTcount: A:0.34, C:0.46, G:0.05, T:0.15
Consensus pattern (17 bp):
CTCTCAAAGCCCAAACC
Found at i:146771 original size:33 final size:34
Alignment explanation
Indices: 146697--146763 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 34
146687 CACACAAATT
* *
146697 CTCTCAAATCCCAAACCCTCTCAAAGCCCAAACC
1 CTCTCAAAGCCCAAACCCTCTCAAAGACCAAACC
*
146731 CTCTCAAAGCCC-AACCCTCTCAAAGATCAAACC
1 CTCTCAAAGCCCAAACCCTCTCAAAGACCAAACC
146764 TGGTCAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 19 0.63
34 11 0.37
ACGTcount: A:0.36, C:0.45, G:0.04, T:0.15
Consensus pattern (34 bp):
CTCTCAAAGCCCAAACCCTCTCAAAGACCAAACC
Found at i:153244 original size:59 final size:59
Alignment explanation
Indices: 153139--153251 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
153129 TGTAGTGCTA
* * *
153139 ACCTGCACTAAGCTTACGCCATAGTGCTAATTCGGACAATACACATAAGGTCGTGCCCC
1 ACCTACACTAAGCTTACGCCATAGTACTAATCCGGACAATACACATAAGGTCGTGCCCC
** *
153198 ACCTACACTAAGCTTACGTTATAGTACTAATCCGGAC-ATGATACATAAGGTCGT
1 ACCTACACTAAGCTTACGCCATAGTACTAATCCGGACAAT-ACACATAAGGTCGT
153252 ATCCACCTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 2 0.04
59 45 0.96
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (59 bp):
ACCTACACTAAGCTTACGCCATAGTACTAATCCGGACAATACACATAAGGTCGTGCCCC
Done.